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
Unknown	0	broad.mit.edu	37	1	739130	739131	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:739130_739131insA								LOC100133331 (59394 upstream) : NCRNA00115 (22456 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	930163	930163	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:930163delA								C1orf170 (12690 upstream) : HES4 (4179 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	1102422	1102422	+	5'Flank	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:1102422delC	uc001acw.2	+						MIR200B_hsa-mir-200b|MI0000342_5'Flank|uc010nye.1_5'Flank|MIR200A_hsa-mir-200a|MI0000737_5'Flank|uc010nyf.1_5'Flank|MIR429_hsa-mir-429|MI0001641_5'Flank					DM119469																														---	---	---	---
CDK11B	984	broad.mit.edu	37	1	1588535	1588536	+	Intron	INS	-	TAA	TAA	rs138141689	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:1588535_1588536insTAA	uc001agv.1	-						CDK11B_uc001ags.1_Intron|CDK11B_uc001agt.1_Intron|CDK11B_uc001aha.1_Intron|CDK11B_uc001agw.1_Intron|CDK11B_uc001agy.1_Intron|CDK11B_uc001agx.1_Intron|CDK11B_uc001agz.1_Intron|uc001ahc.1_Intron	NM_033486	NP_277021			cell division cycle 2-like 1 (PITSLRE proteins)						apoptosis|cell proliferation|mitosis|regulation of cell growth|regulation of mRNA processing|regulation of transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity|protein binding			skin(1)	1																		---	---	---	---
PRKCZ	5590	broad.mit.edu	37	1	2104603	2104603	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:2104603delT	uc001aiq.2	+						PRKCZ_uc001air.2_Intron|PRKCZ_uc010nyw.1_Intron|PRKCZ_uc001ais.2_Intron|PRKCZ_uc009vla.2_Intron|PRKCZ_uc010nyx.1_Intron|PRKCZ_uc001ait.2_Intron	NM_002744	NP_002735			protein kinase C, zeta isoform 1						anti-apoptosis|intracellular signal transduction|negative regulation of insulin receptor signaling pathway|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein complex assembly|peptidyl-serine phosphorylation|platelet activation	endosome	ATP binding|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(2)	6	all_cancers(77;0.000177)|all_epithelial(69;6.41e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;1.14e-19)|all_lung(118;1.22e-08)|Lung NSC(185;1.24e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;2.96e-37)|OV - Ovarian serous cystadenocarcinoma(86;3.3e-23)|GBM - Glioblastoma multiforme(42;2.85e-08)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.00294)|BRCA - Breast invasive adenocarcinoma(365;0.00493)|STAD - Stomach adenocarcinoma(132;0.00669)|KIRC - Kidney renal clear cell carcinoma(229;0.0411)|Lung(427;0.213)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	2149378	2149380	+	IGR	DEL	AAC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:2149378_2149380delAAC								C1orf86 (10206 upstream) : SKI (10754 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	2699145	2699145	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:2699145delT								MMEL1 (134664 upstream) : ACTRT2 (238901 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	4601135	4601136	+	IGR	DEL	GA	-	-	rs139128164	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:4601135_4601136delGA								LOC284661 (116391 upstream) : AJAP1 (113969 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	5118045	5118045	+	IGR	DEL	G	-	-	rs77474605	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:5118045delG								AJAP1 (274195 upstream) : NPHP4 (804825 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	5355246	5355248	+	IGR	DEL	TTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:5355246_5355248delTTG								AJAP1 (511396 upstream) : NPHP4 (567622 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	5486444	5486447	+	IGR	DEL	CTTC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:5486444_5486447delCTTC								AJAP1 (642594 upstream) : NPHP4 (436423 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	5715742	5715743	+	Intron	INS	-	T	T	rs140272906		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:5715742_5715743insT	uc001alp.1	-											Homo sapiens cDNA FLJ43088 fis, clone BRTHA3025826.																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	5762206	5762206	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:5762206delA								AJAP1 (918356 upstream) : NPHP4 (160664 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	5817955	5817956	+	IGR	DEL	CA	-	-	rs115909991	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:5817955_5817956delCA								AJAP1 (974105 upstream) : NPHP4 (104914 downstream)																																			---	---	---	---
CHD5	26038	broad.mit.edu	37	1	6197365	6197365	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6197365delC	uc001amb.1	-						CHD5_uc001ama.1_Intron|CHD5_uc001amc.1_Intron|CHD5_uc009vlx.1_5'Flank	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)														---	---	---	---
RPL22	6146	broad.mit.edu	37	1	6257785	6257785	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6257785delT	uc001amd.2	-	2	90	c.44delA	c.(43-45)AAGfs	p.K15fs	RPL22_uc001ame.2_Frame_Shift_Del_p.K15fs	NM_000983	NP_000974	P35268	RL22_HUMAN	ribosomal protein L22 proprotein	15					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	heparin binding|RNA binding|structural constituent of ribosome				0	Ovarian(185;0.0634)	all_cancers(23;2.78e-38)|all_epithelial(116;8.88e-22)|all_lung(118;7.95e-08)|Lung NSC(185;1.6e-06)|all_neural(13;3.18e-06)|all_hematologic(16;8.99e-06)|Acute lymphoblastic leukemia(12;0.000365)|Breast(487;0.000496)|Renal(390;0.0007)|Colorectal(325;0.00104)|Glioma(11;0.00203)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)|Medulloblastoma(700;0.211)		Epithelial(90;4.53e-38)|GBM - Glioblastoma multiforme(13;3.33e-32)|OV - Ovarian serous cystadenocarcinoma(86;2.8e-19)|Colorectal(212;6.8e-08)|COAD - Colon adenocarcinoma(227;8.04e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00107)|STAD - Stomach adenocarcinoma(132;0.00311)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.182)				T	RUNX1	AML|CML								---	---	---	---
ACOT7	11332	broad.mit.edu	37	1	6348133	6348133	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6348133delA	uc001ams.2	-						ACOT7_uc010nzq.1_Intron|ACOT7_uc001amt.2_Intron|ACOT7_uc001amu.2_Intron|ACOT7_uc001amv.2_Intron|ACOT7_uc001amq.2_Intron|ACOT7_uc001amr.2_Intron	NM_181864	NP_863654			acyl-CoA thioesterase 7 isoform hBACHb							mitochondrion|nucleus	carboxylesterase activity|fatty-acyl-CoA binding|palmitoyl-CoA hydrolase activity				0	Ovarian(185;0.0634)|all_lung(157;0.175)	all_cancers(23;1.42e-38)|all_epithelial(116;3.96e-23)|all_lung(118;3.69e-08)|Lung NSC(185;8.52e-07)|all_hematologic(16;6.92e-06)|Colorectal(325;4.53e-05)|Acute lymphoblastic leukemia(12;5e-05)|all_neural(13;0.000164)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0393)|Medulloblastoma(700;0.211)		Epithelial(90;9.16e-37)|GBM - Glioblastoma multiforme(13;5.89e-29)|OV - Ovarian serous cystadenocarcinoma(86;7.63e-19)|Colorectal(212;1.27e-07)|COAD - Colon adenocarcinoma(227;2.06e-05)|Kidney(185;7.74e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00129)|BRCA - Breast invasive adenocarcinoma(365;0.00132)|STAD - Stomach adenocarcinoma(132;0.00195)|READ - Rectum adenocarcinoma(331;0.0481)														---	---	---	---
PLEKHG5	57449	broad.mit.edu	37	1	6574847	6574848	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6574847_6574848insC	uc001anp.1	-						PLEKHG5_uc001anq.1_Intron	NM_198681	NP_941374			pleckstrin homology domain containing family G						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			liver(1)	1	Ovarian(185;0.02)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;5.51e-35)|GBM - Glioblastoma multiforme(13;3.57e-27)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|BRCA - Breast invasive adenocarcinoma(365;0.00107)|STAD - Stomach adenocarcinoma(132;0.00159)|READ - Rectum adenocarcinoma(331;0.0419)														---	---	---	---
CAMTA1	23261	broad.mit.edu	37	1	6894337	6894337	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)														---	---	---	---
CAMTA1	23261	broad.mit.edu	37	1	7592370	7592370	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:7592370delT	uc001aoi.2	+							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)														---	---	---	---
PER3	8863	broad.mit.edu	37	1	7901202	7901202	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:7901202delA	uc001aoo.2	+						PER3_uc001aop.2_Intron|PER3_uc010nzw.1_Intron	NM_016831	NP_058515			period 3						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
UTS2	10911	broad.mit.edu	37	1	7931636	7931636	+	Intron	DEL	T	-	-	rs36029078		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:7931636delT	uc001aoq.2	-							NM_006786	NP_006777			urotensin 2 isoform b preproprotein						muscle contraction|regulation of blood pressure|synaptic transmission	extracellular space	hormone activity				0	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;1.38e-20)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.26e-71)|GBM - Glioblastoma multiforme(8;5.15e-36)|Colorectal(212;1.27e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000386)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|STAD - Stomach adenocarcinoma(132;0.000951)|READ - Rectum adenocarcinoma(331;0.0642)														---	---	---	---
RERE	473	broad.mit.edu	37	1	8601192	8601193	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:8601192_8601193delAC	uc001ape.2	-						RERE_uc001apf.2_Intron|RERE_uc001aph.1_Intron	NM_012102	NP_036234			atrophin-1 like protein isoform a						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)														---	---	---	---
TMEM201	199953	broad.mit.edu	37	1	9672548	9672548	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:9672548delT	uc001apz.2	+							NM_001130924	NP_001124396			transmembrane protein 201 isoform 1							integral to membrane|nuclear inner membrane					0	all_lung(157;0.222)	all_epithelial(116;2.09e-14)|Renal(390;0.000469)|all_lung(118;0.000521)|Lung NSC(185;0.000744)|Colorectal(325;0.0062)|Breast(348;0.0157)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|STAD - Stomach adenocarcinoma(132;0.00345)|READ - Rectum adenocarcinoma(331;0.0419)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	9892805	9892806	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:9892805_9892806delAA								CLSTN1 (8255 upstream) : CTNNBIP1 (15528 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	10076645	10076646	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10076645_10076646delTT								RBP7 (568 upstream) : UBE4B (16370 downstream)																																			---	---	---	---
KIF1B	23095	broad.mit.edu	37	1	10292360	10292361	+	5'UTR	DEL	AT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10292360_10292361delAT	uc001aqx.3	+	2					KIF1B_uc001aqv.3_5'UTR|KIF1B_uc001aqw.3_5'UTR|KIF1B_uc001aqy.2_5'UTR|KIF1B_uc001aqz.2_5'UTR|KIF1B_uc001ara.2_5'UTR|KIF1B_uc001arb.2_5'UTR|KIF1B_uc009vmt.2_RNA	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)														---	---	---	---
KIF1B	23095	broad.mit.edu	37	1	10313704	10313704	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10313704delA	uc001aqx.3	+						KIF1B_uc001aqv.3_Intron|KIF1B_uc001aqw.3_Intron|KIF1B_uc001aqy.2_Intron|KIF1B_uc001aqz.2_Intron|KIF1B_uc001ara.2_Intron|KIF1B_uc001arb.2_Intron|KIF1B_uc009vmt.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)														---	---	---	---
CASZ1	54897	broad.mit.edu	37	1	10848004	10848004	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10848004delT	uc001aro.2	-						CASZ1_uc001arp.1_Intron	NM_001079843	NP_001073312			castor homolog 1, zinc finger isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)														---	---	---	---
CASZ1	54897	broad.mit.edu	37	1	10857588	10857588	+	5'Flank	DEL	G	-	-	rs150190835	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10857588delG	uc001aro.2	-						CASZ1_uc001arp.1_5'Flank	NM_001079843	NP_001073312			castor homolog 1, zinc finger isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	10977725	10977726	+	IGR	INS	-	G	G	rs149863501	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10977725_10977726insG								CASZ1 (121018 upstream) : C1orf127 (28807 downstream)																																			---	---	---	---
MASP2	10747	broad.mit.edu	37	1	11094455	11094456	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11094455_11094456delAA	uc001aru.2	-							NM_006610	NP_006601			mannan-binding lectin serine protease 2 isoform						complement activation, classical pathway|complement activation, lectin pathway|proteolysis	extracellular region	calcium ion binding|calcium-dependent protein binding|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.249)	Lung NSC(185;1.04e-05)|all_lung(284;1.31e-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)	STAD - Stomach adenocarcinoma(5;0.071)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.12e-07)|COAD - Colon adenocarcinoma(227;7.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)|STAD - Stomach adenocarcinoma(313;0.192)														---	---	---	---
MTOR	2475	broad.mit.edu	37	1	11175117	11175117	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11175117delA	uc001asd.2	-						MTOR_uc001asc.2_Intron	NM_004958	NP_004949			FK506 binding protein 12-rapamycin associated						cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29																		---	---	---	---
MAD2L2	10459	broad.mit.edu	37	1	11739591	11739591	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11739591delT	uc001asp.2	-						MAD2L2_uc009vnc.2_Intron|MAD2L2_uc001asq.3_Intron	NM_006341	NP_006332			MAD2 homolog						cell division|DNA damage response, signal transduction resulting in transcription|double-strand break repair|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of mitotic anaphase-promoting complex activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of transcription, DNA-dependent|regulation of cell growth|transcription, DNA-dependent	cytoplasm|nucleoplasm|spindle|zeta DNA polymerase complex	JUN kinase binding				0	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.04e-06)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|Kidney(185;0.000733)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)									DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					---	---	---	---
Unknown	0	broad.mit.edu	37	1	12208696	12208698	+	IGR	DEL	TTC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12208696_12208698delTTC								TNFRSF8 (4434 upstream) : TNFRSF1B (18362 downstream)																																			---	---	---	---
VPS13D	55187	broad.mit.edu	37	1	12546620	12546620	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12546620delC	uc001atv.2	+						VPS13D_uc001atw.2_Intron|VPS13D_uc001atx.2_Intron|VPS13D_uc009vnl.2_Intron|VPS13D_uc010obd.1_Intron	NM_015378	NP_056193			vacuolar protein sorting 13D isoform 1						protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	12871856	12871856	+	IGR	DEL	T	-	-	rs35650077		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12871856delT								PRAMEF1 (15633 upstream) : PRAMEF11 (12612 downstream)																																			---	---	---	---
PRAMEF4	400735	broad.mit.edu	37	1	12945613	12945613	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12945613delA	uc001aun.2	-							NM_001009611	NP_001009611			PRAME family member 4											ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;3.67e-05)|all_lung(284;4.03e-05)|Renal(390;0.000147)|Breast(348;0.000278)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	12970518	12970518	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12970518delT								PRAMEF10 (12424 upstream) : PRAMEF8 (5932 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	13123163	13123164	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:13123163_13123164delAA								PRAMEF5 (5412 upstream) : LOC440563 (59797 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	14337446	14337446	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:14337446delT								PRDM2 (185874 upstream) : KAZ (587767 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	14504082	14504082	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:14504082delT								PRDM2 (352510 upstream) : KAZ (421131 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	14634691	14634691	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:14634691delA								PRDM2 (483119 upstream) : KAZ (290522 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	14863379	14863379	+	IGR	DEL	A	-	-	rs34161239		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:14863379delA								PRDM2 (711807 upstream) : KAZ (61834 downstream)																																			---	---	---	---
KAZ	23254	broad.mit.edu	37	1	14992536	14992536	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:14992536delA	uc001avm.3	+						KAZ_uc009vog.1_Intron|KAZ_uc010obj.1_Intron	NM_201628	NP_963922			kazrin isoform E						keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0																		---	---	---	---
KAZ	23254	broad.mit.edu	37	1	15005781	15005781	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:15005781delT	uc001avm.3	+						KAZ_uc009vog.1_Intron|KAZ_uc010obj.1_Intron	NM_201628	NP_963922			kazrin isoform E						keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0																		---	---	---	---
KAZ	23254	broad.mit.edu	37	1	15392652	15392652	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:15392652delT	uc001avm.3	+						KAZ_uc009vog.1_3'UTR|KAZ_uc010obj.1_3'UTR|KAZ_uc001avo.2_3'UTR|KAZ_uc001avp.2_3'UTR|KAZ_uc001avq.2_3'UTR|KAZ_uc001avr.2_3'UTR	NM_201628	NP_963922			kazrin isoform E						keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0																		---	---	---	---
C1orf126	200197	broad.mit.edu	37	1	15451379	15451379	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:15451379delT	uc001avv.3	-						C1orf126_uc009voh.2_Intron	NR_027136				Homo sapiens cDNA FLJ23703 fis, clone HEP10820.												0																		---	---	---	---
EFHD2	79180	broad.mit.edu	37	1	15743312	15743312	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:15743312delT	uc001awh.2	+							NM_024329	NP_077305			EF-hand domain family, member D2							membrane raft					0		Renal(390;0.00145)|Breast(348;0.00173)|Colorectal(325;0.00215)|all_lung(284;0.00366)|Lung NSC(340;0.00395)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)|Hepatocellular(190;0.152)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.59e-07)|COAD - Colon adenocarcinoma(227;3.79e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000119)|KIRC - Kidney renal clear cell carcinoma(229;0.00251)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
CELA2B	51032	broad.mit.edu	37	1	15812968	15812968	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:15812968delA	uc001awl.2	+							NM_015849	NP_056933			elastase 2B preproprotein						proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1																		---	---	---	---
DNAJC16	23341	broad.mit.edu	37	1	15888980	15888982	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:15888980_15888982delTTT	uc001aws.2	+						DNAJC16_uc001awr.1_Intron|DNAJC16_uc001awt.2_Intron|DNAJC16_uc001awu.2_Intron	NM_015291	NP_056106			DnaJ (Hsp40) homolog, subfamily C, member 16						cell redox homeostasis|protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			urinary_tract(1)|lung(1)|kidney(1)	3		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00173)|all_lung(284;0.00459)|Lung NSC(340;0.00499)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	15923727	15923729	+	IGR	DEL	TGG	-	-	rs142375541		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:15923727_15923729delTGG								DNAJC16 (4855 upstream) : DDI2 (20341 downstream)																																			---	---	---	---
PLEKHM2	23207	broad.mit.edu	37	1	16030933	16030934	+	Intron	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16030933_16030934delTC	uc010obo.1	+							NM_015164	NP_055979			pleckstrin homology domain containing, family M						Golgi organization	cytoplasm	kinesin binding			ovary(1)	1		Colorectal(325;0.000259)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00057)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)														---	---	---	---
C1orf144	26099	broad.mit.edu	37	1	16695982	16695982	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16695982delT	uc001aym.3	+						C1orf144_uc010ocb.1_Intron|C1orf144_uc001ayi.3_Intron|C1orf144_uc001ayk.3_Intron	NM_001114600	NP_001108072			putative MAPK activating protein PM20,PM21												0		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;0.0181)|COAD - Colon adenocarcinoma(227;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;4.12e-05)|Kidney(64;0.00018)|KIRC - Kidney renal clear cell carcinoma(64;0.00267)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
SPATA21	374955	broad.mit.edu	37	1	16755801	16755801	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16755801delT	uc001ayn.2	-						SPATA21_uc001ayl.1_Intron|SPATA21_uc010occ.1_Intron	NM_198546	NP_940948			spermatogenesis associated 21								calcium ion binding			ovary(2)|breast(1)	3		Colorectal(325;0.000147)|Renal(390;0.00145)|Lung NSC(340;0.00215)|Breast(348;0.00224)|all_lung(284;0.00351)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(227;1.15e-05)|BRCA - Breast invasive adenocarcinoma(304;4.2e-05)|Kidney(64;0.000183)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.0122)|READ - Rectum adenocarcinoma(331;0.0651)														---	---	---	---
NECAP2	55707	broad.mit.edu	37	1	16778584	16778584	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16778584delT	uc001ayo.2	+						NECAP2_uc001ayp.3_Intron|NECAP2_uc010ocd.1_Intron|NECAP2_uc001ayq.2_Intron	NM_018090	NP_060560			NECAP endocytosis associated 2 isoform 1						endocytosis|protein transport	clathrin vesicle coat|coated pit|plasma membrane					0		Colorectal(325;0.000147)|Renal(390;0.00145)|Lung NSC(340;0.00215)|Breast(348;0.00224)|all_lung(284;0.00351)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(227;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|Kidney(64;0.000181)|KIRC - Kidney renal clear cell carcinoma(64;0.00268)|STAD - Stomach adenocarcinoma(196;0.012)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	16789487	16789487	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16789487delT								NECAP2 (2905 upstream) : CROCCL2 (4444 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	16824217	16824217	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16824217delT								CROCCL2 (5021 upstream) : NBPF1 (66195 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	16840551	16840562	+	IGR	DEL	ACACAAACCAAT	-	-	rs60753704	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16840551_16840562delACACAAACCAAT								CROCCL2 (21355 upstream) : NBPF1 (49850 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	16857848	16857848	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16857848delT								CROCCL2 (38652 upstream) : NBPF1 (32564 downstream)																																			---	---	---	---
ESPNP	284729	broad.mit.edu	37	1	17035376	17035377	+	Intron	INS	-	CA	CA	rs143082525	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17035376_17035377insCA	uc001azn.1	-						ESPNP_uc010ocj.1_Intron	NR_026567				RecName: Full=Espin; AltName: Full=Ectoplasmic specialization protein; AltName: Full=Autosomal recessive deafness type 36 protein;												0																		---	---	---	---
CROCC	9696	broad.mit.edu	37	1	17202163	17202163	+	Intron	DEL	A	-	-	rs68071540		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17202163delA	uc009voy.1	+											Homo sapiens mRNA for KIAA0445 protein, partial cds.						cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	18263230	18263231	+	IGR	INS	-	TATC	TATC	rs67615905		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:18263230_18263231insTATC								ACTL8 (109674 upstream) : IGSF21 (171009 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	18866400	18866403	+	IGR	DEL	GAAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:18866400_18866403delGAAG								KLHDC7A (53861 upstream) : PAX7 (91097 downstream)																																			---	---	---	---
PAX7	5081	broad.mit.edu	37	1	18983185	18983185	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:18983185delA	uc001bay.2	+						PAX7_uc001baz.2_Intron|PAX7_uc010oct.1_Intron	NM_002584	NP_002575			paired box 7 isoform 1						anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)				T	FOXO1A	alveolar rhabdomyosarcoma								---	---	---	---
Unknown	0	broad.mit.edu	37	1	19313572	19313572	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:19313572delT								IFFO2 (30746 upstream) : UBR4 (85032 downstream)																																			---	---	---	---
UBR4	23352	broad.mit.edu	37	1	19474752	19474752	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:19474752delA	uc001bbi.2	-						UBR4_uc001bbk.1_Intron	NM_020765	NP_065816			retinoblastoma-associated factor 600						interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)														---	---	---	---
CAPZB	832	broad.mit.edu	37	1	19717566	19717566	+	Intron	DEL	T	-	-	rs67757438		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:19717566delT	uc010ocz.1	-						CAPZB_uc001bce.2_Intron|CAPZB_uc009vpk.2_Intron|CAPZB_uc001bcd.2_Intron	NM_004930	NP_004921			F-actin capping protein beta subunit						actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement	cytosol|F-actin capping protein complex|WASH complex	actin binding				0		Colorectal(325;3.93e-05)|Renal(390;0.000147)|all_lung(284;0.000169)|Lung NSC(340;0.000202)|Breast(348;0.000496)|Ovarian(437;0.00428)|Myeloproliferative disorder(586;0.0262)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Kidney(64;8.63e-06)|BRCA - Breast invasive adenocarcinoma(304;4.06e-05)|KIRC - Kidney renal clear cell carcinoma(64;0.000175)|GBM - Glioblastoma multiforme(114;0.000525)|STAD - Stomach adenocarcinoma(196;0.00779)|READ - Rectum adenocarcinoma(331;0.103)|Lung(427;0.173)														---	---	---	---
NBL1	4681	broad.mit.edu	37	1	19941775	19941775	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:19941775delT	uc009vpl.1	+						C1orf151_uc001bch.1_Intron|C1orf151_uc001bci.1_Intron	NM_005380	NP_005371			neuroblastoma, suppression of tumorigenicity 1 2							extracellular region				ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00043)|Ovarian(437;0.00373)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;5.9e-05)|Kidney(64;0.000173)|GBM - Glioblastoma multiforme(114;0.0012)|KIRC - Kidney renal clear cell carcinoma(64;0.0026)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
PLA2G5	5322	broad.mit.edu	37	1	20375589	20375589	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:20375589delT	uc001bcx.2	+						PLA2G5_uc001bcw.2_Intron	NM_000929	NP_000920			phospholipase A2, group V precursor						lipid catabolic process	extracellular region	calcium ion binding|calcium-dependent phospholipase A2 activity			skin(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000249)|Lung NSC(340;0.000287)|Breast(348;0.000812)|Ovarian(437;0.00328)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.22e-05)|BRCA - Breast invasive adenocarcinoma(304;8.15e-05)|Kidney(64;0.000184)|GBM - Glioblastoma multiforme(114;0.00089)|KIRC - Kidney renal clear cell carcinoma(64;0.0027)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0652)														---	---	---	---
PLA2G2C	391013	broad.mit.edu	37	1	20504143	20504144	+	5'Flank	DEL	TT	-	-	rs11809288	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:20504143_20504144delTT	uc009vpq.1	-							NM_001105572	NP_001099042			phospholipase A2, group IIC precursor												0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.14e-05)|BRCA - Breast invasive adenocarcinoma(304;8.01e-05)|Kidney(64;0.000171)|GBM - Glioblastoma multiforme(114;0.000528)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	20558814	20558815	+	IGR	INS	-	A	A	rs78071454		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:20558814_20558815insA								UBXN10 (38873 upstream) : VWA5B1 (58597 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	20614034	20614035	+	IGR	DEL	TT	-	-	rs35255386		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:20614034_20614035delTT								UBXN10 (94093 upstream) : VWA5B1 (3377 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	20708998	20709003	+	Intron	DEL	CGATAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:20708998_20709003delCGATAG	uc009vpu.1	-						uc001bdf.1_Intron					Homo sapiens cDNA clone IMAGE:5269505.																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	20808056	20808056	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:20808056delA								VWA5B1 (126669 upstream) : CAMK2N1 (829 downstream)																																			---	---	---	---
HP1BP3	50809	broad.mit.edu	37	1	21087036	21087037	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21087036_21087037delAA	uc001bdw.1	-						HP1BP3_uc001bdv.1_Intron|HP1BP3_uc010odh.1_Intron|HP1BP3_uc001bdy.1_Intron|HP1BP3_uc001bdz.2_Intron|HP1BP3_uc001bea.2_Intron|HP1BP3_uc010odf.1_Intron|HP1BP3_uc010odg.1_Intron	NM_016287	NP_057371			HP1-BP74						nucleosome assembly	nucleosome|nucleus	DNA binding			central_nervous_system(1)|skin(1)	2		all_lung(284;6.55e-06)|Lung NSC(340;6.59e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.26e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00015)|GBM - Glioblastoma multiforme(114;0.000521)|Kidney(64;0.000529)|STAD - Stomach adenocarcinoma(196;0.00311)|KIRC - Kidney renal clear cell carcinoma(64;0.00687)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.201)														---	---	---	---
HP1BP3	50809	broad.mit.edu	37	1	21091004	21091005	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21091004_21091005insT	uc001bdw.1	-						HP1BP3_uc001bdv.1_Intron|HP1BP3_uc010odh.1_Intron|HP1BP3_uc001bdy.1_Intron|HP1BP3_uc001bdz.2_Intron|HP1BP3_uc001bea.2_Intron|HP1BP3_uc010odf.1_Intron|HP1BP3_uc010odg.1_Intron	NM_016287	NP_057371			HP1-BP74						nucleosome assembly	nucleosome|nucleus	DNA binding			central_nervous_system(1)|skin(1)	2		all_lung(284;6.55e-06)|Lung NSC(340;6.59e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.26e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00015)|GBM - Glioblastoma multiforme(114;0.000521)|Kidney(64;0.000529)|STAD - Stomach adenocarcinoma(196;0.00311)|KIRC - Kidney renal clear cell carcinoma(64;0.00687)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.201)														---	---	---	---
HP1BP3	50809	broad.mit.edu	37	1	21094272	21094274	+	Intron	DEL	AAA	-	-	rs138055687		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21094272_21094274delAAA	uc001bdw.1	-						HP1BP3_uc001bdv.1_Intron|HP1BP3_uc010odh.1_Intron|HP1BP3_uc001bdy.1_Intron|HP1BP3_uc001bdz.2_Intron|HP1BP3_uc001bea.2_Intron|HP1BP3_uc010odf.1_5'Flank|HP1BP3_uc010odg.1_Intron	NM_016287	NP_057371			HP1-BP74						nucleosome assembly	nucleosome|nucleus	DNA binding			central_nervous_system(1)|skin(1)	2		all_lung(284;6.55e-06)|Lung NSC(340;6.59e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.26e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00015)|GBM - Glioblastoma multiforme(114;0.000521)|Kidney(64;0.000529)|STAD - Stomach adenocarcinoma(196;0.00311)|KIRC - Kidney renal clear cell carcinoma(64;0.00687)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.201)														---	---	---	---
EIF4G3	8672	broad.mit.edu	37	1	21191489	21191489	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21191489delA	uc001bec.2	-						EIF4G3_uc010odi.1_Intron|EIF4G3_uc010odj.1_Intron|EIF4G3_uc009vpz.2_Intron|EIF4G3_uc001bed.2_Intron|EIF4G3_uc001bef.2_Intron|EIF4G3_uc001bee.2_Intron	NM_003760	NP_003751			eukaryotic translation initiation factor 4						interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)														---	---	---	---
EIF4G3	8672	broad.mit.edu	37	1	21213016	21213016	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21213016delA	uc001bec.2	-						EIF4G3_uc010odi.1_Intron|EIF4G3_uc010odj.1_Intron|EIF4G3_uc009vpz.2_Intron|EIF4G3_uc001bed.2_Intron|EIF4G3_uc001bef.2_Intron|EIF4G3_uc001bee.2_Intron	NM_003760	NP_003751			eukaryotic translation initiation factor 4						interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)														---	---	---	---
EIF4G3	8672	broad.mit.edu	37	1	21219781	21219781	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21219781delA	uc001bec.2	-						EIF4G3_uc010odi.1_Intron|EIF4G3_uc010odj.1_Intron|EIF4G3_uc009vpz.2_Intron|EIF4G3_uc001bed.2_Intron|EIF4G3_uc001bef.2_Intron|EIF4G3_uc001bee.2_Intron	NM_003760	NP_003751			eukaryotic translation initiation factor 4						interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)														---	---	---	---
EIF4G3	8672	broad.mit.edu	37	1	21247238	21247238	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21247238delT	uc001bec.2	-						EIF4G3_uc010odi.1_Intron|EIF4G3_uc010odj.1_Intron|EIF4G3_uc009vpz.2_Intron|EIF4G3_uc001bed.2_Intron|EIF4G3_uc001bef.2_Intron|EIF4G3_uc001bee.2_Intron	NM_003760	NP_003751			eukaryotic translation initiation factor 4						interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	21509993	21509993	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21509993delA								EIF4G3 (6653 upstream) : ECE1 (33747 downstream)																																			---	---	---	---
NBPF3	84224	broad.mit.edu	37	1	21791623	21791624	+	Intron	INS	-	C	C	rs144217242	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21791623_21791624insC	uc001ber.2	+						NBPF3_uc001bes.2_Intron|NBPF3_uc009vqb.2_Intron|NBPF3_uc010odm.1_Intron	NM_032264	NP_115640			neuroblastoma breakpoint family, member 3							cytoplasm				upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(284;2.16e-05)|Lung NSC(340;2.19e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|OV - Ovarian serous cystadenocarcinoma(117;7.53e-27)|COAD - Colon adenocarcinoma(152;1.18e-05)|GBM - Glioblastoma multiforme(114;3.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000143)|STAD - Stomach adenocarcinoma(196;0.00306)|KIRC - Kidney renal clear cell carcinoma(1967;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)														---	---	---	---
NBPF3	84224	broad.mit.edu	37	1	21793229	21793229	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21793229delA	uc001ber.2	+						NBPF3_uc001bes.2_Intron|NBPF3_uc009vqb.2_Intron|NBPF3_uc010odm.1_Intron	NM_032264	NP_115640			neuroblastoma breakpoint family, member 3							cytoplasm				upper_aerodigestive_tract(1)|ovary(1)	2		all_lung(284;2.16e-05)|Lung NSC(340;2.19e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|OV - Ovarian serous cystadenocarcinoma(117;7.53e-27)|COAD - Colon adenocarcinoma(152;1.18e-05)|GBM - Glioblastoma multiforme(114;3.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000143)|STAD - Stomach adenocarcinoma(196;0.00306)|KIRC - Kidney renal clear cell carcinoma(1967;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	21907696	21907696	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21907696delT								ALPL (2792 upstream) : RAP1GAP (15013 downstream)																																			---	---	---	---
USP48	84196	broad.mit.edu	37	1	22041836	22041836	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22041836delA	uc001bfb.2	-						USP48_uc001bfa.2_Intron|USP48_uc010odq.1_Intron|USP48_uc009vqc.2_Intron|USP48_uc001bfc.2_Intron	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	22345314	22345314	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22345314delT								CELA3A (6281 upstream) : HSPC157 (6393 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	22425445	22425445	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22425445delT								CDC42 (6010 upstream) : WNT4 (18355 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	23879053	23879053	+	IGR	DEL	T	-	-	rs113017925		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:23879053delT								E2F2 (21340 upstream) : ID3 (5357 downstream)																																			---	---	---	---
PNRC2	55629	broad.mit.edu	37	1	24288468	24288468	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:24288468delA	uc001big.2	+	3						NM_017761	NP_060231			proline-rich nuclear receptor coactivator 2						deadenylation-independent decapping of nuclear-transcribed mRNA|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|nucleus	protein binding				0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.0034)|all_lung(284;0.00519)|Myeloproliferative disorder(586;0.0393)|Breast(348;0.0448)|Ovarian(437;0.0561)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;8.59e-24)|Colorectal(126;2.18e-08)|COAD - Colon adenocarcinoma(152;1.36e-06)|GBM - Glioblastoma multiforme(114;2.38e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000959)|KIRC - Kidney renal clear cell carcinoma(1967;0.00325)|STAD - Stomach adenocarcinoma(196;0.00841)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.141)														---	---	---	---
CLIC4	25932	broad.mit.edu	37	1	25167138	25167138	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:25167138delT	uc001bjo.2	+						CLIC4_uc001bjn.2_Intron|CLIC4_uc001bjp.1_Intron	NM_013943	NP_039234			chloride intracellular channel 4						cellular response to calcium ion|establishment or maintenance of apical/basal cell polarity|keratinocyte differentiation|negative regulation of cell migration|regulation of cytoskeleton organization	actin cytoskeleton|apical part of cell|cell surface|cell-cell junction|centrosome|chloride channel complex|cytoplasmic vesicle membrane|cytosol|microvillus|midbody|mitochondrion|nuclear matrix|perinuclear region of cytoplasm|soluble fraction	voltage-gated chloride channel activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000778)|all_lung(284;0.00106)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0479)|OV - Ovarian serous cystadenocarcinoma(117;1.06e-24)|Colorectal(126;1.03e-07)|COAD - Colon adenocarcinoma(152;4.93e-06)|STAD - Stomach adenocarcinoma(196;0.000418)|GBM - Glioblastoma multiforme(114;0.000451)|BRCA - Breast invasive adenocarcinoma(304;0.00215)|KIRC - Kidney renal clear cell carcinoma(1967;0.00216)|READ - Rectum adenocarcinoma(331;0.0693)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.18)														---	---	---	---
SYF2	25949	broad.mit.edu	37	1	25552019	25552019	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:25552019delA	uc001bjt.1	-						SYF2_uc001bju.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)														---	---	---	---
TMEM57	55219	broad.mit.edu	37	1	25814984	25814984	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:25814984delT	uc001bkk.2	+						TMEM57_uc009vru.2_Intron|TMEM57_uc009vrv.2_Intron	NM_018202	NP_060672			transmembrane protein 57							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)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	25858468	25858468	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:25858468delA								TMEM57 (31772 upstream) : LDLRAP1 (11608 downstream)																																			---	---	---	---
C1orf135	79000	broad.mit.edu	37	1	26163667	26163667	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26163667delA	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	26258503	26258504	+	IGR	DEL	AA	-	-	rs67993405		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26258503_26258504delAA								STMN1 (25135 upstream) : PAFAH2 (27756 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	26264758	26264758	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26264758delA								STMN1 (31390 upstream) : PAFAH2 (21502 downstream)																																			---	---	---	---
CATSPER4	378807	broad.mit.edu	37	1	26521012	26521012	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26521012delT	uc010oez.1	+						CATSPER4_uc010oey.1_Intron|CATSPER4_uc009vsf.2_Intron	NM_198137	NP_937770			cation channel, sperm associated 4						cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1		all_cancers(24;2.05e-18)|Colorectal(325;0.000147)|Renal(390;0.00211)|all_lung(284;0.00218)|Lung NSC(340;0.00239)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0687)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;3.52e-26)|Colorectal(126;1.34e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000755)|BRCA - Breast invasive adenocarcinoma(304;0.000995)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00878)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	26944234	26944234	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26944234delA								RPS6KA1 (42714 upstream) : ARID1A (78288 downstream)																																			---	---	---	---
ARID1A	8289	broad.mit.edu	37	1	27077132	27077132	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27077132delT	uc001bmv.1	+						ARID1A_uc001bmt.1_Intron|ARID1A_uc001bmu.1_Intron|ARID1A_uc001bmw.1_Intron	NM_006015	NP_006006			AT rich interactive domain 1A isoform a						androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)				Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								---	---	---	---
Unknown	0	broad.mit.edu	37	1	27405483	27405483	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27405483delT								FAM46B (66150 upstream) : SLC9A1 (19818 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	27638841	27638841	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27638841delA								WDTC1 (3733 upstream) : TMEM222 (9795 downstream)																																			---	---	---	---
SYTL1	84958	broad.mit.edu	37	1	27673446	27673446	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27673446delA	uc001bnw.1	+						SYTL1_uc001bnv.1_Intron|SYTL1_uc009vsu.1_Intron|SYTL1_uc001bnx.2_Intron|SYTL1_uc009vsv.1_Intron	NM_032872	NP_116261			synaptotagmin-like 1						exocytosis|intracellular protein transport	extrinsic to plasma membrane|melanosome|soluble fraction	neurexin binding|Rab GTPase binding			ovary(1)	1		Colorectal(325;0.000147)|all_lung(284;0.000366)|Lung NSC(340;0.000548)|Renal(390;0.00211)|Breast(348;0.0115)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0908)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.5e-28)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.0013)|KIRC - Kidney renal clear cell carcinoma(1967;0.00158)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)														---	---	---	---
WASF2	10163	broad.mit.edu	37	1	27752541	27752541	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27752541delA	uc001bof.1	-						WASF2_uc010ofl.1_Intron	NM_006990	NP_008921			WAS protein family, member 2						actin cytoskeleton organization|G-protein signaling, coupled to cAMP nucleotide second messenger	actin cytoskeleton|lamellipodium	actin binding			skin(2)|ovary(1)	3		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0446)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.7e-08)|COAD - Colon adenocarcinoma(152;2e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00139)|KIRC - Kidney renal clear cell carcinoma(1967;0.00204)|STAD - Stomach adenocarcinoma(196;0.00325)|READ - Rectum adenocarcinoma(331;0.0481)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	28010136	28010136	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28010136delT								IFI6 (11412 upstream) : FAM76A (42354 downstream)																																			---	---	---	---
STX12	23673	broad.mit.edu	37	1	28120213	28120213	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28120213delA	uc001bou.3	+							NM_177424	NP_803173			syntaxin 12						cholesterol efflux|intracellular protein transport|protein stabilization|vesicle-mediated transport	Golgi apparatus|integral to membrane|membrane raft|phagocytic vesicle	SNAP receptor activity			breast(1)|central_nervous_system(1)	2		Colorectal(325;3.46e-05)|all_lung(284;9.43e-05)|Lung NSC(340;0.000185)|Renal(390;0.00121)|Breast(348;0.0021)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;3.96e-24)|Colorectal(126;3.46e-08)|COAD - Colon adenocarcinoma(152;1.83e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00258)|KIRC - Kidney renal clear cell carcinoma(1967;0.00302)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
RPA2	6118	broad.mit.edu	37	1	28228528	28228528	+	Intron	DEL	A	-	-	rs67159566		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28228528delA	uc001bpe.1	-						RPA2_uc001bpd.1_Intron|RPA2_uc010ofp.1_Intron	NM_002946	NP_002937			replication protein A2, 32kDa						cell cycle checkpoint|DNA recombinase assembly|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA gap filling|regulation of double-strand break repair via homologous recombination|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor A complex|PML body	protein phosphatase binding|single-stranded DNA binding			skin(1)	1		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00588)|all_lung(284;0.00645)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0429)|OV - Ovarian serous cystadenocarcinoma(117;3.62e-24)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;1.75e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00294)|STAD - Stomach adenocarcinoma(196;0.00308)|BRCA - Breast invasive adenocarcinoma(304;0.00613)|READ - Rectum adenocarcinoma(331;0.0649)									Direct_reversal_of_damage|NER					---	---	---	---
Unknown	0	broad.mit.edu	37	1	28419811	28419811	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28419811delA								EYA3 (4680 upstream) : LOC653566 (1635 downstream)																																			---	---	---	---
PTAFR	5724	broad.mit.edu	37	1	28508546	28508546	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28508546delA	uc001bpm.3	-						PTAFR_uc009vte.2_Intron	NM_000952	NP_000943			platelet-activating factor receptor						chemotaxis|inflammatory response|interferon-gamma-mediated signaling pathway|phosphatidylinositol-mediated signaling	integral to plasma membrane|nucleus	phospholipid binding|platelet activating factor receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00715)|all_lung(284;0.00732)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.215)|OV - Ovarian serous cystadenocarcinoma(117;6e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|STAD - Stomach adenocarcinoma(196;0.00678)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	28524826	28524827	+	IGR	INS	-	T	T	rs113674323		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28524826_28524827insT								PTAFR (4379 upstream) : DNAJC8 (1965 downstream)																																			---	---	---	---
DNAJC8	22826	broad.mit.edu	37	1	28535045	28535045	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28535045delA	uc001bpn.2	-						DNAJC8_uc001bpo.2_Intron	NM_014280	NP_055095			DnaJ (Hsp40) homolog, subfamily C, member 8						nuclear mRNA splicing, via spliceosome|protein folding	nucleoplasm	heat shock protein binding|unfolded protein binding				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.08e-05)|all_lung(284;4.29e-05)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.0105)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		OV - Ovarian serous cystadenocarcinoma(117;2.81e-22)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00275)|BRCA - Breast invasive adenocarcinoma(304;0.0059)|STAD - Stomach adenocarcinoma(196;0.00671)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
DNAJC8	22826	broad.mit.edu	37	1	28562447	28562447	+	5'Flank	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28562447delC	uc001bpn.2	-						DNAJC8_uc001bpo.2_5'Flank|ATPIF1_uc001bpp.2_5'Flank|ATPIF1_uc001bpq.2_5'Flank|ATPIF1_uc001bpr.2_5'Flank	NM_014280	NP_055095			DnaJ (Hsp40) homolog, subfamily C, member 8						nuclear mRNA splicing, via spliceosome|protein folding	nucleoplasm	heat shock protein binding|unfolded protein binding				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.08e-05)|all_lung(284;4.29e-05)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.0105)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		OV - Ovarian serous cystadenocarcinoma(117;2.81e-22)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00275)|BRCA - Breast invasive adenocarcinoma(304;0.0059)|STAD - Stomach adenocarcinoma(196;0.00671)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	28671241	28671241	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28671241delA								MED18 (8764 upstream) : PHACTR4 (24852 downstream)																																			---	---	---	---
PHACTR4	65979	broad.mit.edu	37	1	28715361	28715361	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28715361delA	uc001bpw.2	+						PHACTR4_uc001bpu.2_Intron|PHACTR4_uc001bpv.1_Intron|PHACTR4_uc001bpx.2_Intron	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)														---	---	---	---
PHACTR4	65979	broad.mit.edu	37	1	28817970	28817970	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)														---	---	---	---
SNHG3-RCC1	751867	broad.mit.edu	37	1	28833749	28833749	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28833749delT	uc001bqa.1	+						SNHG3-RCC1_uc001bqb.1_Intron|SNHG3-RCC1_uc001bqc.1_Intron	NM_001048197	NP_001041662			regulator of chromosome condensation 1												0		Colorectal(325;3.46e-05)|Lung NSC(340;0.000318)|all_lung(284;0.000434)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.00989)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)|Medulloblastoma(700;0.123)		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;0.0221)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
SNHG3-RCC1	751867	broad.mit.edu	37	1	28841274	28841274	+	Intron	DEL	A	-	-	rs139010543		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28841274delA	uc001bqa.1	+						SNHG3-RCC1_uc001bqb.1_Intron|SNHG3-RCC1_uc001bqc.1_Intron	NM_001048197	NP_001041662			regulator of chromosome condensation 1												0		Colorectal(325;3.46e-05)|Lung NSC(340;0.000318)|all_lung(284;0.000434)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.00989)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)|Medulloblastoma(700;0.123)		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;0.0221)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
TAF12	6883	broad.mit.edu	37	1	28946461	28946462	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28946461_28946462delAA	uc001bqw.2	-						TAF12_uc001bqx.2_Intron|TAF12_uc001bqy.2_Intron|TAF12_uc009vti.2_Intron	NM_005644	NP_005635			TAF12 RNA polymerase II, TATA box binding						histone H3 acetylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	PCAF complex|STAGA complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000451)|all_lung(284;0.00063)|Renal(390;0.00121)|Breast(348;0.00502)|all_neural(195;0.0227)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)		Colorectal(126;3.21e-08)|COAD - Colon adenocarcinoma(152;1.74e-06)|STAD - Stomach adenocarcinoma(196;0.00303)|KIRC - Kidney renal clear cell carcinoma(1967;0.0109)|BRCA - Breast invasive adenocarcinoma(304;0.0228)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
EPB41	2035	broad.mit.edu	37	1	29270779	29270779	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:29270779delA	uc001brl.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	NM_004437	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	29337883	29337884	+	Intron	DEL	AA	-	-	rs80215520		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:29337883_29337884delAA	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)														---	---	---	---
SFRS4	6429	broad.mit.edu	37	1	29481429	29481429	+	Intron	DEL	A	-	-	rs66504457		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:29481429delA	uc001bro.2	-						SFRS4_uc010ofy.1_Intron|SFRS4_uc009vtp.2_Intron	NM_005626	NP_005617			splicing factor, arginine/serine-rich 4						mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|RNA binding				0		Colorectal(325;0.00161)|Breast(348;0.0364)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0529)|Lung NSC(340;0.0654)|all_lung(284;0.074)|Ovarian(437;0.104)|Medulloblastoma(700;0.151)		Colorectal(126;1.01e-07)|COAD - Colon adenocarcinoma(152;6.21e-06)|STAD - Stomach adenocarcinoma(196;0.0196)|BRCA - Breast invasive adenocarcinoma(304;0.0531)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.138)														---	---	---	---
MECR	51102	broad.mit.edu	37	1	29530733	29530733	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:29530733delA	uc001brq.1	-						MECR_uc001brp.1_Intron|MECR_uc001brr.1_Intron|MECR_uc001brs.1_Intron|MECR_uc001brt.1_Intron|MECR_uc010ofz.1_Intron	NM_016011	NP_057095			trans-2-enoyl-CoA reductase, mitochondrial						fatty acid biosynthetic process	mitochondrion	trans-2-enoyl-CoA reductase (NADPH) activity|zinc ion binding			ovary(1)	1		Colorectal(325;0.000389)|Breast(348;0.00765)|Lung NSC(340;0.0081)|all_lung(284;0.00914)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.39e-07)|COAD - Colon adenocarcinoma(152;2.04e-05)|STAD - Stomach adenocarcinoma(196;0.0195)|BRCA - Breast invasive adenocarcinoma(304;0.053)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.137)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	30083519	30083519	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:30083519delT								PTPRU (430204 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	30218452	30218452	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:30218452delG								PTPRU (565137 upstream) : MATN1 (965674 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	30553121	30553143	+	IGR	DEL	GTGAGGATGATACCATGGAGGGC	-	-	rs66497462		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:30553121_30553143delGTGAGGATGATACCATGGAGGGC								PTPRU (899806 upstream) : MATN1 (630983 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	31099599	31099599	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:31099599delA								None (None upstream) : MATN1 (84527 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	31146317	31146317	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:31146317delA								None (None upstream) : MATN1 (37809 downstream)																																			---	---	---	---
ZCCHC17	51538	broad.mit.edu	37	1	31804606	31804607	+	Intron	DEL	GC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:31804606_31804607delGC	uc001bsp.1	+						ZCCHC17_uc001bsq.1_Intron|ZCCHC17_uc010ogf.1_Intron|ZCCHC17_uc009vtu.1_Intron|ZCCHC17_uc001bsr.1_Intron|ZCCHC17_uc009vtv.1_Intron	NM_016505	NP_057589			zinc finger, CCHC domain containing 17							nucleolus	RNA binding|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)|all_neural(195;0.146)|Medulloblastoma(700;0.151)|Breast(348;0.222)		STAD - Stomach adenocarcinoma(196;0.0215)|READ - Rectum adenocarcinoma(331;0.168)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	31915369	31915369	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:31915369delA								SERINC2 (7845 upstream) : LOC284551 (68667 downstream)																																			---	---	---	---
TINAGL1	64129	broad.mit.edu	37	1	32024325	32024325	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32024325delT	uc001bsz.2	+							NM_022164	NP_071447			tubulointerstitial nephritis antigen-like 1						endosome transport|immune response|proteolysis	extracellular region	cysteine-type endopeptidase activity|extracellular matrix structural constituent|polysaccharide binding|scavenger receptor activity				0		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		STAD - Stomach adenocarcinoma(196;0.0526)|READ - Rectum adenocarcinoma(331;0.145)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	32286531	32286531	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32286531delT								SPOCD1 (4951 upstream) : PTP4A2 (87262 downstream)																																			---	---	---	---
PTP4A2	8073	broad.mit.edu	37	1	32375887	32375887	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32375887delT	uc001bty.1	-						PTP4A2_uc010ogs.1_Intron|PTP4A2_uc001btz.1_Intron	NM_080391	NP_536316			protein tyrosine phosphatase type IVA, member 2							early endosome|plasma membrane	prenylated protein tyrosine phosphatase activity|protein binding|protein tyrosine/serine/threonine phosphatase activity				0		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)																---	---	---	---
KHDRBS1	10657	broad.mit.edu	37	1	32518337	32518337	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32518337delA	uc001buc.1	+							NM_006559				KH domain containing, RNA binding, signal						cell cycle arrest|cell proliferation|cell surface receptor linked signaling pathway|G2/M transition of mitotic cell cycle|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of RNA export from nucleus|transcription, DNA-dependent	membrane|nucleus	DNA binding|RNA binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)																---	---	---	---
KPNA6	23633	broad.mit.edu	37	1	32610258	32610258	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32610258delT	uc001bug.2	+						KPNA6_uc001buh.2_Intron|KPNA6_uc010ogx.1_Intron|KPNA6_uc010ogy.1_Intron	NM_012316	NP_036448			karyopherin alpha 6						NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)																---	---	---	---
EIF3I	8668	broad.mit.edu	37	1	32691629	32691629	+	Intron	DEL	A	-	-	rs74686229		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32691629delA	uc001bur.3	+						EIF3I_uc009vuc.2_Intron|EIF3I_uc001bus.2_Intron	NM_003757	NP_003748			eukaryotic translation initiation factor 3,							cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)																---	---	---	---
Unknown	0	broad.mit.edu	37	1	32830052	32830052	+	5'Flank	DEL	T	-	-	rs111465260		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32830052delT	uc001bve.1	-											Homo sapiens cDNA FLJ36415 fis, clone THYMU2010917.																														---	---	---	---
BSDC1	55108	broad.mit.edu	37	1	32834302	32834302	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32834302delT	uc001bvh.3	-						BSDC1_uc010ohg.1_Intron|BSDC1_uc010ohh.1_Intron|BSDC1_uc010ohi.1_Intron|BSDC1_uc001bvg.3_Intron|BSDC1_uc001bvj.2_Intron|BSDC1_uc001bvi.2_Intron	NM_018045	NP_060515			BSD domain containing 1 isoform b								protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)																---	---	---	---
Unknown	0	broad.mit.edu	37	1	33198663	33198664	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:33198663_33198664insT								SYNC (30302 upstream) : KIAA1522 (8848 downstream)																																			---	---	---	---
S100PBP	64766	broad.mit.edu	37	1	33295397	33295397	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:33295397delT	uc001bvz.2	+						S100PBP_uc001bwa.1_Intron|S100PBP_uc001bwb.1_Intron|S100PBP_uc001bwc.2_Intron|S100PBP_uc001bwd.2_Intron	NM_022753	NP_073590			S100P binding protein isoform a							nucleus	calcium-dependent protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)																---	---	---	---
RNF19B	127544	broad.mit.edu	37	1	33415573	33415573	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:33415573delT	uc010oho.1	-						RNF19B_uc001bwm.3_Intron|RNF19B_uc010ohp.1_Intron	NM_153341	NP_699172			ring finger protein 19B isoform a							integral to membrane	ligase activity|protein binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)																---	---	---	---
Unknown	0	broad.mit.edu	37	1	33526046	33526047	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:33526046_33526047delAA								AK2 (23554 upstream) : ADC (20667 downstream)																																			---	---	---	---
CSMD2	114784	broad.mit.edu	37	1	34023218	34023223	+	Intron	DEL	ACACAC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34023218_34023223delACACAC	uc001bxn.1	-						CSMD2_uc001bxm.1_Intron	NM_052896	NP_443128			CUB and Sushi multiple domains 2							integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)																---	---	---	---
CSMD2	114784	broad.mit.edu	37	1	34194540	34194540	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34194540delC	uc001bxn.1	-						CSMD2_uc001bxm.1_Intron	NM_052896	NP_443128			CUB and Sushi multiple domains 2							integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)																---	---	---	---
CSMD2	114784	broad.mit.edu	37	1	34330530	34330531	+	Intron	INS	-	G	G	rs147096786	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34330530_34330531insG	uc001bxn.1	-						CSMD2_uc001bxm.1_Intron	NM_052896	NP_443128			CUB and Sushi multiple domains 2							integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)																---	---	---	---
CSMD2	114784	broad.mit.edu	37	1	34540349	34540350	+	Intron	DEL	GT	-	-	rs1351746	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34540349_34540350delGT	uc001bxn.1	-						CSMD2_uc001bxm.1_Intron	NM_052896	NP_443128			CUB and Sushi multiple domains 2							integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)																---	---	---	---
Unknown	0	broad.mit.edu	37	1	34940302	34940303	+	IGR	DEL	CG	-	-	rs7525988	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34940302_34940303delCG								C1orf94 (255573 upstream) : MIR552 (194897 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	35133580	35133581	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:35133580_35133581delTT								C1orf94 (448851 upstream) : MIR552 (1619 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	35388559	35388560	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:35388559_35388560delTT								DLGAP3 (17575 upstream) : ZMYM6 (60808 downstream)																																			---	---	---	---
ZMYM4	9202	broad.mit.edu	37	1	35740852	35740852	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:35740852delT	uc001byt.2	+						ZMYM4_uc009vuu.2_Intron|ZMYM4_uc001byu.2_Intron	NM_005095	NP_005086			zinc finger protein 262						multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)																---	---	---	---
ZMYM4	9202	broad.mit.edu	37	1	35791194	35791194	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:35791194delT	uc001byt.2	+						ZMYM4_uc009vuu.2_Intron|ZMYM4_uc001byu.2_Intron	NM_005095	NP_005086			zinc finger protein 262						multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)																---	---	---	---
Unknown	0	broad.mit.edu	37	1	37534308	37534308	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:37534308delT								GRIK3 (34464 upstream) : ZC3H12A (405811 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	37844449	37844449	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:37844449delT								GRIK3 (344605 upstream) : ZC3H12A (95670 downstream)																																			---	---	---	---
CDCA8	55143	broad.mit.edu	37	1	38164813	38164813	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:38164813delT	uc001cbr.2	+						CDCA8_uc001cbs.2_Intron|CDCA8_uc010oih.1_Intron	NM_018101	NP_060571			cell division cycle associated 8						cell division|chromosome organization|mitotic metaphase|mitotic prometaphase	chromosome passenger complex|chromosome, centromeric region|cytosol|nucleolus|spindle	protein binding			central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)																---	---	---	---
CDCA8	55143	broad.mit.edu	37	1	38170966	38170966	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:38170966delT	uc001cbr.2	+						CDCA8_uc001cbs.2_Intron|CDCA8_uc010oih.1_Intron	NM_018101	NP_060571			cell division cycle associated 8						cell division|chromosome organization|mitotic metaphase|mitotic prometaphase	chromosome passenger complex|chromosome, centromeric region|cytosol|nucleolus|spindle	protein binding			central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)																---	---	---	---
Unknown	0	broad.mit.edu	37	1	38529535	38529536	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:38529535_38529536delGA								POU3F1 (17085 upstream) : RRAGC (775479 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	38808274	38808274	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:38808274delT								POU3F1 (295824 upstream) : RRAGC (496741 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	38830815	38830815	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:38830815delA								POU3F1 (318365 upstream) : RRAGC (474200 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	39001281	39001281	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39001281delT								POU3F1 (488831 upstream) : RRAGC (303734 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	39169845	39169845	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39169845delA								POU3F1 (657395 upstream) : RRAGC (135170 downstream)																																			---	---	---	---
MACF1	23499	broad.mit.edu	37	1	39633386	39633386	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39633386delA	uc010ois.1	+						MACF1_uc001cda.1_Intron	NM_012090	NP_036222			microfilament and actin filament cross-linker						cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)															---	---	---	---
MACF1	23499	broad.mit.edu	37	1	39779228	39779228	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39779228delT	uc010ois.1	+						MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc009vvq.1_Intron|MACF1_uc001cdb.1_Intron	NM_012090	NP_036222			microfilament and actin filament cross-linker						cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)															---	---	---	---
MACF1	23499	broad.mit.edu	37	1	39898480	39898480	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39898480delT	uc010oiu.1	+						MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron	NM_033044	NP_149033			microfilament and actin filament cross-linker						cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)															---	---	---	---
BMP8A	353500	broad.mit.edu	37	1	39962787	39962787	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39962787delT	uc001cdi.2	+							NM_181809	NP_861525			bone morphogenetic protein 8A precursor						cartilage development|cell differentiation|growth|ossification	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(20;2.08e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;9.69e-19)|Epithelial(16;9.34e-17)|all cancers(16;1.73e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)															---	---	---	---
PPIEL	728448	broad.mit.edu	37	1	40021321	40021321	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40021321delA	uc001cdk.2	-							NR_003929				Homo sapiens cDNA FLJ35287 fis, clone PROST2008243.												0																		---	---	---	---
PPIE	10450	broad.mit.edu	37	1	40215808	40215808	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40215808delA	uc001cds.1	+						PPIE_uc001cdt.1_Intron|PPIE_uc010oiy.1_Intron|PPIE_uc001cdu.1_Intron|PPIE_uc001cdv.2_Intron|PPIE_uc001cdw.2_Intron|PPIE_uc001cdx.1_Intron	NM_006112	NP_006103			peptidylprolyl isomerase E isoform 1						protein folding|regulation of transcription, DNA-dependent	catalytic step 2 spliceosome	cyclosporin A binding|nucleotide binding|peptidyl-prolyl cis-trans isomerase activity|protein binding|RNA binding				0	all_cancers(7;1.63e-13)|all_lung(5;2.27e-16)|all_epithelial(6;1.35e-15)|Lung NSC(20;1.49e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;2.7e-17)|all cancers(16;5.5e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	40410207	40410207	+	IGR	DEL	T	-	-	rs113015978		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40410207delT								MYCL1 (42520 upstream) : MFSD2A (10577 downstream)																																			---	---	---	---
MFSD2A	84879	broad.mit.edu	37	1	40429116	40429116	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40429116delA	uc001cev.2	+						MFSD2A_uc010ojb.1_Intron|MFSD2A_uc001ceu.2_Intron|MFSD2A_uc010ojc.1_Intron|MFSD2A_uc009vvy.2_Intron	NM_001136493	NP_001129965			major facilitator superfamily domain containing						transmembrane transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)|pancreas(1)	2																		---	---	---	---
CAP1	10487	broad.mit.edu	37	1	40505384	40505384	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40505384delA	uc001cfa.3	+						CAP1_uc010ojd.1_5'Flank|CAP1_uc001cey.3_5'Flank|CAP1_uc001cez.3_5'Flank|CAP1_uc009vvz.2_5'Flank|CAP1_uc010oje.1_5'Flank	NM_006367	NP_006358			adenylyl cyclase-associated protein						activation of adenylate cyclase activity|axon guidance|establishment or maintenance of cell polarity|platelet activation|platelet degranulation|signal transduction	plasma membrane	actin binding			ovary(1)	1	Lung NSC(20;5.03e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;4.63e-18)|Epithelial(16;1.27e-16)|all cancers(16;2.3e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)															---	---	---	---
RLF	6018	broad.mit.edu	37	1	40647805	40647806	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40647805_40647806insT	uc001cfc.3	+							NM_012421	NP_036553			rearranged L-myc fusion						chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)															---	---	---	---
ZNF643	65243	broad.mit.edu	37	1	40921946	40921946	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40921946delC	uc001cfn.1	+						ZNF643_uc001cfl.1_Intron|ZNF643_uc001cfm.1_Intron	NM_023070	NP_075558			zinc finger protein 643						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;5.25e-18)															---	---	---	---
RIMS3	9783	broad.mit.edu	37	1	41116369	41116370	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:41116369_41116370delAA	uc001cfu.1	-						RIMS3_uc001cfv.1_Intron	NM_014747	NP_055562			regulating synaptic membrane exocytosis 3						neurotransmitter transport	cell junction|synapse					0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.47e-17)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	41426604	41426605	+	IGR	INS	-	T	T	rs148075093	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:41426604_41426605insT								CITED4 (98586 upstream) : CTPS (18402 downstream)																																			---	---	---	---
HIVEP3	59269	broad.mit.edu	37	1	42180540	42180541	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:42180540_42180541delGT	uc001cgz.3	-						HIVEP3_uc001cha.3_Intron	NM_024503	NP_078779			human immunodeficiency virus type I enhancer						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)																---	---	---	---
HIVEP3	59269	broad.mit.edu	37	1	42344558	42344558	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:42344558delT	uc001cgz.3	-						HIVEP3_uc001cha.3_Intron|HIVEP3_uc001chb.1_Intron	NM_024503	NP_078779			human immunodeficiency virus type I enhancer						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)																---	---	---	---
HIVEP3	59269	broad.mit.edu	37	1	42477709	42477710	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:42477709_42477710insA	uc001chb.1	-											Homo sapiens kappa B and V(D)J recombination signal sequences binding protein (KRC) mRNA, complete cds.						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)																---	---	---	---
Unknown	0	broad.mit.edu	37	1	42623673	42623673	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:42623673delG								GUCA2B (2178 upstream) : GUCA2A (4689 downstream)																																			---	---	---	---
CCDC30	728621	broad.mit.edu	37	1	43022181	43022181	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43022181delT	uc009vwk.1	+						CCDC30_uc001chm.2_Intron|CCDC30_uc001chn.2_Intron|CCDC30_uc010oju.1_Intron|CCDC30_uc001chp.2_Intron	NM_001080850	NP_001074319			coiled-coil domain containing 30												0																		---	---	---	---
YBX1	4904	broad.mit.edu	37	1	43162193	43162194	+	Intron	DEL	CT	-	-	rs34273075		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43162193_43162194delCT	uc001chs.2	+							NM_004559	NP_004550			nuclease sensitive element binding protein 1						CRD-mediated mRNA stabilization|negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|positive regulation of cell division|transcription from RNA polymerase II promoter	CRD-mediated mRNA stability complex|extracellular region|histone pre-mRNA 3'end processing complex|nucleoplasm|stress granule|U12-type spliceosomal complex	double-stranded DNA binding|protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			ovary(4)|upper_aerodigestive_tract(1)	5	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)																---	---	---	---
CCDC23	374969	broad.mit.edu	37	1	43281838	43281838	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43281838delT	uc001cib.2	-						ERMAP_uc010ojw.1_5'Flank|ERMAP_uc001cic.1_5'Flank|ERMAP_uc001cid.1_5'Flank	NM_199342	NP_955374			coiled-coil domain containing 23												0	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)																---	---	---	---
EBNA1BP2	10969	broad.mit.edu	37	1	43632275	43632276	+	Intron	INS	-	A	A	rs76862196		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43632275_43632276insA	uc001cin.2	-						EBNA1BP2_uc001cio.2_Intron|EBNA1BP2_uc001cim.2_Intron|EBNA1BP2_uc010ojx.1_Intron	NM_006824	NP_006815			EBNA1 binding protein 2 isoform 2						ribosome biogenesis	membrane fraction|nucleolus	protein binding				0	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)																---	---	---	---
WDR65	149465	broad.mit.edu	37	1	43641491	43641493	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43641491_43641493delTTT	uc001cip.1	+						EBNA1BP2_uc001cio.2_Intron|WDR65_uc010ojz.1_Intron|WDR65_uc001ciq.1_Intron	NM_152498	NP_689711			WD repeat domain 65											skin(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)																---	---	---	---
C1orf210	149466	broad.mit.edu	37	1	43749243	43749243	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43749243delA	uc001cit.3	-							NM_182517	NP_872323			hypothetical protein LOC149466							integral to membrane					0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)																---	---	---	---
MPL	4352	broad.mit.edu	37	1	43807554	43807554	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43807554delT	uc001ciw.2	+						MPL_uc001civ.2_Intron|MPL_uc009vwr.2_Intron	NM_005373	NP_005364			myeloproliferative leukemia virus oncogene						cell proliferation|platelet activation	integral to plasma membrane	cytokine receptor activity			haematopoietic_and_lymphoid_tissue(361)|upper_aerodigestive_tract(1)|pancreas(1)	363	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)						Mis		MPD	MPD	congenital amegakaryocytic thrombocytopenia						---	---	---	---
Unknown	0	broad.mit.edu	37	1	43957014	43957015	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43957014_43957015delTT								HYI (37096 upstream) : PTPRF (39532 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	43958823	43958823	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43958823delT								HYI (38905 upstream) : PTPRF (37724 downstream)																																			---	---	---	---
KDM4A	9682	broad.mit.edu	37	1	44151127	44151128	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44151127_44151128delTT	uc001cjx.2	+						KDM4A_uc010oki.1_Intron	NM_014663	NP_055478			jumonji domain containing 2A						interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1																		---	---	---	---
ST3GAL3	6487	broad.mit.edu	37	1	44217503	44217503	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44217503delT	uc001ckc.2	+						ST3GAL3_uc009vwu.1_Intron|ST3GAL3_uc010okj.1_Intron|ST3GAL3_uc001cjz.2_Intron|ST3GAL3_uc001cka.2_Intron|ST3GAL3_uc001ckb.2_Intron|ST3GAL3_uc001ckd.2_Intron|ST3GAL3_uc001cke.2_Intron|ST3GAL3_uc001ckf.2_Intron|ST3GAL3_uc001ckg.2_Intron|ST3GAL3_uc001ckh.2_Intron|ST3GAL3_uc001cki.2_Intron|ST3GAL3_uc009vwv.2_Intron|ST3GAL3_uc001ckj.2_Intron|ST3GAL3_uc009vww.2_Intron|ST3GAL3_uc001ckk.2_Intron|ST3GAL3_uc009vwy.2_Intron|ST3GAL3_uc009vwx.2_Intron|ST3GAL3_uc001ckm.2_Intron|ST3GAL3_uc001ckl.2_Intron|ST3GAL3_uc009vwz.2_Intron|ST3GAL3_uc001ckn.2_Intron|ST3GAL3_uc001ckp.2_Intron|ST3GAL3_uc001cko.2_Intron|ST3GAL3_uc009vxa.2_Intron|ST3GAL3_uc001ckq.2_Intron|ST3GAL3_uc001ckr.2_Intron|ST3GAL3_uc009vxb.2_Intron	NM_006279	NP_006270			sialyltransferase 6 isoform j						protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	N-acetyllactosaminide alpha-2,3-sialyltransferase activity			ovary(3)	3	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0518)																---	---	---	---
ST3GAL3	6487	broad.mit.edu	37	1	44251687	44251688	+	Intron	INS	-	T	T	rs112668946		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44251687_44251688insT	uc001ckc.2	+						ST3GAL3_uc009vwu.1_Intron|ST3GAL3_uc010okj.1_Intron|ST3GAL3_uc001cjz.2_Intron|ST3GAL3_uc001cka.2_Intron|ST3GAL3_uc001ckb.2_Intron|ST3GAL3_uc001ckd.2_Intron|ST3GAL3_uc001cke.2_Intron|ST3GAL3_uc001ckf.2_Intron|ST3GAL3_uc001ckg.2_Intron|ST3GAL3_uc001ckh.2_Intron|ST3GAL3_uc001cki.2_Intron|ST3GAL3_uc009vwv.2_Intron|ST3GAL3_uc001ckj.2_Intron|ST3GAL3_uc009vww.2_Intron|ST3GAL3_uc001ckk.2_Intron|ST3GAL3_uc009vwy.2_Intron|ST3GAL3_uc009vwx.2_Intron|ST3GAL3_uc001ckm.2_Intron|ST3GAL3_uc001ckl.2_Intron|ST3GAL3_uc009vwz.2_Intron|ST3GAL3_uc001ckn.2_Intron|ST3GAL3_uc001ckp.2_Intron|ST3GAL3_uc001cko.2_Intron|ST3GAL3_uc009vxa.2_Intron|ST3GAL3_uc001ckq.2_Intron|ST3GAL3_uc001ckr.2_Intron|ST3GAL3_uc009vxb.2_Intron	NM_006279	NP_006270			sialyltransferase 6 isoform j						protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	N-acetyllactosaminide alpha-2,3-sialyltransferase activity			ovary(3)	3	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0518)																---	---	---	---
ZSWIM5	57643	broad.mit.edu	37	1	45567813	45567813	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45567813delA	uc001cnd.2	-							NM_020883	NP_065934			zinc finger, SWIM domain containing 5								zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)																	---	---	---	---
Unknown	0	broad.mit.edu	37	1	45721875	45721875	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45721875delA								ZSWIM5 (49625 upstream) : LOC400752 (47707 downstream)																																			---	---	---	---
TESK2	10420	broad.mit.edu	37	1	45817510	45817511	+	Intron	DEL	TA	-	-	rs147751683		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45817510_45817511delTA	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)																	---	---	---	---
TESK2	10420	broad.mit.edu	37	1	45924973	45924973	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45924973delA	uc001cns.1	-						TESK2_uc009vxr.1_5'Flank|TESK2_uc010olo.1_Intron|TESK2_uc009vxs.1_Intron|TESK2_uc010olp.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)																	---	---	---	---
TESK2	10420	broad.mit.edu	37	1	45953144	45953144	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45953144delT	uc001cns.1	-						TESK2_uc010olo.1_Intron|TESK2_uc009vxs.1_Intron|TESK2_uc010olp.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)																	---	---	---	---
Unknown	0	broad.mit.edu	37	1	45997830	45997830	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45997830delT								PRDX1 (10221 upstream) : AKR1A1 (18668 downstream)																																			---	---	---	---
AKR1A1	10327	broad.mit.edu	37	1	46019666	46019667	+	Intron	INS	-	A	A	rs147427785	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46019666_46019667insA	uc001cod.2	+						AKR1A1_uc009vxw.2_Intron|AKR1A1_uc001coe.2_Intron	NM_006066	NP_006057			aldo-keto reductase family 1, member A1						glucose metabolic process		alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)																	---	---	---	---
NASP	4678	broad.mit.edu	37	1	46050307	46050307	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46050307delA	uc001coi.1	+						NASP_uc010olq.1_Intron|NASP_uc001coh.1_Intron|NASP_uc001coj.1_Intron|NASP_uc010olr.1_Intron	NM_002482	NP_002473			nuclear autoantigenic sperm protein isoform 2						blastocyst development|cell cycle|cell proliferation|DNA replication|histone exchange|protein transport	cytoplasm|nucleus	Hsp90 protein binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.211)																	---	---	---	---
MAST2	23139	broad.mit.edu	37	1	46290706	46290707	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46290706_46290707insT	uc001cov.2	+						MAST2_uc001cow.2_Intron	NM_015112	NP_055927			microtubule associated serine/threonine kinase						regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity			ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)																	---	---	---	---
MAST2	23139	broad.mit.edu	37	1	46344821	46344822	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46344821_46344822delAA	uc001cov.2	+						MAST2_uc001cow.2_Intron|MAST2_uc001cox.1_Intron|MAST2_uc001coy.1_Intron	NM_015112	NP_055927			microtubule associated serine/threonine kinase						regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity			ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)																	---	---	---	---
PIK3R3	8503	broad.mit.edu	37	1	46518953	46518953	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46518953delT	uc001cpb.3	-						PIK3R3_uc009vyb.2_Intron|PIK3R3_uc009vyc.2_Intron|PIK3R3_uc001cpc.3_Intron|PIK3R3_uc010olw.1_Intron|PIK3R3_uc010olv.1_Intron	NM_003629	NP_003620			phosphoinositide-3-kinase, regulatory subunit 3						insulin receptor signaling pathway|platelet activation|T cell costimulation		1-phosphatidylinositol-3-kinase activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)																	---	---	---	---
Unknown	0	broad.mit.edu	37	1	46842438	46842438	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46842438delT								NSUN4 (11748 upstream) : FAAH (17501 downstream)																																			---	---	---	---
FAAH	2166	broad.mit.edu	37	1	46873266	46873267	+	Intron	INS	-	CT	CT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46873266_46873267insCT	uc001cpu.2	+						FAAH_uc001cpv.2_Intron	NM_001441	NP_001432			fatty acid amide hydrolase						fatty acid catabolic process	cytoplasm|cytoskeleton|endomembrane system|integral to membrane|organelle membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|fatty acid amide hydrolase activity			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(166;0.155)				Propofol(DB00818)|Thiopental(DB00599)													---	---	---	---
KIAA0494	9813	broad.mit.edu	37	1	47166658	47166659	+	Intron	INS	-	GTGT	GTGT	rs145670885	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:47166658_47166659insGTGT	uc001cqk.3	-						KIAA0494_uc010omh.1_Intron|KIAA0494_uc010omj.1_Intron|KIAA0494_uc001cql.1_Intron	NM_014774	NP_055589			hypothetical protein LOC9813								calcium ion binding				0	Acute lymphoblastic leukemia(166;0.155)																	---	---	---	---
PDZK1IP1	10158	broad.mit.edu	37	1	47651992	47651993	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:47651992_47651993delAA	uc001cqw.2	-							NM_005764	NP_005755			PDZK1 interacting protein 1							integral to membrane					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	47919913	47919913	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:47919913delT								FOXD2 (13551 upstream) : SKINTL (647474 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	48006547	48006548	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:48006547_48006548delTT								FOXD2 (100185 upstream) : SKINTL (560839 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	48505052	48505052	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:48505052delT								FOXD2 (598690 upstream) : SKINTL (62335 downstream)																																			---	---	---	---
SKINTL	391037	broad.mit.edu	37	1	48601292	48601292	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:48601292delT	uc010omr.1	-							NR_026749				Homo sapiens Skint-like (pseudogene) (SKINTL), non-coding RNA.												0																		---	---	---	---
AGBL4	84871	broad.mit.edu	37	1	49167951	49167951	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:49167951delT	uc001cru.2	-						AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron	NM_032785	NP_116174			ATP/GTP binding protein-like 4						C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2				Colorectal(2;0.00349)|COAD - Colon adenocarcinoma(2;0.0037)														---	---	---	---
AGBL4	84871	broad.mit.edu	37	1	49455908	49455908	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:49455908delT	uc001cru.2	-						AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron	NM_032785	NP_116174			ATP/GTP binding protein-like 4						C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2				Colorectal(2;0.00349)|COAD - Colon adenocarcinoma(2;0.0037)														---	---	---	---
AGBL4	84871	broad.mit.edu	37	1	49864006	49864011	+	Intron	DEL	TCTCTC	-	-	rs151020940		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:49864006_49864011delTCTCTC	uc001cru.2	-						AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron	NM_032785	NP_116174			ATP/GTP binding protein-like 4						C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2				Colorectal(2;0.00349)|COAD - Colon adenocarcinoma(2;0.0037)														---	---	---	---
AGBL4	84871	broad.mit.edu	37	1	50454713	50454715	+	Intron	DEL	AGA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:50454713_50454715delAGA	uc001cru.2	-						AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron	NM_032785	NP_116174			ATP/GTP binding protein-like 4						C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2				Colorectal(2;0.00349)|COAD - Colon adenocarcinoma(2;0.0037)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	50813556	50813557	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:50813556_50813557delAA								ELAVL4 (146016 upstream) : DMRTA2 (69672 downstream)																																			---	---	---	---
FAF1	11124	broad.mit.edu	37	1	51109269	51109269	+	Intron	DEL	T	-	-	rs12031920	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:51109269delT	uc009vyx.1	-						FAF1_uc009vyw.1_Intron|FAF1_uc001cse.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)														---	---	---	---
FAF1	11124	broad.mit.edu	37	1	51241431	51241431	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:51241431delA	uc009vyx.1	-						FAF1_uc009vyw.1_Intron|FAF1_uc001cse.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	p.0?(2)		ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(3;3.18e-11)|all cancers(3;0.00526)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	51521323	51521323	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:51521323delT								CDKN2C (81016 upstream) : C1orf185 (46583 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	51691238	51691241	+	IGR	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:51691238_51691241delTTTT								C1orf185 (77486 upstream) : RNF11 (10704 downstream)																																			---	---	---	---
EPS15	2060	broad.mit.edu	37	1	51973335	51973335	+	Intron	DEL	A	-	-	rs34305972		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:51973335delA	uc001csq.1	-						EPS15_uc009vyz.1_Intron|EPS15_uc001csr.1_Intron	NM_001981	NP_001972			epidermal growth factor receptor pathway						cell proliferation|clathrin coat assembly|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|protein transport	cytosol|early endosome membrane	calcium ion binding|SH3 domain binding			lung(1)|kidney(1)	2								T	MLL	ALL								---	---	---	---
OSBPL9	114883	broad.mit.edu	37	1	52181509	52181509	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52181509delT	uc001cst.2	+						OSBPL9_uc001css.2_Intron|OSBPL9_uc001csx.2_Intron|OSBPL9_uc009vza.2_Intron|OSBPL9_uc001csu.2_Intron|OSBPL9_uc001csv.2_Intron|OSBPL9_uc001csw.2_Intron	NM_024586	NP_078862			oxysterol binding protein-like 9 isoform e						lipid transport		lipid binding			central_nervous_system(1)	1																		---	---	---	---
RAB3B	5865	broad.mit.edu	37	1	52429805	52429805	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52429805delT	uc001cth.2	-							NM_002867	NP_002858			RAB3B, member RAS oncogene family						protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	52478998	52478998	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52478998delT								RAB3B (22650 upstream) : TXNDC12 (6809 downstream)																																			---	---	---	---
BTF3L4	91408	broad.mit.edu	37	1	52535549	52535549	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52535549delT	uc001ctk.2	+						BTF3L4_uc001ctl.2_Intron|BTF3L4_uc010onh.1_Intron|BTF3L4_uc001ctm.2_Intron	NM_152265	NP_689478			basic transcription factor 3-like 4 isoform 1											large_intestine(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	52599625	52599625	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52599625delT								BTF3L4 (45535 upstream) : ZFYVE9 (8421 downstream)																																			---	---	---	---
ZFYVE9	9372	broad.mit.edu	37	1	52810259	52810259	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52810259delT	uc001cto.2	+						ZFYVE9_uc001ctp.2_Intron	NM_004799	NP_004790			zinc finger, FYVE domain containing 9 isoform 3						endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8																		---	---	---	---
ZCCHC11	23318	broad.mit.edu	37	1	52956483	52956483	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52956483delA	uc001ctx.2	-						ZCCHC11_uc001cty.2_Intron|ZCCHC11_uc001ctz.2_Intron|ZCCHC11_uc009vze.1_Intron|ZCCHC11_uc009vzf.1_Intron|ZCCHC11_uc001cub.2_Intron|ZCCHC11_uc001cuc.2_Intron	NM_015269	NP_056084			zinc finger, CCHC domain containing 11 isoform						miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3																		---	---	---	---
ZYG11B	79699	broad.mit.edu	37	1	53231166	53231172	+	Intron	DEL	GTTTTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:53231166_53231172delGTTTTTT	uc001cuj.2	+						ZYG11B_uc009vzg.2_Intron|ZYG11B_uc010onj.1_Intron	NM_024646	NP_078922			zyg-11 homolog B								protein binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4																		---	---	---	---
ZYG11B	79699	broad.mit.edu	37	1	53240759	53240759	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:53240759delT	uc001cuj.2	+						ZYG11B_uc009vzg.2_Intron|ZYG11B_uc010onj.1_Intron	NM_024646	NP_078922			zyg-11 homolog B								protein binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4																		---	---	---	---
SCP2	6342	broad.mit.edu	37	1	53436211	53436211	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:53436211delT	uc001cur.1	+						SCP2_uc001cus.1_Intron|SCP2_uc010ono.1_Intron|SCP2_uc010onp.1_Intron|SCP2_uc009vzi.1_Intron|SCP2_uc001cuq.1_Intron	NM_002979	NP_002970			sterol carrier protein 2 isoform 1 proprotein						bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase|lipid transport	mitochondrion|nucleus|peroxisomal matrix	propanoyl-CoA C-acyltransferase activity|propionyl-CoA C2-trimethyltridecanoyltransferase activity|protein binding|sterol binding			breast(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	53640916	53640917	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:53640916_53640917delAG								SLC1A7 (32627 upstream) : CPT2 (21184 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	53909111	53909111	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:53909111delA								FLJ40434 (3418 upstream) : DMRTB1 (15961 downstream)																																			---	---	---	---
GLIS1	148979	broad.mit.edu	37	1	54022582	54022583	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:54022582_54022583delTG	uc001cvr.1	-							NM_147193	NP_671726			GLIS family zinc finger 1						negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			skin(1)	1																		---	---	---	---
GLIS1	148979	broad.mit.edu	37	1	54025500	54025500	+	Intron	DEL	C	-	-	rs59355631	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:54025500delC	uc001cvr.1	-							NM_147193	NP_671726			GLIS family zinc finger 1						negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	54223225	54223225	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:54223225delT								GLIS1 (23348 upstream) : TMEM48 (10165 downstream)																																			---	---	---	---
YIPF1	54432	broad.mit.edu	37	1	54325883	54325883	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:54325883delT	uc001cvu.2	-						YIPF1_uc001cvv.2_Intron|YIPF1_uc001cvw.2_Intron|YIPF1_uc001cvx.2_Intron|YIPF1_uc001cvy.2_Intron	NM_018982	NP_061855			Yip1 domain family, member 1							integral to membrane|transport vesicle				large_intestine(1)|ovary(1)	2																		---	---	---	---
HSPB11	51668	broad.mit.edu	37	1	54391395	54391395	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:54391395delA	uc001cwh.2	-						HSPB11_uc001cwi.1_Intron	NM_016126	NP_057210			heat shock protein family B (small), member 11						cell adhesion|response to stress						0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	54462969	54462969	+	IGR	DEL	C	-	-	rs72480623	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:54462969delC								LRRC42 (29130 upstream) : LDLRAD1 (11537 downstream)																																			---	---	---	---
C1orf175	374977	broad.mit.edu	37	1	55153546	55153549	+	Intron	DEL	TTTT	-	-	rs10651428		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55153546_55153549delTTTT	uc010ooe.1	+						C1orf175_uc001cxq.2_Intron|C1orf175_uc010ooc.1_Intron|C1orf175_uc001cxs.2_Intron|C1orf175_uc010ood.1_Intron|C1orf175_uc010oof.1_Intron|C1orf175_uc001cxr.1_Intron|C1orf175_uc010oog.1_Intron|C1orf175_uc010ooh.1_Intron|C1orf175_uc009vzq.1_Intron|C1orf175_uc001cxt.1_Intron|C1orf175_uc009vzr.1_Intron|C1orf175_uc001cxu.2_Intron	NM_001039464	NP_001034553			hypothetical protein LOC374977							integral to membrane	binding				0																		---	---	---	---
C1orf177	163747	broad.mit.edu	37	1	55284058	55284058	+	Intron	DEL	C	-	-	rs638930	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55284058delC	uc001cyb.3	+						C1orf177_uc001cya.3_Intron	NM_001110533	NP_001104003			hypothetical protein LOC163747 isoform 2												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	56037275	56037276	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:56037275_56037276delAA								USP24 (356513 upstream) : PPAP2B (923157 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	56123145	56123145	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:56123145delT	uc001cyi.1	+											SubName: Full=cDNA FLJ45337 fis, clone BRHIP3007960;																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	56143640	56143641	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:56143640_56143641delTT	uc001cyi.1	+											SubName: Full=cDNA FLJ45337 fis, clone BRHIP3007960;																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	56228756	56228756	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:56228756delA								USP24 (547994 upstream) : PPAP2B (731677 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	56949683	56949684	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:56949683_56949684delAC								None (None upstream) : PPAP2B (10749 downstream)																																			---	---	---	---
PPAP2B	8613	broad.mit.edu	37	1	57014813	57014813	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:57014813delA	uc001cyj.1	-							NM_177414	NP_803133			phosphatidic acid phosphatase type 2B						canonical Wnt receptor signaling pathway involved in positive regulation of cell-cell adhesion|canonical Wnt receptor signaling pathway involved in positive regulation of endothelial cell migration|canonical Wnt receptor signaling pathway involved in positive regulation of wound healing|germ cell migration|homotypic cell-cell adhesion|negative regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|sphingolipid metabolic process	adherens junction|Golgi apparatus|integral to membrane	phosphatidate phosphatase activity|phosphoprotein phosphatase activity|protein binding|sphingosine-1-phosphate phosphatase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	57098284	57098284	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:57098284delA								PPAP2B (53027 upstream) : PRKAA2 (12706 downstream)																																			---	---	---	---
PRKAA2	5563	broad.mit.edu	37	1	57132928	57132928	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:57132928delT	uc001cyk.3	+							NM_006252	NP_006243			AMP-activated protein kinase alpha 2 catalytic						carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6																		---	---	---	---
PRKAA2	5563	broad.mit.edu	37	1	57140028	57140028	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:57140028delT	uc001cyk.3	+							NM_006252	NP_006243			AMP-activated protein kinase alpha 2 catalytic						carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6																		---	---	---	---
PRKAA2	5563	broad.mit.edu	37	1	57157315	57157315	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:57157315delA	uc001cyk.3	+							NM_006252	NP_006243			AMP-activated protein kinase alpha 2 catalytic						carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6																		---	---	---	---
C1orf168	199920	broad.mit.edu	37	1	57256854	57256854	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:57256854delT	uc001cym.3	-						C1orf168_uc009vzu.1_Intron|C1orf168_uc009vzv.1_Intron	NM_001004303	NP_001004303			hypothetical protein LOC199920											ovary(3)|skin(2)	5																		---	---	---	---
DAB1	1600	broad.mit.edu	37	1	58862737	58862738	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:58862737_58862738delAA	uc001cyt.1	-							NM_021080	NP_066566			disabled homolog 1						cell differentiation|nervous system development					skin(2)|ovary(1)	3																		---	---	---	---
DAB1	1600	broad.mit.edu	37	1	58977908	58977908	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:58977908delA	uc001cyt.1	-						OMA1_uc001cyx.1_Intron|OMA1_uc001cyy.2_Intron	NM_021080	NP_066566			disabled homolog 1						cell differentiation|nervous system development					skin(2)|ovary(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	59071557	59071557	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:59071557delA								TACSTD2 (28391 upstream) : MYSM1 (54033 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	59175206	59175208	+	IGR	DEL	AAA	-	-	rs35149783		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:59175206_59175208delAAA								MYSM1 (9459 upstream) : JUN (71256 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	59597228	59597228	+	IGR	DEL	A	-	-	rs113924404		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:59597228delA								JUN (347443 upstream) : LOC729467 (382 downstream)																																			---	---	---	---
FGGY	55277	broad.mit.edu	37	1	60030963	60030963	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:60030963delT	uc001czi.3	+						FGGY_uc001czg.2_Intron|FGGY_uc001czh.2_Intron|FGGY_uc009wac.2_Intron|FGGY_uc001czj.3_Intron|FGGY_uc001czk.3_Intron|FGGY_uc001czl.3_Intron|FGGY_uc001czm.3_Intron	NM_018291	NP_060761			FGGY carbohydrate kinase domain containing						carbohydrate metabolic process|cell death|neuron homeostasis		kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(1)	1	all_cancers(7;7.36e-05)																	---	---	---	---
FGGY	55277	broad.mit.edu	37	1	60087538	60087539	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:60087538_60087539insT	uc001czi.3	+						FGGY_uc001czg.2_Intron|FGGY_uc001czh.2_Intron|FGGY_uc009wac.2_Intron|FGGY_uc001czj.3_Intron|FGGY_uc001czk.3_Intron|FGGY_uc001czl.3_Intron|FGGY_uc001czm.3_Intron	NM_018291	NP_060761			FGGY carbohydrate kinase domain containing						carbohydrate metabolic process|cell death|neuron homeostasis		kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(1)	1	all_cancers(7;7.36e-05)																	---	---	---	---
FGGY	55277	broad.mit.edu	37	1	60124874	60124874	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:60124874delA	uc001czi.3	+						FGGY_uc001czh.2_Intron|FGGY_uc009wac.2_Intron|FGGY_uc001czj.3_Intron|FGGY_uc001czk.3_Intron|FGGY_uc001czl.3_Intron|FGGY_uc001czm.3_Intron	NM_018291	NP_060761			FGGY carbohydrate kinase domain containing						carbohydrate metabolic process|cell death|neuron homeostasis		kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(1)	1	all_cancers(7;7.36e-05)																	---	---	---	---
FGGY	55277	broad.mit.edu	37	1	60168217	60168217	+	Intron	DEL	A	-	-	rs76355194		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:60168217delA	uc001czi.3	+						FGGY_uc009wac.2_Intron|FGGY_uc001czj.3_Intron|FGGY_uc001czk.3_Intron|FGGY_uc001czl.3_Intron|FGGY_uc001czm.3_Intron	NM_018291	NP_060761			FGGY carbohydrate kinase domain containing						carbohydrate metabolic process|cell death|neuron homeostasis		kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(1)	1	all_cancers(7;7.36e-05)																	---	---	---	---
Unknown	0	broad.mit.edu	37	1	60266244	60266245	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:60266244_60266245delTC								FGGY (37844 upstream) : HOOK1 (14218 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	60685595	60685596	+	IGR	DEL	GG	-	-	rs60335611		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:60685595_60685596delGG								C1orf87 (146169 upstream) : NFIA (857350 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	60694730	60694730	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:60694730delT								C1orf87 (155304 upstream) : NFIA (848216 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	60695816	60695819	+	IGR	DEL	TGTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:60695816_60695819delTGTG								C1orf87 (156390 upstream) : NFIA (847127 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	61210009	61210009	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:61210009delT	uc001czt.1	-											Homo sapiens cDNA FLJ39874 fis, clone SPLEN2015815.																														---	---	---	---
NFIA	4774	broad.mit.edu	37	1	61899127	61899127	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:61899127delT	uc001czw.2	+						NFIA_uc001czy.2_Intron|NFIA_uc010oos.1_Intron|NFIA_uc001czv.2_Intron|NFIA_uc001czx.2_Intron|NFIA_uc009wae.2_Intron	NM_001134673	NP_001128145			nuclear factor I/A isoform 1						DNA replication|viral genome replication	cell junction|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	61955087	61955087	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:61955087delT								NFIA (26628 upstream) : TM2D1 (191632 downstream)																																			---	---	---	---
TM2D1	83941	broad.mit.edu	37	1	62189461	62189461	+	Intron	DEL	A	-	-	rs147863719		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62189461delA	uc001czz.1	-							NM_032027	NP_114416			beta-amyloid binding protein precursor						apoptosis					ovary(1)	1																		---	---	---	---
INADL	10207	broad.mit.edu	37	1	62460229	62460230	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62460229_62460230delTT	uc001dab.2	+						INADL_uc009waf.1_Intron|INADL_uc001daa.2_Intron|INADL_uc001dad.3_Intron|INADL_uc001dac.2_Intron|INADL_uc010oot.1_Intron|INADL_uc009wag.2_Intron|INADL_uc010oou.1_Intron	NM_176877	NP_795352			InaD-like						intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4																		---	---	---	---
INADL	10207	broad.mit.edu	37	1	62485191	62485191	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62485191delA	uc001dab.2	+						INADL_uc009waf.1_Intron|INADL_uc001daa.2_Intron|INADL_uc001dad.3_Intron|INADL_uc001dac.2_Intron|INADL_uc010oot.1_Intron|INADL_uc009wag.2_Intron|INADL_uc010oou.1_Intron	NM_176877	NP_795352			InaD-like						intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4																		---	---	---	---
INADL	10207	broad.mit.edu	37	1	62527929	62527929	+	Intron	DEL	T	-	-	rs12753735		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62527929delT	uc001dab.2	+						INADL_uc009waf.1_Intron|INADL_uc001daa.2_Intron|INADL_uc001dad.3_Intron|INADL_uc001dac.2_Intron|INADL_uc010oot.1_Intron|INADL_uc009wag.2_Intron|INADL_uc010oou.1_Intron	NM_176877	NP_795352			InaD-like						intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4																		---	---	---	---
INADL	10207	broad.mit.edu	37	1	62540112	62540112	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62540112delT	uc001dab.2	+						INADL_uc009waf.1_Intron|INADL_uc001daa.2_Intron|INADL_uc001dad.3_Intron|INADL_uc001dac.2_Intron|INADL_uc010oot.1_Intron|INADL_uc009wag.2_Intron|INADL_uc010oou.1_Intron	NM_176877	NP_795352			InaD-like						intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4																		---	---	---	---
DOCK7	85440	broad.mit.edu	37	1	62968434	62968434	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62968434delT	uc001daq.2	-						DOCK7_uc001dan.2_Intron|DOCK7_uc001dao.2_Intron|DOCK7_uc001dap.2_Intron|DOCK7_uc001dam.2_Intron|DOCK7_uc010oov.1_Intron	NM_033407	NP_212132			dedicator of cytokinesis 7						activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	63453190	63453191	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:63453190_63453191delTC								ATG4C (123141 upstream) : FOXD3 (335539 downstream)																																			---	---	---	---
ALG6	29929	broad.mit.edu	37	1	63903805	63903806	+	3'UTR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:63903805_63903806delAA	uc010oow.1	+	15					ALG6_uc001daz.2_RNA|ALG6_uc009waj.2_RNA|ALG6_uc010oox.1_3'UTR	NM_013339	NP_037471			dolichyl pyrophosphate Man9GlcNAc2						dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity				0																		---	---	---	---
EFCAB7	84455	broad.mit.edu	37	1	63999109	63999109	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:63999109delT	uc001dbf.2	+							NM_032437	NP_115813			EF-hand calcium binding domain 7								calcium ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	64228020	64228021	+	IGR	DEL	AA	-	-	rs113708126		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:64228020_64228021delAA								PGM1 (102106 upstream) : ROR1 (11669 downstream)																																			---	---	---	---
ROR1	4919	broad.mit.edu	37	1	64299338	64299338	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:64299338delT	uc001dbj.2	+						ROR1_uc001dbi.3_Intron	NM_005012	NP_005003			receptor tyrosine kinase-like orphan receptor 1						transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19																		---	---	---	---
ROR1	4919	broad.mit.edu	37	1	64308354	64308354	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:64308354delT	uc001dbj.2	+						ROR1_uc001dbi.3_Intron	NM_005012	NP_005003			receptor tyrosine kinase-like orphan receptor 1						transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19																		---	---	---	---
ROR1	4919	broad.mit.edu	37	1	64518520	64518520	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:64518520delT	uc001dbj.2	+						ROR1_uc001dbi.3_Intron	NM_005012	NP_005003			receptor tyrosine kinase-like orphan receptor 1						transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	64905695	64905695	+	IGR	DEL	T	-	-	rs150569895		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:64905695delT								UBE2U (195668 upstream) : CACHD1 (30781 downstream)																																			---	---	---	---
CACHD1	57685	broad.mit.edu	37	1	65010314	65010314	+	Intron	DEL	T	-	-	rs66827491		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65010314delT	uc001dbo.1	+						CACHD1_uc001dbp.1_Intron	NM_020925	NP_065976			cache domain containing 1						calcium ion transport	integral to membrane				ovary(2)	2																		---	---	---	---
RAVER2	55225	broad.mit.edu	37	1	65214133	65214133	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65214133delA	uc001dbs.1	+							NM_018211	NP_060681			ribonucleoprotein, PTB-binding 2							cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)	1																		---	---	---	---
JAK1	3716	broad.mit.edu	37	1	65333694	65333695	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65333694_65333695delAG	uc001dbu.1	-						JAK1_uc009wam.1_Intron	NM_002227	NP_002218			janus kinase 1						interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)				Mis		ALL								---	---	---	---
JAK1	3716	broad.mit.edu	37	1	65376022	65376022	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65376022delA	uc001dbu.1	-						JAK1_uc009wam.1_Intron	NM_002227	NP_002218			janus kinase 1						interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)				Mis		ALL								---	---	---	---
Unknown	0	broad.mit.edu	37	1	65461738	65461738	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65461738delT	uc001dbw.2	-											Homo sapiens cDNA FLJ44251 fis, clone TKIDN2004458.																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	65484146	65484147	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65484146_65484147delAG								JAK1 (51527 upstream) : MIR101-1 (39970 downstream)																																			---	---	---	---
DNAJC6	9829	broad.mit.edu	37	1	65830297	65830297	+	Intron	DEL	G	-	-	rs2296478	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65830297delG	uc001dcd.1	+						DNAJC6_uc001dcc.1_Intron|DNAJC6_uc010opc.1_Intron|DNAJC6_uc001dce.1_Intron	NM_014787	NP_055602			DnaJ (Hsp40) homolog, subfamily C, member 6						cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	66136580	66136580	+	IGR	DEL	A	-	-	rs113832642		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:66136580delA								LEPR (33760 upstream) : PDE4B (121613 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	66143053	66143053	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:66143053delA								LEPR (40233 upstream) : PDE4B (115140 downstream)																																			---	---	---	---
PDE4B	5142	broad.mit.edu	37	1	66738304	66738304	+	Intron	DEL	T	-	-	rs75913055		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:66738304delT	uc001dcn.2	+						PDE4B_uc009war.2_Intron|PDE4B_uc001dco.2_Intron|PDE4B_uc001dcp.2_Intron	NM_001037341	NP_001032418			phosphodiesterase 4B isoform 1						signal transduction	cytosol|insoluble fraction|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3					Adenosine monophosphate(DB00131)|Amrinone(DB01427)|Caffeine(DB00201)|Cilostazol(DB01166)|Dyphylline(DB00651)|Enprofylline(DB00824)|Papaverine(DB01113)|Pentoxifylline(DB00806)|Theophylline(DB00277)													---	---	---	---
SGIP1	84251	broad.mit.edu	37	1	67075610	67075610	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67075610delT	uc001dcr.2	+							NM_032291	NP_115667			SH3-domain GRB2-like (endophilin) interacting						positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3																		---	---	---	---
SGIP1	84251	broad.mit.edu	37	1	67137704	67137704	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67137704delT	uc001dcr.2	+						SGIP1_uc010opd.1_Intron|SGIP1_uc001dcs.2_Intron|SGIP1_uc001dct.2_Intron|uc010ope.1_Intron|SGIP1_uc009wat.2_Intron	NM_032291	NP_115667			SH3-domain GRB2-like (endophilin) interacting						positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3																		---	---	---	---
WDR78	79819	broad.mit.edu	37	1	67279867	67279867	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67279867delA	uc001dcx.2	-						WDR78_uc009waw.2_Intron|WDR78_uc009wax.2_Intron	NM_024763	NP_079039			WD repeat domain 78 isoform 1											ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	67535432	67535432	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67535432delG								SLC35D1 (15352 upstream) : C1orf141 (22427 downstream)																																			---	---	---	---
WLS	79971	broad.mit.edu	37	1	68568670	68568670	+	Intron	DEL	T	-	-	rs71770265		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:68568670delT	uc001dee.2	-						uc001deb.1_Intron|uc001dec.1_Intron	NM_001002292	NP_001002292			G protein-coupled receptor 177 isoform 2						multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Wnt receptor signaling pathway	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	signal transducer activity				0																		---	---	---	---
WLS	79971	broad.mit.edu	37	1	68592709	68592709	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:68592709delA	uc001def.1	-						uc001deb.1_Intron|uc001dec.1_Intron|WLS_uc001dee.2_Intron|WLS_uc001deg.1_Intron|WLS_uc009wbf.1_Intron	NM_024911	NP_079187			G protein-coupled receptor 177 isoform 1						multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Wnt receptor signaling pathway	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	signal transducer activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	68799054	68799054	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:68799054delA								WLS (100801 upstream) : RPE65 (95453 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	68932247	68932247	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:68932247delA								RPE65 (16605 upstream) : DEPDC1 (7590 downstream)																																			---	---	---	---
LRRC7	57554	broad.mit.edu	37	1	70085074	70085074	+	Intron	DEL	A	-	-	rs113565473		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:70085074delA	uc001deo.1	+											SubName: Full=Leucine rich repeat containing 7; SubName: Full=cDNA FLJ54846, highly similar to Leucine-rich repeat-containing protein 7;							centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14																		---	---	---	---
LRRC40	55631	broad.mit.edu	37	1	70620438	70620438	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:70620438delT	uc001der.1	-							NM_017768	NP_060238			leucine rich repeat containing 40											ovary(1)	1																		---	---	---	---
ANKRD13C	81573	broad.mit.edu	37	1	70742581	70742581	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:70742581delT	uc001dex.3	-						ANKRD13C_uc009wbk.2_Intron	NM_030816	NP_110443			ankyrin repeat domain 13C						protein retention in ER lumen|regulation of anoikis|regulation of receptor biosynthetic process	endoplasmic reticulum membrane|perinuclear region of cytoplasm	receptor binding				0																		---	---	---	---
ANKRD13C	81573	broad.mit.edu	37	1	70766400	70766400	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:70766400delT	uc001dex.3	-						ANKRD13C_uc009wbk.2_Intron	NM_030816	NP_110443			ankyrin repeat domain 13C						protein retention in ER lumen|regulation of anoikis|regulation of receptor biosynthetic process	endoplasmic reticulum membrane|perinuclear region of cytoplasm	receptor binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	71203354	71203354	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:71203354delT	uc001dff.2	+											Homo sapiens cDNA clone IMAGE:5167131, partial cds.																														---	---	---	---
PTGER3	5733	broad.mit.edu	37	1	71410538	71410538	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:71410538delT	uc001dfg.1	-						PTGER3_uc001dfh.1_Intron|PTGER3_uc001dfi.1_Intron|PTGER3_uc001dfj.1_Intron|PTGER3_uc001dfk.1_Intron|PTGER3_uc001dfl.1_Intron|PTGER3_uc009wbm.1_Intron|PTGER3_uc001dfm.1_Intron|PTGER3_uc001dfn.2_Intron|PTGER3_uc009wbn.1_Intron	NM_198714	NP_942007			prostaglandin E receptor 3, subtype EP3 isoform						cell death|positive regulation of fever generation|transcription, DNA-dependent	integral to plasma membrane|nuclear envelope	ligand-dependent nuclear receptor activity|prostaglandin E receptor activity			pancreas(1)|lung(1)|skin(1)	3					Bimatoprost(DB00905)													---	---	---	---
Unknown	0	broad.mit.edu	37	1	71527724	71527728	+	Intron	DEL	TAGAT	-	-	rs138518989		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:71527724_71527728delTAGAT	uc001dfr.2	+											Homo sapiens cDNA clone IMAGE:5271818.																														---	---	---	---
ZRANB2	9406	broad.mit.edu	37	1	71542440	71542440	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:71542440delA	uc001dft.2	-						ZRANB2_uc001dfs.2_Intron	NM_203350	NP_976225			zinc finger protein 265 isoform 1						mRNA processing|RNA splicing	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2																		---	---	---	---
NEGR1	257194	broad.mit.edu	37	1	72646495	72646495	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:72646495delG	uc001dfw.2	-						NEGR1_uc010oqs.1_Intron	NM_173808	NP_776169			neuronal growth regulator 1 precursor						cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	72907678	72907678	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:72907678delT								NEGR1 (159273 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	73382982	73382982	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:73382982delT								NEGR1 (634577 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	73472567	73472567	+	IGR	DEL	A	-	-	rs66531723		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:73472567delA								NEGR1 (724162 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	73535958	73535958	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:73535958delT								NEGR1 (787553 upstream) : LRRIQ3 (955746 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	73837298	73837298	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:73837298delA								None (None upstream) : LRRIQ3 (654406 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	74272540	74272541	+	IGR	DEL	AA	-	-	rs72683824		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:74272540_74272541delAA								None (None upstream) : LRRIQ3 (219163 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	74475854	74475854	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:74475854delT								None (None upstream) : LRRIQ3 (15850 downstream)																																			---	---	---	---
LRRIQ3	127255	broad.mit.edu	37	1	74549889	74549889	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:74549889delT	uc001dfy.3	-						LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129			leucine-rich repeats and IQ motif containing 3											ovary(2)	2																		---	---	---	---
TNNI3K	51086	broad.mit.edu	37	1	74796972	74796972	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:74796972delA	uc001dgf.1	+						TNNI3K_uc001dgc.1_Intron|TNNI3K_uc001dgd.2_Intron|TNNI3K_uc001dge.1_Intron	NM_015978	NP_057062			TNNI3 interacting kinase isoform b							cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10																		---	---	---	---
TNNI3K	51086	broad.mit.edu	37	1	74859048	74859049	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:74859048_74859049insA	uc001dgf.1	+						TNNI3K_uc001dgd.2_Intron|TNNI3K_uc001dge.1_Intron	NM_015978	NP_057062			TNNI3 interacting kinase isoform b							cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10																		---	---	---	---
SLC44A5	204962	broad.mit.edu	37	1	75777460	75777460	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:75777460delA	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																		---	---	---	---
SLC44A5	204962	broad.mit.edu	37	1	76046533	76046534	+	Intron	DEL	AC	-	-	rs67773094		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:76046533_76046534delAC	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																		---	---	---	---
ACADM	34	broad.mit.edu	37	1	76198908	76198908	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:76198908delT	uc001dgw.3	+						ACADM_uc010orc.1_Intron|ACADM_uc010ord.1_Intron|ACADM_uc009wbp.2_Intron|ACADM_uc009wbr.2_Intron|ACADM_uc010ore.1_Intron|ACADM_uc010orf.1_Intron|ACADM_uc001dgx.3_Intron|ACADM_uc010org.1_Intron	NM_000016	NP_000007			medium-chain acyl-CoA dehydrogenase isoform a						carnitine biosynthetic process|carnitine metabolic process, CoA-linked|fatty acid beta-oxidation using acyl-CoA dehydrogenase|medium-chain fatty acid catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|identical protein binding|medium-chain-acyl-CoA dehydrogenase activity			breast(2)|ovary(1)|skin(1)	4																		---	---	---	---
MSH4	4438	broad.mit.edu	37	1	76287974	76287978	+	Intron	DEL	AAAAA	-	-	rs75867661		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:76287974_76287978delAAAAA	uc001dhd.1	+							NM_002440	NP_002431			mutS homolog 4						chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5													MMR					---	---	---	---
Unknown	0	broad.mit.edu	37	1	76430778	76430778	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:76430778delA								ASB17 (32662 upstream) : ST6GALNAC3 (109611 downstream)																																			---	---	---	---
ST6GALNAC3	256435	broad.mit.edu	37	1	77068555	77068556	+	Intron	INS	-	AA	AA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:77068555_77068556insAA	uc001dhh.2	+						ST6GALNAC3_uc010orh.1_Intron	NM_152996	NP_694541			sialyltransferase 7C isoform 1						protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	77102215	77102215	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:77102215delA								ST6GALNAC3 (5546 upstream) : ST6GALNAC5 (230971 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	77292872	77292872	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:77292872delA								ST6GALNAC3 (196203 upstream) : ST6GALNAC5 (40314 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	77694345	77694345	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:77694345delA								PIGK (9213 upstream) : AK5 (53397 downstream)																																			---	---	---	---
AK5	26289	broad.mit.edu	37	1	77763489	77763489	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:77763489delT	uc001dhn.2	+						AK5_uc001dho.2_Intron|AK5_uc001dhm.1_Intron	NM_174858	NP_777283			adenylate kinase 5 isoform 1						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	78046892	78046892	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78046892delT	uc001dhq.2	-						ZZZ3_uc001dhr.2_Intron|ZZZ3_uc001dhp.2_Intron	NM_015534	NP_056349			zinc finger, ZZ-type containing 3						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	78240627	78240627	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78240627delT								USP33 (15090 upstream) : FAM73A (4682 downstream)																																			---	---	---	---
FAM73A	374986	broad.mit.edu	37	1	78292802	78292802	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78292802delT	uc001dhx.2	+						FAM73A_uc010ork.1_Intron|FAM73A_uc010orl.1_Intron|FAM73A_uc001dhy.1_Intron	NM_198549	NP_940951			hypothetical protein LOC374986							integral to membrane				ovary(1)	1				Colorectal(170;0.226)														---	---	---	---
FAM73A	374986	broad.mit.edu	37	1	78305066	78305066	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78305066delT	uc001dhx.2	+						FAM73A_uc010ork.1_Intron|FAM73A_uc010orl.1_Intron|FAM73A_uc001dhy.1_Intron	NM_198549	NP_940951			hypothetical protein LOC374986							integral to membrane				ovary(1)	1				Colorectal(170;0.226)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	78497429	78497429	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78497429delA								DNAJB4 (14436 upstream) : GIPC2 (14160 downstream)																																			---	---	---	---
GIPC2	54810	broad.mit.edu	37	1	78541625	78541627	+	Intron	DEL	TCC	-	-	rs3052295		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78541625_78541627delTCC	uc001dik.2	+							NM_017655	NP_060125			PDZ domain protein GIPC2							cytoplasm				ovary(1)	1																		---	---	---	---
GIPC2	54810	broad.mit.edu	37	1	78600029	78600030	+	Intron	DEL	TG	-	-	rs10545983		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78600029_78600030delTG	uc001dik.2	+							NM_017655	NP_060125			PDZ domain protein GIPC2							cytoplasm				ovary(1)	1																		---	---	---	---
MGC27382	149047	broad.mit.edu	37	1	78736005	78736005	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78736005delT	uc001dil.1	+						MGC27382_uc009wcc.2_Intron					Homo sapiens cDNA FLJ34438 fis, clone HLUNG2001144.												0																		---	---	---	---
MGC27382	149047	broad.mit.edu	37	1	78820916	78820916	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78820916delT	uc009wcc.2	+							NR_027310				Homo sapiens cDNA FLJ34438 fis, clone HLUNG2001144.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	78886480	78886483	+	IGR	DEL	CTTC	-	-	rs144770913		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78886480_78886483delCTTC								MGC27382 (51335 upstream) : PTGFR (70245 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	79226804	79226805	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:79226804_79226805insT								IFI44 (97043 upstream) : ELTD1 (128646 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	80187494	80187495	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:80187494_80187495insA								ELTD1 (714999 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	80586015	80586015	+	IGR	DEL	C	-	-	rs4268311	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:80586015delC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	80621377	80621377	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:80621377delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	80656030	80656030	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:80656030delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	80719185	80719185	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:80719185delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	81441778	81441778	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:81441778delA								None (None upstream) : LPHN2 (330067 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	81476926	81476927	+	IGR	INS	-	CAAAA	CAAAA	rs71859593		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:81476926_81476927insCAAAA								None (None upstream) : LPHN2 (294918 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	81586936	81586936	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:81586936delA								None (None upstream) : LPHN2 (184909 downstream)																																			---	---	---	---
LPHN2	23266	broad.mit.edu	37	1	81925378	81925379	+	Intron	DEL	TA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:81925378_81925379delTA	uc001dis.2	+											SubName: Full=cDNA FLJ41428 fis, clone BRHIP2005236, highly similar to Latrophilin-2;						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)														---	---	---	---
LPHN2	23266	broad.mit.edu	37	1	82251630	82251631	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:82251630_82251631insA	uc001dit.3	+						LPHN2_uc001dis.2_Intron	NM_012302	NP_036434			latrophilin 2 precursor						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)														---	---	---	---
LPHN2	23266	broad.mit.edu	37	1	82365179	82365179	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:82365179delG	uc001dit.3	+						LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Intron|LPHN2_uc001div.2_Intron|LPHN2_uc009wcd.2_Intron	NM_012302	NP_036434			latrophilin 2 precursor						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)														---	---	---	---
LPHN2	23266	broad.mit.edu	37	1	82379398	82379398	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:82379398delA	uc001dit.3	+						LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Intron|LPHN2_uc001div.2_Intron|LPHN2_uc009wcd.2_Intron	NM_012302	NP_036434			latrophilin 2 precursor						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	82459818	82459819	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:82459818_82459819delAC								LPHN2 (1712 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	82541272	82541272	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:82541272delT								LPHN2 (83166 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	82829897	82829897	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:82829897delA								LPHN2 (371791 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	83156593	83156593	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:83156593delT								LPHN2 (698487 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	83178206	83178207	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:83178206_83178207delGT								LPHN2 (720100 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	83268180	83268181	+	IGR	INS	-	CG	CG	rs144384600	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:83268180_83268181insCG								LPHN2 (810074 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	83955976	83955978	+	IGR	DEL	AAA	-	-	rs67994628		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:83955976_83955978delAAA								None (None upstream) : TTLL7 (379081 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	84065609	84065609	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:84065609delT	uc001diz.3	-											Homo sapiens cDNA clone IMAGE:4815396.																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	84315943	84315948	+	Intron	DEL	CGCGCA	-	-	rs71097826		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:84315943_84315948delCGCGCA	uc001diz.3	-						uc001dja.1_Intron					Homo sapiens cDNA clone IMAGE:4815396.																														---	---	---	---
TTLL7	79739	broad.mit.edu	37	1	84389066	84389067	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:84389066_84389067insA	uc001djc.2	-						TTLL7_uc001djb.2_Intron|TTLL7_uc001djd.2_Intron|TTLL7_uc001dje.2_Intron|TTLL7_uc001djf.2_Intron|TTLL7_uc001djg.2_Intron	NM_024686	NP_078962			tubulin tyrosine ligase-like family, member 7						cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	84751854	84751854	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:84751854delA								PRKACB (47675 upstream) : SAMD13 (12195 downstream)																																			---	---	---	---
RPF1	80135	broad.mit.edu	37	1	84963785	84963785	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:84963785delA	uc001djv.3	+	9						NM_025065	NP_079341			RNA processing factor 1						rRNA processing|translation	nucleolus	aminoacyl-tRNA ligase activity|ATP binding|rRNA binding				0																		---	---	---	---
SPATA1	64173	broad.mit.edu	37	1	84991901	84991901	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:84991901delA	uc001djz.1	+						SPATA1_uc001djx.2_3'UTR|SPATA1_uc001djy.1_Intron	NM_001081472	NP_001074941			spermatogenesis associated 1											central_nervous_system(1)	1				Epithelial(280;4.36e-10)|all cancers(265;7.1e-09)|BRCA - Breast invasive adenocarcinoma(282;8.45e-09)|OV - Ovarian serous cystadenocarcinoma(397;0.00286)|KIRC - Kidney renal clear cell carcinoma(1967;0.0111)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	85065676	85065676	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:85065676delA								CTBS (25513 upstream) : C1orf180 (28237 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	85362679	85362679	+	IGR	DEL	A	-	-	rs146028034		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:85362679delA								LPAR3 (3783 upstream) : MCOLN2 (28588 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	85700020	85700021	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:85700020_85700021delTT								SYDE2 (33292 upstream) : C1orf52 (15618 downstream)																																			---	---	---	---
DDAH1	23576	broad.mit.edu	37	1	85813978	85813978	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:85813978delT	uc001dlb.2	-						DDAH1_uc001dlc.2_Intron|uc001dla.1_Intron|DDAH1_uc010osb.1_Intron|DDAH1_uc009wco.2_Intron	NM_012137	NP_036269			dimethylarginine dimethylaminohydrolase 1						arginine catabolic process|citrulline metabolic process|nitric oxide mediated signal transduction		dimethylargininase activity|metal ion binding				0				all cancers(265;0.0318)|Epithelial(280;0.0657)	L-Citrulline(DB00155)													---	---	---	---
DDAH1	23576	broad.mit.edu	37	1	85815856	85815856	+	Intron	DEL	T	-	-	rs72424090		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:85815856delT	uc001dlb.2	-						DDAH1_uc001dlc.2_Intron|uc001dla.1_Intron|DDAH1_uc010osb.1_Intron|DDAH1_uc009wco.2_Intron	NM_012137	NP_036269			dimethylarginine dimethylaminohydrolase 1						arginine catabolic process|citrulline metabolic process|nitric oxide mediated signal transduction		dimethylargininase activity|metal ion binding				0				all cancers(265;0.0318)|Epithelial(280;0.0657)	L-Citrulline(DB00155)													---	---	---	---
DDAH1	23576	broad.mit.edu	37	1	85993911	85993911	+	Intron	DEL	A	-	-	rs141074470		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:85993911delA	uc001dlc.2	-							NM_001134445	NP_001127917			dimethylarginine dimethylaminohydrolase 1						arginine catabolic process|citrulline metabolic process|nitric oxide mediated signal transduction		dimethylargininase activity|metal ion binding				0				all cancers(265;0.0318)|Epithelial(280;0.0657)	L-Citrulline(DB00155)													---	---	---	---
COL24A1	255631	broad.mit.edu	37	1	86449499	86449499	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:86449499delA	uc001dlj.2	-						COL24A1_uc010osd.1_Intron|COL24A1_uc001dlk.2_Intron|COL24A1_uc010ose.1_Intron|COL24A1_uc010osf.1_Intron	NM_152890	NP_690850			collagen, type XXIV, alpha 1 precursor						cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)														---	---	---	---
COL24A1	255631	broad.mit.edu	37	1	86450822	86450822	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:86450822delT	uc001dlj.2	-						COL24A1_uc010osd.1_Intron|COL24A1_uc001dlk.2_Intron|COL24A1_uc010ose.1_Intron|COL24A1_uc010osf.1_Intron	NM_152890	NP_690850			collagen, type XXIV, alpha 1 precursor						cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)														---	---	---	---
COL24A1	255631	broad.mit.edu	37	1	86467376	86467376	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:86467376delA	uc001dlj.2	-						COL24A1_uc010osd.1_Intron|COL24A1_uc001dlk.2_Intron|COL24A1_uc010ose.1_Intron|COL24A1_uc010osf.1_Intron	NM_152890	NP_690850			collagen, type XXIV, alpha 1 precursor						cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	86775670	86775670	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:86775670delA								COL24A1 (153224 upstream) : ODF2L (38742 downstream)																																			---	---	---	---
CLCA2	9635	broad.mit.edu	37	1	86891197	86891197	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:86891197delA	uc001dlr.3	+							NM_006536	NP_006527			chloride channel accessory 2 precursor						cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)														---	---	---	---
CLCA1	1179	broad.mit.edu	37	1	86958845	86958846	+	Intron	INS	-	T	T	rs138754600	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:86958845_86958846insT	uc001dlt.2	+						CLCA1_uc001dls.1_Intron	NM_001285	NP_001276			chloride channel accessory 1 precursor						calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	87072178	87072178	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:87072178delT								CLCA4 (25748 upstream) : CLCA3P (27781 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	87166543	87166543	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:87166543delT								CLCA3P (45485 upstream) : SH3GLB1 (3714 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	87228003	87228003	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:87228003delT								SH3GLB1 (14137 upstream) : SEP15 (100127 downstream)																																			---	---	---	---
SEP15	9403	broad.mit.edu	37	1	87361970	87361970	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:87361970delA	uc010osi.1	-						SEP15_uc010osj.1_Intron	NM_004261	NP_004252			15 kDa selenoprotein isoform 1 precursor						'de novo' posttranslational protein folding	endoplasmic reticulum lumen	selenium binding				0		Lung NSC(277;0.153)		all cancers(265;0.00744)|Epithelial(280;0.0333)														---	---	---	---
HS2ST1	9653	broad.mit.edu	37	1	87563396	87563396	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:87563396delA	uc010osk.1	+						HS2ST1_uc001dmc.3_Intron|LOC339524_uc001dme.1_Intron	NM_012262	NP_036394			heparan sulfate 2-O-sulfotransferase 1 isoform							Golgi membrane|integral to membrane				central_nervous_system(1)	1		Lung NSC(277;0.153)		all cancers(265;0.00699)|Epithelial(280;0.0261)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	87651292	87651293	+	IGR	DEL	TT	-	-	rs76355671		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:87651292_87651293delTT								LOC339524 (16408 upstream) : LMO4 (142858 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	87655510	87655510	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:87655510delC								LOC339524 (20626 upstream) : LMO4 (138641 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	87966421	87966421	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:87966421delA								LMO4 (151818 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	88160793	88160793	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:88160793delA								LMO4 (346190 upstream) : PKN2 (989129 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	88332247	88332248	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:88332247_88332248delAG								LMO4 (517644 upstream) : PKN2 (817674 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	88350127	88350127	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:88350127delA								LMO4 (535524 upstream) : PKN2 (799795 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	88835226	88835226	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:88835226delC								None (None upstream) : PKN2 (314696 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	89092100	89092102	+	IGR	DEL	TTT	-	-	rs150415427		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:89092100_89092102delTTT								None (None upstream) : PKN2 (57820 downstream)																																			---	---	---	---
GBP1	2633	broad.mit.edu	37	1	89518866	89518866	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:89518866delT	uc001dmx.2	-	11						NM_002053	NP_002044			guanylate binding protein 1,						interferon-gamma-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0156)|Epithelial(280;0.0291)														---	---	---	---
GBP5	115362	broad.mit.edu	37	1	89735377	89735377	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:89735377delA	uc001dnc.2	-						GBP5_uc001dnd.2_Intron|GBP5_uc001dne.1_5'UTR	NM_052942	NP_443174			guanylate-binding protein 5							plasma membrane	GTP binding|GTPase activity			ovary(1)	1				all cancers(265;0.00784)|Epithelial(280;0.0286)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	89824534	89824534	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:89824534delT								GBP5 (85990 upstream) : GBP6 (4902 downstream)																																	OREG0013594	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
GBP6	163351	broad.mit.edu	37	1	89841448	89841448	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:89841448delT	uc001dnf.2	+						GBP6_uc010ost.1_Intron	NM_198460	NP_940862			guanylate binding protein family, member 6								GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)														---	---	---	---
LOC400759	400759	broad.mit.edu	37	1	89887193	89887193	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:89887193delT	uc009wcy.1	+							NR_003133				Homo sapiens cDNA, FLJ17004.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	89923325	89923325	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:89923325delT								LOC400759 (32832 upstream) : LRRC8B (67072 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	89923326	89923327	+	IGR	INS	-	A	A	rs149722063	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:89923326_89923327insA								LOC400759 (32833 upstream) : LRRC8B (67070 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	90230369	90230369	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:90230369delA								LRRC8C (45276 upstream) : LRRC8D (56204 downstream)																																			---	---	---	---
LRRC8D	55144	broad.mit.edu	37	1	90366074	90366074	+	Intron	DEL	A	-	-	rs111373944		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:90366074delA	uc001dnm.2	+						LRRC8D_uc001dnn.2_Intron	NM_001134479	NP_001127951			leucine rich repeat containing 8 family, member							integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	90626718	90626718	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:90626718delA								ZNF326 (132624 upstream) : BARHL2 (550862 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	90776589	90776600	+	IGR	DEL	TTCCTTCCTTCC	-	-	rs12758996		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:90776589_90776600delTTCCTTCCTTCC								ZNF326 (282495 upstream) : BARHL2 (400980 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	90991365	90991365	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:90991365delA								ZNF326 (497271 upstream) : BARHL2 (186215 downstream)																																			---	---	---	---
BARHL2	343472	broad.mit.edu	37	1	91182861	91182861	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:91182861delA	uc001dns.2	-							NM_020063	NP_064447			BarH-like homeobox 2							nucleus	sequence-specific DNA binding			ovary(1)	1		all_lung(203;0.0263)|Lung SC(238;0.128)		all cancers(265;0.000897)|Epithelial(280;0.00516)|OV - Ovarian serous cystadenocarcinoma(397;0.211)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	91247968	91247969	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:91247968_91247969delTC								BARHL2 (65174 upstream) : ZNF644 (132891 downstream)																																			---	---	---	---
ZNF644	84146	broad.mit.edu	37	1	91447809	91447809	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:91447809delT	uc001dnw.2	-						ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Intron	NM_201269	NP_958357			zinc finger protein 644 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)														---	---	---	---
HFM1	164045	broad.mit.edu	37	1	91850795	91850795	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:91850795delA	uc001doa.3	-						HFM1_uc010osu.1_Intron|HFM1_uc010osv.1_Intron|HFM1_uc001doc.1_Intron	NM_001017975	NP_001017975			HFM1 protein								ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)														---	---	---	---
CDC7	8317	broad.mit.edu	37	1	91971909	91971909	+	Intron	DEL	T	-	-	rs76011590		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:91971909delT	uc001doe.2	+						CDC7_uc001dof.2_Intron|CDC7_uc010osw.1_Intron|CDC7_uc009wdc.2_Intron	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)														---	---	---	---
TGFBR3	7049	broad.mit.edu	37	1	92180163	92180163	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92180163delA	uc001doh.2	-						TGFBR3_uc009wde.2_Intron|TGFBR3_uc010osy.1_Intron|TGFBR3_uc001doi.2_Intron|TGFBR3_uc001doj.2_Intron	NM_003243	NP_003234			transforming growth factor, beta receptor III						BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)														---	---	---	---
TGFBR3	7049	broad.mit.edu	37	1	92282392	92282392	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92282392delT	uc001doh.2	-						TGFBR3_uc009wde.2_Intron|TGFBR3_uc010osy.1_Intron|TGFBR3_uc001doi.2_Intron|TGFBR3_uc001doj.2_Intron	NM_003243	NP_003234			transforming growth factor, beta receptor III						BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	92392907	92392908	+	IGR	INS	-	AT	AT	rs150570182	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92392907_92392908insAT								TGFBR3 (21348 upstream) : BRDT (22020 downstream)																																			---	---	---	---
BTBD8	284697	broad.mit.edu	37	1	92597873	92597876	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92597873_92597876delTTTT	uc001doo.2	+						BTBD8_uc010otc.1_Intron	NM_183242	NP_899065			BTB (POZ) domain containing 8							nucleus				ovary(1)	1		all_lung(203;0.0484)|Lung NSC(277;0.126)|Glioma(108;0.222)		all cancers(265;0.0153)|Epithelial(280;0.0982)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	92657123	92657123	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92657123delA								KIAA1107 (6844 upstream) : C1orf146 (26450 downstream)																																			---	---	---	---
RPAP2	79871	broad.mit.edu	37	1	92825563	92825563	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92825563delG	uc001dot.2	+						RPAP2_uc009wdh.2_Intron	NM_024813	NP_079089			RNA polymerase II associated protein 2							integral to membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		all_lung(203;0.0565)|Lung NSC(277;0.152)|Glioma(108;0.222)		all cancers(265;0.00647)|GBM - Glioblastoma multiforme(16;0.0234)|Epithelial(280;0.115)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	93293350	93293351	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:93293350_93293351insT								EVI5 (35389 upstream) : RPL5 (4243 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	93485718	93485718	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:93485718delA								FAM69A (58639 upstream) : MTF2 (59074 downstream)																																			---	---	---	---
MTF2	22823	broad.mit.edu	37	1	93599773	93599773	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:93599773delT	uc009wdj.2	+						MTF2_uc010oth.1_Intron|MTF2_uc009wdk.2_Intron|MTF2_uc001dpi.3_Intron|MTF2_uc010oti.1_Intron|MTF2_uc001dpj.3_Intron|MTF2_uc001dpl.3_Intron|MTF2_uc001dpm.3_Intron	NM_007358	NP_031384			metal response element binding transcription							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)														---	---	---	---
CCDC18	343099	broad.mit.edu	37	1	93683011	93683011	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:93683011delT	uc001dpq.2	+						CCDC18_uc009wdl.1_Intron	NM_206886	NP_996769			sarcoma antigen NY-SAR-41											ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)														---	---	---	---
FNBP1L	54874	broad.mit.edu	37	1	93939841	93939842	+	Intron	INS	-	CTT	CTT	rs147990678	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:93939841_93939842insCTT	uc001dpw.2	+						FNBP1L_uc001dpv.2_Intron	NM_001024948	NP_001020119			formin binding protein 1-like isoform 1						endocytosis	cell cortex|cytoplasmic membrane-bounded vesicle|cytoskeleton|plasma membrane	lipid binding				0		all_lung(203;0.00206)|Lung NSC(277;0.00902)|Melanoma(281;0.155)		all cancers(265;0.00666)|GBM - Glioblastoma multiforme(16;0.0378)|Epithelial(280;0.111)														---	---	---	---
FNBP1L	54874	broad.mit.edu	37	1	93982601	93982603	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:93982601_93982603delTTT	uc001dpw.2	+						FNBP1L_uc001dpv.2_Intron	NM_001024948	NP_001020119			formin binding protein 1-like isoform 1						endocytosis	cell cortex|cytoplasmic membrane-bounded vesicle|cytoskeleton|plasma membrane	lipid binding				0		all_lung(203;0.00206)|Lung NSC(277;0.00902)|Melanoma(281;0.155)		all cancers(265;0.00666)|GBM - Glioblastoma multiforme(16;0.0378)|Epithelial(280;0.111)														---	---	---	---
FNBP1L	54874	broad.mit.edu	37	1	94013464	94013464	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:94013464delT	uc001dpw.2	+						FNBP1L_uc001dpv.2_Intron|FNBP1L_uc010otk.1_Intron|FNBP1L_uc010otl.1_Intron	NM_001024948	NP_001020119			formin binding protein 1-like isoform 1						endocytosis	cell cortex|cytoplasmic membrane-bounded vesicle|cytoskeleton|plasma membrane	lipid binding				0		all_lung(203;0.00206)|Lung NSC(277;0.00902)|Melanoma(281;0.155)		all cancers(265;0.00666)|GBM - Glioblastoma multiforme(16;0.0378)|Epithelial(280;0.111)														---	---	---	---
FNBP1L	54874	broad.mit.edu	37	1	94018104	94018104	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:94018104delT	uc001dpw.2	+	14					FNBP1L_uc001dpv.2_3'UTR|FNBP1L_uc010otk.1_3'UTR|FNBP1L_uc010otl.1_3'UTR	NM_001024948	NP_001020119			formin binding protein 1-like isoform 1						endocytosis	cell cortex|cytoplasmic membrane-bounded vesicle|cytoskeleton|plasma membrane	lipid binding				0		all_lung(203;0.00206)|Lung NSC(277;0.00902)|Melanoma(281;0.155)		all cancers(265;0.00666)|GBM - Glioblastoma multiforme(16;0.0378)|Epithelial(280;0.111)														---	---	---	---
BCAR3	8412	broad.mit.edu	37	1	94100277	94100277	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:94100277delA	uc001dpz.2	-						BCAR3_uc001dqa.2_Intron|BCAR3_uc001dqb.2_Intron	NM_003567	NP_003558			breast cancer antiestrogen resistance 3						response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)														---	---	---	---
GCLM	2730	broad.mit.edu	37	1	94356436	94356436	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:94356436delT	uc001dqg.1	-							NM_002061	NP_002052			glutamate-cysteine ligase regulatory protein						glutamate metabolic process|glutathione biosynthetic process|regulation of blood vessel size|response to drug|response to oxidative stress|xenobiotic metabolic process	cytosol|soluble fraction	glutamate-cysteine ligase catalytic subunit binding			ovary(1)	1		all_lung(203;0.000815)|Lung NSC(277;0.00363)		all cancers(265;0.00566)|GBM - Glioblastoma multiforme(16;0.0203)|Epithelial(280;0.131)	L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)													---	---	---	---
Unknown	0	broad.mit.edu	37	1	94383706	94383706	+	IGR	DEL	T	-	-	rs11317614		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:94383706delT								GCLM (8694 upstream) : ABCA4 (74690 downstream)																																			---	---	---	---
ABCA4	24	broad.mit.edu	37	1	94479203	94479203	+	Intron	DEL	T	-	-	rs4147896		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:94479203delT	uc001dqh.2	-						ABCA4_uc001dqi.1_5'Flank|ABCA4_uc009wdp.1_Intron	NM_000350	NP_000341			ATP-binding cassette, sub-family A member 4						phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)														---	---	---	---
ARHGAP29	9411	broad.mit.edu	37	1	94650326	94650326	+	Intron	DEL	A	-	-	rs75147838		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:94650326delA	uc001dqj.3	-						ARHGAP29_uc009wdq.1_Intron|ARHGAP29_uc001dqk.2_Intron	NM_004815	NP_004806			PTPL1-associated RhoGAP 1						Rho protein signal transduction	cytosol	metal ion binding|Rho GTPase activator activity			breast(4)|skin(3)|lung(2)|upper_aerodigestive_tract(1)|ovary(1)	11		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)														---	---	---	---
ABCD3	5825	broad.mit.edu	37	1	94982583	94982583	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:94982583delT	uc001dqn.3	+						ABCD3_uc010oto.1_Intron|ABCD3_uc010otp.1_Intron|ABCD3_uc009wdr.2_Intron|ABCD3_uc001dqo.3_Intron	NM_002858	NP_002849			ATP-binding cassette, sub-family D, member 3						peroxisomal long-chain fatty acid import|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(1)	1		all_lung(203;0.000434)|Lung NSC(277;0.0019)		all cancers(265;0.0261)|Epithelial(280;0.165)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	94987496	94987496	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:94987496delT								ABCD3 (3278 upstream) : F3 (7236 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	95061680	95061680	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:95061680delT								F3 (54309 upstream) : SLC44A3 (224221 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	95064343	95064343	+	IGR	DEL	T	-	-	rs66575160		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:95064343delT								F3 (56972 upstream) : SLC44A3 (221558 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	95139457	95139457	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:95139457delA	uc001dqu.2	-											Homo sapiens cDNA clone IMAGE:4795773.																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	95194252	95194253	+	Intron	DEL	TT	-	-	rs144002445		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:95194252_95194253delTT	uc001dqu.2	-											Homo sapiens cDNA clone IMAGE:4795773.																														---	---	---	---
TMEM56	148534	broad.mit.edu	37	1	95630472	95630472	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:95630472delT	uc001drb.2	+						RWDD3_uc001drd.3_Intron|uc001dre.1_RNA|TMEM56_uc001drc.2_Intron	NM_152487	NP_689700			transmembrane protein 56							integral to membrane					0		all_lung(203;0.0232)|Lung NSC(277;0.0739)		all cancers(265;0.133)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	95903677	95903677	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:95903677delT								RWDD3 (190904 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	96616951	96616951	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:96616951delA								RWDD3 (904178 upstream) : PTBP2 (570224 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	96749954	96749954	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:96749954delT								None (None upstream) : PTBP2 (437221 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	96818061	96818061	+	IGR	DEL	T	-	-	rs67727219		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:96818061delT								None (None upstream) : PTBP2 (369114 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	97016382	97016382	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:97016382delA								None (None upstream) : PTBP2 (170793 downstream)																																			---	---	---	---
PTBP2	58155	broad.mit.edu	37	1	97200460	97200468	+	Intron	DEL	TTTTTTTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:97200460_97200468delTTTTTTTTT	uc001drq.2	+						PTBP2_uc001drn.2_Intron|PTBP2_uc001dro.2_Intron|PTBP2_uc010otz.1_Intron|PTBP2_uc001drp.2_Intron|PTBP2_uc009wdw.2_Intron|PTBP2_uc001drr.2_Intron|PTBP2_uc010oua.1_Intron|PTBP2_uc001dru.2_Intron|PTBP2_uc001drm.2_Intron	NM_021190	NP_067013			polypyrimidine tract binding protein 2								nucleotide binding				0		all_epithelial(167;2.95e-05)|all_lung(203;0.000396)|Lung NSC(277;0.00171)		all cancers(265;0.0582)|Epithelial(280;0.0716)|Colorectal(170;0.0879)|KIRC - Kidney renal clear cell carcinoma(1967;0.202)														---	---	---	---
PTBP2	58155	broad.mit.edu	37	1	97236525	97236525	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:97236525delT	uc001drq.2	+						PTBP2_uc001drn.2_Intron|PTBP2_uc001dro.2_Intron|PTBP2_uc010otz.1_Intron|PTBP2_uc001drp.2_Intron|PTBP2_uc009wdw.2_Intron|PTBP2_uc001drr.2_Intron|PTBP2_uc010oua.1_Intron|PTBP2_uc001dru.2_Intron|PTBP2_uc001drm.2_3'UTR	NM_021190	NP_067013			polypyrimidine tract binding protein 2								nucleotide binding				0		all_epithelial(167;2.95e-05)|all_lung(203;0.000396)|Lung NSC(277;0.00171)		all cancers(265;0.0582)|Epithelial(280;0.0716)|Colorectal(170;0.0879)|KIRC - Kidney renal clear cell carcinoma(1967;0.202)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	97391549	97391549	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:97391549delA								PTBP2 (110950 upstream) : DPYD (151753 downstream)																																			---	---	---	---
DPYD	1806	broad.mit.edu	37	1	97857917	97857918	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:97857917_97857918insT	uc001drv.2	-							NM_000110	NP_000101			dihydropyrimidine dehydrogenase isoform 1						'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)													---	---	---	---
DPYD	1806	broad.mit.edu	37	1	98132038	98132039	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:98132038_98132039delTG	uc001drv.2	-							NM_000110	NP_000101			dihydropyrimidine dehydrogenase isoform 1						'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)													---	---	---	---
Unknown	0	broad.mit.edu	37	1	98668498	98668498	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:98668498delA								MIR137 (156771 upstream) : SNX7 (458738 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	98717794	98717794	+	IGR	DEL	A	-	-	rs34976104		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:98717794delA								MIR137 (206067 upstream) : SNX7 (409442 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	99066312	99066312	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:99066312delA								MIR137 (554585 upstream) : SNX7 (60924 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	99340507	99340508	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:99340507_99340508delTG								SNX7 (114453 upstream) : LPPR5 (15295 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	99642398	99642398	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:99642398delA								LPPR5 (171949 upstream) : LPPR4 (87502 downstream)																																			---	---	---	---
SLC35A3	23443	broad.mit.edu	37	1	100471102	100471102	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100471102delT	uc001dsp.1	+						SLC35A3_uc001dsq.1_Intron|SLC35A3_uc009wdy.1_Intron|SLC35A3_uc001dsr.1_Intron|SLC35A3_uc001dss.1_Intron	NM_012243	NP_036375			solute carrier family 35 member 3A						UDP-N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	sugar:hydrogen symporter activity|UDP-N-acetylglucosamine transmembrane transporter activity				0		all_epithelial(167;0.000686)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.124)|all cancers(265;0.198)|Lung(183;0.199)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	100549047	100549047	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100549047delA								HIAT1 (120 upstream) : SASS6 (57 downstream)																																			---	---	---	---
SASS6	163786	broad.mit.edu	37	1	100552231	100552231	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100552231delT	uc001dsu.2	-						SASS6_uc009wdz.2_Intron	NM_194292	NP_919268			spindle assembly abnormal protein 6						centriole replication	centriole				upper_aerodigestive_tract(1)|ovary(1)	2		all_epithelial(167;4.58e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.085)|all cancers(265;0.139)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.197)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	100999351	100999351	+	IGR	DEL	T	-	-	rs112009413		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100999351delT								CDC14A (13519 upstream) : GPR88 (4377 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	101117880	101117880	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:101117880delA								GPR88 (110298 upstream) : VCAM1 (67417 downstream)																																			---	---	---	---
SLC30A7	148867	broad.mit.edu	37	1	101372571	101372571	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)														---	---	---	---
DPH5	51611	broad.mit.edu	37	1	101462924	101462924	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:101462924delT	uc001dts.2	-						DPH5_uc001dtr.2_Intron|DPH5_uc001dtq.2_Intron|DPH5_uc001dtt.2_Intron|DPH5_uc001dtu.2_Intron|DPH5_uc001dtv.2_Intron|DPH5_uc001dtw.2_Intron|DPH5_uc001dtx.2_Intron|DPH5_uc001dty.2_Intron|DPH5_uc001dtz.2_Intron	NM_015958	NP_057042			diphthine synthase isoform a						peptidyl-diphthamide biosynthetic process from peptidyl-histidine		diphthine synthase activity				0		all_epithelial(167;3.1e-06)|all_lung(203;0.000414)|Lung NSC(277;0.000946)		Epithelial(280;0.0385)|all cancers(265;0.043)|COAD - Colon adenocarcinoma(174;0.151)|Colorectal(144;0.173)|Lung(183;0.198)														---	---	---	---
DPH5	51611	broad.mit.edu	37	1	101487149	101487149	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:101487149delA	uc001dts.2	-						DPH5_uc001dtr.2_Intron|DPH5_uc001dtq.2_Intron|DPH5_uc001dtt.2_Intron|DPH5_uc001dtu.2_Intron|DPH5_uc001dtv.2_Intron|DPH5_uc001dtw.2_Intron|DPH5_uc001dtx.2_Intron|DPH5_uc001dty.2_Intron|DPH5_uc001dtz.2_Intron	NM_015958	NP_057042			diphthine synthase isoform a						peptidyl-diphthamide biosynthetic process from peptidyl-histidine		diphthine synthase activity				0		all_epithelial(167;3.1e-06)|all_lung(203;0.000414)|Lung NSC(277;0.000946)		Epithelial(280;0.0385)|all cancers(265;0.043)|COAD - Colon adenocarcinoma(174;0.151)|Colorectal(144;0.173)|Lung(183;0.198)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	101731637	101731641	+	IGR	DEL	TTTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:101731637_101731641delTTTTT								S1PR1 (24561 upstream) : OLFM3 (536486 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	102027199	102027199	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:102027199delT								S1PR1 (320123 upstream) : OLFM3 (240928 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	102132160	102132160	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:102132160delA								S1PR1 (425084 upstream) : OLFM3 (135967 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	102194344	102194344	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:102194344delA								S1PR1 (487268 upstream) : OLFM3 (73783 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	102225505	102225506	+	IGR	DEL	TT	-	-	rs74797217	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:102225505_102225506delTT								S1PR1 (518429 upstream) : OLFM3 (42621 downstream)																																			---	---	---	---
OLFM3	118427	broad.mit.edu	37	1	102435290	102435290	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:102435290delT	uc001dug.2	-						OLFM3_uc001duh.2_Intron|OLFM3_uc001dui.2_Intron|OLFM3_uc001duj.2_Intron	NM_058170	NP_477518			olfactomedin 3							extracellular region				ovary(2)|skin(1)	3		all_epithelial(167;1.87e-06)|all_lung(203;8.12e-05)|Lung NSC(277;0.000189)		all cancers(265;0.0843)|Epithelial(280;0.0921)|COAD - Colon adenocarcinoma(174;0.145)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	102491219	102491219	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:102491219delA								OLFM3 (28429 upstream) : COL11A1 (850805 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	102678240	102678241	+	IGR	INS	-	T	T	rs151211973	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:102678240_102678241insT								OLFM3 (215450 upstream) : COL11A1 (663783 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	102715475	102715476	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:102715475_102715476insT								OLFM3 (252685 upstream) : COL11A1 (626548 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	103745714	103745714	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:103745714delT								COL11A1 (171662 upstream) : RNPC3 (322864 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	103771555	103771555	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:103771555delA								COL11A1 (197503 upstream) : RNPC3 (297023 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	104428853	104428853	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:104428853delA								AMY1A (221681 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	104658300	104658300	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:104658300delA								AMY1A (451128 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	105180939	105180939	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:105180939delA								AMY1A (973767 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	105328416	105328416	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:105328416delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	105575683	105575683	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:105575683delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	106005825	106005827	+	IGR	DEL	TTT	-	-	rs66460443		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:106005825_106005827delTTT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	106186323	106186323	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:106186323delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	106331554	106331555	+	IGR	INS	-	G	G	rs79291204		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:106331554_106331555insG								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	106399223	106399224	+	IGR	INS	-	T	T	rs147818768	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:106399223_106399224insT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	106863288	106863288	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:106863288delT								None (None upstream) : PRMT6 (735979 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	107199609	107199609	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:107199609delA								None (None upstream) : PRMT6 (399658 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	107494873	107494875	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:107494873_107494875delAAA								None (None upstream) : PRMT6 (104392 downstream)																																			---	---	---	---
VAV3	10451	broad.mit.edu	37	1	108239886	108239886	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:108239886delA	uc001dvk.1	-						VAV3_uc010ouw.1_Intron|VAV3_uc001dvl.1_Intron|VAV3_uc010oux.1_Intron	NM_006113	NP_006104			vav 3 guanine nucleotide exchange factor isoform						angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)														---	---	---	---
VAV3	10451	broad.mit.edu	37	1	108242360	108242360	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:108242360delT	uc001dvk.1	-						VAV3_uc010ouw.1_Intron|VAV3_uc001dvl.1_Intron|VAV3_uc010oux.1_Intron	NM_006113	NP_006104			vav 3 guanine nucleotide exchange factor isoform						angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)														---	---	---	---
VAV3	10451	broad.mit.edu	37	1	108247686	108247686	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:108247686delA	uc001dvk.1	-						VAV3_uc010ouw.1_Intron|VAV3_uc001dvl.1_Intron|VAV3_uc010oux.1_Intron	NM_006113	NP_006104			vav 3 guanine nucleotide exchange factor isoform						angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)														---	---	---	---
VAV3	10451	broad.mit.edu	37	1	108353476	108353476	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:108353476delT	uc001dvk.1	-						VAV3_uc010ouw.1_Intron|VAV3_uc001dvl.1_Intron|VAV3_uc010oux.1_Intron	NM_006113	NP_006104			vav 3 guanine nucleotide exchange factor isoform						angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)														---	---	---	---
SLC25A24	29957	broad.mit.edu	37	1	108703625	108703625	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:108703625delT	uc001dvn.3	-						SLC25A24_uc001dvm.2_Intron	NM_013386	NP_037518			solute carrier family 25 member 24 isoform 1						transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)	1		all_epithelial(167;3.72e-05)|all_lung(203;0.000567)|Lung NSC(277;0.0011)|Melanoma(281;0.211)		Colorectal(144;0.0345)|Lung(183;0.0971)|COAD - Colon adenocarcinoma(174;0.127)|Epithelial(280;0.134)														---	---	---	---
WDR47	22911	broad.mit.edu	37	1	109531387	109531387	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:109531387delT	uc001dwj.2	-						WDR47_uc001dwl.2_Intron|WDR47_uc001dwi.2_Intron|WDR47_uc001dwk.2_Intron|WDR47_uc010ovf.1_Intron	NM_001142551	NP_001136023			WD repeat domain 47 isoform 3											ovary(1)	1		all_lung(203;0.00519)|all_epithelial(167;0.00611)|Lung NSC(277;0.00822)		Colorectal(144;0.0165)|Lung(183;0.0484)|COAD - Colon adenocarcinoma(174;0.128)|Epithelial(280;0.168)|all cancers(265;0.201)|LUSC - Lung squamous cell carcinoma(189;0.244)														---	---	---	---
TAF13	6884	broad.mit.edu	37	1	109610767	109610767	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:109610767delT	uc001dwm.1	-							NM_005645	NP_005636			TBP-associated factor 13						transcription elongation from RNA polymerase II promoter|viral reproduction	transcription factor TFIID complex	protein C-terminus binding|sequence-specific DNA binding transcription factor activity				0		all_epithelial(167;0.000102)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0138)|Lung(183;0.0425)|COAD - Colon adenocarcinoma(174;0.113)|Epithelial(280;0.166)|all cancers(265;0.191)|LUSC - Lung squamous cell carcinoma(189;0.228)														---	---	---	---
AHCYL1	10768	broad.mit.edu	37	1	110555139	110555140	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	110622741	110622742	+	IGR	INS	-	ATTCTATTCC	ATTCTATTCC	rs61785514	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110622741_110622742insATTCTATTCC								ALX3 (9419 upstream) : UBL4B (32320 downstream)																																			---	---	---	---
SLC6A17	388662	broad.mit.edu	37	1	110724415	110724416	+	Intron	DEL	GT	-	-	rs139169573		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110724415_110724416delGT	uc009wfq.2	+							NM_001010898	NP_001010898			solute carrier family 6, member 17						alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)														---	---	---	---
SLC16A4	9122	broad.mit.edu	37	1	110916668	110916668	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110916668delT	uc001dzo.1	-						SLC16A4_uc009wfs.1_Intron|SLC16A4_uc001dzp.1_Intron|SLC16A4_uc010ovy.1_Intron|SLC16A4_uc001dzq.1_Intron|SLC16A4_uc010ovz.1_Intron	NM_004696	NP_004687			solute carrier family 16, member 4							integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			ovary(3)	3		all_cancers(81;0.000476)|all_epithelial(167;0.000401)|all_lung(203;0.00277)|Lung NSC(277;0.0043)		Lung(183;0.0251)|all cancers(265;0.0766)|Epithelial(280;0.0807)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.14)	Pyruvic acid(DB00119)													---	---	---	---
C1orf103	55791	broad.mit.edu	37	1	111491259	111491259	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111491259delT	uc001eaa.2	-						C1orf103_uc001dzz.2_Intron|C1orf103_uc001eab.2_Intron|C1orf103_uc001eac.1_Intron	NM_018372	NP_060842			receptor-interacting factor 1 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)														---	---	---	---
RAP1A	5906	broad.mit.edu	37	1	112169021	112169024	+	Intron	DEL	ACAT	-	-	rs3085075		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:112169021_112169024delACAT	uc001ebi.2	+						RAP1A_uc001ebk.2_Intron|RAP1A_uc001ebl.2_Intron|RAP1A_uc001ebm.2_5'Flank	NM_002884	NP_002875			RAP1A, member of RAS oncogene family precursor						activation of MAPKK activity|blood coagulation|energy reserve metabolic process|nerve growth factor receptor signaling pathway|regulation of insulin secretion	cytosol|plasma membrane	GTP binding|GTPase activity				0		all_cancers(81;6.79e-06)|all_epithelial(167;2.42e-05)|all_lung(203;0.000105)|Lung NSC(277;0.00021)		Lung(183;0.0183)|Colorectal(144;0.0418)|LUSC - Lung squamous cell carcinoma(189;0.0966)|all cancers(265;0.098)|Epithelial(280;0.0981)|COAD - Colon adenocarcinoma(174;0.141)														---	---	---	---
RAP1A	5906	broad.mit.edu	37	1	112206533	112206536	+	Intron	DEL	CTTC	-	-	rs111320238		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:112206533_112206536delCTTC	uc001ebi.2	+						RAP1A_uc001ebk.2_Intron|RAP1A_uc001ebl.2_Intron|RAP1A_uc001ebm.2_Intron	NM_002884	NP_002875			RAP1A, member of RAS oncogene family precursor						activation of MAPKK activity|blood coagulation|energy reserve metabolic process|nerve growth factor receptor signaling pathway|regulation of insulin secretion	cytosol|plasma membrane	GTP binding|GTPase activity				0		all_cancers(81;6.79e-06)|all_epithelial(167;2.42e-05)|all_lung(203;0.000105)|Lung NSC(277;0.00021)		Lung(183;0.0183)|Colorectal(144;0.0418)|LUSC - Lung squamous cell carcinoma(189;0.0966)|all cancers(265;0.098)|Epithelial(280;0.0981)|COAD - Colon adenocarcinoma(174;0.141)														---	---	---	---
KCND3	3752	broad.mit.edu	37	1	112451346	112451346	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:112451346delT	uc001ebu.1	-						KCND3_uc001ebv.1_Intron	NM_004980	NP_004971			potassium voltage-gated channel, Shal-related							sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)														---	---	---	---
KCND3	3752	broad.mit.edu	37	1	112489554	112489554	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:112489554delT	uc001ebu.1	-						KCND3_uc001ebv.1_Intron	NM_004980	NP_004971			potassium voltage-gated channel, Shal-related							sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)														---	---	---	---
WNT2B	7482	broad.mit.edu	37	1	113040868	113040868	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:113040868delT	uc001eca.2	+						WNT2B_uc009wgg.2_Intron	NM_004185	NP_004176			wingless-type MMTV integration site family,						chondrocyte differentiation|cornea development in camera-type eye|dorsal/ventral axis specification|forebrain regionalization|hemopoietic stem cell proliferation|iris morphogenesis|lens development in camera-type eye|lung induction|male gonad development|neuron differentiation|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding|signal transducer activity			ovary(2)|breast(2)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-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)														---	---	---	---
ST7L	54879	broad.mit.edu	37	1	113125359	113125359	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:113125359delA	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)														---	---	---	---
ST7L	54879	broad.mit.edu	37	1	113126864	113126865	+	Intron	DEL	AA	-	-	rs76579294		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:113126864_113126865delAA	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)														---	---	---	---
CAPZA1	829	broad.mit.edu	37	1	113202203	113202209	+	Intron	DEL	TCTCTCT	-	-	rs60025142	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:113202203_113202209delTCTCTCT	uc001ecj.1	+							NM_006135	NP_006126			F-actin capping protein alpha-1 subunit						actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement|innate immune response|protein complex assembly	cytosol|extracellular region|F-actin capping protein complex|WASH complex	actin 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)														---	---	---	---
RHOC	389	broad.mit.edu	37	1	113252165	113252165	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:113252165delT	uc001ecp.1	-						RHOC_uc001ecq.1_5'Flank|RHOC_uc001ecr.1_5'Flank|RHOC_uc009wgk.1_5'Flank	NM_001042679	NP_001036144			ras homolog gene family, member C precursor						axon guidance|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|signal transducer activity			ovary(1)	1	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)														---	---	---	---
MAGI3	260425	broad.mit.edu	37	1	113998580	113998580	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:113998580delT	uc001edk.2	+						MAGI3_uc001edh.3_Intron|MAGI3_uc001edi.3_Intron|MAGI3_uc010owm.1_Intron	NM_001142782	NP_001136254			membrane-associated guanylate kinase-related  3						apoptosis|interspecies interaction between organisms|intracellular signal transduction	nucleus|tight junction	ATP binding|guanylate kinase activity|protein binding			lung(3)|ovary(2)|central_nervous_system(1)	6	Lung SC(450;0.184)	all_cancers(81;2.34e-09)|all_epithelial(167;7.41e-09)|all_lung(203;7.13e-06)|Lung NSC(69;1.2e-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)														---	---	---	---
MAGI3	260425	broad.mit.edu	37	1	114009070	114009070	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:114009070delT	uc001edk.2	+						MAGI3_uc001edh.3_Intron|MAGI3_uc001edi.3_Intron|MAGI3_uc010owm.1_Intron	NM_001142782	NP_001136254			membrane-associated guanylate kinase-related  3						apoptosis|interspecies interaction between organisms|intracellular signal transduction	nucleus|tight junction	ATP binding|guanylate kinase activity|protein binding			lung(3)|ovary(2)|central_nervous_system(1)	6	Lung SC(450;0.184)	all_cancers(81;2.34e-09)|all_epithelial(167;7.41e-09)|all_lung(203;7.13e-06)|Lung NSC(69;1.2e-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)														---	---	---	---
PHTF1	10745	broad.mit.edu	37	1	114281008	114281009	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:114281008_114281009delAA	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)														---	---	---	---
PTPN22	26191	broad.mit.edu	37	1	114377352	114377352	+	Intron	DEL	A	-	-	rs79608028		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:114377352delA	uc001eds.2	-						PTPN22_uc009wgq.2_Intron|PTPN22_uc010owo.1_Intron|PTPN22_uc001edt.2_Intron|PTPN22_uc009wgr.2_Intron|PTPN22_uc009wgs.2_Intron|PTPN22_uc001edu.2_Intron	NM_015967	NP_057051			protein tyrosine phosphatase, non-receptor type						negative regulation of T cell activation|negative regulation of T cell receptor signaling pathway|phosphoanandamide dephosphorylation|regulation of B cell receptor signaling pathway|regulation of natural killer cell proliferation|T cell differentiation	internal side of plasma membrane|nucleus|perinuclear region of cytoplasm	kinase binding|protein tyrosine phosphatase activity|SH3 domain binding			kidney(2)|lung(1)|skin(1)	4	Lung SC(450;0.184)	all_cancers(81;1.93e-08)|all_epithelial(167;4.37e-08)|all_lung(203;5.22e-06)|Lung NSC(69;8.94e-06)		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)														---	---	---	---
SYT6	148281	broad.mit.edu	37	1	114634953	114634964	+	Intron	DEL	TCTCTCTCTGTG	-	-	rs71928342	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:114634953_114634964delTCTCTCTCTGTG	uc001eev.2	-						SYT6_uc001eeu.2_Intron	NM_205848	NP_995320			synaptotagmin VI						acrosomal vesicle exocytosis	cell junction|cytosol|integral to membrane|perinuclear endoplasmic reticulum|peripheral to membrane of membrane fraction|synaptic vesicle membrane	clathrin binding|metal ion binding|protein homodimerization activity|syntaxin binding|transporter activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-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)														---	---	---	---
SYT6	148281	broad.mit.edu	37	1	114691817	114691818	+	Intron	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:114691817_114691818delGA	uc001eev.2	-							NM_205848	NP_995320			synaptotagmin VI						acrosomal vesicle exocytosis	cell junction|cytosol|integral to membrane|perinuclear endoplasmic reticulum|peripheral to membrane of membrane fraction|synaptic vesicle membrane	clathrin binding|metal ion binding|protein homodimerization activity|syntaxin binding|transporter activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-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)														---	---	---	---
TRIM33	51592	broad.mit.edu	37	1	114990016	114990016	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:114990016delA	uc001eew.2	-						TRIM33_uc010ows.1_Intron|TRIM33_uc001eex.2_Intron	NM_015906	NP_056990			tripartite motif-containing 33 protein isoform						negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|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)				T	RET	papillary thyroid								---	---	---	---
BCAS2	10286	broad.mit.edu	37	1	115113851	115113852	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:115113851_115113852delTT	uc001efa.2	-						DENND2C_uc001eez.2_Intron	NM_005872	NP_005863			breast carcinoma amplified sequence 2						mRNA processing|RNA splicing, via transesterification reactions	nucleolus|spliceosomal complex	protein binding			large_intestine(1)	1	all_epithelial(7;9.54e-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)														---	---	---	---
DENND2C	163259	broad.mit.edu	37	1	115195738	115195738	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:115195738delT	uc001efd.1	-						DENND2C_uc001eez.2_Intron|DENND2C_uc001efc.1_Intron	NM_198459	NP_940861			DENN/MADD domain containing 2C											skin(3)	3	all_epithelial(7;9.54e-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)														---	---	---	---
SYCP1	6847	broad.mit.edu	37	1	115423887	115423887	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:115423887delT	uc001efr.2	+						SYCP1_uc010owt.1_Intron|SYCP1_uc001efq.2_Intron|SYCP1_uc009wgw.2_Intron	NM_003176	NP_003167			synaptonemal complex protein 1						cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		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)														---	---	---	---
SYCP1	6847	broad.mit.edu	37	1	115468891	115468891	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:115468891delT	uc001efr.2	+						SYCP1_uc010owt.1_Intron|SYCP1_uc001efq.2_Intron|SYCP1_uc009wgw.2_Intron	NM_003176	NP_003167			synaptonemal complex protein 1						cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		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	115586058	115586058	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:115586058delA								TSHB (9117 upstream) : TSPAN2 (4577 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	116032561	116032568	+	IGR	DEL	TGAGCTAT	-	-	rs148854162	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:116032561_116032568delTGAGCTAT								NGF (151704 upstream) : VANGL1 (152006 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	116422551	116422552	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:116422551_116422552delCA								NHLH2 (38804 upstream) : SLC22A15 (96567 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	116636637	116636637	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:116636637delT								SLC22A15 (23965 upstream) : C1orf161 (17739 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	116869492	116869493	+	IGR	DEL	AA	-	-	rs150668532		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:116869492_116869493delAA								C1orf161 (191631 upstream) : ATP1A1 (45511 downstream)																																			---	---	---	---
ATP1A1	476	broad.mit.edu	37	1	116934388	116934389	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:116934388_116934389insT	uc001ege.2	+						ATP1A1_uc010owv.1_Intron|ATP1A1_uc010oww.1_Intron|ATP1A1_uc010owx.1_Intron	NM_000701	NP_000692			Na+/K+ -ATPase alpha 1 subunit isoform a						ATP biosynthetic process	melanosome|sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;1.28e-06)|all_epithelial(167;3.48e-07)|all_lung(203;2.64e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0164)|LUSC - Lung squamous cell carcinoma(189;0.0548)|Colorectal(144;0.0825)|COAD - Colon adenocarcinoma(174;0.127)|all cancers(265;0.24)	Acetyldigitoxin(DB00511)|Almitrine(DB01430)|Aluminium(DB01370)|Bepridil(DB01244)|Bretylium(DB01158)|Captopril(DB01197)|Deslanoside(DB01078)|Diazoxide(DB01119)|Digitoxin(DB01396)|Digoxin(DB00390)|Esomeprazole(DB00736)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Ouabain(DB01092)|Pantoprazole(DB00213)|Trichlormethiazide(DB01021)													---	---	---	---
Unknown	0	broad.mit.edu	37	1	117052069	117052069	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:117052069delT								C1orf203 (90825 upstream) : CD58 (5088 downstream)																																			---	---	---	---
IGSF3	3321	broad.mit.edu	37	1	117165089	117165089	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:117165089delA	uc001egr.1	-						IGSF3_uc001egq.1_Intron	NM_001007237	NP_001007238			immunoglobulin superfamily, member 3 isoform 2							integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	117267617	117267617	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:117267617delT								MIR320B1 (53168 upstream) : CD2 (29469 downstream)																																			---	---	---	---
CD2	914	broad.mit.edu	37	1	117302051	117302053	+	Intron	DEL	AAA	-	-	rs66603322		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:117302051_117302053delAAA	uc001egu.3	+						CD2_uc010owz.1_Intron|CD2_uc010oxa.1_Intron	NM_001767	NP_001758			CD2 molecule precursor						blood coagulation|cell surface receptor linked signaling pathway|cell-cell adhesion|induction of apoptosis|leukocyte migration|membrane raft polarization|natural killer cell activation|positive regulation of myeloid dendritic cell activation|regulation of T cell differentiation|T cell activation	integral to plasma membrane	receptor activity			breast(1)	1	Lung SC(450;0.225)	all_cancers(81;3.15e-06)|Acute lymphoblastic leukemia(138;1.7e-08)|all_epithelial(167;8.38e-07)|all_lung(203;3.37e-06)|Lung NSC(69;2.31e-05)		Epithelial(280;6.71e-26)|OV - Ovarian serous cystadenocarcinoma(397;4.74e-24)|all cancers(265;1.93e-22)|Lung(183;0.0543)|Kidney(133;0.0813)|Colorectal(144;0.174)|KIRC - Kidney renal clear cell carcinoma(1967;0.176)|LUSC - Lung squamous cell carcinoma(189;0.189)|BRCA - Breast invasive adenocarcinoma(282;0.201)	Alefacept(DB00092)													---	---	---	---
Unknown	0	broad.mit.edu	37	1	117326980	117326980	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:117326980delA								CD2 (15130 upstream) : PTGFRN (125709 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	117879967	117879967	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:117879967delT								VTCN1 (126418 upstream) : MAN1A2 (30118 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	118117962	118117963	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:118117962_118117963delAC								MAN1A2 (49642 upstream) : FAM46C (30641 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	118381519	118381519	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:118381519delA								FAM46C (210509 upstream) : GDAP2 (24589 downstream)																																			---	---	---	---
GDAP2	54834	broad.mit.edu	37	1	118456872	118456872	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:118456872delA	uc001ehf.2	-						GDAP2_uc001ehg.2_Intron	NM_017686	NP_060156			ganglioside induced differentiation associated											ovary(2)	2		all_cancers(81;0.0156)|all_lung(203;5.81e-05)|Lung NSC(69;0.000446)|all_epithelial(167;0.00295)		Lung(183;0.0583)|LUSC - Lung squamous cell carcinoma(189;0.194)														---	---	---	---
WDR3	10885	broad.mit.edu	37	1	118502088	118502089	+	3'UTR	DEL	TT	-	-	rs78802688		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:118502088_118502089delTT	uc010oxe.1	+	27					WDR3_uc001ehi.2_Intron|SPAG17_uc001ehk.2_Intron	NM_006784	NP_006775			WD repeat-containing protein 3							nuclear membrane|nucleolus				upper_aerodigestive_tract(1)	1	Esophageal squamous(2;0.162)	all_cancers(81;2.72e-05)|Acute lymphoblastic leukemia(138;1e-08)|all_epithelial(167;4.4e-07)|all_lung(203;1.7e-06)|Lung NSC(69;1.98e-05)|Prostate(1639;0.00955)|Breast(1374;0.244)		OV - Ovarian serous cystadenocarcinoma(397;1.39e-08)|Epithelial(280;1.82e-07)|all cancers(265;2.04e-05)|Lung(183;0.0525)|BRCA - Breast invasive adenocarcinoma(282;0.0695)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.185)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	118852457	118852458	+	IGR	DEL	AT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:118852457_118852458delAT								SPAG17 (124609 upstream) : TBX15 (573208 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	119298599	119298599	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:119298599delA								SPAG17 (570751 upstream) : TBX15 (127067 downstream)																																			---	---	---	---
HSD3B1	3283	broad.mit.edu	37	1	120049947	120049947	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120049947delA	uc001ehv.1	+						HSD3B1_uc001ehw.2_5'UTR	NM_000862	NP_000853			3 beta-hydroxysteroid dehydrogenase 1						androgen biosynthetic process|estrogen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.219)	all_lung(203;3.16e-06)|Lung NSC(69;2.19e-05)|all_epithelial(167;0.000624)		Lung(183;0.0106)|LUSC - Lung squamous cell carcinoma(189;0.0554)	NADH(DB00157)|Trilostane(DB01108)													---	---	---	---
Unknown	0	broad.mit.edu	37	1	120081977	120081977	+	IGR	DEL	T	-	-	rs143071512	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120081977delT								HSD3B1 (24296 upstream) : ZNF697 (80023 downstream)																																			---	---	---	---
NBPF7	343505	broad.mit.edu	37	1	120379734	120379737	+	Intron	DEL	AAAG	-	-	rs67014534		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120379734_120379737delAAAG	uc010oxk.1	-							NM_001047980	NP_001041445			hypothetical protein LOC343505							cytoplasm				ovary(1)|skin(1)	2	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;3.66e-05)|Lung NSC(69;0.000192)|all_epithelial(167;0.0347)		Lung(183;0.0103)|LUSC - Lung squamous cell carcinoma(189;0.0544)														---	---	---	---
NOTCH2	4853	broad.mit.edu	37	1	120545153	120545153	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120545153delA	uc001eik.2	-						NOTCH2_uc001eil.2_Intron|NOTCH2_uc001eim.3_Intron	NM_024408	NP_077719			notch 2 preproprotein						anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)				N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	1	120679291	120679292	+	IGR	DEL	GA	-	-	rs111627344	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120679291_120679292delGA								NOTCH2 (67015 upstream) : FAM72B (159713 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	120679292	120679292	+	IGR	DEL	A	-	-	rs112895622		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120679292delA								NOTCH2 (67016 upstream) : FAM72B (159713 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	142690566	142690567	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:142690566_142690567delTG	uc001eiw.1	+						uc001eix.1_Intron					Homo sapiens PNAS-130 mRNA, complete cds.																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	142692208	142692208	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:142692208delA	uc001eiw.1	+						uc001eix.1_Intron					Homo sapiens PNAS-130 mRNA, complete cds.																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	142965872	142965872	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:142965872delA	uc001eiw.1	+											Homo sapiens PNAS-130 mRNA, complete cds.																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	143396858	143396858	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:143396858delA								None (None upstream) : LOC100286793 (250781 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	143459861	143459861	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:143459861delT	uc001ejn.1	-											Homo sapiens cDNA clone IMAGE:30343207.																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	143512376	143512376	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:143512376delT								None (None upstream) : LOC100286793 (135263 downstream)																																			---	---	---	---
FAM72D	728833	broad.mit.edu	37	1	143911730	143911730	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:143911730delT	uc002qvn.1	-						FAM72D_uc010evy.1_Intron	NM_207418	NP_997301			hypothetical protein LOC653573												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	144014881	144014881	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:144014881delA	uc010oxm.1	+											SubName: Full=Novel protein similar to SLIT-ROBO Rho GTPase activating protein 2 SRGAP2; Flags: Fragment;																														---	---	---	---
NBPF9	400818	broad.mit.edu	37	1	144597216	144597216	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:144597216delT	uc010oxr.1	+						NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_Intron|uc001elc.2_RNA|NBPF9_uc009wif.1_Intron|uc001ele.2_Intron	NM_001037675	NP_001032764			hypothetical protein LOC400818							cytoplasm					0																		---	---	---	---
PDE4DIP	9659	broad.mit.edu	37	1	144927485	144927485	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:144927485delT	uc001elw.3	-						NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Intron|PDE4DIP_uc001emc.1_Intron|PDE4DIP_uc001emd.1_Intron|PDE4DIP_uc001emb.1_Intron|PDE4DIP_uc001emf.1_Intron	NM_014644	NP_055459			phosphodiesterase 4D interacting protein isoform						cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)				T	PDGFRB	MPD								---	---	---	---
PDE4DIP	9659	broad.mit.edu	37	1	145000017	145000017	+	Intron	DEL	A	-	-	rs112899945		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145000017delA	uc001elx.3	-						NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001emh.2_Intron	NM_014644	NP_055459			phosphodiesterase 4D interacting protein isoform						cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)				T	PDGFRB	MPD								---	---	---	---
PDE4DIP	9659	broad.mit.edu	37	1	145033613	145033614	+	Intron	INS	-	AAA	AAA	rs141798859		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145033613_145033614insAAA	uc001elx.3	-						NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001emh.2_Intron	NM_014644	NP_055459			phosphodiesterase 4D interacting protein isoform						cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)				T	PDGFRB	MPD								---	---	---	---
NBPF9	400818	broad.mit.edu	37	1	145041680	145041681	+	Intron	DEL	AA	-	-	rs10544872		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145041680_145041681delAA	uc010oye.1	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elm.3_5'Flank|PDE4DIP_uc001eln.3_5'Flank|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_5'Flank|PDE4DIP_uc001emh.2_Intron					RecName: Full=Neuroblastoma breakpoint family member 8;							cytoplasm					0																		---	---	---	---
NBPF9	400818	broad.mit.edu	37	1	145199591	145199594	+	Intron	DEL	AAAC	-	-	rs146470428		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145199591_145199594delAAAC	uc010oye.1	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron					RecName: Full=Neuroblastoma breakpoint family member 8;							cytoplasm					0																		---	---	---	---
NBPF10	100132406	broad.mit.edu	37	1	145264368	145264368	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145264368delT	uc001emp.3	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NOTCH2NL_uc001emn.3_Intron|NOTCH2NL_uc001emm.3_Intron|NOTCH2NL_uc001emo.2_Intron|NOTCH2NL_uc010oyh.1_Intron	NM_017940	NP_060410			hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)														---	---	---	---
NBPF10	100132406	broad.mit.edu	37	1	145381925	145381925	+	Intron	DEL	A	-	-	rs113894211		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145381925delA	uc001emp.3	+							NM_017940	NP_060410			hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)														---	---	---	---
NBPF10	100132406	broad.mit.edu	37	1	145384077	145384077	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145384077delT	uc001emp.3	+							NM_017940	NP_060410			hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)														---	---	---	---
NBPF10	100132406	broad.mit.edu	37	1	145439210	145439211	+	Intron	INS	-	C	C	rs142045491	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145439210_145439211insC	uc001emp.3	+						TXNIP_uc001enn.3_Intron|TXNIP_uc001enm.1_Intron|TXNIP_uc010oys.1_5'Flank	NM_017940	NP_060410			hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)														---	---	---	---
NBPF10	100132406	broad.mit.edu	37	1	145454709	145454709	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145454709delA	uc001emp.3	+							NM_017940	NP_060410			hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)														---	---	---	---
NBPF10	100132406	broad.mit.edu	37	1	145645968	145645968	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145645968delA	uc001emp.3	+						RNF115_uc001eoj.2_Intron|RNF115_uc001eok.2_Intron|RNF115_uc009wiy.2_Intron	NM_017940	NP_060410			hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)														---	---	---	---
NBPF10	100132406	broad.mit.edu	37	1	145731228	145731228	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145731228delA	uc001emp.3	+						PDZK1_uc001eon.1_Intron|PDZK1_uc001eoo.1_Intron|PDZK1_uc010oza.1_Intron	NM_017940	NP_060410			hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)														---	---	---	---
FMO5	2330	broad.mit.edu	37	1	146661516	146661516	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146661516delT	uc001epi.2	-						FMO5_uc001eph.3_Intron|FMO5_uc001epj.2_Intron	NM_001461	NP_001452			flavin containing monooxygenase 5 isoform 1							integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			ovary(3)	3	all_hematologic(923;0.0487)																	---	---	---	---
Unknown	0	broad.mit.edu	37	1	146923378	146923378	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146923378delT	uc001epp.2	-											Homo sapiens cDNA clone IMAGE:5266739.																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	146937450	146937450	+	Intron	DEL	A	-	-	rs71083843		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146937450delA	uc001epp.2	-											Homo sapiens cDNA clone IMAGE:5266739.																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	147009348	147009348	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:147009348delT								CHD1L (241907 upstream) : BCL9 (3834 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	147176027	147176027	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:147176027delT								ACP6 (33393 upstream) : GJA5 (52305 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	147390784	147390784	+	IGR	DEL	A	-	-	rs78856056		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:147390784delA								GJA8 (9391 upstream) : GPR89B (9722 downstream)																																			---	---	---	---
GPR89B	51463	broad.mit.edu	37	1	147416302	147416302	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:147416302delA	uc001epv.3	+						GPR89B_uc010ozs.1_Intron|GPR89B_uc010ozt.1_Intron|GPR89B_uc010ozu.1_Intron|GPR89B_uc001epw.3_Intron|GPR89B_uc010ozv.1_Intron|GPR89B_uc001epx.3_Intron	NM_016334	NP_057418			G protein-coupled receptor 89B						intracellular pH reduction|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein transport	Golgi cisterna membrane|Golgi-associated vesicle membrane|integral to membrane	signal transducer activity|voltage-gated anion channel activity				0	all_hematologic(923;0.0276)																	---	---	---	---
LOC200030	200030	broad.mit.edu	37	1	148213430	148213433	+	Intron	DEL	GTTC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:148213430_148213433delGTTC	uc001eqf.2	-						LOC200030_uc001eqe.2_Intron|LOC200030_uc001eqg.2_Intron|NBPF14_uc010pab.1_Intron|NBPF14_uc010pac.1_Intron|NBPF14_uc001eqx.2_Intron|NBPF14_uc010pae.1_Intron|NBPF14_uc010paf.1_Intron|NBPF14_uc009wkf.1_Intron	NM_017940	NP_060410			hypothetical protein LOC55672							cytoplasm					0																		---	---	---	---
NBPF15	284565	broad.mit.edu	37	1	148594260	148594260	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:148594260delT	uc001esc.2	+							NM_173638	NP_775909			hypothetical protein LOC284565							cytoplasm					0	all_hematologic(923;0.032)																	---	---	---	---
Unknown	0	broad.mit.edu	37	1	149722983	149722983	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149722983delT								HIST2H2BF (323754 upstream) : FCGR1A (31267 downstream)																																			---	---	---	---
OTUD7B	56957	broad.mit.edu	37	1	149921365	149921365	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149921365delT	uc001etn.2	-							NM_020205	NP_064590			zinc finger protein Cezanne						negative regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|microtubule cytoskeleton|nucleus	cysteine-type peptidase activity|DNA binding|protein binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	Breast(34;0.0009)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.247)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	150450249	150450249	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150450249delT								RPRD2 (1210 upstream) : TARS2 (9671 downstream)																																			---	---	---	---
GOLPH3L	55204	broad.mit.edu	37	1	150657151	150657152	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150657151_150657152insT	uc001evj.2	-						GOLPH3L_uc010pci.1_Intron	NM_018178	NP_060648			Golgi phosphoprotein 3-like							Golgi cisterna membrane				ovary(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;1.2e-23)|all cancers(9;4.81e-23)|OV - Ovarian serous cystadenocarcinoma(6;1.93e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)															---	---	---	---
GOLPH3L	55204	broad.mit.edu	37	1	150670433	150670433	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150670433delA	uc001evj.2	-						GOLPH3L_uc010pci.1_5'Flank	NM_018178	NP_060648			Golgi phosphoprotein 3-like							Golgi cisterna membrane				ovary(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;1.2e-23)|all cancers(9;4.81e-23)|OV - Ovarian serous cystadenocarcinoma(6;1.93e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)															---	---	---	---
HORMAD1	84072	broad.mit.edu	37	1	150686600	150686600	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150686600delA	uc001evk.1	-						HORMAD1_uc001evl.1_Intron|HORMAD1_uc001evm.1_Intron	NM_032132	NP_115508			HORMA domain containing 1						blastocyst development|cell differentiation|meiotic DNA double-strand break formation|meiotic recombination checkpoint|meiotic sister chromatid cohesion|mitosis|oogenesis|regulation of homologous chromosome segregation|spermatogenesis|synaptonemal complex assembly	chromosome|nucleus				ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|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;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)															---	---	---	---
CTSS	1520	broad.mit.edu	37	1	150711129	150711130	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150711129_150711130delAA	uc001evn.2	-						CTSS_uc010pcj.1_Intron	NM_004079	NP_004070			cathepsin S preproprotein						immune response|proteolysis	extracellular region|lysosome	cysteine-type endopeptidase activity				0	all_cancers(9;6.17e-52)|all_epithelial(9;9.7e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.00146)|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;0.0485)|Epithelial(6;5.02e-21)|all cancers(9;1.28e-20)|OV - Ovarian serous cystadenocarcinoma(6;1.09e-14)|BRCA - Breast invasive adenocarcinoma(12;0.00501)|LUSC - Lung squamous cell carcinoma(543;0.171)															---	---	---	---
ARNT	405	broad.mit.edu	37	1	150825758	150825758	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150825758delA	uc001evr.1	-						ARNT_uc001evs.1_Intron|ARNT_uc009wmb.1_Intron|ARNT_uc009wmc.1_Intron|ARNT_uc009wmd.1_Intron|ARNT_uc009wme.1_Intron|ARNT_uc010pcl.1_Intron	NM_001668	NP_001659			aryl hydrocarbon receptor nuclear translocator						positive regulation of hormone biosynthetic process|positive regulation vascular endothelial growth factor production|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hypoxia		aryl hydrocarbon receptor binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity			skin(4)|lung(3)|central_nervous_system(1)|kidney(1)	9	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.02)|BRCA - Breast invasive adenocarcinoma(12;0.00606)|LUSC - Lung squamous cell carcinoma(543;0.211)					T	ETV6	AML								---	---	---	---
Unknown	0	broad.mit.edu	37	1	150895340	150895340	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150895340delT								ARNT (46154 upstream) : SETDB1 (3475 downstream)																																			---	---	---	---
FAM63A	55793	broad.mit.edu	37	1	150972560	150972560	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150972560delT	uc001ewf.2	-						FAM63A_uc001ewc.2_Intron|FAM63A_uc010pcm.1_Intron|FAM63A_uc001ewd.2_Intron|FAM63A_uc001ewe.2_Intron|FAM63A_uc010pcn.1_Intron|FAM63A_uc001ewg.2_Intron	NM_018379	NP_001156731			hypothetical protein LOC55793 isoform 1								protein binding			ovary(1)	1	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)															---	---	---	---
BNIPL	149428	broad.mit.edu	37	1	151010862	151010862	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151010862delA	uc001ewl.2	+						BNIPL_uc009wmi.2_Intron|BNIPL_uc009wmj.2_5'Flank	NM_138278	NP_612122			BCL2/adenovirus E1B 19kD interacting protein						apoptosis|induction of apoptosis|negative regulation of cell proliferation|regulation of growth rate	cytosol|nucleus	identical protein binding				0	Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)															---	---	---	---
VPS72	6944	broad.mit.edu	37	1	151157056	151157057	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151157056_151157057insT	uc001exe.1	-						VPS72_uc001exf.1_Intron	NM_005997	NP_005988			transcription factor-like 1						chromatin modification|negative regulation of transcription from RNA polymerase II promoter	nucleus|protein complex	DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|pancreas(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)															---	---	---	---
PSMD4	5710	broad.mit.edu	37	1	151233640	151233640	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151233640delT	uc001exl.2	+						PSMD4_uc001exn.2_Intron	NM_002810	NP_002801			proteasome 26S non-ATPase subunit 4						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|DNA repair|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|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|viral reproduction	proteasome complex	protein binding|zinc ion binding				0	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)															---	---	---	---
PI4KB	5298	broad.mit.edu	37	1	151296432	151296433	+	Intron	DEL	AT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151296432_151296433delAT	uc001ext.2	-						PI4KB_uc001exr.2_Intron|PI4KB_uc001exs.2_Intron|PI4KB_uc001exu.2_Intron|PI4KB_uc010pcw.1_Intron|PI4KB_uc009wmq.1_Intron	NM_002651	NP_002642			catalytic phosphatidylinositol 4-kinase beta						phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|receptor-mediated endocytosis	endosome|Golgi apparatus|mitochondrial outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum membrane	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			ovary(2)|skin(2)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	151305139	151305139	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151305139delT								PI4KB (5006 upstream) : RFX5 (7977 downstream)																																			---	---	---	---
SNX27	81609	broad.mit.edu	37	1	151664355	151664355	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151664355delA	uc001eyn.1	+						SNX27_uc001eyo.2_Intron|SNX27_uc001eyp.2_Intron	NM_030918	NP_112180			sorting nexin family member 27						cell communication|protein transport|signal transduction	cytosol|early endosome	phosphatidylinositol binding|protein binding			ovary(2)|central_nervous_system(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	151838971	151838971	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151838971delT								THEM5 (12798 upstream) : THEM4 (7089 downstream)																																			---	---	---	---
TCHH	7062	broad.mit.edu	37	1	152106954	152106954	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152106954delT	uc009wne.1	-							NM_007113	NP_009044			trichohyalin						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)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	152468899	152468899	+	IGR	DEL	A	-	-	rs79192333		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152468899delA								CRNN (82149 upstream) : LCE5A (14421 downstream)																																			---	---	---	---
LCE2B	26239	broad.mit.edu	37	1	152656372	152656373	+	5'Flank	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152656372_152656373delCA	uc001fai.2	+							NM_014357	NP_055172			late cornified envelope 2B						keratinization					ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	152702955	152702955	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152702955delA								C1orf68 (10051 upstream) : KPRP (27551 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	152958945	152958948	+	IGR	DEL	TCTC	-	-	rs67468856		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152958945_152958948delTCTC								SPRR1A (656 upstream) : SPRR3 (15275 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	152968102	152968103	+	IGR	INS	-	AG	AG	rs75613450		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152968102_152968103insAG								SPRR1A (9813 upstream) : SPRR3 (6120 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	153335297	153335297	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:153335297delT								S100A9 (1795 upstream) : S100A12 (10887 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	153408524	153408524	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:153408524delA								S100A7A (12823 upstream) : S100A7L2 (948 downstream)																																			---	---	---	---
S100A13	6284	broad.mit.edu	37	1	153599116	153599116	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:153599116delG	uc001fcf.3	-						S100A13_uc001fcg.2_Intron|S100A13_uc009woh.2_Intron|S100A13_uc001fch.2_Intron|S100A13_uc001fci.2_Intron|S100A13_uc001fcj.2_Intron|S100A1_uc001fck.1_5'Flank|S100A1_uc001fcl.1_5'Flank	NM_001024213	NP_001019384			S100 calcium binding protein A13						interleukin-1 alpha secretion|mast cell degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade	cytosol|extracellular space|nucleus|perinuclear region of cytoplasm	calcium ion binding|copper ion binding|fibroblast growth factor 1 binding|lipid binding|protein homodimerization activity|RAGE receptor binding|zinc ion binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)		Amlexanox(DB01025)													---	---	---	---
C1orf77	26097	broad.mit.edu	37	1	153617966	153617966	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:153617966delT	uc001fcm.1	+	6					C1orf77_uc001fcn.1_3'UTR|C1orf77_uc001fco.1_3'UTR|C1orf77_uc001fcp.2_RNA	NM_015607	NP_056422			small protein rich in arginine and glycine						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	protein binding|RNA binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)															---	---	---	---
NUP210L	91181	broad.mit.edu	37	1	153968474	153968474	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:153968474delA	uc001fdw.2	-						NUP210L_uc009woq.2_Intron|NUP210L_uc010peh.1_Intron	NM_207308	NP_997191			nucleoporin 210kDa-like isoform 1							integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)															---	---	---	---
UBAP2L	9898	broad.mit.edu	37	1	154207635	154207635	+	Intron	DEL	G	-	-	rs12023901	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154207635delG	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-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)															---	---	---	---
UBAP2L	9898	broad.mit.edu	37	1	154231676	154231676	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154231676delT	uc001fep.3	+						UBAP2L_uc009wot.2_Intron|UBAP2L_uc010pek.1_Intron|UBAP2L_uc010pel.1_Intron|UBAP2L_uc010pen.1_Intron|UBAP2L_uc001feq.2_Intron|UBAP2L_uc001fer.2_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)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	154336717	154336717	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154336717delA								ATP8B2 (12938 upstream) : IL6R (40952 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	154349563	154349563	+	IGR	DEL	A	-	-	rs12565279	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154349563delA								ATP8B2 (25784 upstream) : IL6R (28106 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	155074777	155074777	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155074777delA								EFNA3 (14771 upstream) : EFNA1 (25572 downstream)																																			---	---	---	---
RAG1AP1	55974	broad.mit.edu	37	1	155118000	155118001	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155118000_155118001delAA	uc010pey.1	+							NM_018845				recombination activating gene 1 activating						positive regulation of gene expression, epigenetic	Golgi membrane|integral to membrane|plasma membrane	glucoside transmembrane transporter activity				0	all_epithelial(22;4.71e-30)|all_lung(78;3.15e-27)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;2.28e-10)|all cancers(21;6.16e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000395)|LUSC - Lung squamous cell carcinoma(543;0.193)															---	---	---	---
ASH1L	55870	broad.mit.edu	37	1	155418733	155418733	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155418733delG	uc009wqq.2	-						ASH1L_uc001fkt.2_Intron	NM_018489	NP_060959			absent, small, or homeotic 1-like						cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)															---	---	---	---
ASH1L	55870	broad.mit.edu	37	1	155519819	155519820	+	Intron	DEL	TT	-	-	rs112994246		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155519819_155519820delTT	uc009wqq.2	-						ASH1L_uc001fkt.2_Intron|ASH1L_uc009wqr.1_Intron	NM_018489	NP_060959			absent, small, or homeotic 1-like						cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)															---	---	---	---
SYT11	23208	broad.mit.edu	37	1	155833709	155833710	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155833709_155833710delAA	uc001fmg.2	+						SYT11_uc010pgq.1_Intron	NM_152280	NP_689493			synaptotagmin XI							cell junction|synaptic vesicle membrane	protein binding|transporter activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;0.000162)															---	---	---	---
SYT11	23208	broad.mit.edu	37	1	155838991	155838991	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155838991delT	uc001fmg.2	+						SYT11_uc010pgq.1_Intron	NM_152280	NP_689493			synaptotagmin XI							cell junction|synaptic vesicle membrane	protein binding|transporter activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;0.000162)															---	---	---	---
KIAA0907	22889	broad.mit.edu	37	1	155886695	155886695	+	Intron	DEL	T	-	-	rs113079820		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155886695delT	uc001fmi.1	-						KIAA0907_uc001fmj.1_Intron|KIAA0907_uc009wrk.1_Intron|KIAA0907_uc009wrl.1_Intron	NM_014949	NP_055764			hypothetical protein LOC22889												0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)															---	---	---	---
SEMA4A	64218	broad.mit.edu	37	1	156138347	156138347	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156138347delT	uc001fnl.2	+						SEMA4A_uc009wrq.2_Intron|SEMA4A_uc001fnm.2_Intron|SEMA4A_uc001fnn.2_Intron|SEMA4A_uc001fno.2_Intron	NM_022367	NP_071762			semaphorin B precursor						axon guidance	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)																	---	---	---	---
Unknown	0	broad.mit.edu	37	1	156275952	156275952	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156275952delA								VHLL (6524 upstream) : CCT3 (2800 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	156548022	156548023	+	IGR	INS	-	AG	AG	rs149048610	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156548022_156548023insAG								IQGAP3 (5626 upstream) : TTC24 (3999 downstream)																																			---	---	---	---
C1orf66	51093	broad.mit.edu	37	1	156704329	156704329	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156704329delT	uc001fpu.2	+						C1orf66_uc001fpv.2_Intron	NM_015997	NP_057081			hypothetical protein LOC51093 isoform 1							integral to membrane	rRNA (adenine-N6,N6-)-dimethyltransferase activity				0	all_hematologic(923;0.088)|Hepatocellular(266;0.158)																	---	---	---	---
INSRR	3645	broad.mit.edu	37	1	156819709	156819710	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156819709_156819710delTT	uc010pht.1	-						NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030			insulin receptor-related receptor precursor						protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)																	---	---	---	---
PEAR1	375033	broad.mit.edu	37	1	156874875	156874876	+	Intron	DEL	GG	-	-	rs113624221		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156874875_156874876delGG	uc001fqj.1	+						PEAR1_uc009wsl.1_5'Flank|PEAR1_uc001fqk.1_5'Flank	NM_001080471	NP_001073940			platelet endothelial aggregation receptor 1							integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)																	---	---	---	---
FCRL5	83416	broad.mit.edu	37	1	157519226	157519226	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)																---	---	---	---
Unknown	0	broad.mit.edu	37	1	158086374	158086374	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158086374delG								KIRREL (20532 upstream) : CD1D (63363 downstream)																																			---	---	---	---
CD1E	913	broad.mit.edu	37	1	158326836	158326836	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158326836delT	uc001fse.2	+	6					CD1E_uc001fsd.2_3'UTR|CD1E_uc001fsk.2_3'UTR|CD1E_uc001fsj.2_3'UTR|CD1E_uc001fsc.2_3'UTR|CD1E_uc010pig.1_RNA|CD1E_uc001fsa.2_3'UTR|CD1E_uc001fsf.2_3'UTR|CD1E_uc001fry.2_3'UTR|CD1E_uc001fsg.2_3'UTR|CD1E_uc001fsh.2_3'UTR|CD1E_uc001fsi.2_3'UTR|CD1E_uc009wsv.2_3'UTR|CD1E_uc001frz.2_3'UTR|CD1E_uc009wsw.2_3'UTR	NM_030893	NP_112155			CD1E antigen isoform a precursor						antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)																	---	---	---	---
SPTA1	6708	broad.mit.edu	37	1	158612131	158612131	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158612131delA	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)																	---	---	---	---
Unknown	0	broad.mit.edu	37	1	159753921	159753922	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159753921_159753922delGA								DUSP23 (1588 upstream) : FCRL6 (16379 downstream)																																			---	---	---	---
DCAF8	50717	broad.mit.edu	37	1	160201998	160201998	+	Intron	DEL	A	-	-	rs79921865		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160201998delA	uc001fvo.2	-						DCAF8_uc001fvn.2_Intron|DCAF8_uc009wth.2_Intron|DCAF8_uc010pjb.1_Intron|DCAF8_uc010pjc.1_Intron	NM_015726	NP_056541			DDB1 and CUL4 associated factor 8							CUL4 RING ubiquitin ligase complex	protein binding			skin(2)	2																		---	---	---	---
SLAMF1	6504	broad.mit.edu	37	1	160609019	160609019	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160609019delT	uc001fwl.3	-						SLAMF1_uc010pjk.1_Intron|SLAMF1_uc010pjl.1_Intron|SLAMF1_uc010pjm.1_Intron|SLAMF1_uc001fwm.2_Intron	NM_003037	NP_003028			signaling lymphocytic activation molecule family						interspecies interaction between organisms|lymphocyte activation|positive regulation of cell proliferation	integral to membrane	antigen binding|transmembrane receptor activity			ovary(1)|breast(1)	2	all_cancers(52;4.94e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	160886237	160886237	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160886237delA								ITLN1 (31277 upstream) : ITLN2 (28580 downstream)																																			---	---	---	---
FCGR3B	2215	broad.mit.edu	37	1	161603103	161603103	+	5'Flank	DEL	A	-	-	rs147171530	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161603103delA	uc009wul.2	-							NM_000570	NP_000561			low affinity immunoglobulin gamma Fc region						immune response	anchored to membrane|extracellular region|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		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)													---	---	---	---
ATF6	22926	broad.mit.edu	37	1	161760897	161760898	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161760897_161760898delTG	uc001gbr.2	+						ATF6_uc001gbq.1_Intron	NM_007348	NP_031374			activating transcription factor 6						positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response|protein folding	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleoplasm	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|skin(1)	3	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.00953)															---	---	---	---
ATF6	22926	broad.mit.edu	37	1	161772113	161772113	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161772113delA	uc001gbr.2	+						ATF6_uc001gbq.1_Intron	NM_007348	NP_031374			activating transcription factor 6						positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response|protein folding	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleoplasm	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|skin(1)	3	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.00953)															---	---	---	---
NOS1AP	9722	broad.mit.edu	37	1	162321854	162321854	+	Intron	DEL	T	-	-	rs35244913		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162321854delT	uc001gbv.2	+						NOS1AP_uc010pkr.1_Intron|NOS1AP_uc010pks.1_Intron|NOS1AP_uc001gbw.2_Intron	NM_014697	NP_055512			nitric oxide synthase 1 (neuronal) adaptor						regulation of apoptosis|regulation of nitric oxide biosynthetic process|regulation of nitric-oxide synthase activity		nitric-oxide synthase binding|PDZ domain binding			lung(2)|upper_aerodigestive_tract(1)	3	all_hematologic(112;0.203)		BRCA - Breast invasive adenocarcinoma(70;0.0537)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	162386059	162386070	+	IGR	DEL	AAGGAAGGAAGG	-	-	rs72400453		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162386059_162386070delAAGGAAGGAAGG								SH2D1B (4131 upstream) : UHMK1 (80894 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	162458539	162458539	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162458539delT								SH2D1B (76611 upstream) : UHMK1 (8425 downstream)																																			---	---	---	---
UHMK1	127933	broad.mit.edu	37	1	162485824	162485824	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162485824delA	uc001gcc.1	+						UHMK1_uc001gcb.1_Intron|UHMK1_uc009wuu.1_Intron	NM_175866	NP_787062			kinase interacting stathmin						cell cycle arrest|neuron projection development|peptidyl-serine phosphorylation|positive regulation of translational initiation|protein autophosphorylation|regulation of protein export from nucleus	axon|dendrite cytoplasm|neuronal RNA granule|nucleus	protein binding|protein serine/threonine kinase activity|ribonucleoprotein binding|RNA binding				0	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)															---	---	---	---
UAP1	6675	broad.mit.edu	37	1	162561580	162561582	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162561580_162561582delTTT	uc001gce.3	+							NM_003115	NP_003106			UDP-N-acetylglucosamine pyrophosphorylase 1						dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol|nucleus|plasma membrane	UDP-N-acetylglucosamine diphosphorylase activity			ovary(2)|skin(2)|kidney(1)	5	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)															---	---	---	---
HSD17B7	51478	broad.mit.edu	37	1	162770779	162770779	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162770779delT	uc001gci.2	+						HSD17B7_uc009wuv.2_Intron	NM_016371	NP_057455			hydroxysteroid (17-beta) dehydrogenase 7						cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	3-keto sterol reductase activity|estradiol 17-beta-dehydrogenase activity			ovary(1)	1	all_hematologic(112;0.115)				NADH(DB00157)													---	---	---	---
Unknown	0	broad.mit.edu	37	1	162901643	162901643	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162901643delA								C1orf110 (63038 upstream) : RGS4 (136753 downstream)																																			---	---	---	---
RGS5	8490	broad.mit.edu	37	1	163121138	163121138	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163121138delA	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)															---	---	---	---
RGS5	8490	broad.mit.edu	37	1	163137887	163137887	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)															---	---	---	---
NUF2	83540	broad.mit.edu	37	1	163309669	163309669	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163309669delT	uc001gcq.1	+						NUF2_uc001gcp.2_Intron|NUF2_uc001gcr.1_Intron|NUF2_uc009wvc.1_Intron	NM_145697	NP_663735			NUF2, NDC80 kinetochore complex component						cell division|chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|Ndc80 complex|nucleus	protein binding			ovary(3)|skin(1)	4	all_hematologic(923;0.101)																	---	---	---	---
NUF2	83540	broad.mit.edu	37	1	163313696	163313696	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163313696delA	uc001gcq.1	+						NUF2_uc001gcp.2_Intron|NUF2_uc001gcr.1_Intron|NUF2_uc009wvc.1_Intron	NM_145697	NP_663735			NUF2, NDC80 kinetochore complex component						cell division|chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|Ndc80 complex|nucleus	protein binding			ovary(3)|skin(1)	4	all_hematologic(923;0.101)																	---	---	---	---
NUF2	83540	broad.mit.edu	37	1	163316642	163316643	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163316642_163316643delCA	uc001gcq.1	+						NUF2_uc001gcr.1_Intron|NUF2_uc009wvc.1_Intron	NM_145697	NP_663735			NUF2, NDC80 kinetochore complex component						cell division|chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|Ndc80 complex|nucleus	protein binding			ovary(3)|skin(1)	4	all_hematologic(923;0.101)																	---	---	---	---
Unknown	0	broad.mit.edu	37	1	163352006	163352007	+	IGR	INS	-	TG	TG	rs142672772	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163352006_163352007insTG								NUF2 (26453 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	163486789	163486789	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163486789delA								NUF2 (161236 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	163557083	163557083	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163557083delT								NUF2 (231530 upstream) : PBX1 (971719 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	163597442	163597442	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163597442delT								NUF2 (271889 upstream) : PBX1 (931360 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	163673351	163673351	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163673351delT								NUF2 (347798 upstream) : PBX1 (855451 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	163885730	163885730	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163885730delT								NUF2 (560177 upstream) : PBX1 (643072 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	163895940	163895940	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163895940delT								NUF2 (570387 upstream) : PBX1 (632862 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	163904463	163904464	+	IGR	DEL	AA	-	-	rs145370924		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163904463_163904464delAA								NUF2 (578910 upstream) : PBX1 (624338 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	164007340	164007340	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:164007340delT								NUF2 (681787 upstream) : PBX1 (521462 downstream)																																			---	---	---	---
PBX1	5087	broad.mit.edu	37	1	164837161	164837161	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:164837161delA	uc010pkw.1	+							NM_002585	NP_002576			pre-B-cell leukemia homeobox 1						negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5								T	TCF3|EWSR1	pre B-ALL|myoepithelioma								---	---	---	---
Unknown	0	broad.mit.edu	37	1	164885254	164885254	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:164885254delA								PBX1 (30954 upstream) : LMX1A (285851 downstream)																																			---	---	---	---
LMX1A	4009	broad.mit.edu	37	1	165189514	165189514	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:165189514delA	uc001gcy.1	-						LMX1A_uc001gcz.1_Intron	NM_177398	NP_796372			LIM homeobox transcription factor 1, alpha							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)																	---	---	---	---
LMX1A	4009	broad.mit.edu	37	1	165250979	165250980	+	Intron	INS	-	TA	TA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:165250979_165250980insTA	uc001gcy.1	-						LMX1A_uc001gcz.1_Intron	NM_177398	NP_796372			LIM homeobox transcription factor 1, alpha							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)																	---	---	---	---
Unknown	0	broad.mit.edu	37	1	165338377	165338377	+	IGR	DEL	G	-	-	rs36078162		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:165338377delG								LMX1A (12902 upstream) : RXRG (31974 downstream)																																	OREG0013961	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
TMCO1	54499	broad.mit.edu	37	1	165721800	165721800	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:165721800delT	uc001gdj.3	-						TMCO1_uc001gdl.3_Intron|TMCO1_uc001gdm.3_Intron|TMCO1_uc001gdk.3_Intron|TMCO1_uc001gdn.3_Intron	NM_019026	NP_061899			transmembrane and coiled-coil domains 1							endoplasmic reticulum membrane|Golgi membrane|integral to membrane				central_nervous_system(1)	1	all_hematologic(923;0.048)|Acute lymphoblastic leukemia(8;0.155)																	---	---	---	---
Unknown	0	broad.mit.edu	37	1	165877653	165877653	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:165877653delT								UCK2 (316 upstream) : FAM78B (151763 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	166290023	166290023	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:166290023delT								FAM78B (153817 upstream) : FMO9P (283130 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	166429464	166429464	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:166429464delT								FAM78B (293258 upstream) : FMO9P (143689 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	166548452	166548452	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:166548452delT								FAM78B (412246 upstream) : FMO9P (24701 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	166639192	166639192	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:166639192delA								FMO9P (44721 upstream) : POGK (169532 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	166710072	166710073	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:166710072_166710073delCA								FMO9P (115601 upstream) : POGK (98651 downstream)																																			---	---	---	---
ILDR2	387597	broad.mit.edu	37	1	166896133	166896133	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:166896133delT	uc001gdx.1	-							NM_199351	NP_955383			immunoglobulin-like domain containing receptor							integral to membrane				ovary(1)	1																		---	---	---	---
POU2F1	5451	broad.mit.edu	37	1	167188815	167188815	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:167188815delT	uc001gec.2	+						POU2F1_uc010plg.1_5'Flank|POU2F1_uc001ged.2_5'Flank|POU2F1_uc001gee.2_5'Flank|POU2F1_uc010plh.1_5'Flank	NM_002697	NP_002688			POU class 2 homeobox 1						negative regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|skin(2)|breast(1)	5																		---	---	---	---
CD247	919	broad.mit.edu	37	1	167400667	167400675	+	3'UTR	DEL	ACCTGCACC	-	-	rs34484379		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:167400667_167400675delACCTGCACC	uc001gei.3	-	8					CD247_uc001gej.3_3'UTR	NM_198053	NP_932170			T-cell receptor zeta chain isoform 1 precursor						interspecies interaction between organisms|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytoplasm|integral to membrane	protein homodimerization activity|transmembrane receptor activity				0			LUSC - Lung squamous cell carcinoma(543;0.236)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	167507307	167507321	+	IGR	DEL	CATAGATTAGCTCTG	-	-	rs112079457		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:167507307_167507321delCATAGATTAGCTCTG								CD247 (19460 upstream) : CREG1 (2932 downstream)																																			---	---	---	---
RCSD1	92241	broad.mit.edu	37	1	167627418	167627418	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:167627418delC	uc001gem.2	+						RCSD1_uc010pli.1_Intron	NM_052862	NP_443094			RCSD domain containing 1											ovary(2)|central_nervous_system(2)|skin(1)	5	all_hematologic(923;0.215)																	---	---	---	---
ADCY10	55811	broad.mit.edu	37	1	167821682	167821682	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:167821682delA	uc001ger.2	-						ADCY10_uc009wvk.2_Intron|ADCY10_uc010plj.1_Intron|ADCY10_uc009wvl.2_Intron	NM_018417	NP_060887			adenylate cyclase 10						intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	168049409	168049409	+	RNA	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:168049409delT	uc001gfa.1	-	1		c.521delA								Homo sapiens cDNA FLJ33952 fis, clone CTONG2018614.																														---	---	---	---
TIPRL	261726	broad.mit.edu	37	1	168151864	168151864	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:168151864delA	uc001gfg.2	+						TIPRL_uc001gfh.2_Intron|TIPRL_uc001gff.2_Intron	NM_152902	NP_690866			TIP41, TOR signalling pathway regulator-like						DNA damage checkpoint|negative regulation of protein phosphatase type 2A activity	cytoplasm	protein binding			ovary(1)	1	all_hematologic(923;0.215)																	---	---	---	---
Unknown	0	broad.mit.edu	37	1	168444856	168444857	+	IGR	DEL	AA	-	-	rs77504077		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:168444856_168444857delAA								MIR557 (99997 upstream) : XCL2 (65148 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	169041442	169041443	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169041442_169041443delAA								MGC4473 (279322 upstream) : ATP1B1 (34504 downstream)																																			---	---	---	---
NME7	29922	broad.mit.edu	37	1	169218172	169218172	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169218172delT	uc001gfu.2	-						NME7_uc010plq.1_Intron|NME7_uc001gft.2_Intron	NM_013330	NP_037462			nucleoside diphosphate kinase 7 isoform a						CTP biosynthetic process|GTP biosynthetic process|UTP biosynthetic process	centrosome	ATP binding|metal ion binding|nucleoside diphosphate kinase activity			central_nervous_system(1)	1	all_hematologic(923;0.208)																	---	---	---	---
NME7	29922	broad.mit.edu	37	1	169266215	169266215	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169266215delT	uc001gfu.2	-						NME7_uc010plq.1_Intron|NME7_uc001gft.2_Intron|NME7_uc001gfv.1_Intron	NM_013330	NP_037462			nucleoside diphosphate kinase 7 isoform a						CTP biosynthetic process|GTP biosynthetic process|UTP biosynthetic process	centrosome	ATP binding|metal ion binding|nucleoside diphosphate kinase activity			central_nervous_system(1)	1	all_hematologic(923;0.208)																	---	---	---	---
F5	2153	broad.mit.edu	37	1	169483761	169483761	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169483761delT	uc001ggg.1	-							NM_000130	NP_000121			coagulation factor V precursor						cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)													---	---	---	---
F5	2153	broad.mit.edu	37	1	169528244	169528244	+	Intron	DEL	A	-	-	rs139315961		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169528244delA	uc001ggg.1	-						F5_uc010plr.1_Intron	NM_000130	NP_000121			coagulation factor V precursor						cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)													---	---	---	---
C1orf112	55732	broad.mit.edu	37	1	169817057	169817057	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169817057delA	uc001ggp.2	+						C1orf112_uc001ggj.2_Intron|C1orf112_uc001ggq.2_Intron|C1orf112_uc009wvt.2_Intron|C1orf112_uc009wvu.1_Intron|C1orf112_uc001ggr.2_Intron|C1orf112_uc010plv.1_Intron	NM_018186	NP_060656			hypothetical protein LOC55732												0	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)																	---	---	---	---
KIFAP3	22920	broad.mit.edu	37	1	169967179	169967181	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169967179_169967181delAAA	uc001ggv.2	-						KIFAP3_uc010plx.1_Intron	NM_014970	NP_055785			kinesin-associated protein 3						blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)																	---	---	---	---
METTL11B	149281	broad.mit.edu	37	1	170134548	170134548	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:170134548delA	uc009wvv.1	+							NM_001136107	NP_001129579			methyltransferase like 11B								methyltransferase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	170138954	170138954	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:170138954delG								METTL11B (2031 upstream) : LOC284688 (101593 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	170155436	170155436	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:170155436delT								METTL11B (18513 upstream) : LOC284688 (85111 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	170167808	170167808	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:170167808delT								METTL11B (30885 upstream) : LOC284688 (72739 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	170596430	170596430	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:170596430delA								GORAB (73456 upstream) : PRRX1 (36883 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	170797054	170797056	+	IGR	DEL	AGA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:170797054_170797056delAGA								PRRX1 (88514 upstream) : C1orf129 (107556 downstream)																																			---	---	---	---
FMO3	2328	broad.mit.edu	37	1	171061034	171061035	+	Intron	DEL	GT	-	-	rs143154411		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:171061034_171061035delGT	uc001ghi.2	+						FMO3_uc010pma.1_Intron|FMO3_uc001ghh.2_Intron|FMO3_uc010pmb.1_Intron|FMO3_uc010pmc.1_Intron	NM_001002294	NP_001002294			flavin containing monooxygenase 3						xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)																	---	---	---	---
Unknown	0	broad.mit.edu	37	1	171356264	171356264	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:171356264delA								FMO4 (45042 upstream) : BAT2L2 (98402 downstream)																																			---	---	---	---
BAT2L2	23215	broad.mit.edu	37	1	171452363	171452364	+	5'Flank	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:171452363_171452364delAA	uc010pmg.1	+						BAT2L2_uc001ghq.1_5'Flank|BAT2L2_uc001ghr.1_5'Flank	NM_015172	NP_055987			HBxAg transactivated protein 2								protein C-terminus binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	171803699	171803699	+	IGR	DEL	T	-	-	rs34467723		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:171803699delT								METTL13 (36844 upstream) : DNM3 (6922 downstream)																																			---	---	---	---
DNM3	26052	broad.mit.edu	37	1	171818800	171818800	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:171818800delT	uc001gie.2	+						DNM3_uc001gid.3_Intron|DNM3_uc009wwb.2_Intron|DNM3_uc001gif.2_Intron	NM_015569	NP_056384			dynamin 3 isoform a						endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1																		---	---	---	---
DNM3	26052	broad.mit.edu	37	1	171859759	171859759	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:171859759delT	uc001gie.2	+						DNM3_uc001gid.3_Intron|DNM3_uc009wwb.2_Intron|DNM3_uc001gif.2_Intron	NM_015569	NP_056384			dynamin 3 isoform a						endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1																		---	---	---	---
DNM3	26052	broad.mit.edu	37	1	172059847	172059847	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:172059847delT	uc001gie.2	+						DNM3_uc001gid.3_Intron|DNM3_uc009wwb.2_Intron|DNM3_uc001gif.2_Intron	NM_015569	NP_056384			dynamin 3 isoform a						endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1																		---	---	---	---
DNM3	26052	broad.mit.edu	37	1	172291963	172291965	+	Intron	DEL	TTT	-	-	rs112152513		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:172291963_172291965delTTT	uc001gie.2	+						DNM3_uc001gif.2_Intron	NM_015569	NP_056384			dynamin 3 isoform a						endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1																		---	---	---	---
DNM3	26052	broad.mit.edu	37	1	172311879	172311879	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:172311879delA	uc001gie.2	+						DNM3_uc001gif.2_Intron	NM_015569	NP_056384			dynamin 3 isoform a						endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1																		---	---	---	---
DNM3	26052	broad.mit.edu	37	1	172360854	172360854	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:172360854delT	uc001gie.2	+						DNM3_uc001gif.2_Intron|DNM3_uc001gih.1_Intron	NM_015569	NP_056384			dynamin 3 isoform a						endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	172605545	172605546	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:172605545_172605546delAA								C1orf9 (24574 upstream) : FASLG (22639 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	173078003	173078004	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173078003_173078004delAC								TNFSF18 (57900 upstream) : TNFSF4 (74867 downstream)																																			---	---	---	---
TNFSF4	7292	broad.mit.edu	37	1	173157739	173157739	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173157739delA	uc001giw.2	-						TNFSF4_uc001giv.2_Intron	NM_003326	NP_003317			tumor necrosis factor (ligand) superfamily,						acute inflammatory response|cellular response to lipopolysaccharide|cellular response to prostaglandin E stimulus|chemokine (C-C motif) ligand 11 production|defense response to nematode|interleukin-4-dependent isotype switching to IgE isotypes|memory T cell activation|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of regulatory T cell differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T-helper 1 cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of alpha-beta T cell proliferation|positive regulation of B cell activation|positive regulation of immunoglobulin mediated immune response|positive regulation of immunoglobulin secretion|positive regulation of inflammatory response|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-13 production|positive regulation of interleukin-4 production|positive regulation of interleukin-6 production|positive regulation of memory T cell differentiation|positive regulation of T cell cytokine production|positive regulation of T-helper 2 cell differentiation|positive regulation of type 2 immune response|response to virus|signal transduction|T-helper 2 cell activation	cell surface|extracellular space|integral to plasma membrane	cytokine activity			central_nervous_system(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	173306025	173306025	+	Intron	DEL	A	-	-	rs35057866		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173306025delA	uc001gix.1	-											Homo sapiens cDNA FLJ45305 fis, clone BRHIP3004193.																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	173401866	173401867	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173401866_173401867insA	uc001gix.1	-						uc010pmp.1_Intron					Homo sapiens cDNA FLJ45305 fis, clone BRHIP3004193.																														---	---	---	---
SLC9A11	284525	broad.mit.edu	37	1	173493052	173493052	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173493052delA	uc001giz.2	-						SLC9A11_uc009wwe.2_Intron	NM_178527	NP_848622			solute carrier family 9, member 11						sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2																		---	---	---	---
SLC9A11	284525	broad.mit.edu	37	1	173568755	173568755	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173568755delT	uc001giz.2	-						SLC9A11_uc010pmq.1_Intron	NM_178527	NP_848622			solute carrier family 9, member 11						sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2																		---	---	---	---
KLHL20	27252	broad.mit.edu	37	1	173735435	173735435	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173735435delT	uc001gjc.2	+						KLHL20_uc010pmr.1_Intron|KLHL20_uc009wwf.2_Intron	NM_014458	NP_055273			kelch-like 20						cytoskeleton organization|negative regulation of apoptosis|proteasomal ubiquitin-dependent protein catabolic process|response to interferon-alpha	actin cytoskeleton|cell surface|Cul3-RING ubiquitin ligase complex|Golgi apparatus|perinuclear region of cytoplasm|PML body	actin binding|interferon-gamma binding|ubiquitin-protein ligase activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	173896155	173896155	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173896155delT								SERPINC1 (9639 upstream) : RC3H1 (4199 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	174057711	174057713	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:174057711_174057713delTTT								RC3H1 (95501 upstream) : RABGAP1L (70921 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	174084119	174084119	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:174084119delT								RC3H1 (121909 upstream) : RABGAP1L (44515 downstream)																																			---	---	---	---
RABGAP1L	9910	broad.mit.edu	37	1	174758591	174758591	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:174758591delT	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																		---	---	---	---
RABGAP1L	9910	broad.mit.edu	37	1	174762840	174762841	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:174762840_174762841delTT	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																		---	---	---	---
MRPS14	63931	broad.mit.edu	37	1	174993551	174993551	+	5'Flank	DEL	A	-	-	rs10710388		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:174993551delA	uc001gkk.2	-						MRPS14_uc009wwr.2_5'Flank	NM_022100	NP_071383			mitochondrial ribosomal protein S14						translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0																		---	---	---	---
TNN	63923	broad.mit.edu	37	1	175037407	175037407	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:175037407delT	uc001gkl.1	+							NM_022093	NP_071376			tenascin N precursor						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)														---	---	---	---
TNN	63923	broad.mit.edu	37	1	175046455	175046455	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:175046455delA	uc001gkl.1	+						TNN_uc010pmx.1_5'Flank	NM_022093	NP_071376			tenascin N precursor						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)														---	---	---	---
RFWD2	64326	broad.mit.edu	37	1	175941253	175941255	+	Intron	DEL	AAC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:175941253_175941255delAAC	uc001gku.1	-						RFWD2_uc001gkv.1_Intron|RFWD2_uc001gkw.1_Intron|RFWD2_uc009wwv.2_Intron|RFWD2_uc001gkt.1_Intron	NM_022457	NP_071902			ring finger and WD repeat domain 2 isoform a						DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0																		---	---	---	---
RFWD2	64326	broad.mit.edu	37	1	176060482	176060482	+	Intron	DEL	A	-	-	rs146251494		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176060482delA	uc001gku.1	-						RFWD2_uc001gkv.1_Intron|RFWD2_uc001gkw.1_Intron|RFWD2_uc009wwv.2_Intron|RFWD2_uc001gkt.1_Intron	NM_022457	NP_071902			ring finger and WD repeat domain 2 isoform a						DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	176274047	176274047	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176274047delT								RFWD2 (97677 upstream) : PAPPA2 (158260 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	176429222	176429222	+	IGR	DEL	T	-	-	rs11296694		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176429222delT								RFWD2 (252852 upstream) : PAPPA2 (3085 downstream)																																			---	---	---	---
PAPPA2	60676	broad.mit.edu	37	1	176456076	176456076	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176456076delA	uc001gkz.2	+						PAPPA2_uc001gky.1_Intron|PAPPA2_uc009www.2_Intron	NM_020318	NP_064714			pappalysin 2 isoform 1						cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16																		---	---	---	---
PAPPA2	60676	broad.mit.edu	37	1	176641712	176641712	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176641712delA	uc001gkz.2	+						PAPPA2_uc001gky.1_Intron|PAPPA2_uc009www.2_Intron	NM_020318	NP_064714			pappalysin 2 isoform 1						cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16																		---	---	---	---
PAPPA2	60676	broad.mit.edu	37	1	176798426	176798426	+	Intron	DEL	A	-	-	rs113825507		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176798426delA	uc001gkz.2	+						PAPPA2_uc009www.2_Intron	NM_020318	NP_064714			pappalysin 2 isoform 1						cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16																		---	---	---	---
ASTN1	460	broad.mit.edu	37	1	177013313	177013314	+	Intron	DEL	AC	-	-	rs3979531		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:177013313_177013314delAC	uc001glc.2	-						ASTN1_uc001glb.1_Intron|ASTN1_uc001gld.1_Intron|ASTN1_uc009wwx.1_Intron	NM_004319	NP_004310			astrotactin isoform 1						cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15																		---	---	---	---
ASTN1	460	broad.mit.edu	37	1	177066178	177066178	+	Intron	DEL	T	-	-	rs75714271		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:177066178delT	uc001glc.2	-						ASTN1_uc001glb.1_Intron|ASTN1_uc001gld.1_Intron|ASTN1_uc009wwx.1_Intron	NM_004319	NP_004310			astrotactin isoform 1						cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15																		---	---	---	---
ASTN1	460	broad.mit.edu	37	1	177077061	177077061	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:177077061delT	uc001glc.2	-						ASTN1_uc001glb.1_Intron|ASTN1_uc001gld.1_Intron|ASTN1_uc009wwx.1_Intron	NM_004319	NP_004310			astrotactin isoform 1						cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15																		---	---	---	---
FAM5B	57795	broad.mit.edu	37	1	177206055	177206055	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:177206055delA	uc001glf.2	+							NM_021165	NP_066988			family with sequence similarity 5, member B							extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	177441371	177441371	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:177441371delA								FAM5B (189814 upstream) : SEC16B (456118 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	177594616	177594617	+	IGR	INS	-	A	A	rs143381821		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:177594616_177594617insA								FAM5B (343059 upstream) : SEC16B (302872 downstream)																																			---	---	---	---
RASAL2	9462	broad.mit.edu	37	1	178198612	178198613	+	Intron	DEL	CT	-	-	rs2095133	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:178198612_178198613delCT	uc001glq.2	+						RASAL2_uc009wxb.2_Intron	NM_170692	NP_733793			RAS protein activator like 2 isoform 2						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																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	178592856	178592856	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:178592856delA								C1orf220 (74832 upstream) : RALGPS2 (101444 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	178617083	178617084	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:178617083_178617084delAC								C1orf220 (99059 upstream) : RALGPS2 (77216 downstream)																																			---	---	---	---
RALGPS2	55103	broad.mit.edu	37	1	178733010	178733010	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:178733010delT	uc001glz.2	+						RALGPS2_uc001gly.1_Intron|RALGPS2_uc010pnb.1_Intron	NM_152663	NP_689876			Ral GEF with PH domain and SH3 binding motif 2						small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity|protein binding				0																		---	---	---	---
RALGPS2	55103	broad.mit.edu	37	1	178767771	178767771	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:178767771delT	uc001glz.2	+						RALGPS2_uc001gly.1_Intron|RALGPS2_uc010pnb.1_Intron	NM_152663	NP_689876			Ral GEF with PH domain and SH3 binding motif 2						small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity|protein binding				0																		---	---	---	---
RALGPS2	55103	broad.mit.edu	37	1	178801827	178801827	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:178801827delA	uc001glz.2	+						RALGPS2_uc001gly.1_Intron|RALGPS2_uc010pnb.1_Intron	NM_152663	NP_689876			Ral GEF with PH domain and SH3 binding motif 2						small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity|protein binding				0																		---	---	---	---
RALGPS2	55103	broad.mit.edu	37	1	178855324	178855324	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:178855324delA	uc001glz.2	+						RALGPS2_uc010pnb.1_Intron	NM_152663	NP_689876			Ral GEF with PH domain and SH3 binding motif 2						small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity|protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	178942379	178942379	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:178942379delT								RALGPS2 (53144 upstream) : FAM20B (52695 downstream)																																			---	---	---	---
ABL2	27	broad.mit.edu	37	1	179186761	179186762	+	Intron	DEL	AA	-	-	rs79145793		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179186761_179186762delAA	uc001gmj.3	-						ABL2_uc010pnf.1_Intron|ABL2_uc010png.1_Intron|ABL2_uc010pnh.1_Intron|ABL2_uc009wxe.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								---	---	---	---
Unknown	0	broad.mit.edu	37	1	179225386	179225386	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179225386delT								ABL2 (26567 upstream) : SOAT1 (37631 downstream)																																			---	---	---	---
TDRD5	163589	broad.mit.edu	37	1	179604781	179604781	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179604781delT	uc001gnf.1	+						TDRD5_uc010pnp.1_Intron|TDRD5_uc001gnh.1_Intron	NM_173533	NP_775804			tudor domain containing 5						DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	179679274	179679274	+	IGR	DEL	A	-	-	rs34563635		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179679274delA								TDRD5 (18876 upstream) : FAM163A (17641 downstream)																																			---	---	---	---
CEP350	9857	broad.mit.edu	37	1	179975728	179975728	+	Intron	DEL	T	-	-	rs77614354		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179975728delT	uc001gnt.2	+						CEP350_uc009wxl.2_Intron|CEP350_uc001gnu.2_Intron	NM_014810	NP_055625			centrosome-associated protein 350							centrosome|nucleus|spindle				ovary(4)	4																		---	---	---	---
CEP350	9857	broad.mit.edu	37	1	180031282	180031282	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:180031282delT	uc001gnt.2	+						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	180043131	180043131	+	Intron	DEL	T	-	-	rs79256735		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:180043131delT	uc001gnt.2	+						CEP350_uc009wxl.2_Intron|CEP350_uc001gnv.2_Intron	NM_014810	NP_055625			centrosome-associated protein 350							centrosome|nucleus|spindle				ovary(4)	4																		---	---	---	---
ACBD6	84320	broad.mit.edu	37	1	180404392	180404392	+	Intron	DEL	T	-	-	rs114573269	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:180404392delT	uc001gog.2	-							NM_032360	NP_115736			acyl-coenzyme A binding domain containing 6							cytoplasm|nucleus	fatty-acyl-CoA binding			ovary(1)	1																		---	---	---	---
XPR1	9213	broad.mit.edu	37	1	180710310	180710310	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:180710310delT	uc001goi.2	+						XPR1_uc009wxm.2_Intron|XPR1_uc009wxn.2_Intron	NM_004736	NP_004727			xenotropic and polytropic retrovirus receptor							integral to plasma membrane	G-protein coupled receptor activity				0																		---	---	---	---
XPR1	9213	broad.mit.edu	37	1	180857805	180857808	+	3'UTR	DEL	TAGC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:180857805_180857808delTAGC	uc001goi.2	+	15					XPR1_uc009wxn.2_3'UTR	NM_004736	NP_004727			xenotropic and polytropic retrovirus receptor							integral to plasma membrane	G-protein coupled receptor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	181205369	181205371	+	IGR	DEL	CCT	-	-	rs67918272		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:181205369_181205371delCCT								IER5 (145392 upstream) : CACNA1E (247345 downstream)																																			---	---	---	---
CACNA1E	777	broad.mit.edu	37	1	181682510	181682510	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:181682510delA	uc001gow.2	+						CACNA1E_uc009wxs.2_Intron	NM_000721	NP_000712			calcium channel, voltage-dependent, R type,						energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	182040501	182040501	+	IGR	DEL	A	-	-	rs66774266		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182040501delA								ZNF648 (9654 upstream) : GLUL (311168 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	182043380	182043380	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182043380delA								ZNF648 (12533 upstream) : GLUL (308289 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	182138116	182138117	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182138116_182138117delTT								ZNF648 (107269 upstream) : GLUL (213552 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	182655449	182655449	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182655449delT								RGS8 (13382 upstream) : NPL (103423 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	182737465	182737466	+	IGR	INS	-	A	A	rs74810417		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182737465_182737466insA								RGS8 (95398 upstream) : NPL (21406 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	182750670	182750670	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182750670delT								RGS8 (108603 upstream) : NPL (8202 downstream)																																			---	---	---	---
LAMC2	3918	broad.mit.edu	37	1	183159053	183159053	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:183159053delT	uc001gqa.2	+						LAMC2_uc001gpz.3_Intron|LAMC2_uc010poa.1_Intron	NM_005562	NP_005553			laminin, gamma 2 isoform a precursor						cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3																		---	---	---	---
RGL1	23179	broad.mit.edu	37	1	183687889	183687889	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:183687889delA	uc001gqm.2	+						RGL1_uc010pof.1_Intron|RGL1_uc010pog.1_Intron|RGL1_uc010poh.1_Intron	NM_015149	NP_055964			ral guanine nucleotide dissociation						cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11																		---	---	---	---
GLT25D2	23127	broad.mit.edu	37	1	183931762	183931762	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:183931762delA	uc001gqr.2	-						GLT25D2_uc010poj.1_Intron|GLT25D2_uc001gqq.2_Intron|GLT25D2_uc001gqs.2_Intron	NM_015101	NP_055916			glycosyltransferase 25 domain containing 2						lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	184058860	184058860	+	IGR	DEL	A	-	-	rs113802996		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:184058860delA								TSEN15 (15519 upstream) : C1orf21 (297290 downstream)																																			---	---	---	---
FAM129A	116496	broad.mit.edu	37	1	184847046	184847046	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:184847046delT	uc001gra.2	-						FAM129A_uc009wyh.1_Intron|FAM129A_uc009wyi.1_Intron	NM_052966	NP_443198			niban protein isoform 2						negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4																		---	---	---	---
RNF2	6045	broad.mit.edu	37	1	185046461	185046461	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:185046461delT	uc001grc.1	+						RNF2_uc001grd.1_Intron	NM_007212	NP_009143			ring finger protein 2						histone H2A monoubiquitination|transcription, DNA-dependent	MLL1 complex|PcG protein complex|ubiquitin ligase complex	RING-like zinc finger domain binding|zinc ion binding			breast(1)	1		Breast(1374;0.000496)		Colorectal(1306;6.9e-08)|KIRC - Kidney renal clear cell carcinoma(1967;8.12e-06)														---	---	---	---
HMCN1	83872	broad.mit.edu	37	1	185966943	185966945	+	Intron	DEL	TTT	-	-	rs71691991		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:185966943_185966945delTTT	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	186088306	186088306	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186088306delT	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-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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								---	---	---	---
TPR	7175	broad.mit.edu	37	1	186315235	186315235	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186315235delA	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								---	---	---	---
PDC	5132	broad.mit.edu	37	1	186417605	186417605	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186417605delT	uc001gsa.2	-						PDC_uc001grz.2_Intron	NM_002597	NP_002588			phosducin isoform a						G-protein coupled receptor protein signaling pathway|phototransduction|visual perception	actin cytoskeleton|cytosol|nucleus|photoreceptor inner segment|photoreceptor outer segment	phospholipase inhibitor activity			skin(1)	1		Breast(1374;1.53e-05)		KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|Colorectal(1306;0.0129)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	186600641	186600641	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186600641delA								PDC (170402 upstream) : PTGS2 (40304 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	186757690	186757691	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186757690_186757691delTG								PTGS2 (108131 upstream) : PLA2G4A (40341 downstream)																																			---	---	---	---
PLA2G4A	5321	broad.mit.edu	37	1	186876088	186876088	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186876088delT	uc001gsc.2	+						PLA2G4A_uc010pos.1_Intron	NM_024420	NP_077734			cytosolic phospholipase A2, group IVA						phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)													---	---	---	---
Unknown	0	broad.mit.edu	37	1	187051388	187051388	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:187051388delT								PLA2G4A (93283 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	187057014	187057014	+	IGR	DEL	T	-	-	rs148395250		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:187057014delT								PLA2G4A (98909 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	187180894	187180894	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:187180894delC								PLA2G4A (222789 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	187679571	187679571	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:187679571delT								PLA2G4A (721466 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	187698827	187698827	+	IGR	DEL	A	-	-	rs72050844		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:187698827delA								PLA2G4A (740722 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	188143890	188143891	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:188143890_188143891insA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	188178853	188178854	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:188178853_188178854insT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	188209008	188209008	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:188209008delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	188689555	188689555	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:188689555delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	188731795	188731796	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:188731795_188731796insT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	188784990	188784991	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:188784990_188784991delTC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	188836372	188836372	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:188836372delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	188864687	188864688	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:188864687_188864688insT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	188938233	188938233	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:188938233delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	189285517	189285518	+	IGR	INS	-	A	A	rs147324761	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:189285517_189285518insA								None (None upstream) : FAM5C (781279 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	189557013	189557014	+	IGR	INS	-	TG	TG	rs149086600	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:189557013_189557014insTG								None (None upstream) : FAM5C (509783 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	189687477	189687477	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:189687477delG								None (None upstream) : FAM5C (379320 downstream)																																			---	---	---	---
FAM5C	339479	broad.mit.edu	37	1	190203424	190203425	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:190203424_190203425insA	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)																	---	---	---	---
FAM5C	339479	broad.mit.edu	37	1	190224166	190224166	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:190224166delT	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)																	---	---	---	---
FAM5C	339479	broad.mit.edu	37	1	190345289	190345289	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:190345289delT	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)																	---	---	---	---
Unknown	0	broad.mit.edu	37	1	190756563	190756563	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:190756563delT								FAM5C (309804 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	192064800	192064801	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:192064800_192064801insA								None (None upstream) : RGS18 (62791 downstream)																																			---	---	---	---
RGS18	64407	broad.mit.edu	37	1	192129491	192129491	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:192129491delT	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																		---	---	---	---
UCHL5	51377	broad.mit.edu	37	1	193026364	193026364	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:193026364delT	uc001gsm.2	-						UCHL5_uc001gsn.2_Intron|UCHL5_uc001gso.2_Intron|UCHL5_uc010pov.1_Intron|UCHL5_uc001gsp.2_Intron|UCHL5_uc001gsq.2_Intron|UCHL5_uc010pow.1_Intron|UCHL5_uc010pox.1_Intron|TROVE2_uc001gst.1_5'Flank|TROVE2_uc001gss.2_5'Flank|TROVE2_uc001gsu.1_5'Flank|TROVE2_uc001gsv.1_5'Flank|TROVE2_uc001gsw.2_5'Flank|TROVE2_uc009wyp.2_5'Flank|TROVE2_uc009wyq.2_5'Flank	NM_015984	NP_057068			ubiquitin carboxyl-terminal hydrolase L5						DNA recombination|DNA repair|protein deubiquitination|regulation of proteasomal protein catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytosol|Ino80 complex|proteasome complex	endopeptidase inhibitor activity|omega peptidase activity|proteasome binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|ovary(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	193452870	193452870	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:193452870delT								CDC73 (228930 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	193519847	193519850	+	IGR	DEL	TTTT	-	-	rs76735976		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:193519847_193519850delTTTT								CDC73 (295907 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	193540630	193540630	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:193540630delT								CDC73 (316690 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	193917090	193917090	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:193917090delA								CDC73 (693150 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	194102433	194102433	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:194102433delC								CDC73 (878493 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	194258105	194258105	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:194258105delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	195128579	195128579	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:195128579delT								None (None upstream) : None (None downstream)																																			---	---	---	---
KCNT2	343450	broad.mit.edu	37	1	196293024	196293025	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:196293024_196293025insT	uc001gtd.1	-						KCNT2_uc009wyt.1_Intron|KCNT2_uc001gte.1_Intron|KCNT2_uc001gtf.1_Intron|KCNT2_uc001gtg.1_Intron|KCNT2_uc009wyu.2_Intron|KCNT2_uc001gth.1_Intron	NM_198503	NP_940905			potassium channel, subfamily T, member 2							voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7																		---	---	---	---
KCNT2	343450	broad.mit.edu	37	1	196379452	196379452	+	Intron	DEL	T	-	-	rs79618390		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:196379452delT	uc001gtd.1	-						KCNT2_uc009wyt.1_Intron|KCNT2_uc001gte.1_Intron|KCNT2_uc001gtf.1_Intron|KCNT2_uc001gtg.1_Intron|KCNT2_uc009wyu.2_Intron|KCNT2_uc009wyv.1_Intron	NM_198503	NP_940905			potassium channel, subfamily T, member 2							voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7																		---	---	---	---
F13B	2165	broad.mit.edu	37	1	197009512	197009512	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197009512delA	uc001gtt.1	-							NM_001994	NP_001985			coagulation factor XIII B subunit precursor						blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	197042774	197042774	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197042774delA								F13B (6377 upstream) : ASPM (10484 downstream)																																			---	---	---	---
ZBTB41	360023	broad.mit.edu	37	1	197150089	197150089	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197150089delT	uc001gtx.1	-						ZBTB41_uc009wyz.1_Intron	NM_194314	NP_919290			zinc finger and BTB domain containing 41						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2																		---	---	---	---
CRB1	23418	broad.mit.edu	37	1	197213873	197213874	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197213873_197213874insT	uc010poz.1	+							NM_201253	NP_957705			crumbs homolog 1 precursor						cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9																		---	---	---	---
LHX9	56956	broad.mit.edu	37	1	197895405	197895405	+	Intron	DEL	T	-	-	rs5779894		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197895405delT	uc001guk.1	+						LHX9_uc001gui.1_Intron|LHX9_uc001guj.1_Intron	NM_020204	NP_064589			LIM homeobox 9 isoform 1						motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	198083377	198083377	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:198083377delT								LHX9 (181662 upstream) : NEK7 (42731 downstream)																																			---	---	---	---
NEK7	140609	broad.mit.edu	37	1	198248412	198248412	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:198248412delA	uc001gun.3	+							NM_133494	NP_598001			NIMA-related kinase 7							cytoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|lung(1)|ovary(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	198582844	198582845	+	IGR	DEL	AT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:198582844_198582845delAT								ATP6V1G3 (72769 upstream) : PTPRC (25292 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	198748283	198748283	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:198748283delT								PTPRC (21738 upstream) : MIR181B1 (79719 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	198922903	198922903	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:198922903delA								MIR181A1 (94621 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	199310051	199310051	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:199310051delA								MIR181A1 (481769 upstream) : NR5A2 (686719 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	199622589	199622590	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:199622589_199622590delAA								MIR181A1 (794307 upstream) : NR5A2 (374180 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	199814444	199814445	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:199814444_199814445insT								MIR181A1 (986162 upstream) : NR5A2 (182325 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	199921515	199921516	+	IGR	DEL	AA	-	-	rs113056037		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:199921515_199921516delAA								None (None upstream) : NR5A2 (75254 downstream)																																			---	---	---	---
NR5A2	2494	broad.mit.edu	37	1	200026919	200026919	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200026919delT	uc001gvb.2	+						NR5A2_uc001gvc.2_Intron|NR5A2_uc009wzh.2_Intron|NR5A2_uc010pph.1_Intron	NM_205860	NP_995582			nuclear receptor subfamily 5, group A, member 2						embryo development|positive regulation of viral genome replication|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	lipid binding|protein binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Prostate(682;0.19)																	---	---	---	---
NR5A2	2494	broad.mit.edu	37	1	200064688	200064689	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200064688_200064689insT	uc001gvb.2	+						NR5A2_uc001gvc.2_Intron|NR5A2_uc009wzh.2_Intron|NR5A2_uc010pph.1_Intron	NM_205860	NP_995582			nuclear receptor subfamily 5, group A, member 2						embryo development|positive regulation of viral genome replication|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	lipid binding|protein binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Prostate(682;0.19)																	---	---	---	---
KIF14	9928	broad.mit.edu	37	1	200534857	200534857	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200534857delA	uc010ppk.1	-						KIF14_uc010ppj.1_Intron	NM_014875	NP_055690			kinesin family member 14						microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7																		---	---	---	---
KIF14	9928	broad.mit.edu	37	1	200572491	200572491	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200572491delT	uc010ppk.1	-						KIF14_uc010ppj.1_Intron	NM_014875	NP_055690			kinesin family member 14						microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7																		---	---	---	---
DDX59	83479	broad.mit.edu	37	1	200615480	200615480	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200615480delA	uc009wzk.2	-						DDX59_uc010ppl.1_Intron	NM_001031725	NP_001026895			DEAD (Asp-Glu-Ala-Asp) box polypeptide 59							intracellular	ATP binding|ATP-dependent helicase activity|metal ion binding|RNA binding			ovary(2)|breast(1)|central_nervous_system(1)	4																		---	---	---	---
DDX59	83479	broad.mit.edu	37	1	200621985	200621985	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200621985delT	uc009wzk.2	-						DDX59_uc010ppl.1_Intron	NM_001031725	NP_001026895			DEAD (Asp-Glu-Ala-Asp) box polypeptide 59							intracellular	ATP binding|ATP-dependent helicase activity|metal ion binding|RNA binding			ovary(2)|breast(1)|central_nervous_system(1)	4																		---	---	---	---
DDX59	83479	broad.mit.edu	37	1	200623523	200623524	+	Intron	DEL	AA	-	-	rs115234660	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200623523_200623524delAA	uc009wzk.2	-						DDX59_uc010ppl.1_Intron	NM_001031725	NP_001026895			DEAD (Asp-Glu-Ala-Asp) box polypeptide 59							intracellular	ATP binding|ATP-dependent helicase activity|metal ion binding|RNA binding			ovary(2)|breast(1)|central_nervous_system(1)	4																		---	---	---	---
CAMSAP1L1	23271	broad.mit.edu	37	1	200762831	200762831	+	Intron	DEL	T	-	-	rs74618746		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200762831delT	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																		---	---	---	---
CAMSAP1L1	23271	broad.mit.edu	37	1	200809421	200809421	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200809421delT	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																		---	---	---	---
CACNA1S	779	broad.mit.edu	37	1	201019881	201019881	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201019881delA	uc001gvv.2	-							NM_000069	NP_000060			calcium channel, voltage-dependent, L type,						axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)													---	---	---	---
CACNA1S	779	broad.mit.edu	37	1	201025198	201025199	+	Intron	INS	-	ACACACAC	ACACACAC	rs58170287		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201025198_201025199insACACACAC	uc001gvv.2	-							NM_000069	NP_000060			calcium channel, voltage-dependent, L type,						axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)													---	---	---	---
Unknown	0	broad.mit.edu	37	1	201424744	201424744	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201424744delA								TNNI1 (25750 upstream) : PHLDA3 (9879 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	201506868	201506868	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201506868delA								RPS10P7 (7266 upstream) : NAV1 (110582 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	201544362	201544363	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201544362_201544363delAG								RPS10P7 (44760 upstream) : NAV1 (73087 downstream)																																			---	---	---	---
NAV1	89796	broad.mit.edu	37	1	201786601	201786601	+	Intron	DEL	A	-	-	rs12035507	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201786601delA	uc001gwu.2	+						NAV1_uc001gwx.2_Intron	NM_020443	NP_065176			neuron navigator 1						cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4																		---	---	---	---
LMOD1	25802	broad.mit.edu	37	1	201893452	201893453	+	Intron	DEL	AA	-	-	rs78100166		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201893452_201893453delAA	uc001gxb.2	-						LMOD1_uc010ppu.1_Intron	NM_012134	NP_036266			leiomodin 1 (smooth muscle)						muscle contraction	cytoskeleton|cytosol|membrane fraction	tropomyosin binding			ovary(1)|pancreas(1)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	202073612	202073613	+	IGR	INS	-	AAAGAAG	AAAGAAG	rs60984481		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202073612_202073613insAAAGAAG								ELF3 (87306 upstream) : GPR37L1 (18416 downstream)																																			---	---	---	---
PPP1R12B	4660	broad.mit.edu	37	1	202341734	202341734	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202341734delA	uc001gya.1	+						PPP1R12B_uc001gxy.2_Intron|PPP1R12B_uc009xad.1_Intron|PPP1R12B_uc009xae.1_Intron|PPP1R12B_uc001gxz.1_Intron	NM_002481	NP_002472			protein phosphatase 1, regulatory (inhibitor)						regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)															---	---	---	---
PPP1R12B	4660	broad.mit.edu	37	1	202407190	202407190	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202407190delT	uc001gya.1	+						PPP1R12B_uc001gxy.2_Frame_Shift_Del_p.V499fs|PPP1R12B_uc009xad.1_Frame_Shift_Del_p.V305fs|PPP1R12B_uc009xae.1_3'UTR|PPP1R12B_uc001gxz.1_Intron	NM_002481	NP_002472			protein phosphatase 1, regulatory (inhibitor)						regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)															---	---	---	---
PPP1R12B	4660	broad.mit.edu	37	1	202531878	202531878	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202531878delT	uc001gya.1	+						PPP1R12B_uc001gxz.1_Intron|PPP1R12B_uc001gyb.1_Intron|PPP1R12B_uc001gyc.1_Intron	NM_002481	NP_002472			protein phosphatase 1, regulatory (inhibitor)						regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	202846149	202846149	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202846149delA								LOC148709 (1780 upstream) : RABIF (1939 downstream)																																			---	---	---	---
RABIF	5877	broad.mit.edu	37	1	202850535	202850536	+	Intron	INS	-	T	T	rs146844247	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202850535_202850536insT	uc001gyl.2	-							NM_002871	NP_002862			RAB-interacting factor						cellular membrane fusion|protein transport|small GTPase mediated signal transduction		guanyl-nucleotide exchange factor activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(75;0.166)															---	---	---	---
KLHL12	59349	broad.mit.edu	37	1	202894347	202894347	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202894347delA	uc001gyo.1	-						KLHL12_uc010pqc.1_Intron|KLHL12_uc009xah.1_Intron	NM_021633	NP_067646			kelch-like 12						Wnt receptor signaling pathway		protein binding				0			BRCA - Breast invasive adenocarcinoma(75;0.166)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	203496048	203496049	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:203496048_203496049delCT								OPTC (17971 upstream) : ATP2B4 (99879 downstream)																																			---	---	---	---
ZC3H11A	9877	broad.mit.edu	37	1	203820457	203820457	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:203820457delT	uc001hac.2	+						ZC3H11A_uc001had.2_Intron|ZC3H11A_uc001hae.2_Intron|ZC3H11A_uc001haf.2_Intron|ZC3H11A_uc010pqm.1_Intron	NM_014827	NP_055642			zinc finger CCCH-type containing 11A								nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	204034116	204034119	+	IGR	DEL	CCTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:204034116_204034119delCCTT								C1orf157 (23724 upstream) : SOX13 (8127 downstream)																																			---	---	---	---
SOX13	9580	broad.mit.edu	37	1	204058311	204058311	+	Intron	DEL	G	-	-	rs35005426		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:204058311delG	uc001ham.2	+						SOX13_uc001hal.2_Intron	NM_005686	NP_005677			SRY-box 13						anatomical structure morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2	all_cancers(21;0.0754)|Breast(84;0.116)|all_epithelial(62;0.189)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	204143824	204143825	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:204143824_204143825insA								REN (8359 upstream) : KISS1 (15645 downstream)																																			---	---	---	---
PLEKHA6	22874	broad.mit.edu	37	1	204208725	204208725	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:204208725delA	uc001hau.2	-							NM_014935	NP_055750			phosphoinositol 3-phosphate-binding protein-3											ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)															---	---	---	---
PPP1R15B	84919	broad.mit.edu	37	1	204382535	204382535	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:204382535delA	uc001hav.3	-							NM_032833	NP_116222			protein phosphatase 1, regulatory subunit 15B						regulation of translation					ovary(1)|pancreas(1)	2	all_cancers(21;0.0032)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.179)|all_epithelial(62;0.193)|Prostate(682;0.227)		all cancers(3;1.14e-29)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.139)															---	---	---	---
TMEM81	388730	broad.mit.edu	37	1	205052278	205052278	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205052278delA	uc001hbt.2	-	1						NM_203376	NP_976310			transmembrane protein 81 precursor							integral to membrane					0	all_cancers(21;0.144)|Breast(84;0.0437)		BRCA - Breast invasive adenocarcinoma(75;0.0923)															---	---	---	---
DSTYK	25778	broad.mit.edu	37	1	205175712	205175715	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205175712_205175715delTTTT	uc001hbw.2	-						DSTYK_uc001hbx.2_Intron	NM_015375	NP_056190			receptor interacting protein kinase 5 isoform 1							cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1																		---	---	---	---
MFSD4	148808	broad.mit.edu	37	1	205548156	205548156	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205548156delC	uc001hcv.3	+						MFSD4_uc010prk.1_Intron|MFSD4_uc010prl.1_Intron|MFSD4_uc010prm.1_5'Flank	NM_181644	NP_857595			major facilitator superfamily domain containing						transmembrane transport	integral to membrane				skin(2)|central_nervous_system(1)	3	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0908)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	205796675	205796675	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205796675delC								SLC41A1 (14514 upstream) : PM20D1 (479 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	205824485	205824485	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205824485delT								PM20D1 (5240 upstream) : SLC26A9 (57694 downstream)																																			---	---	---	---
SRGAP2	23380	broad.mit.edu	37	1	206532062	206532062	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:206532062delA	uc001hdy.2	+						SRGAP2_uc009xbt.2_Intron|SRGAP2_uc010prt.1_Intron|SRGAP2_uc001hdx.2_Intron|SRGAP2_uc010pru.1_Intron	NM_015326	NP_056141			SLIT-ROBO Rho GTPase activating protein 2						axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)																	---	---	---	---
SRGAP2	23380	broad.mit.edu	37	1	206622808	206622808	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:206622808delC	uc001hdy.2	+						SRGAP2_uc010prt.1_Intron|SRGAP2_uc001hdx.2_Intron|SRGAP2_uc010pru.1_Intron|SRGAP2_uc010prv.1_Intron	NM_015326	NP_056141			SLIT-ROBO Rho GTPase activating protein 2						axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)																	---	---	---	---
LGTN	1939	broad.mit.edu	37	1	206770284	206770284	+	Intron	DEL	C	-	-	rs138836612		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:206770284delC	uc001heh.2	-						LGTN_uc009xbw.2_Intron	NM_006893	NP_008824			ligatin						intracellular protein transport	cytoplasm	protein binding|receptor activity|translation initiation factor activity				0	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)															---	---	---	---
FCAMR	83953	broad.mit.edu	37	1	207135373	207135373	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207135373delT	uc001hfa.3	-						FCAMR_uc001hfb.2_Intron|FCAMR_uc009xca.1_Intron|FCAMR_uc001hfc.2_Intron	NM_001122980	NP_001116452			Fc receptor, IgA, IgM, high affinity isoform 2							integral to membrane|plasma membrane	receptor activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	207185414	207185414	+	IGR	DEL	A	-	-	rs112309921		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207185414delA								FCAMR (41444 upstream) : C1orf116 (6452 downstream)																																			---	---	---	---
CD55	1604	broad.mit.edu	37	1	207502953	207502953	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207502953delT	uc001hfq.3	+						CD55_uc001hfp.3_Intron|CD55_uc001hfr.3_Intron|CD55_uc010psf.1_Intron|CD55_uc009xcf.2_Intron|CD55_uc009xce.2_Intron|CD55_uc009xcg.2_Intron	NM_000574	NP_000565			decay accelerating factor for complement isoform						complement activation, classical pathway|elevation of cytosolic calcium ion concentration|innate immune response|respiratory burst	anchored to membrane|extracellular region|integral to plasma membrane|membrane raft|soluble fraction	receptor activity			ovary(1)	1					Chloramphenicol(DB00446)													---	---	---	---
Unknown	0	broad.mit.edu	37	1	207592730	207592730	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207592730delT								CD55 (58421 upstream) : CR2 (34940 downstream)																																			---	---	---	---
CR2	1380	broad.mit.edu	37	1	207632311	207632311	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207632311delA	uc001hfw.2	+						CR2_uc001hfv.2_Intron|CR2_uc009xch.2_Intron	NM_001877	NP_001868			complement component (3d/Epstein Barr virus)						complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8																		---	---	---	---
CR2	1380	broad.mit.edu	37	1	207647452	207647452	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207647452delA	uc001hfw.2	+						CR2_uc001hfv.2_Intron|CR2_uc009xch.2_Intron	NM_001877	NP_001868			complement component (3d/Epstein Barr virus)						complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8																		---	---	---	---
CR2	1380	broad.mit.edu	37	1	207658684	207658684	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207658684delA	uc001hfw.2	+						CR2_uc001hfv.2_Intron|CR2_uc009xch.2_Intron	NM_001877	NP_001868			complement component (3d/Epstein Barr virus)						complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	208119020	208119022	+	IGR	DEL	TTC	-	-	rs71154848		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:208119020_208119022delTTC								CD34 (34337 upstream) : PLXNA2 (76568 downstream)																																			---	---	---	---
PLXNA2	5362	broad.mit.edu	37	1	208358094	208358095	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:208358094_208358095delAC	uc001hgz.2	-							NM_025179	NP_079455			plexin A2 precursor						axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	208621690	208621690	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:208621690delT								PLXNA2 (204025 upstream) : LOC642587 (980478 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	208819009	208819009	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:208819009delT								PLXNA2 (401344 upstream) : LOC642587 (783159 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	209094142	209094142	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:209094142delA								PLXNA2 (676477 upstream) : LOC642587 (508026 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	209668343	209668346	+	IGR	DEL	GAGA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:209668343_209668346delGAGA								LOC642587 (62453 upstream) : CAMK1G (88699 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	209841594	209841594	+	IGR	DEL	T	-	-	rs75831145		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:209841594delT								LAMB3 (15774 upstream) : G0S2 (7076 downstream)																																			---	---	---	---
TRAF3IP3	80342	broad.mit.edu	37	1	209944789	209944790	+	Intron	INS	-	GT	GT	rs148345044	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:209944789_209944790insGT	uc001hho.2	+						TRAF3IP3_uc001hhl.2_Intron|TRAF3IP3_uc001hhm.1_Intron|TRAF3IP3_uc001hhn.2_Intron|TRAF3IP3_uc009xcr.2_Intron	NM_025228	NP_079504			TRAF3-interacting JNK-activating modulator							integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)														---	---	---	---
SYT14	255928	broad.mit.edu	37	1	210161481	210161482	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:210161481_210161482insT	uc009xcv.2	+						SYT14_uc001hhs.3_Intron|SYT14_uc001hht.3_Intron|SYT14_uc001hhu.3_Intron|SYT14_uc010psn.1_Intron|SYT14_uc010pso.1_Intron	NM_153262	NP_694994			synaptotagmin XIV isoform 4							integral to membrane				ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.085)														---	---	---	---
SYT14	255928	broad.mit.edu	37	1	210252260	210252261	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:210252260_210252261delTT	uc009xcv.2	+						SYT14_uc001hhs.3_Intron|SYT14_uc001hht.3_Intron|SYT14_uc001hhu.3_Intron|SYT14_uc010psn.1_Intron|SYT14_uc010pso.1_Intron	NM_153262	NP_694994			synaptotagmin XIV isoform 4							integral to membrane				ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.085)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	210357151	210357152	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:210357151_210357152insT								SYT14 (19520 upstream) : C1orf133 (47652 downstream)																																			---	---	---	---
HHAT	55733	broad.mit.edu	37	1	210522461	210522461	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:210522461delA	uc009xcx.2	+						HHAT_uc010psq.1_Intron|HHAT_uc001hhz.3_Intron|HHAT_uc010psr.1_Intron|HHAT_uc010pss.1_Intron|HHAT_uc009xcy.2_Intron|HHAT_uc010pst.1_Intron|HHAT_uc010psu.1_Intron	NM_001122834	NP_001116306			hedgehog acyltransferase						multicellular organismal development	endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0136)|all cancers(67;0.161)|KIRC - Kidney renal clear cell carcinoma(1967;0.215)														---	---	---	---
KCNH1	3756	broad.mit.edu	37	1	210992947	210992949	+	Intron	DEL	AAA	-	-	rs113574315		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:210992947_210992949delAAA	uc001hib.2	-						KCNH1_uc001hic.2_Intron	NM_172362	NP_758872			potassium voltage-gated channel, subfamily H,						myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)														---	---	---	---
KCNH1	3756	broad.mit.edu	37	1	211083524	211083524	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211083524delA	uc001hib.2	-						KCNH1_uc001hic.2_Intron	NM_172362	NP_758872			potassium voltage-gated channel, subfamily H,						myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)														---	---	---	---
KCNH1	3756	broad.mit.edu	37	1	211259533	211259533	+	Intron	DEL	T	-	-	rs71571977		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211259533delT	uc001hib.2	-						KCNH1_uc001hic.2_Intron	NM_172362	NP_758872			potassium voltage-gated channel, subfamily H,						myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	211347241	211347241	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211347241delA								KCNH1 (39784 upstream) : RCOR3 (85467 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	211378820	211378820	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211378820delT	uc001hid.2	+											SubName: Full=Px19-like protein, isoform CRA_c; SubName: Full=cDNA, FLJ92457, Homo sapiens px19-like protein (PX19), mRNA;																														---	---	---	---
RCOR3	55758	broad.mit.edu	37	1	211462410	211462410	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211462410delT	uc001hig.2	+						RCOR3_uc010psv.1_Intron|RCOR3_uc001hie.2_Intron|RCOR3_uc010psw.1_Intron|RCOR3_uc001hif.2_Intron	NM_018254	NP_060724			REST corepressor 3 isoform d						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)														---	---	---	---
RCOR3	55758	broad.mit.edu	37	1	211463185	211463188	+	Intron	DEL	AGAT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211463185_211463188delAGAT	uc001hig.2	+						RCOR3_uc010psv.1_Intron|RCOR3_uc001hie.2_Intron|RCOR3_uc010psw.1_Intron|RCOR3_uc001hif.2_Intron	NM_018254	NP_060724			REST corepressor 3 isoform d						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)														---	---	---	---
TRAF5	7188	broad.mit.edu	37	1	211520434	211520435	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211520434_211520435delTT	uc001hih.2	+						TRAF5_uc001hii.2_Intron|TRAF5_uc010psx.1_Intron|TRAF5_uc010psy.1_Intron|TRAF5_uc001hij.2_Intron	NM_004619	NP_004610			TNF receptor-associated factor 5						apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis	CD40 receptor complex|centrosome|internal side of plasma membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|breast(2)|ovary(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00946)|all cancers(67;0.0808)|Epithelial(68;0.144)														---	---	---	---
TRAF5	7188	broad.mit.edu	37	1	211538512	211538512	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211538512delA	uc001hih.2	+						TRAF5_uc001hii.2_Intron|TRAF5_uc010psx.1_Intron|TRAF5_uc010psy.1_Intron|TRAF5_uc001hij.2_Intron	NM_004619	NP_004610			TNF receptor-associated factor 5						apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis	CD40 receptor complex|centrosome|internal side of plasma membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|breast(2)|ovary(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00946)|all cancers(67;0.0808)|Epithelial(68;0.144)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	211723644	211723644	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211723644delT								RD3 (57385 upstream) : SLC30A1 (24737 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	211733483	211733483	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211733483delT								RD3 (67224 upstream) : SLC30A1 (14898 downstream)																																			---	---	---	---
PPP2R5A	5525	broad.mit.edu	37	1	212461964	212461964	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:212461964delA	uc001hjb.2	+							NM_006243	NP_006234			protein phosphatase 2, regulatory subunit B						negative regulation of establishment of protein localization in plasma membrane|negative regulation of lipid kinase activity|positive regulation of protein dephosphorylation|signal transduction	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex	kinase binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0125)|all cancers(67;0.029)|Epithelial(68;0.154)|GBM - Glioblastoma multiforme(131;0.155)														---	---	---	---
ATF3	467	broad.mit.edu	37	1	212753499	212753499	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:212753499delA	uc001hjf.2	+							NM_001030287	NP_001025458			activating transcription factor 3 isoform 1							nucleolus	identical protein binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0				OV - Ovarian serous cystadenocarcinoma(81;0.00628)|all cancers(67;0.0097)|GBM - Glioblastoma multiforme(131;0.0388)|Epithelial(68;0.0933)														---	---	---	---
NSL1	25936	broad.mit.edu	37	1	212936719	212936719	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:212936719delA	uc001hjn.2	-						NSL1_uc001hjm.2_Intron|NSL1_uc010pti.1_Intron	NM_015471	NP_056286			NSL1, MIND kinetochore complex component isoform						cell division|chromosome segregation|mitotic prometaphase	cytosol|MIS12/MIND type complex|nucleus	protein binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00597)|all cancers(67;0.00893)|GBM - Glioblastoma multiforme(131;0.0514)|Epithelial(68;0.102)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	213113860	213113860	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:213113860delG								FLVCR1 (43663 upstream) : VASH2 (10027 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	213120354	213120354	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:213120354delT								FLVCR1 (50157 upstream) : VASH2 (3533 downstream)																																			---	---	---	---
RPS6KC1	26750	broad.mit.edu	37	1	213290507	213290507	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:213290507delT	uc010ptr.1	+						RPS6KC1_uc001hkd.2_Intron|RPS6KC1_uc010pts.1_Intron|RPS6KC1_uc010ptt.1_Intron|RPS6KC1_uc010ptu.1_Intron|RPS6KC1_uc010ptv.1_Intron|RPS6KC1_uc001hke.2_Intron	NM_012424	NP_036556			ribosomal protein S6 kinase, 52kDa, polypeptide						cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)														---	---	---	---
RPS6KC1	26750	broad.mit.edu	37	1	213321207	213321208	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:213321207_213321208insT	uc010ptr.1	+						RPS6KC1_uc001hkd.2_Intron|RPS6KC1_uc010pts.1_Intron|RPS6KC1_uc010ptt.1_Intron|RPS6KC1_uc010ptu.1_Intron|RPS6KC1_uc010ptv.1_Intron|RPS6KC1_uc001hke.2_Intron	NM_012424	NP_036556			ribosomal protein S6 kinase, 52kDa, polypeptide						cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)														---	---	---	---
RPS6KC1	26750	broad.mit.edu	37	1	213334021	213334021	+	Intron	DEL	G	-	-	rs78703241		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:213334021delG	uc010ptr.1	+						RPS6KC1_uc001hkd.2_Intron|RPS6KC1_uc010pts.1_Intron|RPS6KC1_uc010ptt.1_Intron|RPS6KC1_uc010ptu.1_Intron|RPS6KC1_uc010ptv.1_Intron|RPS6KC1_uc001hke.2_Intron	NM_012424	NP_036556			ribosomal protein S6 kinase, 52kDa, polypeptide						cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	213772283	213772284	+	IGR	INS	-	A	A	rs77206105	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:213772283_213772284insA								RPS6KC1 (325476 upstream) : PROX1 (389002 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	213989521	213989523	+	IGR	DEL	ATA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:213989521_213989523delATA								RPS6KC1 (542714 upstream) : PROX1 (171763 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	214003611	214003612	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:214003611_214003612insA	uc001hkf.1	-											Homo sapiens cDNA FLJ34932 fis, clone NT2RP7005631.																														---	---	---	---
PROX1	5629	broad.mit.edu	37	1	214203673	214203673	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:214203673delA	uc001hkh.2	+							NM_002763	NP_002754			prospero homeobox 1						aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	214320550	214320552	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:214320550_214320552delAAA								PROX1 (110790 upstream) : SMYD2 (134013 downstream)																																			---	---	---	---
PTPN14	5784	broad.mit.edu	37	1	214598309	214598310	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:214598309_214598310delTT	uc001hkk.1	-						PTPN14_uc010pty.1_Intron	NM_005401	NP_005392			protein tyrosine phosphatase, non-receptor type						lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	214850072	214850073	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:214850072_214850073delTT								CENPF (12160 upstream) : KCNK2 (328812 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	215019507	215019507	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215019507delA								CENPF (181595 upstream) : KCNK2 (159378 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	215154297	215154297	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215154297delA								CENPF (316385 upstream) : KCNK2 (24588 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	215165015	215165015	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215165015delT								CENPF (327103 upstream) : KCNK2 (13870 downstream)																																			---	---	---	---
KCTD3	51133	broad.mit.edu	37	1	215768160	215768160	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215768160delT	uc001hks.2	+						KCTD3_uc001hkt.2_Intron|KCTD3_uc010pub.1_Intron|KCTD3_uc009xdn.2_Intron	NM_016121	NP_057205			potassium channel tetramerisation domain							voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)														---	---	---	---
USH2A	7399	broad.mit.edu	37	1	216187538	216187538	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216187538delA	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)			---	---	---	---
USH2A	7399	broad.mit.edu	37	1	216256672	216256672	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216256672delA	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)			---	---	---	---
USH2A	7399	broad.mit.edu	37	1	216373728	216373728	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216373728delT	uc001hku.1	-						USH2A_uc001hkv.2_Intron	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)			---	---	---	---
USH2A	7399	broad.mit.edu	37	1	216551083	216551083	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216551083delA	uc001hku.1	-						USH2A_uc001hkv.2_Intron	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)			---	---	---	---
ESRRG	2104	broad.mit.edu	37	1	216731042	216731042	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216731042delG	uc001hkw.1	-						ESRRG_uc001hky.1_Intron|ESRRG_uc009xdp.1_Intron|ESRRG_uc001hkz.1_Intron|ESRRG_uc010puc.1_Intron|ESRRG_uc001hla.1_Intron|ESRRG_uc001hlb.1_Intron|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Intron|ESRRG_uc001hld.1_Intron|ESRRG_uc001hkx.1_Intron|ESRRG_uc009xdo.1_Intron|ESRRG_uc001hle.1_Intron	NM_001438	NP_001429			estrogen-related receptor gamma isoform 1						positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)													---	---	---	---
ESRRG	2104	broad.mit.edu	37	1	216820098	216820098	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216820098delT	uc001hkw.1	-						ESRRG_uc001hky.1_Intron|ESRRG_uc009xdp.1_Intron|ESRRG_uc001hkz.1_Intron|ESRRG_uc010puc.1_Intron|ESRRG_uc001hla.1_Intron|ESRRG_uc001hlb.1_Intron|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Intron|ESRRG_uc001hld.1_Intron|ESRRG_uc001hkx.1_Intron|ESRRG_uc009xdo.1_Intron|ESRRG_uc001hle.1_Intron	NM_001438	NP_001429			estrogen-related receptor gamma isoform 1						positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)													---	---	---	---
ESRRG	2104	broad.mit.edu	37	1	216924931	216924931	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216924931delT	uc001hky.1	-						ESRRG_uc009xdp.1_Intron|ESRRG_uc001hkz.1_Intron|ESRRG_uc010puc.1_Intron|ESRRG_uc001hla.1_Intron|ESRRG_uc001hlb.1_Intron|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Intron|ESRRG_uc001hld.1_Intron	NM_206595	NP_996318			estrogen-related receptor gamma isoform 2						positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)													---	---	---	---
GPATCH2	55105	broad.mit.edu	37	1	217652336	217652336	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:217652336delA	uc001hlf.1	-						GPATCH2_uc009xdq.1_Intron	NM_018040	NP_060510			G patch domain containing 2							intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	218110405	218110405	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:218110405delT								SPATA17 (69903 upstream) : RRP15 (348224 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	218386910	218386910	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:218386910delT								SPATA17 (346408 upstream) : RRP15 (71719 downstream)																																			---	---	---	---
TGFB2	7042	broad.mit.edu	37	1	218536908	218536908	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:218536908delT	uc001hlm.2	+						TGFB2_uc001hll.2_Intron|TGFB2_uc001hln.2_Intron|TGFB2_uc010pue.1_Intron|TGFB2_uc001hlo.2_Intron	NM_003238	NP_003229			transforming growth factor, beta 2 isoform 2						activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)														---	---	---	---
TGFB2	7042	broad.mit.edu	37	1	218537331	218537331	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:218537331delT	uc001hlm.2	+						TGFB2_uc001hll.2_Intron|TGFB2_uc001hln.2_Intron|TGFB2_uc010pue.1_Intron|TGFB2_uc001hlo.2_Intron	NM_003238	NP_003229			transforming growth factor, beta 2 isoform 2						activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)														---	---	---	---
TGFB2	7042	broad.mit.edu	37	1	218552116	218552116	+	Intron	DEL	T	-	-	rs67402337		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:218552116delT	uc001hlm.2	+						TGFB2_uc001hll.2_Intron|TGFB2_uc001hln.2_Intron|TGFB2_uc010pue.1_Intron|TGFB2_uc001hlo.2_Intron	NM_003238	NP_003229			transforming growth factor, beta 2 isoform 2						activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)														---	---	---	---
TGFB2	7042	broad.mit.edu	37	1	218593886	218593886	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:218593886delT	uc001hlm.2	+						TGFB2_uc001hln.2_Intron|TGFB2_uc010pue.1_Intron|TGFB2_uc001hlo.2_Intron	NM_003238	NP_003229			transforming growth factor, beta 2 isoform 2						activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	218793343	218793344	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:218793343_218793344delTG								TGFB2 (175384 upstream) : LYPLAL1 (553848 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	219806873	219806873	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:219806873delT								LYPLAL1 (420667 upstream) : SLC30A10 (51896 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	220135134	220135135	+	IGR	INS	-	A	A	rs144468421	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:220135134_220135135insA								SLC30A10 (3145 upstream) : EPRS (6807 downstream)																																			---	---	---	---
RAB3GAP2	25782	broad.mit.edu	37	1	220379362	220379362	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:220379362delA	uc010puk.1	-						RAB3GAP2_uc001hmf.2_Intron|RAB3GAP2_uc001hmg.2_Intron	NM_012414	NP_036546			rab3 GTPase-activating protein, non-catalytic						intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)														---	---	---	---
RAB3GAP2	25782	broad.mit.edu	37	1	220387409	220387409	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:220387409delA	uc010puk.1	-						RAB3GAP2_uc001hmf.2_Intron|RAB3GAP2_uc001hmg.2_Intron|RAB3GAP2_uc010pum.1_Intron	NM_012414	NP_036546			rab3 GTPase-activating protein, non-catalytic						intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	220608284	220608284	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:220608284delA								RAB3GAP2 (162441 upstream) : MARK1 (93284 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	221208229	221208230	+	IGR	INS	-	GT	GT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:221208229_221208230insGT								HLX (149831 upstream) : LOC400804 (295040 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	221403762	221403762	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:221403762delT								HLX (345364 upstream) : LOC400804 (99508 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	222152439	222152440	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:222152439_222152440delGT								DUSP10 (236978 upstream) : HHIPL2 (543162 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	222533693	222533693	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:222533693delA								DUSP10 (618232 upstream) : HHIPL2 (161909 downstream)																																			---	---	---	---
MIA3	375056	broad.mit.edu	37	1	222806607	222806607	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:222806607delT	uc001hnl.2	+						MIA3_uc009xea.1_Intron	NM_198551	NP_940953			melanoma inhibitory activity family, member 3						exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)														---	---	---	---
AIDA	64853	broad.mit.edu	37	1	222876706	222876706	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:222876706delA	uc001hnn.2	-						AIDA_uc001hno.2_Intron|AIDA_uc010pus.1_Intron	NM_022831	NP_073742			axin interactor, dorsalization associated						dorsal/ventral pattern formation|negative regulation of JNK cascade|negative regulation of JUN kinase activity|regulation of protein homodimerization activity						0																		---	---	---	---
TLR5	7100	broad.mit.edu	37	1	223283695	223283695	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:223283695delA	uc001hnv.1	-	4					TLR5_uc001hnw.1_3'UTR	NM_003268	NP_003259			toll-like receptor 5 precursor						cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of toll-like receptor signaling pathway	integral to membrane|plasma membrane	interleukin-1 receptor binding|transmembrane receptor activity			ovary(2)|lung(1)|skin(1)	4				GBM - Glioblastoma multiforme(131;0.0851)														---	---	---	---
SUSD4	55061	broad.mit.edu	37	1	223397848	223397848	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:223397848delA	uc001hnx.2	-						SUSD4_uc001hny.3_Intron|SUSD4_uc010puw.1_Intron	NM_017982	NP_060452			sushi domain containing 4 isoform a							integral to membrane					0				GBM - Glioblastoma multiforme(131;0.0611)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	223707230	223707231	+	IGR	INS	-	CT	CT	rs140667224	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:223707230_223707231insCT								C1orf65 (138418 upstream) : CAPN8 (7741 downstream)																																			---	---	---	---
TP53BP2	7159	broad.mit.edu	37	1	223980974	223980974	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:223980974delA	uc010pvb.1	-						TP53BP2_uc001hod.2_Intron|TP53BP2_uc010puz.1_Intron|TP53BP2_uc010pva.1_Intron	NM_001031685	NP_001026855			tumor protein p53 binding protein, 2 isoform 1						apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	224064875	224064876	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:224064875_224064876insT								TP53BP2 (31201 upstream) : FBXO28 (236915 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	224275775	224275775	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:224275775delA								TP53BP2 (242101 upstream) : FBXO28 (26016 downstream)																																			---	---	---	---
FBXO28	23219	broad.mit.edu	37	1	224318992	224318992	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:224318992delT	uc001hoh.2	+						FBXO28_uc009xef.2_Intron|FBXO28_uc010pvc.1_Intron	NM_015176	NP_055991			F-box protein 28 isoform a											ovary(2)|kidney(2)|lung(1)	5	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.0363)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	225105515	225105515	+	IGR	DEL	A	-	-	rs79688705		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:225105515delA								CNIH3 (177266 upstream) : DNAH14 (11841 downstream)																																			---	---	---	---
DNAH14	127602	broad.mit.edu	37	1	225140832	225140833	+	Intron	DEL	TT	-	-	rs72130753		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:225140832_225140833delTT	uc001how.2	+						DNAH14_uc001hou.3_Intron|DNAH14_uc001hot.3_Intron|DNAH14_uc001hov.3_Intron	NM_001373	NP_001364			dynein, axonemal, heavy polypeptide 14 isoform						microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1																		---	---	---	---
DNAH14	127602	broad.mit.edu	37	1	225277283	225277284	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:225277283_225277284insA	uc001how.2	+							NM_001373	NP_001364			dynein, axonemal, heavy polypeptide 14 isoform						microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1																		---	---	---	---
DNAH14	127602	broad.mit.edu	37	1	225309902	225309902	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:225309902delT	uc001how.2	+							NM_001373	NP_001364			dynein, axonemal, heavy polypeptide 14 isoform						microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1																		---	---	---	---
DNAH14	127602	broad.mit.edu	37	1	225480061	225480061	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:225480061delT	uc001how.2	+						DNAH14_uc001hox.2_Intron	NM_001373	NP_001364			dynein, axonemal, heavy polypeptide 14 isoform						microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	225629764	225629764	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:225629764delT								LBR (13245 upstream) : ENAH (44770 downstream)																																			---	---	---	---
ENAH	55740	broad.mit.edu	37	1	225728574	225728574	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:225728574delT	uc001hpc.1	-						ENAH_uc001hpd.1_Intron	NM_001008493	NP_001008493			enabled homolog isoform a						axon guidance|intracellular transport|T cell receptor signaling pathway	cytosol|filopodium|focal adhesion|lamellipodium|synapse	actin binding|SH3 domain binding|WW domain binding			ovary(1)|skin(1)	2	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.19)														---	---	---	---
SRP9	6726	broad.mit.edu	37	1	225970839	225970839	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:225970839delT	uc001hpg.2	+						SRP9_uc001hpf.3_Intron|SRP9_uc001hph.2_Intron|SRP9_uc001hpi.3_Intron|SRP9_uc001hpj.1_Intron	NM_003133	NP_003124			signal recognition particle 9kDa isoform 2						negative regulation of translational elongation|SRP-dependent cotranslational protein targeting to membrane	cytosol|signal recognition particle receptor complex|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|signal recognition particle binding				0																		---	---	---	---
EPHX1	2052	broad.mit.edu	37	1	226004724	226004724	+	Intron	DEL	T	-	-	rs34025126		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226004724delT	uc001hpk.2	+							NM_001136018	NP_001129490			epoxide hydrolase 1						aromatic compound catabolic process|response to toxin	endoplasmic reticulum membrane|integral to membrane|microsome	cis-stilbene-oxide hydrolase activity|epoxide hydrolase activity			ovary(3)|lung(1)	4	Breast(184;0.197)																	---	---	---	---
LEFTY1	10637	broad.mit.edu	37	1	226091295	226091296	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226091295_226091296insA	uc010pvj.1	-											SubName: Full=cDNA FLJ54750, moderately similar to Pyrroline-5-carboxylate reductase 2 (EC 1.5.1.2);						cell growth|multicellular organismal development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity|transforming growth factor beta receptor binding				0	Breast(184;0.197)																	---	---	---	---
H3F3A	3020	broad.mit.edu	37	1	226258949	226258949	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226258949delT	uc001hpw.2	+							NM_005324	NP_005315			H3 histone, family 3B						blood coagulation|nucleosome assembly	nucleoplasm|nucleosome	DNA binding				0	Breast(184;0.179)			GBM - Glioblastoma multiforme(131;0.203)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	226266615	226266615	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226266615delA								H3F3A (6913 upstream) : ACBD3 (65767 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	226331923	226331926	+	IGR	DEL	CCTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226331923_226331926delCCTG								H3F3A (72221 upstream) : ACBD3 (456 downstream)																																			---	---	---	---
ACBD3	64746	broad.mit.edu	37	1	226363347	226363347	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226363347delT	uc001hpy.2	-							NM_022735	NP_073572			acyl-Coenzyme A binding domain containing 3						steroid biosynthetic process|transport	Golgi membrane|integral to membrane|mitochondrion	fatty-acyl-CoA binding|protein binding				0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.121)														---	---	---	---
ACBD3	64746	broad.mit.edu	37	1	226367116	226367118	+	Intron	DEL	GAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226367116_226367118delGAG	uc001hpy.2	-							NM_022735	NP_073572			acyl-Coenzyme A binding domain containing 3						steroid biosynthetic process|transport	Golgi membrane|integral to membrane|mitochondrion	fatty-acyl-CoA binding|protein binding				0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.121)														---	---	---	---
ITPKB	3707	broad.mit.edu	37	1	226830850	226830850	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226830850delG	uc010pvo.1	-							NM_002221	NP_002212			1D-myo-inositol-trisphosphate 3-kinase B								ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)																---	---	---	---
Unknown	0	broad.mit.edu	37	1	226984550	226984551	+	IGR	INS	-	T	T	rs57502895		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226984550_226984551insT								ITPKB (57674 upstream) : PSEN2 (73722 downstream)																																			---	---	---	---
CABC1	56997	broad.mit.edu	37	1	227157678	227157678	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:227157678delT	uc001hqm.1	+						CABC1_uc001hqn.1_Intron|CABC1_uc009xeq.1_Intron|CABC1_uc010pvq.1_Intron|CABC1_uc010pvr.1_Intron	NM_020247	NP_064632			chaperone, ABC1 activity of bc1 complex like						cell death	mitochondrion	ATP binding|protein serine/threonine kinase activity				0		Prostate(94;0.0771)																---	---	---	---
ZNF678	339500	broad.mit.edu	37	1	227875052	227875052	+	Intron	DEL	A	-	-	rs60918477	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:227875052delA	uc009xeu.1	+											Homo sapiens cDNA: FLJ22822 fis, clone KAIA3968.						regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			pancreas(1)	1		Prostate(94;0.0885)																---	---	---	---
Unknown	0	broad.mit.edu	37	1	228139115	228139115	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228139115delA								WNT9A (3439 upstream) : WNT3A (55637 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	228386466	228386466	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228386466delT								C1orf69 (16509 upstream) : OBSCN (9395 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	228636803	228636804	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228636803_228636804delTT								HIST3H3 (23777 upstream) : HIST3H2A (8262 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	229367599	229367600	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229367599_229367600delAG								RHOU (485190 upstream) : RAB4A (39279 downstream)																																			---	---	---	---
URB2	9816	broad.mit.edu	37	1	229770586	229770586	+	Intron	DEL	T	-	-	rs113038970		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229770586delT	uc001hts.1	+						URB2_uc009xfd.1_Intron	NM_014777	NP_055592			URB2 ribosome biogenesis 2 homolog							nucleolus				central_nervous_system(2)|ovary(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	230008807	230008807	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:230008807delT								URB2 (212861 upstream) : GALNT2 (184729 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	230179557	230179557	+	IGR	DEL	A	-	-	rs66746699		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:230179557delA								URB2 (383611 upstream) : GALNT2 (13979 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	230609362	230609362	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:230609362delT								PGBD5 (95995 upstream) : COG2 (168840 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	230674632	230674632	+	IGR	DEL	T	-	-	rs35191407		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:230674632delT								PGBD5 (161265 upstream) : COG2 (103570 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	230695776	230695776	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:230695776delA								PGBD5 (182409 upstream) : COG2 (82426 downstream)																																			---	---	---	---
AGT	183	broad.mit.edu	37	1	230840197	230840197	+	Intron	DEL	C	-	-	rs1926722	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:230840197delC	uc001hty.3	-						AGT_uc009xfe.2_Intron|AGT_uc009xff.2_Intron	NM_000029	NP_000020			angiotensinogen preproprotein						activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|blood vessel remodeling|cell-cell signaling|cellular lipid metabolic process|G-protein signaling, coupled to cGMP nucleotide second messenger|kidney development|low-density lipoprotein particle remodeling|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of activation of JAK2 kinase activity|positive regulation of apoptosis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of cardiac muscle hypertrophy|positive regulation of cholesterol esterification|positive regulation of cytokine production|positive regulation of endothelial cell migration|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription, DNA-dependent|regulation of proteolysis|regulation of renal output by angiotensin|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|response to muscle activity involved in regulation of muscle adaptation	extracellular space|soluble fraction	acetyltransferase activator activity|growth factor activity|hormone activity|serine-type endopeptidase inhibitor activity|type 1 angiotensin receptor binding|type 2 angiotensin receptor binding				0	Breast(184;0.0735)|Ovarian(103;0.183)	all_cancers(173;4.64e-23)|all_epithelial(177;3.61e-18)|Breast(1374;0.00093)|all_neural(198;0.0604)|Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;4.4e-06)|Colorectal(1306;5.46e-06)|COAD - Colon adenocarcinoma(196;0.000256)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)	Aliskiren(DB01258)|Atorvastatin(DB01076)|Cilazapril(DB01340)|Irbesartan(DB01029)|Lisinopril(DB00722)|Ouabain(DB01092)|Simvastatin(DB00641)													---	---	---	---
FAM89A	375061	broad.mit.edu	37	1	231178431	231178431	+	5'Flank	DEL	T	-	-	rs11368232		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:231178431delT	uc001hui.2	-						FAM89A_uc009xfm.2_5'Flank	NM_198552	NP_940954			family with sequence similarity 89, member A												0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)																---	---	---	---
TRIM67	440730	broad.mit.edu	37	1	231305740	231305740	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:231305740delT	uc009xfn.1	+							NM_001004342	NP_001004342			tripartite motif-containing 67							cytoplasm|cytoskeleton	zinc ion binding			ovary(2)|breast(1)|kidney(1)	4	Breast(184;0.0871)	all_cancers(173;0.189)|Prostate(94;0.167)																---	---	---	---
Unknown	0	broad.mit.edu	37	1	231630538	231630538	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:231630538delA								EGLN1 (69748 upstream) : TSNAX-DISC1 (33861 downstream)																																			---	---	---	---
DISC1	27185	broad.mit.edu	37	1	232160344	232160345	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:232160344_232160345delTT	uc001huz.2	+						TSNAX-DISC1_uc010pwl.1_Intron|DISC1_uc010pxh.1_Intron|DISC1_uc010pxi.1_Intron|DISC1_uc010pxj.1_Intron|DISC1_uc010pxk.1_Intron|DISC1_uc010pxl.1_Intron|DISC1_uc010pxm.1_Intron|DISC1_uc010pxn.1_Intron|DISC1_uc001hva.2_Intron	NM_018662	NP_061132			disrupted in schizophrenia 1 isoform L						microtubule cytoskeleton organization|neuron migration|positive regulation of neuroblast proliferation|positive regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	centrosome|microtubule	protein binding			skin(1)	1		all_cancers(173;0.0208)|Prostate(94;0.0975)																---	---	---	---
Unknown	0	broad.mit.edu	37	1	232832039	232832039	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:232832039delA								SIPA1L2 (180796 upstream) : KIAA1383 (108599 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	232858079	232858079	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:232858079delT								SIPA1L2 (206836 upstream) : KIAA1383 (82559 downstream)																																			---	---	---	---
PCNXL2	80003	broad.mit.edu	37	1	233250929	233250929	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:233250929delA	uc001hvl.2	-						PCNXL2_uc001hvm.1_Intron|PCNXL2_uc009xfu.2_Intron|PCNXL2_uc001hvp.1_Intron|PCNXL2_uc009xfv.1_Intron	NM_014801	NP_055616			pecanex-like 2							integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)																---	---	---	---
PCNXL2	80003	broad.mit.edu	37	1	233275683	233275683	+	Intron	DEL	C	-	-	rs77253499		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:233275683delC	uc001hvl.2	-						PCNXL2_uc001hvm.1_Intron|PCNXL2_uc009xfu.2_Intron|PCNXL2_uc001hvp.1_Intron|PCNXL2_uc009xfv.1_Intron	NM_014801	NP_055616			pecanex-like 2							integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)																---	---	---	---
Unknown	0	broad.mit.edu	37	1	233568625	233568626	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:233568625_233568626insT								KIAA1804 (47732 upstream) : KCNK1 (181124 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	233721809	233721809	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:233721809delA								KIAA1804 (200916 upstream) : KCNK1 (27941 downstream)																																			---	---	---	---
KCNK1	3775	broad.mit.edu	37	1	233753684	233753684	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:233753684delA	uc010pxo.1	+							NM_002245	NP_002236			potassium channel, subfamily K, member 1							voltage-gated potassium channel complex	inward rectifier potassium channel activity			central_nervous_system(1)	1		all_cancers(173;0.00217)|all_epithelial(177;0.121)|Prostate(94;0.122)|Acute lymphoblastic leukemia(190;0.175)			Ibutilide(DB00308)|Quinidine(DB00908)													---	---	---	---
SLC35F3	148641	broad.mit.edu	37	1	234044612	234044612	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:234044612delT	uc001hvy.1	+							NM_173508	NP_775779			solute carrier family 35, member F3						transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)															---	---	---	---
SLC35F3	148641	broad.mit.edu	37	1	234119002	234119002	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:234119002delA	uc001hvy.1	+							NM_173508	NP_775779			solute carrier family 35, member F3						transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)															---	---	---	---
SLC35F3	148641	broad.mit.edu	37	1	234149598	234149599	+	Intron	DEL	AA	-	-	rs113059813		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:234149598_234149599delAA	uc001hvy.1	+							NM_173508	NP_775779			solute carrier family 35, member F3						transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)															---	---	---	---
SLC35F3	148641	broad.mit.edu	37	1	234343175	234343181	+	Intron	DEL	TTTCCTG	-	-	rs71772414		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:234343175_234343181delTTTCCTG	uc001hvy.1	+							NM_173508	NP_775779			solute carrier family 35, member F3						transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	234624057	234624057	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:234624057delT								TARBP1 (9208 upstream) : IRF2BP2 (115960 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	234629803	234629803	+	IGR	DEL	G	-	-	rs271756	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:234629803delG								TARBP1 (14954 upstream) : IRF2BP2 (110214 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	234631205	234631205	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:234631205delT								TARBP1 (16356 upstream) : IRF2BP2 (108812 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	235070968	235070968	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:235070968delA								IRF2BP2 (325697 upstream) : TOMM20 (201692 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	235122726	235122726	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:235122726delT								IRF2BP2 (377455 upstream) : TOMM20 (149934 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	235125963	235125963	+	IGR	DEL	A	-	-	rs34539869		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:235125963delA								IRF2BP2 (380692 upstream) : TOMM20 (146697 downstream)																																			---	---	---	---
RBM34	23029	broad.mit.edu	37	1	235311911	235311911	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:235311911delT	uc001hwn.2	-						RBM34_uc001hwo.2_Intron|ARID4B_uc001hwp.2_Intron	NM_015014	NP_055829			RNA binding motif protein 34 isoform 1							nucleolus	nucleotide binding|RNA binding			central_nervous_system(1)	1	Ovarian(103;0.0398)	all_cancers(173;0.177)|Prostate(94;0.0166)	OV - Ovarian serous cystadenocarcinoma(106;5.43e-05)|Epithelial(3;0.000121)															---	---	---	---
ARID4B	51742	broad.mit.edu	37	1	235462403	235462403	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:235462403delA	uc001hwq.2	-						ARID4B_uc001hwr.2_Intron|ARID4B_uc001hws.3_Intron|ARID4B_uc001hwu.1_Intron	NM_016374	NP_057458			AT rich interactive domain 4B isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)															---	---	---	---
TBCE	6905	broad.mit.edu	37	1	235531838	235531838	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:235531838delT	uc001hwz.1	+						TBCE_uc010pxq.1_Intron|TBCE_uc001hxa.1_Intron|TBCE_uc010pxr.1_Intron|TBCE_uc001hxb.1_Intron	NM_003193	NP_003184			beta-tubulin cofactor E						'de novo' posttranslational protein folding|post-chaperonin tubulin folding pathway	cytoplasm|microtubule|nucleus|plasma membrane	chaperone binding				0	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00192)|Prostate(94;0.0294)|all_epithelial(177;0.155)|Lung SC(1967;0.238)	OV - Ovarian serous cystadenocarcinoma(106;2.56e-05)															---	---	---	---
TBCE	6905	broad.mit.edu	37	1	235540283	235540285	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:235540283_235540285delAAA	uc001hwz.1	+						TBCE_uc010pxq.1_Intron|TBCE_uc001hxa.1_Intron|TBCE_uc010pxr.1_Intron|TBCE_uc001hxb.1_Intron	NM_003193	NP_003184			beta-tubulin cofactor E						'de novo' posttranslational protein folding|post-chaperonin tubulin folding pathway	cytoplasm|microtubule|nucleus|plasma membrane	chaperone binding				0	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00192)|Prostate(94;0.0294)|all_epithelial(177;0.155)|Lung SC(1967;0.238)	OV - Ovarian serous cystadenocarcinoma(106;2.56e-05)															---	---	---	---
TBCE	6905	broad.mit.edu	37	1	235609499	235609499	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:235609499delT	uc001hwz.1	+						TBCE_uc001hxa.1_Intron|TBCE_uc010pxr.1_Intron|TBCE_uc001hxb.1_Intron	NM_003193	NP_003184			beta-tubulin cofactor E						'de novo' posttranslational protein folding|post-chaperonin tubulin folding pathway	cytoplasm|microtubule|nucleus|plasma membrane	chaperone binding				0	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00192)|Prostate(94;0.0294)|all_epithelial(177;0.155)|Lung SC(1967;0.238)	OV - Ovarian serous cystadenocarcinoma(106;2.56e-05)															---	---	---	---
LYST	1130	broad.mit.edu	37	1	235865835	235865835	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:235865835delT	uc001hxj.2	-						LYST_uc001hxi.2_Intron	NM_000081	NP_000072			lysosomal trafficking regulator						defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)											Chediak-Higashi_syndrome				---	---	---	---
NID1	4811	broad.mit.edu	37	1	236160141	236160141	+	Intron	DEL	C	-	-	rs4660140	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236160141delC	uc001hxo.2	-						NID1_uc009xgd.2_Intron|NID1_uc009xgc.2_Intron	NM_002508	NP_002499			nidogen 1 precursor						cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)													---	---	---	---
NID1	4811	broad.mit.edu	37	1	236179457	236179458	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236179457_236179458delAA	uc001hxo.2	-						NID1_uc009xgd.2_Intron	NM_002508	NP_002499			nidogen 1 precursor						cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)													---	---	---	---
NID1	4811	broad.mit.edu	37	1	236200961	236200962	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236200961_236200962delAA	uc001hxo.2	-						NID1_uc009xgd.2_Intron	NM_002508	NP_002499			nidogen 1 precursor						cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)													---	---	---	---
LGALS8	3964	broad.mit.edu	37	1	236709484	236709485	+	Intron	INS	-	G	G	rs2794783	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236709484_236709485insG	uc001hxz.1	+						LGALS8_uc001hxw.1_Intron|LGALS8_uc001hxy.1_Intron|LGALS8_uc009xgg.1_Intron|LGALS8_uc001hya.1_Intron|LGALS8_uc001hyb.1_Intron|LGALS8_uc001hyc.1_Intron	NM_201543	NP_963837			galectin-8 isoform b							cytoplasm|extracellular space	sugar binding			ovary(1)	1	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.0253)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)															---	---	---	---
HEATR1	55127	broad.mit.edu	37	1	236765437	236765437	+	Intron	DEL	A	-	-	rs78349580		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236765437delA	uc001hyd.1	-							NM_018072	NP_060542			protein BAP28						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)															---	---	---	---
ACTN2	88	broad.mit.edu	37	1	236897870	236897871	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236897870_236897871insT	uc001hyf.2	+						ACTN2_uc001hyg.2_Intron|ACTN2_uc009xgi.1_Intron|ACTN2_uc010pxu.1_Intron	NM_001103	NP_001094			actinin, alpha 2						focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	238798303	238798303	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:238798303delT								LOC339535 (148986 upstream) : CHRM3 (751562 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	239479685	239479685	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:239479685delA								LOC339535 (830368 upstream) : CHRM3 (70180 downstream)																																			---	---	---	---
CHRM3	1131	broad.mit.edu	37	1	240062604	240062609	+	Intron	DEL	TGTGTA	-	-	rs71168861		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:240062604_240062609delTGTGTA	uc001hyp.2	+							NM_000740	NP_000731			cholinergic receptor, muscarinic 3						cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)													---	---	---	---
Unknown	0	broad.mit.edu	37	1	240213971	240213971	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:240213971delT								CHRM3 (141256 upstream) : FMN2 (41214 downstream)																																			---	---	---	---
RGS7	6000	broad.mit.edu	37	1	241388286	241388286	+	Intron	DEL	T	-	-	rs115924118	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241388286delT	uc001hyv.2	-						RGS7_uc001hyu.2_Intron|RGS7_uc009xgn.1_Intron|RGS7_uc001hyw.2_Intron	NM_002924	NP_002915			regulator of G-protein signaling 7						G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	241550822	241550822	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241550822delT								RGS7 (30344 upstream) : FH (110084 downstream)																																			---	---	---	---
FH	2271	broad.mit.edu	37	1	241674856	241674856	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241674856delT	uc001hyx.2	-							NM_000143	NP_000134			fumarate hydratase precursor						fumarate metabolic process|tricarboxylic acid cycle	cell junction|mitochondrial matrix|tricarboxylic acid cycle enzyme complex	fumarate hydratase activity			lung(3)|ovary(1)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;2.37e-314)|all_epithelial(177;5.17e-286)|Breast(1374;1.06e-10)|Acute lymphoblastic leukemia(190;4.93e-10)|all_neural(198;0.00118)	OV - Ovarian serous cystadenocarcinoma(106;0.0214)	Colorectal(1306;2.33e-53)|COAD - Colon adenocarcinoma(196;1.05e-44)|KIRC - Kidney renal clear cell carcinoma(1967;0.000109)				Mis|N|F			lieomyomatosis|renal			Hereditary_Leiomyomatosis_and_Renal_Cell_Cancer				---	---	---	---
MAP1LC3C	440738	broad.mit.edu	37	1	242159221	242159222	+	3'UTR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:242159221_242159222delAA	uc001hzk.2	-	4						NM_001004343	NP_001004343			microtubule-associated protein 1 light chain 3						autophagy	autophagic vacuole membrane|cytoplasmic vesicle|endomembrane system|microtubule	protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(106;0.0188)															---	---	---	---
PLD5	200150	broad.mit.edu	37	1	242292734	242292734	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:242292734delA	uc001hzn.1	-						PLD5_uc001hzl.3_Intron|PLD5_uc001hzm.3_Intron|PLD5_uc001hzo.1_Intron					RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;							integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)															---	---	---	---
PLD5	200150	broad.mit.edu	37	1	242518119	242518120	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:242518119_242518120delTT	uc001hzn.1	-						PLD5_uc001hzl.3_Intron|PLD5_uc001hzm.3_Intron|PLD5_uc001hzo.1_Intron					RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;							integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)															---	---	---	---
PLD5	200150	broad.mit.edu	37	1	242573870	242573870	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:242573870delT	uc001hzn.1	-						PLD5_uc001hzl.3_Intron|PLD5_uc001hzm.3_Intron|PLD5_uc001hzo.1_Intron					RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;							integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)															---	---	---	---
PLD5	200150	broad.mit.edu	37	1	242583776	242583776	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:242583776delA	uc001hzn.1	-						PLD5_uc001hzl.3_Intron|PLD5_uc001hzm.3_Intron|PLD5_uc001hzo.1_Intron					RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;							integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	243026963	243026963	+	IGR	DEL	A	-	-	rs35624208		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:243026963delA								PLD5 (338965 upstream) : CEP170 (260768 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	243267740	243267741	+	5'Flank	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:243267740_243267741delAA	uc001hzq.1	-											Homo sapiens cDNA FLJ52610 complete cds.																														---	---	---	---
SDCCAG8	10806	broad.mit.edu	37	1	243434124	243434126	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:243434124_243434126delTTT	uc001hzw.2	+						SDCCAG8_uc010pyk.1_Intron|SDCCAG8_uc010pyl.1_Intron	NM_006642	NP_006633			serologically defined colon cancer antigen 8						establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)														---	---	---	---
SDCCAG8	10806	broad.mit.edu	37	1	243662929	243662929	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:243662929delT	uc001hzw.2	+						SDCCAG8_uc010pyk.1_Intron|SDCCAG8_uc010pyl.1_Intron|SDCCAG8_uc001hzx.2_Intron|AKT3_uc001hzz.1_Intron	NM_006642	NP_006633			serologically defined colon cancer antigen 8						establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)														---	---	---	---
AKT3	10000	broad.mit.edu	37	1	243736114	243736114	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:243736114delT	uc001iab.1	-						AKT3_uc001hzz.1_Intron	NM_005465	NP_005456			AKT3 kinase isoform 1						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)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	244171042	244171042	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:244171042delA	uc001iac.2	+											Homo sapiens cDNA clone IMAGE:5244187.																														---	---	---	---
Unknown	0	broad.mit.edu	37	1	244478958	244478958	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:244478958delT								ZNF238 (258182 upstream) : C1orf100 (36979 downstream)																																			---	---	---	---
C1orf101	257044	broad.mit.edu	37	1	244796931	244796932	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:244796931_244796932delCA	uc001iam.2	+						C1orf101_uc001ial.2_Intron|C1orf101_uc010pym.1_Intron|C1orf101_uc010pyn.1_Intron	NM_001130957	NP_001124429			hypothetical protein LOC257044 isoform 1							integral to membrane				ovary(1)|breast(1)	2	all_cancers(71;2.99e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)		all cancers(7;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.001)|GBM - Glioblastoma multiforme(7;0.0154)															---	---	---	---
KIF26B	55083	broad.mit.edu	37	1	245433629	245433629	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:245433629delT	uc001ibf.1	+						KIF26B_uc010pyq.1_Intron	NM_018012	NP_060482			kinesin family member 26B						microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)															---	---	---	---
KIF26B	55083	broad.mit.edu	37	1	245650401	245650402	+	Intron	INS	-	G	G	rs144578649	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:245650401_245650402insG	uc001ibf.1	+						KIF26B_uc010pyq.1_Intron	NM_018012	NP_060482			kinesin family member 26B						microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)															---	---	---	---
KIF26B	55083	broad.mit.edu	37	1	245651618	245651619	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:245651618_245651619delAA	uc001ibf.1	+						KIF26B_uc010pyq.1_Intron	NM_018012	NP_060482			kinesin family member 26B						microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)															---	---	---	---
KIF26B	55083	broad.mit.edu	37	1	245780387	245780390	+	Intron	DEL	TTTG	-	-	rs72424266		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:245780387_245780390delTTTG	uc001ibf.1	+						KIF26B_uc010pyq.1_Intron|KIF26B_uc001ibg.1_Intron	NM_018012	NP_060482			kinesin family member 26B						microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)															---	---	---	---
SMYD3	64754	broad.mit.edu	37	1	245978149	245978150	+	Intron	DEL	CG	-	-	rs142947892	by1000genomes;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:245978149_245978150delCG	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)														---	---	---	---
SMYD3	64754	broad.mit.edu	37	1	246029666	246029666	+	Intron	DEL	T	-	-	rs66584281		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:246029666delT	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)														---	---	---	---
SMYD3	64754	broad.mit.edu	37	1	246071437	246071437	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:246071437delA	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)														---	---	---	---
SMYD3	64754	broad.mit.edu	37	1	246072861	246072861	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:246072861delT	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)														---	---	---	---
SMYD3	64754	broad.mit.edu	37	1	246076816	246076818	+	Intron	DEL	AAA	-	-	rs112251403		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:246076816_246076818delAAA	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)														---	---	---	---
SMYD3	64754	broad.mit.edu	37	1	246390916	246390917	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:246390916_246390917insA	uc001ibl.2	-						SMYD3_uc001ibk.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)														---	---	---	---
SMYD3	64754	broad.mit.edu	37	1	246652287	246652288	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:246652287_246652288delCT	uc001ibl.2	-							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)														---	---	---	---
TFB2M	64216	broad.mit.edu	37	1	246723397	246723397	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:246723397delT	uc001ibn.2	-						TFB2M_uc010pys.1_Intron	NM_022366	NP_071761			transcription factor B2, mitochondrial						positive regulation of transcription, DNA-dependent|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity|transcription cofactor activity			ovary(1)	1	all_cancers(71;4.25e-05)|all_epithelial(71;4.92e-06)|Ovarian(71;0.0254)|all_lung(81;0.0272)|Breast(184;0.0318)|Lung NSC(105;0.0376)		OV - Ovarian serous cystadenocarcinoma(106;0.00358)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	246870220	246870220	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:246870220delA								CNST (38337 upstream) : SCCPDH (17158 downstream)																																			---	---	---	---
AHCTF1	25909	broad.mit.edu	37	1	247058331	247058331	+	Intron	DEL	A	-	-	rs143797194		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247058331delA	uc001ibu.1	-						AHCTF1_uc001ibv.1_Intron|AHCTF1_uc009xgs.1_Intron	NM_015446	NP_056261			transcription factor ELYS						cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)															---	---	---	---
ZNF124	7678	broad.mit.edu	37	1	247291923	247291923	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247291923delT	uc001ici.2	-						uc001ich.2_Intron					Homo sapiens cDNA FLJ30085 fis, clone BGGI12001714, highly similar to Homo sapiens zinc finger protein 124 (HZF-16) (ZNF124), mRNA.						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	all_cancers(71;5.07e-05)|all_epithelial(71;8.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00739)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	248016211	248016236	+	IGR	DEL	ACACACACACAGAGAGAGAGAGAGAG	-	-	rs11272312	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248016211_248016236delACACACACACAGAGAGAGAGAGAGAG								OR11L1 (11013 upstream) : TRIM58 (4265 downstream)																																			---	---	---	---
TRIM58	25893	broad.mit.edu	37	1	248023727	248023728	+	Intron	INS	-	ACA	ACA	rs142315385	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248023727_248023728insACA	uc001ido.2	+							NM_015431	NP_056246			tripartite motif-containing 58							intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	248092398	248092398	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248092398delA								OR2T8 (7142 upstream) : OR2L13 (8095 downstream)																																			---	---	---	---
OR2L13	284521	broad.mit.edu	37	1	248156645	248156646	+	Intron	DEL	TT	-	-	rs71656346		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248156645_248156646delTT	uc001ids.2	+							NM_175911	NP_787107			olfactory receptor, family 2, subfamily L,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	248410082	248410083	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248410082_248410083insT								OR2M4 (6917 upstream) : OR2T33 (26072 downstream)																																			---	---	---	---
OR2T3	343173	broad.mit.edu	37	1	248636620	248636620	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248636620delT	uc001iel.1	+							NM_001005495	NP_001005495			olfactory receptor, family 2, subfamily T,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	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)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	248686202	248686202	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248686202delA								OR2G6 (304 upstream) : OR2T29 (35643 downstream)																																			---	---	---	---
OR2T35	403244	broad.mit.edu	37	1	248802733	248802735	+	5'Flank	DEL	ATG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248802733_248802735delATG	uc001ies.1	-							NM_001001827	NP_001001827			olfactory receptor, family 2, subfamily T,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;2.04e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.237)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)															---	---	---	---
Unknown	0	broad.mit.edu	37	1	248884204	248884204	+	IGR	DEL	A	-	-	rs140151617		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248884204delA								OR14I1 (38599 upstream) : LOC646627 (18514 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	355064	355065	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:355064_355065insT								FAM150B (66756 upstream) : TMEM18 (312910 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	413394	413394	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:413394delT								FAM150B (125086 upstream) : TMEM18 (254581 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	533930	533930	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:533930delT								FAM150B (245622 upstream) : TMEM18 (134045 downstream)																																			---	---	---	---
SNTG2	54221	broad.mit.edu	37	2	1098234	1098234	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1098234delG	uc002qwq.2	+						SNTG2_uc002qwp.2_Intron|SNTG2_uc010ewi.2_Intron	NM_018968	NP_061841			syntrophin, gamma 2						central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)														---	---	---	---
SNTG2	54221	broad.mit.edu	37	2	1156955	1156955	+	Intron	DEL	A	-	-	rs35378402		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1156955delA	uc002qwq.2	+						SNTG2_uc002qwp.2_RNA|SNTG2_uc010ewi.2_Intron	NM_018968	NP_061841			syntrophin, gamma 2						central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)														---	---	---	---
SNTG2	54221	broad.mit.edu	37	2	1247216	1247217	+	Intron	INS	-	C	C	rs140331411	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1247216_1247217insC	uc002qwq.2	+						SNTG2_uc010ewi.2_Intron	NM_018968	NP_061841			syntrophin, gamma 2						central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)														---	---	---	---
TPO	7173	broad.mit.edu	37	2	1526784	1526785	+	Intron	INS	-	C	C	rs141494697	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1526784_1526785insC	uc002qww.2	+						TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Intron|TPO_uc002qwr.2_Intron|TPO_uc002qwx.2_Intron|TPO_uc010yio.1_Intron|TPO_uc010yip.1_Intron|TPO_uc002qwy.1_Intron|TPO_uc002qwz.2_Intron	NM_000547	NP_000538			thyroid peroxidase isoform a						cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)													---	---	---	---
Unknown	0	broad.mit.edu	37	2	1601087	1601088	+	IGR	INS	-	CA	CA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1601087_1601088insCA								TPO (54589 upstream) : PXDN (34572 downstream)																																			---	---	---	---
MYT1L	23040	broad.mit.edu	37	2	1810910	1810910	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1810910delG	uc002qxe.2	-						MYT1L_uc002qxd.2_Intron|MYT1L_uc010ewk.2_Intron	NM_015025	NP_055840			myelin transcription factor 1-like						cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)														---	---	---	---
MYT1L	23040	broad.mit.edu	37	2	1812460	1812461	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1812460_1812461insG	uc002qxe.2	-						MYT1L_uc002qxd.2_Intron|MYT1L_uc010ewk.2_Intron	NM_015025	NP_055840			myelin transcription factor 1-like						cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)														---	---	---	---
MYT1L	23040	broad.mit.edu	37	2	1956473	1956474	+	Intron	INS	-	CC	CC	rs145016470	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1956473_1956474insCC	uc002qxe.2	-						MYT1L_uc002qxd.2_Intron	NM_015025	NP_055840			myelin transcription factor 1-like						cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)														---	---	---	---
MYT1L	23040	broad.mit.edu	37	2	2002661	2002661	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:2002661delA	uc002qxe.2	-						MYT1L_uc002qxd.2_Intron|MYT1L_uc002qxf.1_Intron	NM_015025	NP_055840			myelin transcription factor 1-like						cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)														---	---	---	---
MYT1L	23040	broad.mit.edu	37	2	2173403	2173403	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:2173403delT	uc002qxe.2	-						MYT1L_uc002qxd.2_Intron|MYT1L_uc002qxf.1_Intron	NM_015025	NP_055840			myelin transcription factor 1-like						cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	2351668	2351671	+	IGR	DEL	TGAA	-	-	rs148228910		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:2351668_2351671delTGAA								MYT1L (16623 upstream) : TSSC1 (841070 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	2626543	2626544	+	IGR	INS	-	TAA	TAA	rs148250808	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:2626543_2626544insTAA								MYT1L (291498 upstream) : TSSC1 (566197 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	2783807	2783807	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:2783807delC								MYT1L (448762 upstream) : TSSC1 (408934 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	2856715	2856728	+	IGR	DEL	CACACACATGCATA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:2856715_2856728delCACACACATGCATA								MYT1L (521670 upstream) : TSSC1 (336013 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	2956464	2956464	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:2956464delG	uc002qxh.1	-											Homo sapiens cDNA FLJ37991 fis, clone CTONG2011765.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	2974680	2974680	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:2974680delG	uc002qxh.1	-											Homo sapiens cDNA FLJ37991 fis, clone CTONG2011765.																														---	---	---	---
TSSC1	7260	broad.mit.edu	37	2	3203521	3203522	+	Intron	DEL	GT	-	-	rs5828969		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:3203521_3203522delGT	uc002qxj.2	-						TSSC1_uc002qxi.2_Intron	NM_003310	NP_003301			tumor suppressing subtransferable candidate 1								protein binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.212)		OV - Ovarian serous cystadenocarcinoma(76;0.00877)|Epithelial(75;0.0283)|all cancers(51;0.0464)														---	---	---	---
ALLC	55821	broad.mit.edu	37	2	3738545	3738545	+	Intron	DEL	T	-	-	rs149766139		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:3738545delT	uc010ewt.2	+							NM_018436	NP_060906			allantoicase isoform a								allantoicase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.088)	all_cancers(51;0.24)		OV - Ovarian serous cystadenocarcinoma(76;0.088)|all cancers(51;0.151)|Epithelial(75;0.206)											HNSCC(21;0.051)			---	---	---	---
Unknown	0	broad.mit.edu	37	2	3883341	3883341	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:3883341delT								ALLC (133083 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	3976690	3976690	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:3976690delA								ALLC (226432 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	4298036	4298036	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:4298036delT								ALLC (547778 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	4443506	4443506	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:4443506delA								ALLC (693248 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	5553690	5553691	+	IGR	DEL	AT	-	-	rs13403745	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:5553690_5553691delAT								None (None upstream) : SOX11 (279108 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	5556927	5556927	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:5556927delA								None (None upstream) : SOX11 (275872 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	6004638	6004638	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:6004638delA								SOX11 (163122 upstream) : LOC150622 (68181 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	6013383	6013383	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:6013383delT								SOX11 (171867 upstream) : LOC150622 (59436 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	6695605	6695606	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:6695605_6695606delTG								LOC400940 (567241 upstream) : CMPK2 (284897 downstream)																																			---	---	---	---
RNF144A	9781	broad.mit.edu	37	2	7126382	7126383	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:7126382_7126383delTT	uc002qys.2	+						RNF144A_uc002qyt.2_Intron	NM_014746	NP_055561			ring finger protein 144							Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	7329647	7329648	+	IGR	DEL	GT	-	-	rs141278773		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:7329647_7329648delGT								RNF144A (145340 upstream) : LOC339788 (732910 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	7379711	7379711	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:7379711delT								RNF144A (195404 upstream) : LOC339788 (682847 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	7385207	7385210	+	IGR	DEL	CCCC	-	-	rs10549174		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:7385207_7385210delCCCC								RNF144A (200900 upstream) : LOC339788 (677348 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	7709472	7709474	+	IGR	DEL	AAA	-	-	rs71402861		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:7709472_7709474delAAA								RNF144A (525165 upstream) : LOC339788 (353084 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	7736393	7736394	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:7736393_7736394insA								RNF144A (552086 upstream) : LOC339788 (326164 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	8380381	8380381	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:8380381delT	uc010eww.1	-						uc002qyy.1_Intron					Homo sapiens cDNA FLJ45673 fis, clone D9OST2003989.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	8783444	8783444	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:8783444delT								LOC339788 (666467 upstream) : ID2 (35896 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	8792676	8792676	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:8792676delA								LOC339788 (675699 upstream) : ID2 (26664 downstream)																																			---	---	---	---
MBOAT2	129642	broad.mit.edu	37	2	9022748	9022748	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9022748delT	uc002qzg.1	-						MBOAT2_uc010yix.1_Intron	NM_138799	NP_620154			O-acyltransferase (membrane bound) domain						phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
Unknown	0	broad.mit.edu	37	2	9248748	9248748	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9248748delA								MBOAT2 (104872 upstream) : ASAP2 (98146 downstream)																																			---	---	---	---
ASAP2	8853	broad.mit.edu	37	2	9510271	9510271	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9510271delT	uc002qzh.2	+						ASAP2_uc002qzi.2_Intron	NM_003887	NP_003878			ArfGAP with SH3 domain, ankyrin repeat and PH						regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	9714581	9714582	+	IGR	INS	-	T	T	rs113142589		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9714581_9714582insT								ADAM17 (18664 upstream) : YWHAQ (9525 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	9930029	9930030	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9930029_9930030delCT								YWHAQ (158923 upstream) : TAF1B (53541 downstream)																																			---	---	---	---
TAF1B	9014	broad.mit.edu	37	2	9991514	9991514	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9991514delA	uc002qzz.2	+						TAF1B_uc010exc.2_Intron|TAF1B_uc002qzy.3_Intron|TAF1B_uc010yja.1_Intron|TAF1B_uc010exd.2_Intron	NM_005680	NP_005671			TBP-associated factor 1B						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)																	---	---	---	---
TAF1B	9014	broad.mit.edu	37	2	10069272	10069274	+	Intron	DEL	TTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:10069272_10069274delTTG	uc002qzz.2	+						TAF1B_uc010yja.1_Intron|TAF1B_uc010exd.2_Intron	NM_005680	NP_005671			TBP-associated factor 1B						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)																	---	---	---	---
Unknown	0	broad.mit.edu	37	2	10256870	10256870	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:10256870delA								CYS1 (36332 upstream) : RRM2 (5865 downstream)																																			---	---	---	---
C2orf48	348738	broad.mit.edu	37	2	10330561	10330562	+	Intron	INS	-	TGA	TGA	rs144532626	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:10330561_10330562insTGA	uc002rai.1	+							NM_182626	NP_872432			hypothetical protein LOC348738												0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.188)														---	---	---	---
HPCAL1	3241	broad.mit.edu	37	2	10547662	10547664	+	Intron	DEL	AGG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:10547662_10547664delAGG	uc002raj.2	+						HPCAL1_uc002rak.2_Intron|HPCAL1_uc002ral.2_Intron|HPCAL1_uc010exe.2_Intron|HPCAL1_uc010exf.2_Intron	NM_002149	NP_002140			hippocalcin-like 1								calcium ion binding			pancreas(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.214)														---	---	---	---
NOL10	79954	broad.mit.edu	37	2	10738691	10738693	+	Intron	DEL	AAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:10738691_10738693delAAG	uc002raq.2	-						NOL10_uc010yje.1_Intron|NOL10_uc010yjf.1_Intron|NOL10_uc002rap.2_Intron	NM_024894	NP_079170			nucleolar protein 10							nucleolus					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.207)														---	---	---	---
NOL10	79954	broad.mit.edu	37	2	10747299	10747299	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:10747299delT	uc002raq.2	-						NOL10_uc010yje.1_Intron|NOL10_uc010yjf.1_Intron|NOL10_uc002rap.2_Intron	NM_024894	NP_079170			nucleolar protein 10							nucleolus					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.207)														---	---	---	---
ROCK2	9475	broad.mit.edu	37	2	11410579	11410579	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:11410579delT	uc002rbd.1	-							NM_004850	NP_004841			Rho-associated, coiled-coil containing protein						axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	11564574	11564577	+	IGR	DEL	TTTT	-	-	rs77627680		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:11564574_11564577delTTTT								ROCK2 (79863 upstream) : E2F6 (19925 downstream)																																			---	---	---	---
LPIN1	23175	broad.mit.edu	37	2	11880644	11880644	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:11880644delA	uc010yjn.1	+						LPIN1_uc010yjm.1_Intron|LPIN1_uc002rbs.2_Intron|LPIN1_uc010exi.1_5'Flank	NM_145693	NP_663731			lipin 1						fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	12573374	12573374	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:12573374delT	uc002rbu.1	+											Homo sapiens cDNA FLJ10696 fis, clone NT2RP3000484.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	12723440	12723440	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:12723440delA								LPIN1 (755909 upstream) : TRIB2 (133558 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	12978592	12978593	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:12978592_12978593insT								TRIB2 (95736 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	13257557	13257557	+	IGR	DEL	T	-	-	rs11292154		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:13257557delT								TRIB2 (374701 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	14096217	14096218	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:14096217_14096218insT								None (None upstream) : FAM84A (676638 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	14151874	14151874	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:14151874delA								None (None upstream) : FAM84A (620982 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	14400664	14400664	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:14400664delT	uc002rby.2	-											Homo sapiens cDNA clone IMAGE:5263003.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	14586244	14586244	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:14586244delT								None (None upstream) : FAM84A (186612 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	14886813	14886814	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:14886813_14886814delAC								FAM84A (95880 upstream) : NBAS (420218 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	14969165	14969167	+	IGR	DEL	TTT	-	-	rs74660298		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:14969165_14969167delTTT								FAM84A (178232 upstream) : NBAS (337865 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	15112177	15112177	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:15112177delA								FAM84A (321244 upstream) : NBAS (194855 downstream)																																			---	---	---	---
NBAS	51594	broad.mit.edu	37	2	15351699	15351699	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:15351699delT	uc002rcc.1	-						NBAS_uc002rcb.1_Intron|NBAS_uc010exl.1_Intron|NBAS_uc002rcd.1_Intron	NM_015909	NP_056993			neuroblastoma-amplified protein											ovary(2)|liver(1)|skin(1)	4																		---	---	---	---
NBAS	51594	broad.mit.edu	37	2	15519321	15519321	+	Intron	DEL	T	-	-	rs5829503		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:15519321delT	uc002rcc.1	-						NBAS_uc010exl.1_Intron|NBAS_uc002rcd.1_Intron	NM_015909	NP_056993			neuroblastoma-amplified protein											ovary(2)|liver(1)|skin(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	15723613	15723613	+	IGR	DEL	A	-	-	rs8179720		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:15723613delA								NBAS (22159 upstream) : DDX1 (8157 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	15796683	15796683	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:15796683delT								DDX1 (25459 upstream) : MYCNOS (283337 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	16116891	16116891	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:16116891delT								MYCN (29763 upstream) : FAM49A (617010 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	16182361	16182361	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:16182361delT								MYCN (95233 upstream) : FAM49A (551540 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	16711812	16711812	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:16711812delA								MYCN (624684 upstream) : FAM49A (22089 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	16938622	16938623	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:16938622_16938623insG								FAM49A (91526 upstream) : RAD51AP2 (753363 downstream)																																	OREG0014457	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	2	16951689	16951689	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:16951689delT								FAM49A (104593 upstream) : RAD51AP2 (740297 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	17051711	17051711	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:17051711delA								FAM49A (204615 upstream) : RAD51AP2 (640275 downstream)																																			---	---	---	---
SMC6	79677	broad.mit.edu	37	2	17940858	17940858	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:17940858delT	uc010exo.2	-						GEN1_uc002rct.2_Intron|GEN1_uc010yjs.1_Intron|GEN1_uc002rcu.2_Intron	NM_024624	NP_078900			SMC6 protein						DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)																	---	---	---	---
Unknown	0	broad.mit.edu	37	2	18510879	18510879	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:18510879delT								KCNS3 (396655 upstream) : NT5C1B (225112 downstream)																																			---	---	---	---
NT5C1B	93034	broad.mit.edu	37	2	18757698	18757698	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:18757698delA	uc002rcz.2	-						NT5C1B_uc002rcy.2_Intron|NT5C1B_uc010exr.2_Intron|NT5C1B_uc010yju.1_Intron|NT5C1B_uc002rda.2_Intron|NT5C1B_uc010yjv.1_Intron|NT5C1B_uc010yjw.1_Intron|NT5C1B_uc010exs.2_Intron	NM_001002006	NP_001002006			5' nucleotidase, cytosolic IB isoform 1						purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)																---	---	---	---
Unknown	0	broad.mit.edu	37	2	18842407	18842407	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:18842407delA								NT5C1B (71569 upstream) : OSR1 (708840 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	19017574	19017574	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:19017574delA								NT5C1B (246736 upstream) : OSR1 (533673 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	19126507	19126507	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:19126507delT								NT5C1B (355669 upstream) : OSR1 (424740 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	19607986	19607986	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:19607986delA								OSR1 (49614 upstream) : TTC32 (488532 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	20001432	20001432	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20001432delT								OSR1 (443060 upstream) : TTC32 (95086 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	20088331	20088331	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20088331delG								OSR1 (529959 upstream) : TTC32 (8187 downstream)																																			---	---	---	---
WDR35	57539	broad.mit.edu	37	2	20179314	20179314	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20179314delA	uc002rdi.2	-						WDR35_uc002rdj.2_Intron|WDR35_uc010ext.2_Intron	NM_001006657	NP_001006658			WD repeat domain 35 isoform 1											ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
Unknown	0	broad.mit.edu	37	2	20366739	20366744	+	IGR	DEL	GTGTGT	-	-	rs10558225		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20366739_20366744delGTGTGT								LAPTM4A (114950 upstream) : SDC1 (33814 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	20380766	20380766	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20380766delT								LAPTM4A (128977 upstream) : SDC1 (19792 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	20398688	20398688	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20398688delC								LAPTM4A (146899 upstream) : SDC1 (1870 downstream)																																			---	---	---	---
SDC1	6382	broad.mit.edu	37	2	20426512	20426512	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20426512delT	uc002rdo.1	-						SDC1_uc002rdp.1_5'Flank|SDC1_uc010exv.2_5'Flank	NM_002997	NP_002988			syndecan 1 precursor						lipid metabolic process|lipoprotein metabolic process|myoblast development|striated muscle cell development	cytoplasm|extracellular region|focal adhesion|integral to plasma membrane	cytoskeletal protein binding|protein C-terminus binding			ovary(4)|skin(1)	5	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)			OV - Ovarian serous cystadenocarcinoma(76;0.221)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	21190287	21190288	+	IGR	INS	-	CGCC	CGCC	rs35695820	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:21190287_21190288insCGCC								C2orf43 (167460 upstream) : APOB (34014 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	21344018	21344018	+	IGR	DEL	A	-	-	rs74617647		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:21344018delA								APOB (77073 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	21707221	21707221	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:21707221delA								APOB (440276 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	21910579	21910579	+	RNA	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:21910579delG	uc002ree.1	-	3		c.1825delC								Homo sapiens cDNA FLJ33301 fis, clone BNGH42002244.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	21974405	21974405	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:21974405delT								APOB (707460 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	21978402	21978404	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:21978402_21978404delAAA								APOB (711457 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	21983045	21983045	+	IGR	DEL	T	-	-	rs78649835		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:21983045delT								APOB (716100 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	22002119	22002119	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:22002119delA								APOB (735174 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	22238375	22238378	+	IGR	DEL	TTTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:22238375_22238378delTTTG								APOB (971430 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	22333528	22333529	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:22333528_22333529delCA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	22513784	22513784	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:22513784delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	22712216	22712216	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:22712216delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	22712845	22712847	+	IGR	DEL	AAC	-	-	rs67203836		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:22712845_22712847delAAC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	23420413	23420413	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:23420413delG								None (None upstream) : KLHL29 (335042 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	23611193	23611194	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:23611193_23611194insT								None (None upstream) : KLHL29 (144261 downstream)																																			---	---	---	---
LOC375190	375190	broad.mit.edu	37	2	24351792	24351794	+	Intron	DEL	TTT	-	-	rs71397407		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:24351792_24351794delTTT	uc010ykl.1	+						LOC375190_uc002rew.2_Intron|LOC375190_uc002rfb.2_Intron	NM_001145710	NP_001139182			hypothetical protein LOC375190												0																		---	---	---	---
C2orf84	653140	broad.mit.edu	37	2	24410487	24410487	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:24410487delT	uc002rfc.2	+						C2orf84_uc010eyc.2_Intron	NM_001040710	NP_001035800			hypothetical protein LOC653140												0																		---	---	---	---
ITSN2	50618	broad.mit.edu	37	2	24562921	24562921	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:24562921delA	uc002rfe.2	-						ITSN2_uc002rff.2_Intron|ITSN2_uc002rfg.2_Intron|ITSN2_uc010eyd.2_Intron	NM_006277	NP_006268			intersectin 2 isoform 1						endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
Unknown	0	broad.mit.edu	37	2	24594676	24594676	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:24594676delT								ITSN2 (11279 upstream) : NCOA1 (192503 downstream)																																			---	---	---	---
ADCY3	109	broad.mit.edu	37	2	25119338	25119338	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:25119338delT	uc002rfs.3	-						ADCY3_uc010ykm.1_Intron	NM_004036	NP_004027			adenylate cyclase 3						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|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)																	---	---	---	---
Unknown	0	broad.mit.edu	37	2	25382040	25382040	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:25382040delT								EFR3B (37 upstream) : POMC (1682 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	25409962	25409962	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:25409962delT								POMC (18403 upstream) : DNMT3A (45884 downstream)																																			---	---	---	---
DNMT3A	1788	broad.mit.edu	37	2	25513026	25513026	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:25513026delT	uc002rgc.2	-						DNMT3A_uc002rgd.2_Intron|DNMT3A_uc010eyi.2_Intron|DNMT3A_uc002rge.2_Intron|DNMT3A_uc002rgf.2_Intron	NM_022552	NP_072046			DNA cytosine methyltransferase 3 alpha isoform						regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)							Mis|F|N|S		AML								---	---	---	---
Unknown	0	broad.mit.edu	37	2	25936129	25936132	+	IGR	DEL	AAAG	-	-	rs140387905	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:25936129_25936132delAAAG								DTNB (39626 upstream) : ASXL2 (26121 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	26104699	26104702	+	IGR	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26104699_26104702delAAAA								ASXL2 (3387 upstream) : KIF3C (44753 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	26229712	26229712	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26229712delA								KIF3C (24269 upstream) : RAB10 (27017 downstream)																																			---	---	---	---
HADHA	3030	broad.mit.edu	37	2	26423952	26423952	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26423952delA	uc002rgy.2	-						HADHA_uc010yks.1_Intron	NM_000182	NP_000173			mitochondrial trifunctional protein, alpha						fatty acid beta-oxidation	fatty acid beta-oxidation multienzyme complex|mitochondrial nucleoid|nucleolus	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acetyltransferase activity|coenzyme binding|enoyl-CoA hydratase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				NADH(DB00157)													---	---	---	---
HADHB	3032	broad.mit.edu	37	2	26503128	26503128	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26503128delA	uc002rgz.2	+						HADHB_uc010ykv.1_Intron|HADHB_uc010ykw.1_Intron|HADHB_uc002rha.2_Intron|HADHB_uc010ykx.1_Intron	NM_000183	NP_000174			mitochondrial trifunctional protein, beta						fatty acid beta-oxidation	mitochondrial nucleoid	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acyltransferase activity|enoyl-CoA hydratase activity|protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
GPR113	165082	broad.mit.edu	37	2	26561226	26561227	+	Intron	INS	-	AG	AG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26561226_26561227insAG	uc010eyk.1	-						GPR113_uc002rhb.1_Intron|GPR113_uc002rhc.1_Intron|GPR113_uc002rhd.1_Intron	NM_153835	NP_722577			G-protein coupled receptor 113 isoform 3						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
C2orf39	92749	broad.mit.edu	37	2	26658996	26658997	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26658996_26658997delTT	uc002rhg.2	+						C2orf39_uc010eym.1_Intron	NM_145038	NP_659475			hypothetical protein LOC92749												0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
Unknown	0	broad.mit.edu	37	2	27051726	27051726	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27051726delA								CENPA (27794 upstream) : DPYSL5 (19243 downstream)																																			---	---	---	---
DPYSL5	56896	broad.mit.edu	37	2	27089337	27089338	+	Intron	INS	-	AC	AC	rs139673799	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27089337_27089338insAC	uc002rhu.3	+						DPYSL5_uc002rhv.3_Intron	NM_020134	NP_064519			dihydropyrimidinase-like 5						axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
DPYSL5	56896	broad.mit.edu	37	2	27153096	27153100	+	Intron	DEL	AGAGC	-	-	rs66712914		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27153096_27153100delAGAGC	uc002rhu.3	+						DPYSL5_uc002rhv.3_Intron	NM_020134	NP_064519			dihydropyrimidinase-like 5						axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
C2orf53	339779	broad.mit.edu	37	2	27359878	27359878	+	3'UTR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27359878delG	uc002rjb.2	-	3					PREB_uc002rix.1_5'Flank|PREB_uc002riy.1_5'Flank|PREB_uc002riz.1_5'Flank|PREB_uc002rja.1_5'Flank	NM_178553	NP_848648			hypothetical protein LOC339779												0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
GTF3C2	2976	broad.mit.edu	37	2	27556385	27556386	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27556385_27556386delTT	uc002rjv.1	-						GTF3C2_uc010eyy.1_Intron|GTF3C2_uc002rju.1_Intron|GTF3C2_uc002rjw.1_Intron|uc002rjy.1_5'Flank	NM_001521	NP_001512			general transcription factor IIIC, polypeptide							transcription factor TFIIIC complex				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
ZNF512	84450	broad.mit.edu	37	2	27842500	27842501	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27842500_27842501delTT	uc002rla.2	+						ZNF512_uc010ylv.1_Intron|ZNF512_uc010ylw.1_Intron|ZNF512_uc002rlb.2_Intron|ZNF512_uc010ylx.1_Intron|ZNF512_uc002rlc.2_Intron|ZNF512_uc010yly.1_Intron|ZNF512_uc010ylz.1_Intron	NM_032434	NP_115810			zinc finger protein 512						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
Unknown	0	broad.mit.edu	37	2	27923717	27923717	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27923717delT								SLC4A1AP (5871 upstream) : MRPL33 (70867 downstream)																																			---	---	---	---
RBKS	64080	broad.mit.edu	37	2	28039472	28039472	+	Intron	DEL	G	-	-	rs4493211	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:28039472delG	uc002rlo.1	-						RBKS_uc010ezi.1_Intron|RBKS_uc010ymg.1_Intron	NM_022128	NP_071411			ribokinase						D-ribose metabolic process		ATP binding|ribokinase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
RBKS	64080	broad.mit.edu	37	2	28086900	28086900	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:28086900delT	uc002rlo.1	-						RBKS_uc010ezi.1_Intron|RBKS_uc010ymg.1_Intron	NM_022128	NP_071411			ribokinase						D-ribose metabolic process		ATP binding|ribokinase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
BRE	9577	broad.mit.edu	37	2	28118013	28118013	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:28118013delA	uc002rlr.2	+						BRE_uc002rlp.1_Intron|BRE_uc002rlq.2_Intron|BRE_uc002rls.2_Intron|BRE_uc002rlt.2_Intron|BRE_uc002rlu.2_Intron	NM_199194	NP_954664			brain and reproductive organ-expressed (TNFRSF1A						apoptosis|chromatin modification|double-strand break repair|G2/M transition DNA damage checkpoint|positive regulation of anti-apoptosis|positive regulation of DNA repair|response to ionizing radiation|signal transduction	BRCA1-A complex|BRISC complex|cytoplasm|nuclear ubiquitin ligase complex	peroxisome targeting sequence binding|polyubiquitin binding|tumor necrosis factor receptor binding			lung(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
BRE	9577	broad.mit.edu	37	2	28518370	28518370	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:28518370delT	uc002rlr.2	+						BRE_uc002rlp.1_Intron|BRE_uc002rlq.2_Intron|BRE_uc002rls.2_Intron|BRE_uc002rlt.2_Intron|BRE_uc002rlu.2_Intron|BRE_uc002rlv.2_Intron|BRE_uc002rlx.2_5'Flank	NM_199194	NP_954664			brain and reproductive organ-expressed (TNFRSF1A						apoptosis|chromatin modification|double-strand break repair|G2/M transition DNA damage checkpoint|positive regulation of anti-apoptosis|positive regulation of DNA repair|response to ionizing radiation|signal transduction	BRCA1-A complex|BRISC complex|cytoplasm|nuclear ubiquitin ligase complex	peroxisome targeting sequence binding|polyubiquitin binding|tumor necrosis factor receptor binding			lung(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
PLB1	151056	broad.mit.edu	37	2	28754772	28754772	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:28754772delA	uc002rmb.1	+						PLB1_uc010ezj.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)																	---	---	---	---
Unknown	0	broad.mit.edu	37	2	28925866	28925866	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:28925866delG								PLB1 (59253 upstream) : PPP1CB (48746 downstream)																																			---	---	---	---
SPDYA	245711	broad.mit.edu	37	2	29028321	29028322	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:29028321_29028322delTT	uc002rmi.2	+							NM_001008779	NP_001008779			speedy homolog A isoform 2						G1/S transition of mitotic cell cycle|multicellular organismal development|positive regulation of cell proliferation|response to DNA damage stimulus	nucleus	protein kinase binding			upper_aerodigestive_tract(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
SPDYA	245711	broad.mit.edu	37	2	29070448	29070448	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:29070448delA	uc002rmj.2	+						SPDYA_uc002rmk.2_Intron	NM_182756	NP_877433			speedy homolog A isoform 1						G1/S transition of mitotic cell cycle|multicellular organismal development|positive regulation of cell proliferation|response to DNA damage stimulus	nucleus	protein kinase binding			upper_aerodigestive_tract(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
WDR43	23160	broad.mit.edu	37	2	29149283	29149283	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:29149283delT	uc002rmo.2	+						SNORD53_uc002rmq.1_5'Flank	NM_015131	NP_055946			WD repeat domain 43							nucleolus				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
CLIP4	79745	broad.mit.edu	37	2	29325498	29325498	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:29325498delT	uc002rmu.2	+							NM_024692	NP_078968			CAP-GLY domain containing linker protein family,											ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
ALK	238	broad.mit.edu	37	2	29688560	29688560	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:29688560delA	uc002rmy.2	-							NM_004304	NP_004295			anaplastic lymphoma kinase precursor						protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				---	---	---	---
ALK	238	broad.mit.edu	37	2	29994401	29994401	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:29994401delT	uc002rmy.2	-							NM_004304	NP_004295			anaplastic lymphoma kinase precursor						protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				---	---	---	---
ALK	238	broad.mit.edu	37	2	30105856	30105856	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:30105856delA	uc002rmy.2	-							NM_004304	NP_004295			anaplastic lymphoma kinase precursor						protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	2	30340929	30340930	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:30340929_30340930delTT								ALK (196497 upstream) : YPEL5 (28820 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	30404411	30404411	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:30404411delT								YPEL5 (21013 upstream) : LBH (49986 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	30537956	30537956	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:30537956delA								LBH (55057 upstream) : LCLAT1 (132167 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	30876365	30876366	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:30876365_30876366insT								LCLAT1 (9275 upstream) : CAPN13 (69274 downstream)																																			---	---	---	---
EHD3	30845	broad.mit.edu	37	2	31470700	31470700	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:31470700delA	uc002rnu.2	+						EHD3_uc010ymt.1_Intron	NM_014600	NP_055415			EH-domain containing 3						blood coagulation|endocytic recycling|protein homooligomerization	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
XDH	7498	broad.mit.edu	37	2	31596481	31596482	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:31596481_31596482delAA	uc002rnv.1	-							NM_000379	NP_000370			xanthine dehydrogenase						purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)													---	---	---	---
MEMO1	51072	broad.mit.edu	37	2	32229996	32229997	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:32229996_32229997delAA	uc002rnx.2	-						MEMO1_uc010ymu.1_Intron|MEMO1_uc010ezq.2_Intron|MEMO1_uc002rny.2_Intron|MEMO1_uc002rnz.2_Intron|MEMO1_uc010ymv.1_Intron	NM_015955	NP_057039			mediator of cell motility 1 isoform 1						regulation of microtubule-based process	cytosol|nucleus				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
SLC30A6	55676	broad.mit.edu	37	2	32400549	32400549	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:32400549delA	uc002roe.1	+						SLC30A6_uc002rof.1_Intron|SLC30A6_uc010ymw.1_Intron|SLC30A6_uc010ezr.1_Intron|SLC30A6_uc002rog.1_Intron|SLC30A6_uc010ezs.1_Intron|SLC30A6_uc002roh.1_Intron	NM_017964	NP_060434			solute carrier family 30 (zinc transporter),							Golgi membrane|integral to membrane	zinc ion transmembrane transporter activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)																	---	---	---	---
BIRC6	57448	broad.mit.edu	37	2	32794979	32794979	+	Intron	DEL	T	-	-	rs77910294		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:32794979delT	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)																	---	---	---	---
TTC27	55622	broad.mit.edu	37	2	32881164	32881164	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:32881164delT	uc002rom.2	+						TTC27_uc010ymx.1_Intron	NM_017735	NP_060205			tetratricopeptide repeat domain 27								protein binding			central_nervous_system(1)	1																		---	---	---	---
LTBP1	4052	broad.mit.edu	37	2	33188438	33188438	+	Intron	DEL	T	-	-	rs71965385		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:33188438delT	uc002ros.2	+							NM_206943	NP_996826			latent transforming growth factor beta binding						negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)																---	---	---	---
LTBP1	4052	broad.mit.edu	37	2	33300151	33300151	+	Intron	DEL	A	-	-	rs77656883		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:33300151delA	uc002ros.2	+							NM_206943	NP_996826			latent transforming growth factor beta binding						negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)																---	---	---	---
LTBP1	4052	broad.mit.edu	37	2	33350530	33350530	+	Intron	DEL	A	-	-	rs218203	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:33350530delA	uc002ros.2	+							NM_206943	NP_996826			latent transforming growth factor beta binding						negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)																---	---	---	---
LTBP1	4052	broad.mit.edu	37	2	33623811	33623811	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:33623811delA	uc002ros.2	+	34					LTBP1_uc002rot.2_3'UTR|LTBP1_uc002rou.2_3'UTR|LTBP1_uc002rov.2_3'UTR|LTBP1_uc010ymz.1_3'UTR|LTBP1_uc010yna.1_3'UTR|LTBP1_uc010ynb.1_3'UTR	NM_206943	NP_996826			latent transforming growth factor beta binding						negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)																---	---	---	---
RASGRP3	25780	broad.mit.edu	37	2	33711559	33711560	+	Intron	INS	-	T	T	rs138978285	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:33711559_33711560insT	uc002rox.2	+						RASGRP3_uc010ync.1_Intron	NM_170672	NP_733772			RAS guanyl releasing protein 3 (calcium and						MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)																	---	---	---	---
RASGRP3	25780	broad.mit.edu	37	2	33755156	33755156	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:33755156delT	uc002rox.2	+						RASGRP3_uc010ync.1_Intron|RASGRP3_uc002roy.2_Intron	NM_170672	NP_733772			RAS guanyl releasing protein 3 (calcium and						MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)																	---	---	---	---
RASGRP3	25780	broad.mit.edu	37	2	33788249	33788249	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:33788249delT	uc002rox.2	+	19					RASGRP3_uc010ync.1_3'UTR|RASGRP3_uc002roy.2_3'UTR	NM_170672	NP_733772			RAS guanyl releasing protein 3 (calcium and						MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)																	---	---	---	---
Unknown	0	broad.mit.edu	37	2	33827813	33827813	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:33827813delT								FAM98A (3451 upstream) : MYADML (123319 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	34365616	34365616	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:34365616delT								MYADML (412332 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	34576710	34576710	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:34576710delA								MYADML (623426 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	34769838	34769838	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:34769838delT								MYADML (816554 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	34790695	34790695	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:34790695delC								MYADML (837411 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	34950658	34950658	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:34950658delT								MYADML (997374 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	35000366	35000366	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:35000366delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	35081913	35081913	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:35081913delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	36032993	36032993	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:36032993delA								None (None upstream) : CRIM1 (550404 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	36436298	36436298	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:36436298delT								None (None upstream) : CRIM1 (147099 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	36502452	36502452	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:36502452delA								None (None upstream) : CRIM1 (80945 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	36536478	36536479	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:36536478_36536479delAA								None (None upstream) : CRIM1 (46918 downstream)																																			---	---	---	---
CRIM1	51232	broad.mit.edu	37	2	36625414	36625415	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:36625414_36625415delCT	uc002rpd.2	+							NM_016441	NP_057525			cysteine-rich motor neuron 1 precursor						nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)																---	---	---	---
CRIM1	51232	broad.mit.edu	37	2	36654344	36654346	+	Intron	DEL	AAA	-	-	rs78890325		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:36654344_36654346delAAA	uc002rpd.2	+							NM_016441	NP_057525			cysteine-rich motor neuron 1 precursor						nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)																---	---	---	---
CRIM1	51232	broad.mit.edu	37	2	36662629	36662629	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:36662629delT	uc002rpd.2	+							NM_016441	NP_057525			cysteine-rich motor neuron 1 precursor						nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)																---	---	---	---
CRIM1	51232	broad.mit.edu	37	2	36751579	36751579	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:36751579delT	uc002rpd.2	+							NM_016441	NP_057525			cysteine-rich motor neuron 1 precursor						nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)																---	---	---	---
STRN	6801	broad.mit.edu	37	2	37111968	37111968	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37111968delA	uc002rpn.2	-						STRN_uc010ezx.2_Intron	NM_003162	NP_003153			striatin, calmodulin binding protein						dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)																---	---	---	---
HEATR5B	54497	broad.mit.edu	37	2	37208450	37208450	+	3'UTR	DEL	A	-	-	rs76340546		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37208450delA	uc002rpp.1	-	36					HEATR5B_uc002rpo.1_3'UTR|HEATR5B_uc010ezy.1_3'UTR	NM_019024	NP_061897			HEAT repeat containing 5B								binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)																---	---	---	---
SULT6B1	391365	broad.mit.edu	37	2	37409397	37409399	+	Intron	DEL	TTT	-	-	rs67030592		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37409397_37409399delTTT	uc002rpu.2	-						SULT6B1_uc010yni.1_Intron	NM_001032377	NP_001027549			sulfotransferase family, cytosolic, 6B, member							cytoplasm	sulfotransferase activity			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(82;0.248)																---	---	---	---
SULT6B1	391365	broad.mit.edu	37	2	37421322	37421322	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37421322delT	uc002rpv.2	-						SULT6B1_uc010fae.1_Intron|SULT6B1_uc010faf.1_Intron|SULT6B1_uc002rpw.2_Intron|SULT6B1_uc010fag.1_Intron|uc002rpx.1_5'Flank					Homo sapiens sulfotransferase SULT6B1 (SULT6B1) mRNA, partial 5'UTR; alternate transcript.							cytoplasm	sulfotransferase activity			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(82;0.248)																---	---	---	---
CEBPZ	10153	broad.mit.edu	37	2	37438026	37438027	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37438026_37438027insC	uc002rpz.2	-							NM_005760	NP_005751			CCAAT/enhancer binding protein zeta						regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)																---	---	---	---
PRKD3	23683	broad.mit.edu	37	2	37497638	37497638	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37497638delT	uc002rqd.2	-						PRKD3_uc002rqe.1_Intron|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)																---	---	---	---
CDC42EP3	10602	broad.mit.edu	37	2	37878277	37878277	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37878277delA	uc002rqi.1	-							NM_006449	NP_006440			Cdc42 effector protein 3						regulation of cell shape|signal transduction	actin cytoskeleton|cytoplasm|endomembrane system|membrane	cytoskeletal regulatory protein binding				0		all_hematologic(82;0.172)																---	---	---	---
Unknown	0	broad.mit.edu	37	2	37920246	37920246	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37920246delA								CDC42EP3 (20920 upstream) : FAM82A1 (232216 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	37943605	37943606	+	IGR	INS	-	T	T	rs144127788	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37943605_37943606insT								CDC42EP3 (44279 upstream) : FAM82A1 (208856 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	38328302	38328302	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38328302delT								CYP1B1 (24979 upstream) : C2orf58 (29945 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	38456196	38456197	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38456196_38456197delAA								C2orf58 (47205 upstream) : ATL2 (65834 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	38624008	38624009	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38624008_38624009insT								ATL2 (19576 upstream) : HNRPLL (166319 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	38850023	38850023	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38850023delT								HNRPLL (19845 upstream) : GALM (43029 downstream)																																			---	---	---	---
SFRS7	6432	broad.mit.edu	37	2	38973132	38973132	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38973132delA	uc002rqz.2	-						SFRS7_uc002rra.2_Intron|SFRS7_uc010ynp.1_Intron	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)																---	---	---	---
SFRS7	6432	broad.mit.edu	37	2	38975943	38975944	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38975943_38975944delTT	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)																---	---	---	---
ARHGEF33	100271715	broad.mit.edu	37	2	39144970	39144976	+	5'Flank	DEL	AAAAAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:39144970_39144976delAAAAAAA	uc010ynq.1	+							NM_001145451	NP_001138923			DH and coiled-coil domain-containing protein												0																		---	---	---	---
SOS1	6654	broad.mit.edu	37	2	39316672	39316673	+	Intron	DEL	AA	-	-	rs67917408		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:39316672_39316673delAA	uc002rrk.3	-						SOS1_uc010ynr.1_Intron	NM_005633	NP_005624			son of sevenless homolog 1						apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)												Noonan_syndrome				---	---	---	---
SOS1	6654	broad.mit.edu	37	2	39352111	39352112	+	5'Flank	INS	-	TT	TT	rs150239406	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:39352111_39352112insTT	uc010ynr.1	-							NM_005633				son of sevenless homolog 1						apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)												Noonan_syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	2	39783057	39783057	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:39783057delT	uc002rrq.2	+						uc002rrr.1_Intron|uc002rrs.1_Intron					Homo sapiens cDNA FLJ33477 fis, clone BRAMY2002604.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	41156263	41156263	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:41156263delT								SLC8A1 (416688 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	41221817	41221817	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:41221817delA								SLC8A1 (482242 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	41289340	41289340	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:41289340delT								SLC8A1 (549765 upstream) : PKDCC (985821 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	41400471	41400471	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:41400471delA								SLC8A1 (660896 upstream) : PKDCC (874690 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	41827865	41827865	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:41827865delA								None (None upstream) : PKDCC (447296 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	42052454	42052454	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:42052454delA								None (None upstream) : PKDCC (222707 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	42367327	42367328	+	IGR	DEL	AA	-	-	rs112904500		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:42367327_42367328delAA								PKDCC (81661 upstream) : EML4 (29162 downstream)																																			---	---	---	---
MTA3	57504	broad.mit.edu	37	2	42951777	42951778	+	Intron	DEL	CA	-	-	rs10560395		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:42951777_42951778delCA	uc002rso.1	+						MTA3_uc002rsp.1_Intron	NM_020744	NP_065795			metastasis associated 1 family, member 3							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2																		---	---	---	---
MTA3	57504	broad.mit.edu	37	2	42961296	42961297	+	Intron	DEL	TC	-	-	rs113823561		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:42961296_42961297delTC	uc002rso.1	+						MTA3_uc002rsp.1_Intron	NM_020744	NP_065795			metastasis associated 1 family, member 3							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	43364921	43364921	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43364921delT								HAAO (345170 upstream) : ZFP36L2 (84621 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	43387262	43387262	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43387262delT								HAAO (367511 upstream) : ZFP36L2 (62280 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	43409031	43409032	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43409031_43409032delTT								HAAO (389280 upstream) : ZFP36L2 (40510 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	43427862	43427862	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43427862delT								HAAO (408111 upstream) : ZFP36L2 (21680 downstream)																																			---	---	---	---
THADA	63892	broad.mit.edu	37	2	43755912	43755912	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43755912delT	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)																---	---	---	---
ABCG5	64240	broad.mit.edu	37	2	44039929	44039930	+	3'UTR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:44039929_44039930insT	uc002rtn.2	-	13					ABCG5_uc002rtm.2_3'UTR|ABCG5_uc002rto.2_3'UTR|ABCG5_uc002rtp.2_3'UTR	NM_022436	NP_071881			ATP-binding cassette sub-family G member 5						cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			ovary(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)																---	---	---	---
ABCG8	64241	broad.mit.edu	37	2	44074128	44074133	+	Intron	DEL	TGCACA	-	-	rs61578117		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:44074128_44074133delTGCACA	uc002rtq.2	+						ABCG8_uc010yoa.1_Intron	NM_022437	NP_071882			ATP-binding cassette sub-family G member 8						cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)																---	---	---	---
ABCG8	64241	broad.mit.edu	37	2	44101866	44101866	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:44101866delA	uc002rtq.2	+						ABCG8_uc010yoa.1_Intron	NM_022437	NP_071882			ATP-binding cassette sub-family G member 8						cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)																---	---	---	---
Unknown	0	broad.mit.edu	37	2	44107316	44107317	+	IGR	DEL	TG	-	-	rs12712897		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:44107316_44107317delTG								ABCG8 (1712 upstream) : LRPPRC (6046 downstream)																																			---	---	---	---
LRPPRC	10128	broad.mit.edu	37	2	44201720	44201720	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:44201720delA	uc002rtr.2	-						LRPPRC_uc010yob.1_Intron|LRPPRC_uc010faw.1_Intron	NM_133259	NP_573566			leucine-rich PPR motif-containing protein						mitochondrion transport along microtubule|mRNA transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed nuclear chromosome|cytoskeleton|mitochondrial nucleoid|nuclear inner membrane|nuclear outer membrane|nucleoplasm|perinuclear region of cytoplasm	beta-tubulin binding|microtubule binding|RNA binding			ovary(2)|skin(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)																---	---	---	---
LRPPRC	10128	broad.mit.edu	37	2	44203124	44203124	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:44203124delT	uc002rtr.2	-						LRPPRC_uc010yob.1_Intron|LRPPRC_uc010faw.1_Intron	NM_133259	NP_573566			leucine-rich PPR motif-containing protein						mitochondrion transport along microtubule|mRNA transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed nuclear chromosome|cytoskeleton|mitochondrial nucleoid|nuclear inner membrane|nuclear outer membrane|nucleoplasm|perinuclear region of cytoplasm	beta-tubulin binding|microtubule binding|RNA binding			ovary(2)|skin(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)																---	---	---	---
PPM1B	5495	broad.mit.edu	37	2	44436571	44436571	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:44436571delA	uc002rtt.2	+						PPM1B_uc002rtu.2_Intron|PPM1B_uc002rtv.2_Intron|PPM1B_uc002rtw.2_Intron|PPM1B_uc002rtx.2_Intron	NM_002706	NP_002697			protein phosphatase 1B isoform 1						protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)																---	---	---	---
SLC3A1	6519	broad.mit.edu	37	2	44525524	44525524	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:44525524delT	uc002ruc.3	+						SLC3A1_uc002rty.2_Intron|SLC3A1_uc002rtz.2_Intron|SLC3A1_uc002rua.2_Intron|SLC3A1_uc002rub.2_Intron|SLC3A1_uc002rud.3_Intron	NM_000341	NP_000332			solute carrier family 3, member 1						carbohydrate metabolic process|cellular amino acid metabolic process|ion transport	integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity|catalytic activity|cation binding|L-cystine transmembrane transporter activity				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)													---	---	---	---
C2orf34	79823	broad.mit.edu	37	2	44645169	44645169	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:44645169delA	uc002rum.2	+						C2orf34_uc002rul.2_Intron	NM_024766	NP_079042			hypothetical protein LOC79823							cytoplasm	calmodulin-lysine N-methyltransferase activity				0		all_hematologic(82;0.0892)|Acute lymphoblastic leukemia(82;0.17)																---	---	---	---
Unknown	0	broad.mit.edu	37	2	45610759	45610759	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:45610759delT								SIX2 (374216 upstream) : SRBD1 (5061 downstream)																																			---	---	---	---
PRKCE	5581	broad.mit.edu	37	2	46282806	46282806	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46282806delT	uc002rut.2	+							NM_005400	NP_005391			protein kinase C, epsilon						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)															---	---	---	---
EPAS1	2034	broad.mit.edu	37	2	46585390	46585390	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46585390delC	uc002ruv.2	+							NM_001430	NP_001421			endothelial PAS domain protein 1						angiogenesis|myoblast cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|response to hypoxia	transcription factor complex	histone acetyltransferase binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription coactivator activity|transcription factor binding			ovary(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	LUSC - Lung squamous cell carcinoma(58;0.151)															---	---	---	---
SOCS5	9655	broad.mit.edu	37	2	46969980	46969980	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46969980delT	uc002rvf.2	+						SOCS5_uc010yoe.1_Intron|SOCS5_uc002rvg.2_Intron	NM_014011	NP_054730			suppressor of cytokine signaling 5						cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	47028472	47028472	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:47028472delG								SOCS5 (38546 upstream) : LOC100134259 (26531 downstream)																																			---	---	---	---
TTC7A	57217	broad.mit.edu	37	2	47199062	47199063	+	Intron	DEL	AA	-	-	rs34370518		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:47199062_47199063delAA	uc002rvo.2	+						TTC7A_uc002rvm.2_Intron|TTC7A_uc002rvn.1_Intron|TTC7A_uc010fbb.2_Intron|TTC7A_uc010fbc.2_Intron|TTC7A_uc002rvp.2_Intron	NM_020458	NP_065191			tetratricopeptide repeat domain 7A								binding			breast(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	47505689	47505693	+	Intron	DEL	TTTCT	-	-	rs58136351		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:47505689_47505693delTTTCT	uc002rvu.1	-											Homo sapiens cDNA FLJ37024 fis, clone BRACE2010837.									p.?(1)																					---	---	---	---
EPCAM	4072	broad.mit.edu	37	2	47583458	47583458	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:47583458delT	uc002rvw.2	+							NM_002354	NP_002345			epithelial cell adhesion molecule precursor						positive regulation of cell proliferation	apical plasma membrane|basolateral plasma membrane|integral to membrane|lateral plasma membrane|tight junction	protein binding			skin(1)	1														Lynch_syndrome				---	---	---	---
MSH2	4436	broad.mit.edu	37	2	47686363	47686363	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:47686363delT	uc002rvy.1	+						MSH2_uc010yoh.1_Intron|MSH2_uc002rvz.2_Intron|MSH2_uc010fbg.2_Intron|MSH2_uc010fbh.1_Intron|MSH2_uc010fbi.1_Intron	NM_000251	NP_000242			mutS homolog 2						B cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|double-strand break repair|intra-S DNA damage checkpoint|isotype switching|maintenance of DNA repeat elements|male gonad development|meiotic gene conversion|meiotic mismatch repair|negative regulation of neuron apoptosis|negative regulation of reciprocal meiotic recombination|positive regulation of helicase activity|postreplication repair|response to UV-B|response to X-ray|somatic hypermutation of immunoglobulin genes	MutSalpha complex|MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|guanine/thymine mispair binding|loop DNA binding|protein C-terminus binding|protein homodimerization activity|protein kinase binding|Y-form DNA binding	p.?(1)		large_intestine(33)|haematopoietic_and_lymphoid_tissue(6)|endometrium(4)|ovary(3)|cervix(2)|central_nervous_system(2)|stomach(1)|small_intestine(1)|breast(1)|skin(1)|prostate(1)	55		all_hematologic(82;0.0359)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)					D|Mis|N|F|S		colorectal|endometrial|ovarian	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				---	---	---	---
MSH2	4436	broad.mit.edu	37	2	47759058	47759058	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:47759058delA	uc002rvz.2	+						KCNK12_uc002rwb.2_Intron	NM_000251	NP_000242			mutS homolog 2						B cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|double-strand break repair|intra-S DNA damage checkpoint|isotype switching|maintenance of DNA repeat elements|male gonad development|meiotic gene conversion|meiotic mismatch repair|negative regulation of neuron apoptosis|negative regulation of reciprocal meiotic recombination|positive regulation of helicase activity|postreplication repair|response to UV-B|response to X-ray|somatic hypermutation of immunoglobulin genes	MutSalpha complex|MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|guanine/thymine mispair binding|loop DNA binding|protein C-terminus binding|protein homodimerization activity|protein kinase binding|Y-form DNA binding			large_intestine(33)|haematopoietic_and_lymphoid_tissue(6)|endometrium(4)|ovary(3)|cervix(2)|central_nervous_system(2)|stomach(1)|small_intestine(1)|breast(1)|skin(1)|prostate(1)	55		all_hematologic(82;0.0359)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)					D|Mis|N|F|S		colorectal|endometrial|ovarian	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				---	---	---	---
MSH6	2956	broad.mit.edu	37	2	48022780	48022781	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48022780_48022781delTT	uc002rwd.3	+						MSH6_uc002rwc.2_Intron|MSH6_uc010fbj.2_Intron|MSH6_uc010yoi.1_Intron|MSH6_uc010yoj.1_Intron	NM_000179	NP_000170			mutS homolog 6						determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding			large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)					Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				---	---	---	---
FBXO11	80204	broad.mit.edu	37	2	48123470	48123470	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48123470delT	uc002rwe.2	-						FBXO11_uc002rwf.2_Intron|FBXO11_uc002rwg.1_Intron	NM_025133	NP_079409			F-box only protein 11 isoform 1						ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	48293906	48293906	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48293906delC								FBXO11 (161092 upstream) : FOXN2 (247889 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	48533327	48533327	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48533327delT								FBXO11 (400513 upstream) : FOXN2 (8468 downstream)																																			---	---	---	---
FOXN2	3344	broad.mit.edu	37	2	48544304	48544304	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48544304delA	uc002rwh.1	+							NM_002158	NP_002149			T-cell leukemia virus enhancer factor						embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.0272)|LUSC - Lung squamous cell carcinoma(58;0.036)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	48623391	48623392	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48623391_48623392delTT								FOXN2 (16957 upstream) : KLRAQ1 (44516 downstream)																																			---	---	---	---
STON1	11037	broad.mit.edu	37	2	48765102	48765102	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48765102delT	uc002rwo.3	+						STON1_uc010fbm.2_Intron	NM_006873	NP_006864			stonin 1						endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex				skin(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)															---	---	---	---
STON1-GTF2A1L	286749	broad.mit.edu	37	2	48805669	48805677	+	5'Flank	DEL	TTCTCCTCC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48805669_48805677delTTCTCCTCC	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)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	49184452	49184452	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:49184452delT								LHCGR (201572 upstream) : FSHR (5201 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	49766116	49766116	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:49766116delA								FSHR (384486 upstream) : NRXN1 (379528 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	49792538	49792538	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:49792538delA								FSHR (410908 upstream) : NRXN1 (353106 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	49909668	49909668	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:49909668delA								FSHR (528038 upstream) : NRXN1 (235976 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	50116143	50116144	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:50116143_50116144insT								FSHR (734513 upstream) : NRXN1 (29500 downstream)																																			---	---	---	---
NRXN1	9378	broad.mit.edu	37	2	50570602	50570603	+	Intron	INS	-	A	A	rs11285713		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:50570602_50570603insA	uc010fbp.2	-						NRXN1_uc002rxb.3_Intron|NRXN1_uc010fbq.2_Intron|NRXN1_uc002rxe.3_Intron|NRXN1_uc002rxc.1_Intron	NM_138735	NP_620072			neurexin 1 isoform beta precursor						angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	51737899	51737899	+	IGR	DEL	A	-	-	rs11563147	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:51737899delA								NRXN1 (478225 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	51760072	51760072	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:51760072delT								NRXN1 (500398 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	52240008	52240008	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:52240008delT								NRXN1 (980334 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	52415992	52415992	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:52415992delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	52437830	52437830	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:52437830delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	52569584	52569584	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:52569584delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	52796315	52796315	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:52796315delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	52879090	52879091	+	IGR	INS	-	C	C	rs142854937	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:52879090_52879091insC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	52947688	52947688	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:52947688delT								None (None upstream) : ASB3 (949430 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	53520480	53520480	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:53520480delA								None (None upstream) : ASB3 (376638 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	53702764	53702768	+	IGR	DEL	AAGTT	-	-	rs72453501		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:53702764_53702768delAAGTT								None (None upstream) : ASB3 (194350 downstream)																																			---	---	---	---
CHAC2	494143	broad.mit.edu	37	2	53995031	53995031	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:53995031delT	uc002rxk.1	+	1	103	c.8delT	c.(7-9)GTTfs	p.V3fs	ASB3_uc002rxg.1_Intron|ASB3_uc002rxh.1_Intron|ASB3_uc002rxi.3_Intron|ASB3_uc010yoo.1_Intron	NM_001008708	NP_001008708	Q8WUX2	CHAC2_HUMAN	ChaC, cation transport regulator-like 2	3											0			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)													OREG0014616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
PSME4	23198	broad.mit.edu	37	2	54152899	54152900	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:54152899_54152900delCT	uc002rxp.2	-						PSME4_uc010yop.1_Intron|PSME4_uc010yoq.1_Intron|PSME4_uc010fbu.1_Intron|PSME4_uc010fbv.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)															---	---	---	---
ACYP2	98	broad.mit.edu	37	2	54511724	54511724	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:54511724delT	uc002rxq.3	+							NM_138448	NP_612457			acylphosphatase 2						phosphate metabolic process		acylphosphatase activity				0																		---	---	---	---
SPTBN1	6711	broad.mit.edu	37	2	54787324	54787324	+	Intron	DEL	T	-	-	rs138411199	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:54787324delT	uc002rxu.2	+						SPTBN1_uc002rxv.1_Intron|SPTBN1_uc002rxx.2_Intron	NM_003128	NP_003119			spectrin, beta, non-erythrocytic 1 isoform 1						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	54789671	54789671	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:54789671delT	uc002rxu.2	+						SPTBN1_uc002rxv.1_Intron|SPTBN1_uc002rxx.2_Intron	NM_003128	NP_003119			spectrin, beta, non-erythrocytic 1 isoform 1						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)															---	---	---	---
EML6	400954	broad.mit.edu	37	2	55094893	55094893	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:55094893delA	uc002ryb.3	+							NM_001039753	NP_001034842			echinoderm microtubule associated protein like							cytoplasm|microtubule					0																		---	---	---	---
EML6	400954	broad.mit.edu	37	2	55132619	55132620	+	Intron	DEL	TA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:55132619_55132620delTA	uc002ryb.3	+							NM_001039753	NP_001034842			echinoderm microtubule associated protein like							cytoplasm|microtubule					0																		---	---	---	---
MTIF2	4528	broad.mit.edu	37	2	55496713	55496713	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:55496713delT	uc002ryn.2	-						MTIF2_uc010yox.1_5'Flank|MTIF2_uc002ryo.2_5'Flank|MTIF2_uc002ryp.1_5'Flank	NM_001005369	NP_001005369			mitochondrial translational initiation factor 2						regulation of translational initiation	mitochondrion	GTP binding|GTPase activity|ribosomal small subunit binding|translation initiation factor activity			ovary(1)	1																		---	---	---	---
SMEK2	57223	broad.mit.edu	37	2	55843864	55843864	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:55843864delT	uc002rzc.2	-						SMEK2_uc002rzb.2_Intron|SMEK2_uc002rzd.2_Intron|SMEK2_uc002rze.2_RNA	NM_001122964	NP_001116436			SMEK homolog 2, suppressor of mek1 isoform 1							microtubule organizing center|nucleus	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)															---	---	---	---
EFEMP1	2202	broad.mit.edu	37	2	56152937	56152937	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:56152937delA	uc002rzh.2	-						EFEMP1_uc002rzi.2_5'Flank|EFEMP1_uc002rzj.2_5'Flank|EFEMP1_uc010ypc.1_5'Flank	NM_004105	NP_004096			EGF-containing fibulin-like extracellular matrix						negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity			ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	56175358	56175358	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:56175358delT								EFEMP1 (24426 upstream) : MIR217 (34744 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	56309533	56309533	+	RNA	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:56309533delA	uc002rzk.2	+	2		c.112delA			uc002rzl.1_Intron					Homo sapiens, clone IMAGE:3873411, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	56842473	56842474	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:56842473_56842474insT								CCDC85A (229165 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	58098717	58098717	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:58098717delT								None (None upstream) : VRK2 (36069 downstream)																																			---	---	---	---
VRK2	7444	broad.mit.edu	37	2	58225036	58225036	+	Intron	DEL	A	-	-	rs11337756		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:58225036delA	uc002rzo.2	+						VRK2_uc010fcb.2_Intron	NM_001130482	NP_001123954			vaccinia related kinase 2 isoform 2							integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1																		---	---	---	---
VRK2	7444	broad.mit.edu	37	2	58323063	58323064	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:58323063_58323064delGT	uc002rzo.2	+						VRK2_uc010fcb.2_Intron|VRK2_uc002rzs.2_Intron|VRK2_uc002rzr.2_Intron|VRK2_uc010fcc.2_Intron|VRK2_uc002rzv.2_Intron|VRK2_uc010fcd.2_Intron|VRK2_uc002rzp.2_Intron|VRK2_uc010ypg.1_Intron|VRK2_uc002rzq.2_Intron|VRK2_uc002rzu.2_Intron|VRK2_uc002rzt.2_Intron|VRK2_uc010yph.1_Intron	NM_001130482	NP_001123954			vaccinia related kinase 2 isoform 2							integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1																		---	---	---	---
FANCL	55120	broad.mit.edu	37	2	58455020	58455021	+	Intron	INS	-	T	T	rs145652829	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:58455020_58455021insT	uc002rzw.3	-						FANCL_uc002rzx.3_Intron|FANCL_uc010fce.2_Intron|FANCL_uc010fcf.1_Intron	NM_018062	NP_060532			Fanconi anemia, complementation group L isoform						DNA repair	cytoplasm|nucleoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2													Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				---	---	---	---
Unknown	0	broad.mit.edu	37	2	58817024	58817024	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:58817024delT	uc002rzy.2	+											Homo sapiens cDNA FLJ30838 fis, clone FEBRA2002399.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	58939258	58939261	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:58939258_58939261delTTTT	uc002rzy.2	+											Homo sapiens cDNA FLJ30838 fis, clone FEBRA2002399.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	59084607	59084607	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:59084607delT	uc002rzy.2	+						uc002rzz.2_Intron					Homo sapiens cDNA FLJ30838 fis, clone FEBRA2002399.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	59202007	59202008	+	Intron	DEL	TT	-	-	rs147956754		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:59202007_59202008delTT	uc002rzy.2	+						uc002rzz.2_Intron					Homo sapiens cDNA FLJ30838 fis, clone FEBRA2002399.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	60038398	60038398	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:60038398delT								None (None upstream) : BCL11A (639905 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	60415287	60415287	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:60415287delA								None (None upstream) : BCL11A (263016 downstream)																																			---	---	---	---
BCL11A	53335	broad.mit.edu	37	2	60747450	60747450	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:60747450delT	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								---	---	---	---
Unknown	0	broad.mit.edu	37	2	60783647	60783647	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:60783647delA								BCL11A (3014 upstream) : PAPOLG (199736 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	61079894	61079894	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61079894delA	uc002sal.1	-											Homo sapiens cDNA FLJ16341 fis, clone TESTI2013381.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	61107395	61107395	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61107395delT	uc002sal.1	-						REL_uc002sam.1_5'Flank|REL_uc002san.1_5'Flank					Homo sapiens cDNA FLJ16341 fis, clone TESTI2013381.																														---	---	---	---
USP34	9736	broad.mit.edu	37	2	61532455	61532455	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61532455delA	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)															---	---	---	---
USP34	9736	broad.mit.edu	37	2	61572103	61572103	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61572103delA	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)															---	---	---	---
USP34	9736	broad.mit.edu	37	2	61576678	61576678	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61576678delA	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)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	61790004	61790004	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61790004delT								XPO1 (24586 upstream) : FAM161A (261981 downstream)																																			---	---	---	---
FAM161A	84140	broad.mit.edu	37	2	62065616	62065616	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62065616delA	uc010ypo.1	-						FAM161A_uc002sbm.3_Intron|FAM161A_uc002sbn.3_Intron|FAM161A_uc010fcm.1_Intron|FAM161A_uc010fcn.1_Intron	NM_032180	NP_115556			hypothetical protein LOC84140						response to stimulus|visual perception	centrosome				large_intestine(2)|ovary(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	62085792	62085792	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62085792delA								FAM161A (4514 upstream) : CCT4 (9471 downstream)																																			---	---	---	---
CCT4	10575	broad.mit.edu	37	2	62101747	62101748	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62101747_62101748delAA	uc002sbo.2	-						CCT4_uc010ypp.1_Intron|CCT4_uc010ypq.1_Intron|CCT4_uc010ypr.1_Intron|CCT4_uc010yps.1_Intron	NM_006430	NP_006421			chaperonin containing TCP1, subunit 4 (delta)						'de novo' posttranslational protein folding	melanosome|microtubule organizing center|nucleus	ATP binding|unfolded protein binding			ovary(2)	2	Lung NSC(7;0.035)|all_lung(7;0.0691)		LUSC - Lung squamous cell carcinoma(7;6.5e-06)|Epithelial(17;0.0647)|all cancers(80;0.221)															---	---	---	---
COMMD1	150684	broad.mit.edu	37	2	62237433	62237433	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62237433delT	uc002sbp.2	+							NM_152516	NP_689729			MURR1						copper ion homeostasis|negative regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|regulation of proteasomal ubiquitin-dependent protein catabolic process	cell junction|Cul2-RING ubiquitin ligase complex|cytoplasm|nucleolus	copper ion binding|protein homodimerization activity			ovary(1)	1	Lung NSC(7;0.035)|all_lung(7;0.0691)		LUSC - Lung squamous cell carcinoma(7;4.73e-07)|Epithelial(17;0.0216)|all cancers(80;0.0934)															---	---	---	---
COMMD1	150684	broad.mit.edu	37	2	62310405	62310406	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62310405_62310406delAA	uc002sbp.2	+						uc002sbr.2_Intron	NM_152516	NP_689729			MURR1						copper ion homeostasis|negative regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|regulation of proteasomal ubiquitin-dependent protein catabolic process	cell junction|Cul2-RING ubiquitin ligase complex|cytoplasm|nucleolus	copper ion binding|protein homodimerization activity			ovary(1)	1	Lung NSC(7;0.035)|all_lung(7;0.0691)		LUSC - Lung squamous cell carcinoma(7;4.73e-07)|Epithelial(17;0.0216)|all cancers(80;0.0934)															---	---	---	---
COMMD1	150684	broad.mit.edu	37	2	62361888	62361888	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62361888delG	uc002sbp.2	+						uc002sbr.2_Intron	NM_152516	NP_689729			MURR1						copper ion homeostasis|negative regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|regulation of proteasomal ubiquitin-dependent protein catabolic process	cell junction|Cul2-RING ubiquitin ligase complex|cytoplasm|nucleolus	copper ion binding|protein homodimerization activity			ovary(1)	1	Lung NSC(7;0.035)|all_lung(7;0.0691)		LUSC - Lung squamous cell carcinoma(7;4.73e-07)|Epithelial(17;0.0216)|all cancers(80;0.0934)															---	---	---	---
B3GNT2	10678	broad.mit.edu	37	2	62448649	62448649	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62448649delA	uc002sbs.2	+							NM_006577	NP_006568			UDP-GlcNAc:betaGal							Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1	Lung NSC(7;0.031)|all_lung(7;0.0634)		LUSC - Lung squamous cell carcinoma(7;3.55e-06)|Epithelial(17;0.0963)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	62569848	62569848	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62569848delT								B3GNT2 (117984 upstream) : TMEM17 (157508 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	62822274	62822276	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62822274_62822276delTTT								TMEM17 (59494 upstream) : EHBP1 (78737 downstream)																																			---	---	---	---
EHBP1	23301	broad.mit.edu	37	2	62931711	62931711	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62931711delT	uc002sby.2	+						EHBP1_uc010fcp.2_Intron|EHBP1_uc010fcq.1_5'Flank|EHBP1_uc002sbx.2_5'Flank|EHBP1_uc002sbz.2_5'Flank|EHBP1_uc002scb.2_5'Flank|EHBP1_uc002sca.2_5'Flank	NM_015252	NP_056067			EH domain binding protein 1 isoform 1							cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)											Hereditary_Prostate_Cancer				---	---	---	---
C2orf86	51057	broad.mit.edu	37	2	63511217	63511217	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:63511217delT	uc002sch.2	-						C2orf86_uc002sce.2_Intron|C2orf86_uc002scf.2_Intron|C2orf86_uc010ypu.1_Intron|C2orf86_uc002scg.2_Intron	NM_015910	NP_056994			hypothetical protein LOC51057 isoform 2						cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0																		---	---	---	---
C2orf86	51057	broad.mit.edu	37	2	63557682	63557682	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:63557682delT	uc002sch.2	-						C2orf86_uc002sce.2_Intron|C2orf86_uc002scf.2_Intron|C2orf86_uc010ypu.1_Intron|C2orf86_uc002scg.2_Intron	NM_015910	NP_056994			hypothetical protein LOC51057 isoform 2						cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0																		---	---	---	---
C2orf86	51057	broad.mit.edu	37	2	63772457	63772458	+	Intron	INS	-	TG	TG	rs75980850		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:63772457_63772458insTG	uc002sch.2	-						C2orf86_uc002sci.1_Intron	NM_015910	NP_056994			hypothetical protein LOC51057 isoform 2						cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	64005353	64005353	+	IGR	DEL	T	-	-	rs68186967		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:64005353delT								LOC388955 (155194 upstream) : UGP2 (62745 downstream)																																			---	---	---	---
UGP2	7360	broad.mit.edu	37	2	64088659	64088659	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:64088659delT	uc002scm.2	+						UGP2_uc002scl.2_Intron|UGP2_uc010ypx.1_Intron	NM_006759	NP_006750			UDP-glucose pyrophosphorylase 2 isoform a						glycogen biosynthetic process|phosphorylation|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	metal ion binding|protein binding|UTP:glucose-1-phosphate uridylyltransferase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	64574342	64574342	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:64574342delT								PELI1 (202737 upstream) : HSPC159 (106985 downstream)																																			---	---	---	---
SERTAD2	9792	broad.mit.edu	37	2	64880265	64880265	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:64880265delA	uc002sde.1	-							NM_014755	NP_055570			SERTA domain containing 2						negative regulation of cell growth|transcription, DNA-dependent	cytoplasm|nucleus					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	65101141	65101141	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:65101141delT								SERTAD2 (220095 upstream) : SLC1A4 (114438 downstream)																																	OREG0014646	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	2	65195930	65195930	+	IGR	DEL	A	-	-	rs77079599		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:65195930delA								SERTAD2 (314884 upstream) : SLC1A4 (19649 downstream)																																			---	---	---	---
SPRED2	200734	broad.mit.edu	37	2	65628584	65628584	+	Intron	DEL	T	-	-	rs76980414		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:65628584delT	uc002sdr.3	-						SPRED2_uc010fcx.1_Intron	NM_181784	NP_861449			sprouty-related protein with EVH-1 domain 2						inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	65897995	65897996	+	Intron	INS	-	TG	TG	rs142899427	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:65897995_65897996insTG	uc010fcy.1	+											Homo sapiens cDNA FLJ16124 fis, clone BRACE2011677.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	66159048	66159048	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:66159048delT	uc010fcy.1	+											Homo sapiens cDNA FLJ16124 fis, clone BRACE2011677.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	66217650	66217650	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:66217650delC	uc010fcy.1	+											Homo sapiens cDNA FLJ16124 fis, clone BRACE2011677.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	66281889	66281889	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:66281889delT	uc010fcy.1	+											Homo sapiens cDNA FLJ16124 fis, clone BRACE2011677.																														---	---	---	---
MEIS1	4211	broad.mit.edu	37	2	66667200	66667201	+	Intron	INS	-	AC	AC	rs144159761	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:66667200_66667201insAC	uc002sdu.2	+						MEIS1_uc002sdt.2_Intron|MEIS1_uc002sdv.2_Intron|MEIS1_uc010yqh.1_Intron|MEIS1_uc010yqi.1_Intron|MEIS1_uc002sdw.1_5'Flank	NM_002398	NP_002389			Meis homeobox 1								sequence-specific DNA binding transcription factor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	66926855	66926855	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:66926855delA								MEIS1 (126965 upstream) : ETAA1 (697587 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	67251424	67251424	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:67251424delT								MEIS1 (451534 upstream) : ETAA1 (373018 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	67407117	67407118	+	Intron	INS	-	CT	CT	rs140462818	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:67407117_67407118insCT	uc002sdx.2	+						uc002sdy.1_Intron					Homo sapiens, clone IMAGE:5541055, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	67436155	67436155	+	Intron	DEL	T	-	-	rs11312221		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:67436155delT	uc002sdx.2	+						uc002sdy.1_Intron					Homo sapiens, clone IMAGE:5541055, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	67657568	67657568	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:67657568delT								ETAA1 (20035 upstream) : C1D (611765 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	67689848	67689848	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:67689848delA								ETAA1 (52315 upstream) : C1D (579485 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	67909137	67909137	+	IGR	DEL	T	-	-	rs149027275		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:67909137delT								ETAA1 (271604 upstream) : C1D (360196 downstream)																																			---	---	---	---
PNO1	56902	broad.mit.edu	37	2	68388973	68388976	+	Intron	DEL	AAAA	-	-	rs113134222		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:68388973_68388976delAAAA	uc002seh.2	+							NM_020143	NP_064528			partner of NOB1							nucleolus	RNA binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	68575753	68575753	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:68575753delA								CNRIP1 (28570 upstream) : PLEK (16569 downstream)																																			---	---	---	---
APLF	200558	broad.mit.edu	37	2	68768589	68768589	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:68768589delA	uc002sep.2	+						APLF_uc002seq.1_Intron|APLF_uc010fdf.2_Intron|APLF_uc002ser.1_Intron	NM_173545	NP_775816			aprataxin and PNKP like factor						double-strand break repair|single strand break repair	cytosol|nucleus	3'-5' exonuclease activity|DNA-(apurinic or apyrimidinic site) lyase activity|endodeoxyribonuclease activity|metal ion binding|nucleotide binding|protein binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	68887254	68887255	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:68887254_68887255delTT								PROKR1 (4548 upstream) : ARHGAP25 (19491 downstream)																																			---	---	---	---
ANTXR1	84168	broad.mit.edu	37	2	69422984	69422984	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:69422984delT	uc002sfg.2	+							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				---	---	---	---
GFPT1	2673	broad.mit.edu	37	2	69557628	69557628	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:69557628delT	uc002sfh.2	-							NM_002056	NP_002047			glucosamine-fructose-6-phosphate						dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			skin(1)	1																		---	---	---	---
NFU1	27247	broad.mit.edu	37	2	69657350	69657352	+	Intron	DEL	TTT	-	-	rs113587680		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:69657350_69657352delTTT	uc002sfk.2	-						NFU1_uc002sfj.2_Intron|NFU1_uc002sfl.2_Intron|NFU1_uc002sfm.2_Intron|NFU1_uc010fdi.2_Intron|NFU1_uc002sfn.1_Intron	NM_001002755	NP_001002755			HIRA interacting protein 5 isoform 2						iron-sulfur cluster assembly	cytosol|mitochondrion|nucleus	4 iron, 4 sulfur cluster binding|iron ion binding|protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	69887908	69887909	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:69887908_69887909delGA								AAK1 (16931 upstream) : ANXA4 (81218 downstream)																																			---	---	---	---
ASPRV1	151516	broad.mit.edu	37	2	70241572	70241572	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:70241572delA	uc002sga.2	-											Homo sapiens cDNA FLJ32260 fis, clone PROST1000334.						protein maturation by peptide bond cleavage|skin development		aspartic-type endopeptidase activity			ovary(1)	1																		---	---	---	---
TIA1	7072	broad.mit.edu	37	2	70441335	70441335	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:70441335delA	uc002sgj.3	-						TIA1_uc002sgk.3_Intron|TIA1_uc002sgl.3_Intron	NM_022173	NP_071505			TIA1 cytotoxic granule-associated RNA binding						apoptosis|induction of apoptosis|regulation of nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|poly(A) RNA binding|protein binding				0																		---	---	---	---
TIA1	7072	broad.mit.edu	37	2	70456453	70456453	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:70456453delA	uc002sgj.3	-						TIA1_uc002sgk.3_Intron|TIA1_uc002sgl.3_Intron|TIA1_uc002sgm.3_Intron|TIA1_uc010yqt.1_Intron	NM_022173	NP_071505			TIA1 cytotoxic granule-associated RNA binding						apoptosis|induction of apoptosis|regulation of nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|poly(A) RNA binding|protein binding				0																		---	---	---	---
PCYOX1	51449	broad.mit.edu	37	2	70497905	70497905	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:70497905delT	uc002sgn.3	+						PCYOX1_uc010fdo.2_Intron|PCYOX1_uc010yqu.1_Intron	NM_016297	NP_057381			prenylcysteine oxidase 1 precursor						prenylated protein catabolic process	lysosome|very-low-density lipoprotein particle	prenylcysteine oxidase activity			central_nervous_system(1)	1																		---	---	---	---
SNRPG	6637	broad.mit.edu	37	2	70518900	70518900	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:70518900delA	uc002sgp.2	-						SNRPG_uc002sgo.2_Intron	NM_003096	NP_003087			small nuclear ribonucleoprotein polypeptide G						histone mRNA metabolic process|ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nucleoplasm|U12-type spliceosomal complex|U7 snRNP	protein binding|RNA binding				0																		---	---	---	---
MPHOSPH10	10199	broad.mit.edu	37	2	71369552	71369552	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71369552delA	uc002sht.1	+							NM_005791	NP_005782			M-phase phosphoprotein 10						RNA splicing, via transesterification reactions|rRNA processing	chromosome|nucleolus|small nucleolar ribonucleoprotein complex	protein binding			skin(2)|ovary(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	71394997	71394997	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71394997delA								MPHOSPH10 (17767 upstream) : PAIP2B (14871 downstream)																																			---	---	---	---
ZNF638	27332	broad.mit.edu	37	2	71500749	71500749	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71500749delA	uc010yqw.1	+						ZNF638_uc010fec.2_5'Flank	NM_014497	NP_055312			zinc finger protein 638						RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4																		---	---	---	---
ZNF638	27332	broad.mit.edu	37	2	71540468	71540468	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71540468delT	uc010yqw.1	+						ZNF638_uc010fec.2_Intron	NM_014497	NP_055312			zinc finger protein 638						RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4																		---	---	---	---
ZNF638	27332	broad.mit.edu	37	2	71647232	71647232	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71647232delT	uc002shx.2	+						ZNF638_uc010yqw.1_Intron|ZNF638_uc002shy.2_Intron|ZNF638_uc002shz.2_Intron|ZNF638_uc002sia.2_Intron|ZNF638_uc002sib.1_Intron|ZNF638_uc010fed.2_Intron|ZNF638_uc002sic.2_Intron|ZNF638_uc002sid.2_Intron	NM_014497	NP_055312			zinc finger protein 638						RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	71983249	71983249	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71983249delA								DYSF (69357 upstream) : CYP26B1 (373118 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	72085543	72085543	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:72085543delA								DYSF (171651 upstream) : CYP26B1 (270824 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	72119986	72119986	+	IGR	DEL	A	-	-	rs71733795		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:72119986delA								DYSF (206094 upstream) : CYP26B1 (236381 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	72183144	72183145	+	IGR	DEL	AA	-	-	rs113356664		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:72183144_72183145delAA								DYSF (269252 upstream) : CYP26B1 (173222 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	72222654	72222654	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:72222654delT								DYSF (308762 upstream) : CYP26B1 (133713 downstream)																																			---	---	---	---
EXOC6B	23233	broad.mit.edu	37	2	72439155	72439156	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:72439155_72439156delAA	uc010fep.2	-							NM_015189	NP_056004			SEC15-like 2						protein transport|vesicle docking involved in exocytosis	exocyst				central_nervous_system(2)	2																		---	---	---	---
EXOC6B	23233	broad.mit.edu	37	2	72913242	72913242	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:72913242delT	uc010fep.2	-						EXOC6B_uc002sij.2_Intron	NM_015189	NP_056004			SEC15-like 2						protein transport|vesicle docking involved in exocytosis	exocyst				central_nervous_system(2)	2																		---	---	---	---
EXOC6B	23233	broad.mit.edu	37	2	72958121	72958121	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:72958121delA	uc010fep.2	-						EXOC6B_uc002sij.2_Intron	NM_015189	NP_056004			SEC15-like 2						protein transport|vesicle docking involved in exocytosis	exocyst				central_nervous_system(2)	2																		---	---	---	---
SFXN5	94097	broad.mit.edu	37	2	73296954	73296954	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73296954delA	uc002siq.2	-						SFXN5_uc010fet.2_Intron|SFXN5_uc002sir.1_Intron	NM_144579	NP_653180			sideroflexin 5						iron ion homeostasis	integral to membrane	cation transmembrane transporter activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	73405337	73405337	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73405337delC								RAB11FIP5 (65191 upstream) : NOTO (24049 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	73410440	73410440	+	IGR	DEL	G	-	-	rs113492830		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73410440delG								RAB11FIP5 (70294 upstream) : NOTO (18946 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	73419719	73419719	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73419719delA								RAB11FIP5 (79573 upstream) : NOTO (9667 downstream)																																			---	---	---	---
FBXO41	150726	broad.mit.edu	37	2	73488190	73488192	+	Intron	DEL	TTT	-	-	rs72275442		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73488190_73488192delTTT	uc002sjb.1	-							NM_001080410	NP_001073879			F-box protein 41							intracellular	protein binding|zinc ion binding			breast(2)|pancreas(1)	3																		---	---	---	---
ALMS1	7840	broad.mit.edu	37	2	73761554	73761555	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73761554_73761555insT	uc002sje.1	+						ALMS1_uc002sjf.1_Intron|ALMS1_uc002sjg.2_Intron|ALMS1_uc002sjh.1_Intron|ALMS1_uc010fev.1_Intron	NM_015120	NP_055935			Alstrom syndrome 1						G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9																		---	---	---	---
ALMS1	7840	broad.mit.edu	37	2	73830582	73830583	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73830582_73830583delAA	uc002sje.1	+						ALMS1_uc002sjf.1_Intron|ALMS1_uc002sjh.1_3'UTR	NM_015120	NP_055935			Alstrom syndrome 1						G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9																		---	---	---	---
ALMS1P	200420	broad.mit.edu	37	2	73902183	73902184	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73902183_73902184delAA	uc010yrl.1	+							NR_003683				RecName: Full=Putative ALMS1-like protein;												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	74111014	74111014	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74111014delA								STAMBP (10255 upstream) : ACTG2 (9079 downstream)																																			---	---	---	---
ACTG2	72	broad.mit.edu	37	2	74128715	74128716	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74128715_74128716delGT	uc002sjw.2	+						ACTG2_uc010fex.1_Intron|ACTG2_uc010fey.2_Intron|ACTG2_uc010yrn.1_Intron	NM_001615	NP_001606			actin, gamma 2 propeptide						muscle contraction	cytoskeleton|cytosol	ATP binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	74198471	74198472	+	IGR	DEL	TT	-	-	rs72029711		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74198471_74198472delTT								DGUOK (12385 upstream) : TET3 (74978 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	74221766	74221769	+	IGR	DEL	TTTT	-	-	rs58914947		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74221766_74221769delTTTT								DGUOK (35680 upstream) : TET3 (51681 downstream)																																			---	---	---	---
TET3	200424	broad.mit.edu	37	2	74303287	74303288	+	Intron	DEL	TT	-	-	rs34724878		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74303287_74303288delTT	uc002skb.3	+							NM_144993	NP_659430			tet oncogene family member 3								metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0																		---	---	---	---
TET3	200424	broad.mit.edu	37	2	74303736	74303738	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74303736_74303738delTTT	uc002skb.3	+							NM_144993	NP_659430			tet oncogene family member 3								metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0																		---	---	---	---
TLX2	3196	broad.mit.edu	37	2	74739856	74739856	+	5'Flank	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74739856delC	uc002smb.1	+						TLX2_uc002sma.1_5'Flank	NM_016170	NP_057254			T-cell leukemia homeobox 2							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	75696691	75696691	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:75696691delT								TACR1 (270046 upstream) : FAM176A (22753 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	76042235	76042235	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:76042235delT								C2orf3 (104124 upstream) : LRRTM4 (932623 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	76475106	76475107	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:76475106_76475107delAA								C2orf3 (536995 upstream) : LRRTM4 (499751 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	76522704	76522705	+	IGR	DEL	TT	-	-	rs72172725		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:76522704_76522705delTT								C2orf3 (584593 upstream) : LRRTM4 (452153 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	76661472	76661472	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:76661472delT								C2orf3 (723361 upstream) : LRRTM4 (313386 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	76706410	76706411	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:76706410_76706411insT								C2orf3 (768299 upstream) : LRRTM4 (268447 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	76853802	76853802	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:76853802delT								C2orf3 (915691 upstream) : LRRTM4 (121056 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	76939114	76939114	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:76939114delT								None (None upstream) : LRRTM4 (35744 downstream)																																			---	---	---	---
LRRTM4	80059	broad.mit.edu	37	2	77111966	77111966	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:77111966delA	uc002snr.2	-						LRRTM4_uc002snq.2_Intron	NM_001134745	NP_001128217			leucine rich repeat transmembrane neuronal 4							integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)														---	---	---	---
LRRTM4	80059	broad.mit.edu	37	2	77332185	77332185	+	Intron	DEL	A	-	-	rs113329344		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:77332185delA	uc002snr.2	-						LRRTM4_uc002snq.2_Intron	NM_001134745	NP_001128217			leucine rich repeat transmembrane neuronal 4							integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)														---	---	---	---
LRRTM4	80059	broad.mit.edu	37	2	77616923	77616923	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:77616923delT	uc002snr.2	-						LRRTM4_uc002snq.2_Intron	NM_001134745	NP_001128217			leucine rich repeat transmembrane neuronal 4							integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	77880084	77880084	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:77880084delT								LRRTM4 (130582 upstream) : SNAR-H (301949 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	78714583	78714583	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:78714583delA	uc002snv.3	-											Homo sapiens cytochrome c, somatic pseudogene 6, mRNA (cDNA clone IMAGE:4815768).																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	78991703	78991703	+	IGR	DEL	A	-	-	rs74871675		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:78991703delA								SNAR-H (809551 upstream) : REG3G (261123 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	79052516	79052516	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:79052516delT								SNAR-H (870364 upstream) : REG3G (200310 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	79270627	79270627	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:79270627delA								REG3G (14997 upstream) : REG1B (41522 downstream)																																			---	---	---	---
CTNNA2	1496	broad.mit.edu	37	2	79874636	79874636	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:79874636delT	uc010yse.1	+						CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron	NM_004389	NP_004380			catenin, alpha 2 isoform 1						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	80051930	80051930	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80051930delT	uc010ysh.1	+						CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron	NM_004389	NP_004380			catenin, alpha 2 isoform 1						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	80318007	80318007	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80318007delT	uc010ysh.1	+						CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron	NM_004389	NP_004380			catenin, alpha 2 isoform 1						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	80576682	80576682	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80576682delT	uc010ysh.1	+						CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysi.1_Intron	NM_004389	NP_004380			catenin, alpha 2 isoform 1						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	80638408	80638408	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80638408delT	uc010ysh.1	+						CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysi.1_Intron	NM_004389	NP_004380			catenin, alpha 2 isoform 1						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	80713081	80713081	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80713081delT	uc010ysh.1	+						CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysi.1_Intron	NM_004389	NP_004380			catenin, alpha 2 isoform 1						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																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	80940766	80940766	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80940766delA								CTNNA2 (64862 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	81064651	81064651	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:81064651delT								CTNNA2 (188747 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	81080271	81080271	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:81080271delT								CTNNA2 (204367 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	81182685	81182685	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:81182685delA								CTNNA2 (306781 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	81644003	81644004	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:81644003_81644004delAC								CTNNA2 (768099 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	81947353	81947353	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:81947353delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	81963105	81963107	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:81963105_81963107delTTT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	82100786	82100786	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:82100786delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	82233531	82233532	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:82233531_82233532delAA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	82252073	82252076	+	IGR	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:82252073_82252076delAAAA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	82365708	82365709	+	IGR	INS	-	TCACTT	TCACTT	rs143817485	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:82365708_82365709insTCACTT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	82576719	82576719	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:82576719delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	83210637	83210637	+	IGR	DEL	A	-	-	rs11433662		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:83210637delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	83302364	83302366	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:83302364_83302366delTTT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	83441995	83441995	+	IGR	DEL	T	-	-	rs79567541		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:83441995delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	83705503	83705503	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:83705503delT								None (None upstream) : FUNDC2P2 (812303 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	84188805	84188805	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:84188805delT								None (None upstream) : FUNDC2P2 (329001 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	84244479	84244479	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:84244479delA								None (None upstream) : FUNDC2P2 (273327 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	84280481	84280481	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:84280481delG								None (None upstream) : FUNDC2P2 (237325 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	84702011	84702011	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:84702011delT								SUCLG1 (15425 upstream) : DNAH6 (41568 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	84725842	84725842	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:84725842delT								SUCLG1 (39256 upstream) : DNAH6 (17737 downstream)																																			---	---	---	---
DNAH6	1768	broad.mit.edu	37	2	84986647	84986648	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:84986647_84986648insA	uc010fgb.2	+						DNAH6_uc002sot.2_Intron	NM_001370	NP_001361			dynein, axonemal, heavy polypeptide 6						microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			central_nervous_system(1)	1																		---	---	---	---
C2orf89	129293	broad.mit.edu	37	2	85060466	85060467	+	Intron	INS	-	A	A	rs113275764	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:85060466_85060467insA	uc010ysl.1	-						C2orf89_uc002sou.3_Intron	NM_001080824	NP_001074293			hypothetical protein LOC129293 precursor							integral to membrane				ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	85194337	85194337	+	IGR	DEL	T	-	-	rs76863283		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:85194337delT								TMSB10 (60538 upstream) : KCMF1 (3894 downstream)																																			---	---	---	---
TCF7L1	83439	broad.mit.edu	37	2	85415386	85415387	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:85415386_85415387delAC	uc002soy.2	+							NM_031283	NP_112573			HMG-box transcription factor TCF-3						chromatin organization|regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|breast(1)|central_nervous_system(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	85733283	85733283	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:85733283delT								SH2D6 (69133 upstream) : MAT2A (33005 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	85912347	85912347	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:85912347delA								SFTPB (16973 upstream) : GNLY (9067 downstream)																																			---	---	---	---
POLR1A	25885	broad.mit.edu	37	2	86298062	86298062	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:86298062delA	uc002sqs.2	-							NM_015425	NP_056240			DNA-directed RNA polymerase I A						termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	86370729	86370729	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:86370729delT								PTCD3 (1449 upstream) : IMMT (327 downstream)																																			---	---	---	---
IMMT	10989	broad.mit.edu	37	2	86393771	86393772	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:86393771_86393772delAA	uc002sqz.3	-						IMMT_uc002sqy.3_Intron|IMMT_uc002srb.3_Intron|IMMT_uc002sra.3_Intron|IMMT_uc010ytd.1_Intron|IMMT_uc010yte.1_Intron|IMMT_uc002src.1_Intron|IMMT_uc002srd.2_Intron|IMMT_uc002sre.3_Intron|IMMT_uc010ytf.1_Intron|IMMT_uc010fgs.1_Intron	NM_006839	NP_006830			inner membrane protein, mitochondrial isoform 1							integral to mitochondrial inner membrane	protein binding			skin(1)	1																		---	---	---	---
REEP1	65055	broad.mit.edu	37	2	86491575	86491576	+	Intron	INS	-	T	T	rs149245929	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:86491575_86491576insT	uc002srh.3	-						REEP1_uc010ytg.1_Intron|REEP1_uc010yth.1_Intron|REEP1_uc010yti.1_Intron	NM_022912	NP_075063			receptor accessory protein 1 isoform 2						cell death|protein insertion into membrane	integral to membrane|mitochondrial membrane	olfactory receptor binding				0																		---	---	---	---
VPS24	51652	broad.mit.edu	37	2	86802396	86802397	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:86802396_86802397delTT	uc010ytl.1	-							NM_001005753	NP_001005753			vacuolar protein sorting 24 isoform 2						cell cycle|cell division|cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein binding			central_nervous_system(1)	1																		---	---	---	---
RMND5A	64795	broad.mit.edu	37	2	87008400	87008400	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:87008400delA	uc002srs.3	+											SubName: Full=cDNA FLJ10361 fis, clone NT2RM2001256, highly similar to Anaphase-promoting complex subunit 1;											ovary(1)|skin(1)	2																		---	---	---	---
RMND5A	64795	broad.mit.edu	37	2	87603060	87603061	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:87603060_87603061insC	uc002srs.3	+											SubName: Full=cDNA FLJ10361 fis, clone NT2RM2001256, highly similar to Anaphase-promoting complex subunit 1;											ovary(1)|skin(1)	2																		---	---	---	---
RMND5A	64795	broad.mit.edu	37	2	87629325	87629325	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:87629325delA	uc002srs.3	+											SubName: Full=cDNA FLJ10361 fis, clone NT2RM2001256, highly similar to Anaphase-promoting complex subunit 1;											ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	88681048	88681048	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:88681048delT								THNSL2 (194903 upstream) : FOXI3 (66678 downstream)																																			---	---	---	---
FLJ40330	645784	broad.mit.edu	37	2	89071361	89071361	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:89071361delA	uc002stf.2	+						FLJ40330_uc010fhf.2_Intron|FLJ40330_uc010fhg.2_Intron|FLJ40330_uc010fhh.2_Intron					Homo sapiens mRNA; cDNA DKFZp434J1630 (from clone DKFZp434J1630).												0																		---	---	---	---
FLJ40330	645784	broad.mit.edu	37	2	89073203	89073204	+	Intron	INS	-	A	A	rs11389613		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:89073203_89073204insA	uc002stf.2	+						FLJ40330_uc010fhf.2_Intron|FLJ40330_uc010fhg.2_Intron|FLJ40330_uc010fhh.2_Intron					Homo sapiens mRNA; cDNA DKFZp434J1630 (from clone DKFZp434J1630).												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	89859019	89859020	+	IGR	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:89859019_89859020insC								FLJ40330 (752894 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	90479611	90479612	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:90479611_90479612delTT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	91683147	91683147	+	IGR	DEL	G	-	-	rs2599220		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91683147delG								None (None upstream) : LOC654342 (122045 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	91738235	91738237	+	IGR	DEL	TCA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91738235_91738237delTCA								None (None upstream) : LOC654342 (66955 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	91768192	91768192	+	IGR	DEL	A	-	-	rs4400638		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91768192delA								None (None upstream) : LOC654342 (37000 downstream)																																			---	---	---	---
LOC654342	654342	broad.mit.edu	37	2	91839628	91839628	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91839628delA	uc002sts.3	-						LOC654342_uc002stt.2_Intron|LOC654342_uc010yub.1_Intron					Homo sapiens cDNA clone IMAGE:4801360.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	91852213	91852213	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91852213delT								LOC654342 (4238 upstream) : GGT8P (111155 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	91914575	91914575	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91914575delT								LOC654342 (66600 upstream) : GGT8P (48793 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	91917508	91917508	+	IGR	DEL	T	-	-	rs141783071		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91917508delT								LOC654342 (69533 upstream) : GGT8P (45860 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	92148920	92148920	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:92148920delT								FKSG73 (18426 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	92263846	92263846	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:92263846delT								FKSG73 (133352 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	95363894	95363895	+	IGR	INS	-	CC	CC	rs70964845		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:95363894_95363895insCC								None (None upstream) : ANKRD20B (62780 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	95566589	95566589	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:95566589delT	uc002stv.1	-											Homo sapiens cDNA FLJ44118 fis, clone TESTI4047069.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	95861900	95861900	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:95861900delT								ZNF2 (11838 upstream) : PROM2 (78301 downstream)																																			---	---	---	---
LOC729234	729234	broad.mit.edu	37	2	96687157	96687157	+	RNA	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96687157delC	uc010fht.2	+	3		c.333delC				NR_003698				Homo sapiens fumarylacetoacetate hydrolase domain containing 2 pseudogene (LOC729234), non-coding RNA.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	96843335	96843335	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96843335delT								DUSP2 (32156 upstream) : STARD7 (7270 downstream)																																			---	---	---	---
STARD7	56910	broad.mit.edu	37	2	96854687	96854687	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96854687delT	uc002svm.3	-						STARD7_uc002svl.2_Intron	NM_020151	NP_064536			START domain containing 7 precursor							mitochondrion					0																		---	---	---	---
LOC285033	285033	broad.mit.edu	37	2	96900990	96900991	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96900990_96900991delAA	uc002svo.2	+						LOC285033_uc002svn.2_Intron					Homo sapiens cDNA FLJ32857 fis, clone TESTI2003541.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	97129066	97129066	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97129066delT								NCAPH (87792 upstream) : NEURL3 (34319 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	97160222	97160224	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97160222_97160224delTTT								NCAPH (118948 upstream) : NEURL3 (3161 downstream)																																			---	---	---	---
FER1L5	90342	broad.mit.edu	37	2	97331343	97331345	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97331343_97331345delTTT	uc010fia.2	+							NM_001113382	NP_001106853			fer-1-like 5 isoform 2							integral to membrane				ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	97411989	97411990	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97411989_97411990delTT								LMAN2L (6176 upstream) : CNNM4 (14649 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	97412708	97412709	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97412708_97412709delAA								LMAN2L (6895 upstream) : CNNM4 (13930 downstream)																																			---	---	---	---
CNNM3	26505	broad.mit.edu	37	2	97497901	97497901	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97497901delT	uc002swy.2	+						CNNM3_uc002swz.2_Intron	NM_017623	NP_060093			cyclin M3 isoform 1						ion transport	integral to membrane|plasma membrane	protein binding			ovary(1)	1																		---	---	---	---
FAM178B	51252	broad.mit.edu	37	2	97570791	97570791	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97570791delA	uc002sxl.3	-						FAM178B_uc002sxk.3_Intron	NM_001122646	NP_001116118			hypothetical protein LOC51252 isoform A												0																		---	---	---	---
TMEM131	23505	broad.mit.edu	37	2	98477252	98477252	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98477252delA	uc002syh.3	-						TMEM131_uc010yvg.1_Intron	NM_015348	NP_056163			RW1 protein							integral to membrane				ovary(4)|central_nervous_system(2)	6																		---	---	---	---
VWA3B	200403	broad.mit.edu	37	2	98706114	98706115	+	Intron	DEL	TT	-	-	rs74515004		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98706114_98706115delTT	uc002syo.2	+						VWA3B_uc010yvh.1_Intron|VWA3B_uc002syj.2_Intron|VWA3B_uc002syk.1_Intron|VWA3B_uc002syl.1_Intron|VWA3B_uc002sym.2_Intron|VWA3B_uc002syn.1_Intron	NM_144992	NP_659429			von Willebrand factor A domain containing 3B											ovary(3)|large_intestine(2)|skin(1)	6																		---	---	---	---
VWA3B	200403	broad.mit.edu	37	2	98734214	98734215	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98734214_98734215insC	uc002syo.2	+						VWA3B_uc010yvh.1_Intron|VWA3B_uc002syj.2_Intron|VWA3B_uc002syk.1_Intron|VWA3B_uc002syl.1_Intron|VWA3B_uc002sym.2_Intron|VWA3B_uc002syn.1_Intron	NM_144992	NP_659429			von Willebrand factor A domain containing 3B											ovary(3)|large_intestine(2)|skin(1)	6																		---	---	---	---
VWA3B	200403	broad.mit.edu	37	2	98804090	98804091	+	Intron	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98804090_98804091delTC	uc002syo.2	+						VWA3B_uc010yvh.1_Intron|VWA3B_uc002syj.2_Intron|VWA3B_uc002syk.1_Intron|VWA3B_uc002syl.1_Intron|VWA3B_uc002sym.2_Intron|VWA3B_uc002syn.1_Intron|VWA3B_uc010yvi.1_Intron	NM_144992	NP_659429			von Willebrand factor A domain containing 3B											ovary(3)|large_intestine(2)|skin(1)	6																		---	---	---	---
VWA3B	200403	broad.mit.edu	37	2	98887072	98887072	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98887072delT	uc002syo.2	+						VWA3B_uc002sym.2_Intron|VWA3B_uc002syn.1_Intron|VWA3B_uc010yvi.1_Intron|VWA3B_uc002syp.1_Intron|VWA3B_uc002syq.1_Intron|VWA3B_uc002syr.1_Intron|VWA3B_uc002sys.2_Intron	NM_144992	NP_659429			von Willebrand factor A domain containing 3B											ovary(3)|large_intestine(2)|skin(1)	6																		---	---	---	---
VWA3B	200403	broad.mit.edu	37	2	98887137	98887137	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98887137delT	uc002syo.2	+						VWA3B_uc002sym.2_Intron|VWA3B_uc002syn.1_Intron|VWA3B_uc010yvi.1_Intron|VWA3B_uc002syp.1_Intron|VWA3B_uc002syq.1_Intron|VWA3B_uc002syr.1_Intron|VWA3B_uc002sys.2_Intron	NM_144992	NP_659429			von Willebrand factor A domain containing 3B											ovary(3)|large_intestine(2)|skin(1)	6																		---	---	---	---
MGAT4A	11320	broad.mit.edu	37	2	99241956	99241956	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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	99516101	99516101	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99516101delA	uc002szf.1	-							NM_207362	NP_997245			hypothetical protein LOC343990												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	99563002	99563002	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99563002delA								C2orf55 (10318 upstream) : TSGA10 (50723 downstream)																																			---	---	---	---
TXNDC9	10190	broad.mit.edu	37	2	99944223	99944223	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99944223delA	uc002szz.2	-						TXNDC9_uc010yvp.1_Intron|TXNDC9_uc002taa.1_Intron	NM_005783	NP_005774			thioredoxin domain containing 9						cell redox homeostasis		protein binding				0																		---	---	---	---
REV1	51455	broad.mit.edu	37	2	100089264	100089264	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:100089264delA	uc002tad.2	-						REV1_uc002tac.2_Intron	NM_016316	NP_057400			REV1-like isoform 1						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					---	---	---	---
REV1	51455	broad.mit.edu	37	2	100089828	100089828	+	Intron	DEL	A	-	-	rs67481018		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:100089828delA	uc002tad.2	-						REV1_uc002tac.2_Intron	NM_016316	NP_057400			REV1-like isoform 1						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					---	---	---	---
AFF3	3899	broad.mit.edu	37	2	100213098	100213098	+	Intron	DEL	C	-	-	rs34315342		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:100213098delC	uc002tag.2	-						AFF3_uc002taf.2_Intron|AFF3_uc010fiq.1_Intron|AFF3_uc010yvr.1_Intron|AFF3_uc002tah.1_Intron	NM_002285	NP_002276			AF4/FMR2 family, member 3 isoform 1						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6																		---	---	---	---
AFF3	3899	broad.mit.edu	37	2	100288711	100288711	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:100288711delA	uc002tag.2	-						AFF3_uc002taf.2_Intron|AFF3_uc010fiq.1_Intron|AFF3_uc010yvr.1_Intron|AFF3_uc002tah.1_Intron	NM_002285	NP_002276			AF4/FMR2 family, member 3 isoform 1						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6																		---	---	---	---
LONRF2	164832	broad.mit.edu	37	2	100898348	100898350	+	3'UTR	DEL	TTT	-	-	rs71890189		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:100898348_100898350delTTT	uc002tal.3	-	12					LONRF2_uc010yvs.1_RNA	NM_198461	NP_940863			LON peptidase N-terminal domain and ring finger						proteolysis		ATP-dependent peptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	101257141	101257142	+	IGR	DEL	TT	-	-	rs71718599		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:101257141_101257142delTT								PDCL3 (63940 upstream) : NPAS2 (179471 downstream)																																			---	---	---	---
TBC1D8	11138	broad.mit.edu	37	2	101624787	101624787	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:101624787delT	uc010fiv.2	-						RPL31_uc010yvu.1_Intron|RPL31_uc010yvv.1_Intron|RPL31_uc010fiu.1_Intron|TBC1D8_uc002tau.3_Intron	NM_001102426	NP_001095896			TBC1 domain family, member 8						blood circulation|positive regulation of cell proliferation	intracellular|membrane	calcium ion binding|Rab GTPase activator activity			ovary(3)	3																		---	---	---	---
C2orf29	55571	broad.mit.edu	37	2	101884667	101884668	+	Intron	DEL	CT	-	-	rs71853788		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:101884667_101884668delCT	uc002taw.3	+							NM_017546	NP_060016			hypothetical protein LOC55571						cell proliferation|nuclear-transcribed mRNA poly(A) tail shortening	cytosol				ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5																		---	---	---	---
CREG2	200407	broad.mit.edu	37	2	101997242	101997242	+	Intron	DEL	A	-	-	rs66461935		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:101997242delA	uc002tba.2	-							NM_153836	NP_722578			cellular repressor of E1A-stimulated genes 2							extracellular region	FMN binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	102308070	102308070	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:102308070delT								RFX8 (216905 upstream) : MAP4K4 (6418 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	102658879	102658879	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:102658879delA								IL1R2 (13999 upstream) : IL1R1 (27957 downstream)																																			---	---	---	---
IL1R1	3554	broad.mit.edu	37	2	102722699	102722700	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:102722699_102722700delTG	uc010fix.2	+							NM_000877	NP_000868			interleukin 1 receptor, type I precursor						innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity|platelet-derived growth factor receptor binding			skin(1)	1					Anakinra(DB00026)													---	---	---	---
IL1RL2	8808	broad.mit.edu	37	2	102812174	102812174	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:102812174delT	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																		---	---	---	---
SLC9A4	389015	broad.mit.edu	37	2	103096820	103096820	+	Intron	DEL	T	-	-	rs11123932		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:103096820delT	uc002tbz.3	+							NM_001011552	NP_001011552			solute carrier family 9 (sodium/hydrogen						regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3																		---	---	---	---
MFSD9	84804	broad.mit.edu	37	2	103347663	103347663	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:103347663delT	uc002tcb.2	-						MFSD9_uc010fja.2_Intron	NM_032718	NP_116107			major facilitator superfamily domain containing						transmembrane transport	integral to membrane|plasma membrane	transporter activity			ovary(2)|breast(2)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	103538352	103538352	+	IGR	DEL	A	-	-	rs76939425	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:103538352delA								TMEM182 (104216 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	103831485	103831485	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:103831485delT								TMEM182 (397349 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	104054161	104054161	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:104054161delA								TMEM182 (620025 upstream) : LOC150568 (996644 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	104136304	104136304	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:104136304delT								TMEM182 (702168 upstream) : LOC150568 (914501 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	104279976	104279976	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:104279976delT								TMEM182 (845840 upstream) : LOC150568 (770829 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	104596867	104596867	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:104596867delT								None (None upstream) : LOC150568 (453938 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	104942166	104942166	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:104942166delT								None (None upstream) : LOC150568 (108639 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	105136627	105136628	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:105136627_105136628delCT								LOC150568 (7413 upstream) : POU3F3 (335341 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	105187441	105187441	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:105187441delA								LOC150568 (58227 upstream) : POU3F3 (284528 downstream)																																			---	---	---	---
POU3F3	5455	broad.mit.edu	37	2	105470966	105470966	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:105470966delT	uc010ywg.1	+							NM_006236	NP_006227			POU class 3 homeobox 3						metanephric ascending thin limb development|metanephric DCT cell differentiation|metanephric macula densa development|metanephric thick ascending limb development|negative regulation of apoptosis|positive regulation of cell proliferation	nucleus	sequence-specific DNA binding			ovary(1)	1																		---	---	---	---
TGFBRAP1	9392	broad.mit.edu	37	2	105892318	105892318	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:105892318delT	uc002tcq.2	-						TGFBRAP1_uc010fjc.2_Intron|TGFBRAP1_uc002tcr.3_Intron	NM_004257	NP_004248			transforming growth factor, beta receptor						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																		---	---	---	---
FHL2	2274	broad.mit.edu	37	2	106013468	106013468	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:106013468delT	uc002tcu.2	-						FHL2_uc002tdc.2_Intron|FHL2_uc002tdd.2_Intron|FHL2_uc002tcv.2_Intron|FHL2_uc002tcw.2_Intron|FHL2_uc002tcx.2_Intron|FHL2_uc010fje.2_Intron|FHL2_uc002tcy.2_Intron|FHL2_uc002tcz.2_Intron|FHL2_uc002tda.2_Intron|FHL2_uc002tdb.2_Intron|FHL2_uc002tde.1_Intron	NM_201557	NP_963851			four and a half LIM domains 2						androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription, DNA-dependent|response to hormone stimulus|transcription, DNA-dependent	actin cytoskeleton|focal adhesion|nucleus	androgen receptor binding|identical protein binding|transcription coactivator activity|zinc ion binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	106114575	106114575	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:106114575delA								FHL2 (59345 upstream) : NCK2 (246779 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	106166995	106166996	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:106166995_106166996delTT								FHL2 (111765 upstream) : NCK2 (194358 downstream)																																			---	---	---	---
NCK2	8440	broad.mit.edu	37	2	106507728	106507728	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:106507728delT	uc002tdg.2	+						NCK2_uc002tdh.2_Intron|NCK2_uc002tdi.2_Intron	NM_003581	NP_003572			NCK adaptor protein 2 isoform A						axon guidance|epidermal growth factor receptor signaling pathway|negative regulation of cell proliferation|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of epidermal growth factor receptor activity|regulation of translation|signal complex assembly|T cell activation	cytosol|endoplasmic reticulum	cytoskeletal adaptor activity|receptor signaling complex scaffold activity			ovary(1)|lung(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	106560650	106560650	+	IGR	DEL	C	-	-	rs5833161		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:106560650delC								NCK2 (49924 upstream) : C2orf40 (121463 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	106975159	106975159	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:106975159delG								UXS1 (164364 upstream) : PLGLA (27610 downstream)																																			---	---	---	---
RGPD3	653489	broad.mit.edu	37	2	107075791	107075791	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:107075791delA	uc010ywi.1	-							NM_001144013	NP_001137485			RANBP2-like and GRIP domain containing 3						intracellular transport		binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	107191234	107191234	+	IGR	DEL	A	-	-	rs79248474		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:107191234delA								RGPD3 (106433 upstream) : ST6GAL2 (226824 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	107809592	107809593	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:107809592_107809593delAC								ST6GAL2 (306029 upstream) : LOC729121 (629927 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	108127784	108127785	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:108127784_108127785insA								ST6GAL2 (624221 upstream) : LOC729121 (311735 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	108354067	108354070	+	IGR	DEL	AAAA	-	-	rs112282653		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:108354067_108354070delAAAA								ST6GAL2 (850504 upstream) : LOC729121 (85450 downstream)																																			---	---	---	---
RGPD4	285190	broad.mit.edu	37	2	108469895	108469896	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:108469895_108469896delTT	uc010ywk.1	+						RGPD4_uc002tdu.2_Intron|RGPD4_uc010ywl.1_Intron	NM_182588	NP_872394			RANBP2-like and GRIP domain containing 4						intracellular transport		binding			skin(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	109046006	109046007	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109046006_109046007insT								SULT1C4 (41736 upstream) : GCC2 (19570 downstream)																																			---	---	---	---
GCC2	9648	broad.mit.edu	37	2	109067338	109067338	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109067338delA	uc002tec.2	+						GCC2_uc002ted.2_Intron	NM_181453	NP_852118			GRIP and coiled-coil domain-containing 2						Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1																		---	---	---	---
LIMS1	3987	broad.mit.edu	37	2	109224764	109224766	+	Intron	DEL	TTT	-	-	rs72323220		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109224764_109224766delTTT	uc002teg.2	+						LIMS1_uc002tef.2_Intron|LIMS1_uc002teh.2_Intron|LIMS1_uc002tei.2_Intron	NM_004987	NP_004978			LIM and senescent cell antigen-like domains 1						cell aging|cell junction assembly|cellular response to transforming growth factor beta stimulus|negative regulation of transcription, DNA-dependent	cytosol|focal adhesion|perinuclear region of cytoplasm	protein binding|zinc ion binding				0																		---	---	---	---
LIMS1	3987	broad.mit.edu	37	2	109228928	109228929	+	Intron	DEL	TT	-	-	rs76768668		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109228928_109228929delTT	uc002teg.2	+						LIMS1_uc002tef.2_Intron|LIMS1_uc002teh.2_Intron|LIMS1_uc002tei.2_Intron	NM_004987	NP_004978			LIM and senescent cell antigen-like domains 1						cell aging|cell junction assembly|cellular response to transforming growth factor beta stimulus|negative regulation of transcription, DNA-dependent	cytosol|focal adhesion|perinuclear region of cytoplasm	protein binding|zinc ion binding				0																		---	---	---	---
LIMS1	3987	broad.mit.edu	37	2	109277793	109277794	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109277793_109277794delTT	uc002teg.2	+						LIMS1_uc002tef.2_Intron|LIMS1_uc002teh.2_Intron|LIMS1_uc002tei.2_Intron|LIMS1_uc002tej.2_Intron|LIMS1_uc002tek.3_Intron	NM_004987	NP_004978			LIM and senescent cell antigen-like domains 1						cell aging|cell junction assembly|cellular response to transforming growth factor beta stimulus|negative regulation of transcription, DNA-dependent	cytosol|focal adhesion|perinuclear region of cytoplasm	protein binding|zinc ion binding				0																		---	---	---	---
CCDC138	165055	broad.mit.edu	37	2	109453400	109453400	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109453400delT	uc002ten.1	+						CCDC138_uc002teo.1_Intron|CCDC138_uc002tep.1_Intron|CCDC138_uc010fjm.1_Intron	NM_144978	NP_659415			coiled-coil domain containing 138												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	109628370	109628371	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109628370_109628371delTG								EDAR (22542 upstream) : SH3RF3 (117626 downstream)																																			---	---	---	---
SEPT10	151011	broad.mit.edu	37	2	110305755	110305755	+	Intron	DEL	A	-	-	rs67564962		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:110305755delA	uc002tew.2	-						SEPT10_uc010ywu.1_Intron|SEPT10_uc002tex.2_Intron|SEPT10_uc002tey.2_Intron|SEPT10_uc010ywv.1_Intron|SEPT10_uc002tev.1_Intron|SEPT10_uc010fjo.2_Intron	NM_144710	NP_653311			septin 10 isoform 1						cell cycle|cell division	septin complex	GTP binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	110494538	110494538	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:110494538delA								ANKRD57 (117975 upstream) : RGPD5 (55797 downstream)																																			---	---	---	---
NPHP1	4867	broad.mit.edu	37	2	110899925	110899925	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:110899925delT	uc002tfn.3	-						NPHP1_uc002tfm.3_Intron|NPHP1_uc002tfl.3_Intron|NPHP1_uc002tfo.3_Intron|NPHP1_uc010ywx.1_Intron|NPHP1_uc010fjv.1_Intron	NM_207181	NP_997064			nephrocystin 1 isoform 2						actin cytoskeleton organization|cell projection organization|cell-cell adhesion|excretion|retina development in camera-type eye|signal transduction|spermatid differentiation|visual behavior	adherens junction|cell-cell junction|cilium axoneme|cytoplasm|cytoskeleton|motile cilium|photoreceptor connecting cilium	protein binding|structural molecule activity			ovary(2)	2																		---	---	---	---
ACOXL	55289	broad.mit.edu	37	2	111807159	111807159	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:111807159delT	uc002tgr.3	+						ACOXL_uc010fkc.2_Intron|ACOXL_uc010yxk.1_Intron	NM_001105516	NP_001098986			acyl-Coenzyme A oxidase-like 2						fatty acid beta-oxidation	peroxisome	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity				0																		---	---	---	---
ACOXL	55289	broad.mit.edu	37	2	111835178	111835178	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:111835178delT	uc002tgr.3	+						ACOXL_uc010fkc.2_Intron|ACOXL_uc010yxk.1_Intron	NM_001105516	NP_001098986			acyl-Coenzyme A oxidase-like 2						fatty acid beta-oxidation	peroxisome	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity				0																		---	---	---	---
ACOXL	55289	broad.mit.edu	37	2	111860224	111860224	+	Intron	DEL	A	-	-	rs112351339		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:111860224delA	uc010yxk.1	+						uc002tgs.1_Intron	NM_001142807	NP_001136279			acyl-Coenzyme A oxidase-like 1						fatty acid beta-oxidation	peroxisome	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity				0																		---	---	---	---
LOC541471	541471	broad.mit.edu	37	2	112154871	112154873	+	Intron	DEL	ATC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:112154871_112154873delATC	uc002the.2	-						LOC541471_uc010yxl.1_Intron					Homo sapiens hypothetical LOC541471, mRNA (cDNA clone IMAGE:3459303).												0																		---	---	---	---
MERTK	10461	broad.mit.edu	37	2	112688776	112688776	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:112688776delT	uc002thk.1	+						MERTK_uc002thl.1_Intron	NM_006343	NP_006334			MER receptor tyrosine kinase precursor						cell surface receptor linked signaling pathway|cell-cell signaling|leukocyte migration	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|upper_aerodigestive_tract(1)|stomach(1)|kidney(1)	9																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	112802980	112802980	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:112802980delT								MERTK (16035 upstream) : TMEM87B (9820 downstream)																																			---	---	---	---
ZC3H6	376940	broad.mit.edu	37	2	113079278	113079278	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113079278delA	uc002thq.1	+							NM_198581	NP_940983			zinc finger CCCH-type domain containing 6								nucleic acid binding|zinc ion binding			ovary(3)|central_nervous_system(1)	4																		---	---	---	---
TTL	150465	broad.mit.edu	37	2	113241154	113241154	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113241154delT	uc002thu.2	+							NM_153712	NP_714923			tubulin tyrosine ligase						protein modification process		ATP binding|tubulin-tyrosine ligase activity				0		Ovarian(717;0.024)		BRCA - Breast invasive adenocarcinoma(221;6.17e-07)|STAD - Stomach adenocarcinoma(1183;0.00644)				T	ETV6	ALL								---	---	---	---
POLR1B	84172	broad.mit.edu	37	2	113316706	113316706	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113316706delT	uc002thw.2	+						POLR1B_uc010fkn.2_Intron|POLR1B_uc002thx.2_Intron|POLR1B_uc010fko.2_Intron|POLR1B_uc010fkp.2_Intron|POLR1B_uc010yxn.1_Intron|POLR1B_uc002thy.2_Intron|POLR1B_uc010yxo.1_Intron	NM_019014	NP_061887			RNA polymerase I polypeptide B isoform 1						termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	113368735	113368735	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113368735delT								CHCHD5 (21885 upstream) : SLC20A1 (34792 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	113485385	113485386	+	Intron	INS	-	A	A	rs139338172	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113485385_113485386insA	uc002tid.2	+											RecName: Full=5'-nucleotidase domain-containing protein 4;																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	113566654	113566654	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113566654delT								IL1A (23683 upstream) : IL1B (20683 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	113576745	113576745	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113576745delT								IL1A (33774 upstream) : IL1B (10592 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	113778920	113778920	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113778920delA								IL1F6 (13301 upstream) : IL1F8 (748 downstream)																																			---	---	---	---
CBWD2	150472	broad.mit.edu	37	2	114217942	114217942	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:114217942delT	uc002tju.2	+						CBWD2_uc010yxw.1_Intron|CBWD2_uc002tjv.2_Intron|CBWD2_uc010fkv.2_Intron	NM_172003	NP_742000			COBW domain-containing protein 2								ATP binding|protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	114823903	114823904	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:114823903_114823904delAC								ACTR3 (107736 upstream) : DPP10 (375995 downstream)																																			---	---	---	---
DPP10	57628	broad.mit.edu	37	2	115858562	115858562	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:115858562delT	uc002tla.1	+						DPP10_uc002tlb.1_Intron|DPP10_uc002tlc.1_Intron	NM_020868	NP_065919			dipeptidyl peptidase 10 isoform long						proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10																		---	---	---	---
DPP10	57628	broad.mit.edu	37	2	115917125	115917125	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:115917125delA	uc002tla.1	+						DPP10_uc002tlb.1_Intron|DPP10_uc002tlc.1_Intron|DPP10_uc002tle.2_5'Flank|DPP10_uc002tlf.1_5'Flank|uc002tld.2_Intron	NM_020868	NP_065919			dipeptidyl peptidase 10 isoform long						proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10																		---	---	---	---
DPP10	57628	broad.mit.edu	37	2	115930666	115930667	+	Intron	INS	-	TT	TT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:115930666_115930667insTT	uc002tla.1	+						DPP10_uc002tlb.1_Intron|DPP10_uc002tlc.1_Intron|DPP10_uc002tle.2_Intron|DPP10_uc002tlf.1_Intron	NM_020868	NP_065919			dipeptidyl peptidase 10 isoform long						proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10																		---	---	---	---
DPP10	57628	broad.mit.edu	37	2	116164909	116164910	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:116164909_116164910insC	uc002tla.1	+						DPP10_uc002tlb.1_Intron|DPP10_uc002tlc.1_Intron|DPP10_uc002tle.2_Intron|DPP10_uc002tlf.1_Intron	NM_020868	NP_065919			dipeptidyl peptidase 10 isoform long						proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	117057748	117057748	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:117057748delA								DPP10 (455812 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	117290122	117290122	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:117290122delA								DPP10 (688186 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	118238204	118238204	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:118238204delT								None (None upstream) : DDX18 (334051 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	118372193	118372194	+	IGR	DEL	AC	-	-	rs10198944	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:118372193_118372194delAC								None (None upstream) : DDX18 (200061 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	118596297	118596297	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:118596297delA								DDX18 (6344 upstream) : CCDC93 (76852 downstream)																																			---	---	---	---
CCDC93	54520	broad.mit.edu	37	2	118675616	118675619	+	3'UTR	DEL	TGTC	-	-	rs140120849		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:118675616_118675619delTGTC	uc002tlj.2	-	24						NM_019044	NP_061917			coiled-coil domain containing 93											large_intestine(1)|ovary(1)	2																		---	---	---	---
INSIG2	51141	broad.mit.edu	37	2	118851318	118851320	+	Intron	DEL	GAA	-	-	rs5833733		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:118851318_118851320delGAA	uc002tlk.2	+						INSIG2_uc010yye.1_Intron	NM_016133	NP_057217			insulin induced protein 2						ER-nuclear sterol response pathway	SREBP-SCAP-Insig complex				ovary(1)|central_nervous_system(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	118884920	118884920	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:118884920delT								INSIG2 (17324 upstream) : EN1 (714828 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	120058652	120058653	+	IGR	INS	-	AC	AC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:120058652_120058653insAC								STEAP3 (35427 upstream) : C2orf76 (1367 downstream)																																			---	---	---	---
PCDP1	200373	broad.mit.edu	37	2	120324412	120324412	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:120324412delT	uc002tmb.2	+						PCDP1_uc010yyq.1_Intron	NM_001029996	NP_001025167			primary ciliary dyskinesia protein 1							cilium	calmodulin binding				0	Colorectal(110;0.196)																	---	---	---	---
PCDP1	200373	broad.mit.edu	37	2	120412196	120412196	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:120412196delT	uc002tmb.2	+							NM_001029996	NP_001025167			primary ciliary dyskinesia protein 1							cilium	calmodulin binding				0	Colorectal(110;0.196)																	---	---	---	---
PTPN4	5775	broad.mit.edu	37	2	120567393	120567393	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:120567393delT	uc002tmf.1	+							NM_002830	NP_002821			protein tyrosine phosphatase, non-receptor type							cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)													---	---	---	---
PTPN4	5775	broad.mit.edu	37	2	120714768	120714769	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:120714768_120714769insA	uc002tmf.1	+						PTPN4_uc010flj.1_Intron|PTPN4_uc010yyr.1_Intron	NM_002830	NP_002821			protein tyrosine phosphatase, non-receptor type							cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)													---	---	---	---
RALB	5899	broad.mit.edu	37	2	121019423	121019423	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:121019423delG	uc002tmk.2	+						RALB_uc010yys.1_Intron|RALB_uc002tml.2_Intron|RALB_uc002tmm.2_Intron|RALB_uc010yyt.1_Intron	NM_002881	NP_002872			v-ral simian leukemia viral oncogene homolog B						apoptosis|cell cycle|cytokinesis|nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of exocyst assembly|regulation of exocyst localization	cytosol|midbody|plasma membrane	GTP binding|GTPase activity|protein binding			lung(3)	3		Prostate(154;0.122)																---	---	---	---
Unknown	0	broad.mit.edu	37	2	121254743	121254743	+	IGR	DEL	A	-	-	rs112891570		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:121254743delA								LOC84931 (30818 upstream) : GLI2 (238456 downstream)																																			---	---	---	---
TFCP2L1	29842	broad.mit.edu	37	2	121996796	121996796	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:121996796delC	uc002tmx.2	-						TFCP2L1_uc010flr.2_Intron	NM_014553	NP_055368			LBP-9						female pregnancy|steroid biosynthetic process	mitochondrion|nucleolus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			pancreas(2)|ovary(1)	3	Renal(3;0.01)																	---	---	---	---
CLASP1	23332	broad.mit.edu	37	2	122101906	122101906	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:122101906delA	uc002tnc.2	-						CLASP1_uc010yyv.1_Intron|CLASP1_uc002tmz.2_Intron|CLASP1_uc002tna.2_Intron|CLASP1_uc010yyw.1_Intron|CLASP1_uc002tnb.2_Intron|CLASP1_uc010yyx.1_Intron|CLASP1_uc010yyy.1_Intron|CLASP1_uc010yyz.1_Intron|CLASP1_uc010yza.1_Intron|CLASP1_uc010yzb.1_Intron|CLASP1_uc010yzc.1_Intron|CLASP1_uc002tmy.2_Intron	NM_015282	NP_056097			CLIP-associating protein 1 isoform 1						axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)																	---	---	---	---
Unknown	0	broad.mit.edu	37	2	122634481	122634481	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:122634481delT								TSN (109055 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	122821289	122821290	+	IGR	INS	-	CA	CA	rs140134172	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:122821289_122821290insCA								TSN (295863 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	123073374	123073374	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:123073374delA								TSN (547948 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	123154834	123154834	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:123154834delT								TSN (629408 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	123396753	123396754	+	IGR	INS	-	AAC	AAC	rs149899238	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:123396753_123396754insAAC								TSN (871327 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	123408157	123408158	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:123408157_123408158insA								TSN (882731 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	123538218	123538218	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:123538218delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	123608920	123608920	+	IGR	DEL	A	-	-	rs77943286	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:123608920delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	124261343	124261343	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:124261343delA								None (None upstream) : CNTNAP5 (521521 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	124267764	124267767	+	IGR	DEL	TGTG	-	-	rs145301925		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:124267764_124267767delTGTG								None (None upstream) : CNTNAP5 (515097 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	124275035	124275036	+	IGR	INS	-	A	A	rs140455755	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:124275035_124275036insA								None (None upstream) : CNTNAP5 (507828 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	124512340	124512340	+	IGR	DEL	C	-	-	rs1877654	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:124512340delC								None (None upstream) : CNTNAP5 (270524 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	124603666	124603667	+	IGR	INS	-	A	A	rs148291271	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:124603666_124603667insA								None (None upstream) : CNTNAP5 (179197 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	124718122	124718122	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:124718122delT								None (None upstream) : CNTNAP5 (64742 downstream)																																			---	---	---	---
CNTNAP5	129684	broad.mit.edu	37	2	124987114	124987115	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:124987114_124987115insA	uc002tno.2	+						CNTNAP5_uc010flu.2_Intron	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)														---	---	---	---
CNTNAP5	129684	broad.mit.edu	37	2	125300888	125300888	+	Intron	DEL	A	-	-	rs35714087		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:125300888delA	uc002tno.2	+						CNTNAP5_uc010flu.2_Intron	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)														---	---	---	---
CNTNAP5	129684	broad.mit.edu	37	2	125341213	125341213	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:125341213delA	uc002tno.2	+						CNTNAP5_uc010flu.2_Intron	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	125768854	125768854	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:125768854delA								CNTNAP5 (95993 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	126088139	126088139	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:126088139delT								CNTNAP5 (415278 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	126501973	126501973	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:126501973delT								CNTNAP5 (829112 upstream) : GYPC (911711 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	126572950	126572950	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:126572950delT								CNTNAP5 (900089 upstream) : GYPC (840734 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	126617765	126617765	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:126617765delA								CNTNAP5 (944904 upstream) : GYPC (795919 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	127385640	127385640	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:127385640delA								None (None upstream) : GYPC (28044 downstream)																																			---	---	---	---
GYPC	2995	broad.mit.edu	37	2	127453812	127453813	+	3'UTR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:127453812_127453813delAG	uc002tnq.2	+	4					GYPC_uc002tnr.2_3'UTR|GYPC_uc010flv.2_RNA	NM_002101	NP_002092			glycophorin C isoform 1							cortical cytoskeleton|integral to plasma membrane	protein binding			central_nervous_system(1)	1	Colorectal(110;0.0533)			BRCA - Breast invasive adenocarcinoma(221;0.075)														---	---	---	---
BIN1	274	broad.mit.edu	37	2	127825040	127825041	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:127825040_127825041insA	uc002tns.1	-						BIN1_uc010yzf.1_Intron|BIN1_uc010yzg.1_Intron|BIN1_uc002tnu.1_Intron|BIN1_uc002toa.1_Intron|BIN1_uc002tnt.1_Intron|BIN1_uc002tnv.1_Intron|BIN1_uc002tnw.1_Intron|BIN1_uc002tnx.1_Intron|BIN1_uc002tny.1_Intron|BIN1_uc002tnz.1_Intron|BIN1_uc002tob.1_Intron|BIN1_uc002toc.1_Intron	NM_139343	NP_647593			bridging integrator 1 isoform 1						cell proliferation|endocytosis|interspecies interaction between organisms|multicellular organismal development	actin cytoskeleton|nucleus				ovary(2)|central_nervous_system(2)|skin(2)|lung(1)	7	Colorectal(110;0.0831)			BRCA - Breast invasive adenocarcinoma(221;0.073)														---	---	---	---
MAP3K2	10746	broad.mit.edu	37	2	128070542	128070542	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128070542delA	uc002toj.1	-							NM_006609	NP_006600			mitogen-activated protein kinase kinase kinase						activation of JUN kinase activity|cellular response to mechanical stimulus	nucleus	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein kinase binding			lung(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0706)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	128672700	128672700	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128672700delA								AMMECR1L (29186 upstream) : SAP130 (26091 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	128815199	128815200	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128815199_128815200insA								SAP130 (29566 upstream) : UGGT1 (33554 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	128824754	128824757	+	IGR	DEL	AAAA	-	-	rs113610724		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128824754_128824757delAAAA								SAP130 (39121 upstream) : UGGT1 (23997 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	129214517	129214518	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:129214517_129214518delAA								HS6ST1 (138346 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	129428872	129428872	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:129428872delG								HS6ST1 (352701 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	130152630	130152631	+	IGR	INS	-	A	A	rs7604373	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:130152630_130152631insA								None (None upstream) : LOC389033 (527804 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	130313000	130313001	+	IGR	INS	-	TT	TT	rs35174576		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:130313000_130313001insTT								None (None upstream) : LOC389033 (367434 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	130654435	130654440	+	IGR	DEL	CATGAC	-	-	rs150074069		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:130654435_130654440delCATGAC								None (None upstream) : LOC389033 (25995 downstream)																																			---	---	---	---
LOC440905	440905	broad.mit.edu	37	2	130789417	130789417	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:130789417delA	uc002tpz.2	-						LOC440905_uc002tpy.1_RNA	NR_026758				Homo sapiens cDNA FLJ43933 fis, clone TESTI4013685.												0																		---	---	---	---
SMPD4	55627	broad.mit.edu	37	2	130917211	130917213	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:130917211_130917213delAAA	uc002tqq.1	-						SMPD4_uc002tqo.1_5'Flank|SMPD4_uc002tqp.1_Intron|SMPD4_uc010yzy.1_Intron|SMPD4_uc010yzz.1_Intron|SMPD4_uc002tqr.1_Intron|SMPD4_uc002tqs.1_Intron|SMPD4_uc002tqt.1_Intron|SMPD4_uc010zaa.1_Intron|SMPD4_uc010zab.1_Intron|SMPD4_uc010zac.1_Intron|SMPD4_uc010zad.1_Intron	NM_017951	NP_060421			sphingomyelin phosphodiesterase 4 isoform 2						sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)													---	---	---	---
Unknown	0	broad.mit.edu	37	2	132770579	132770582	+	IGR	DEL	CTAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:132770579_132770582delCTAA								C2orf27B (211345 upstream) : NCRNA00164 (134582 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	132774380	132774380	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:132774380delT								C2orf27B (215146 upstream) : NCRNA00164 (130784 downstream)																																			---	---	---	---
NCRNA00164	554226	broad.mit.edu	37	2	132922662	132922662	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:132922662delA	uc002ttj.3	-							NR_027020				Homo sapiens non-protein coding RNA 164, mRNA (cDNA clone IMAGE:5169389), with apparent retained intron.												0																		---	---	---	---
NCRNA00164	554226	broad.mit.edu	37	2	133001716	133001717	+	Intron	DEL	TT	-	-	rs79369156		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133001716_133001717delTT	uc002ttj.3	-							NR_027020				Homo sapiens non-protein coding RNA 164, mRNA (cDNA clone IMAGE:5169389), with apparent retained intron.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	133024323	133024324	+	IGR	DEL	AT	-	-	rs138928865		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133024323_133024324delAT								NCRNA00164 (8781 upstream) : GPR39 (149823 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	133031533	133031533	+	IGR	DEL	C	-	-	rs113787243		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133031533delC								NCRNA00164 (15991 upstream) : GPR39 (142614 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	133035729	133035730	+	IGR	INS	-	AC	AC	rs78720592		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133035729_133035730insAC								NCRNA00164 (20187 upstream) : GPR39 (138417 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	133049148	133049148	+	IGR	DEL	A	-	-	rs11475627		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133049148delA								NCRNA00164 (33606 upstream) : GPR39 (124999 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	133072392	133072393	+	Intron	INS	-	A	A	rs141663990		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133072392_133072393insA	uc002ttk.1	+											Homo sapiens cDNA FLJ37280 fis, clone BRAMY2012881.																														---	---	---	---
GPR39	2863	broad.mit.edu	37	2	133308857	133308857	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133308857delA	uc002ttl.2	+							NM_001508	NP_001499			G protein-coupled receptor 39							integral to plasma membrane	G-protein coupled receptor activity|metal ion binding				0																		---	---	---	---
NCKAP5	344148	broad.mit.edu	37	2	133450099	133450100	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133450099_133450100insT	uc002ttp.2	-						NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246			Nck-associated protein 5 isoform 1								protein binding				0																		---	---	---	---
NCKAP5	344148	broad.mit.edu	37	2	133459053	133459053	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133459053delA	uc002ttp.2	-						NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246			Nck-associated protein 5 isoform 1								protein binding				0																		---	---	---	---
NCKAP5	344148	broad.mit.edu	37	2	133617526	133617526	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133617526delA	uc002ttp.2	-						NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246			Nck-associated protein 5 isoform 1								protein binding				0																		---	---	---	---
NCKAP5	344148	broad.mit.edu	37	2	133705844	133705844	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133705844delG	uc002ttp.2	-						NCKAP5_uc002ttq.2_Intron|NCKAP5_uc002tts.1_Intron	NM_207363	NP_997246			Nck-associated protein 5 isoform 1								protein binding				0																		---	---	---	---
NCKAP5	344148	broad.mit.edu	37	2	133774392	133774392	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133774392delA	uc002ttp.2	-						NCKAP5_uc002ttq.2_Intron|NCKAP5_uc002tts.1_Intron	NM_207363	NP_997246			Nck-associated protein 5 isoform 1								protein binding				0																		---	---	---	---
NCKAP5	344148	broad.mit.edu	37	2	133886171	133886171	+	Intron	DEL	T	-	-	rs80147060		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133886171delT	uc002ttp.2	-						NCKAP5_uc002ttq.2_Intron|NCKAP5_uc002tts.1_Intron	NM_207363	NP_997246			Nck-associated protein 5 isoform 1								protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	134697250	134697251	+	IGR	DEL	AC	-	-	rs35404330		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:134697250_134697251delAC								NCKAP5 (371219 upstream) : MGAT5 (314579 downstream)																																			---	---	---	---
MGAT5	4249	broad.mit.edu	37	2	135197296	135197296	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135197296delA	uc002ttv.1	+							NM_002410	NP_002401			N-acetylglucosaminyltransferase V						post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)														---	---	---	---
TMEM163	81615	broad.mit.edu	37	2	135338787	135338787	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135338787delT	uc002ttx.2	-						TMEM163_uc002tty.2_Intron	NM_030923	NP_112185			transmembrane protein 163							integral to membrane					0				BRCA - Breast invasive adenocarcinoma(221;0.154)														---	---	---	---
TMEM163	81615	broad.mit.edu	37	2	135432239	135432239	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135432239delA	uc002ttx.2	-						TMEM163_uc002tty.2_Intron	NM_030923	NP_112185			transmembrane protein 163							integral to membrane					0				BRCA - Breast invasive adenocarcinoma(221;0.154)														---	---	---	---
TMEM163	81615	broad.mit.edu	37	2	135445503	135445503	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135445503delC	uc002ttx.2	-						TMEM163_uc002tty.2_Intron	NM_030923	NP_112185			transmembrane protein 163							integral to membrane					0				BRCA - Breast invasive adenocarcinoma(221;0.154)														---	---	---	---
ACMSD	130013	broad.mit.edu	37	2	135609025	135609026	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135609025_135609026delTT	uc002ttz.2	+						ACMSD_uc002tua.2_Intron	NM_138326	NP_612199			aminocarboxymuconate semialdehyde decarboxylase						quinolinate metabolic process|tryptophan catabolic process	cytosol	aminocarboxymuconate-semialdehyde decarboxylase activity|metal ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.115)														---	---	---	---
YSK4	80122	broad.mit.edu	37	2	135760184	135760185	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135760184_135760185delAA	uc002tue.1	-						YSK4_uc010fne.1_Intron|YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Intron|YSK4_uc010zbg.1_Intron|YSK4_uc002tui.3_Intron	NM_025052	NP_079328			Yeast Sps1/Ste20-related kinase 4 isoform 1								ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)														---	---	---	---
RAB3GAP1	22930	broad.mit.edu	37	2	135808663	135808663	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135808663delA	uc002tuj.2	+						RAB3GAP1_uc010fnf.2_5'Flank|RAB3GAP1_uc010fng.2_5'Flank	NM_012233	NP_036365			RAB3 GTPase-activating protein							centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)														---	---	---	---
RAB3GAP1	22930	broad.mit.edu	37	2	135921770	135921770	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135921770delA	uc002tuj.2	+						RAB3GAP1_uc010fnf.2_Intron|RAB3GAP1_uc010fng.2_Intron|RAB3GAP1_uc010fnh.1_Intron	NM_012233	NP_036365			RAB3 GTPase-activating protein							centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)														---	---	---	---
ZRANB3	84083	broad.mit.edu	37	2	136033737	136033737	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136033737delT	uc002tum.2	-						ZRANB3_uc002tuk.2_Intron|ZRANB3_uc002tul.2_Intron|ZRANB3_uc002tun.1_Intron	NM_032143	NP_115519			zinc finger, RAN-binding domain containing 3							intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)														---	---	---	---
ZRANB3	84083	broad.mit.edu	37	2	136201682	136201683	+	Intron	DEL	AA	-	-	rs72426659		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136201682_136201683delAA	uc002tum.2	-						ZRANB3_uc002tuk.2_Intron|ZRANB3_uc002tul.2_Intron|ZRANB3_uc002tun.1_Intron	NM_032143	NP_115519			zinc finger, RAN-binding domain containing 3							intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)														---	---	---	---
ZRANB3	84083	broad.mit.edu	37	2	136209148	136209149	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136209148_136209149delAA	uc002tum.2	-						ZRANB3_uc002tuk.2_Intron|ZRANB3_uc002tul.2_Intron|ZRANB3_uc002tun.1_Intron	NM_032143	NP_115519			zinc finger, RAN-binding domain containing 3							intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)														---	---	---	---
R3HDM1	23518	broad.mit.edu	37	2	136378980	136378981	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136378980_136378981delTG	uc002tuo.2	+						R3HDM1_uc010fni.2_Intron|R3HDM1_uc002tup.2_Intron	NM_015361	NP_056176			R3H domain containing 1								nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)														---	---	---	---
R3HDM1	23518	broad.mit.edu	37	2	136432836	136432836	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136432836delT	uc002tuo.2	+						R3HDM1_uc010fni.2_Intron|R3HDM1_uc002tup.2_Intron|R3HDM1_uc010zbh.1_Intron	NM_015361	NP_056176			R3H domain containing 1								nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)														---	---	---	---
MCM6	4175	broad.mit.edu	37	2	136622865	136622865	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136622865delA	uc002tuw.2	-							NM_005915	NP_005906			minichromosome maintenance complex component 6						cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|identical protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.166)	Atorvastatin(DB01076)													---	---	---	---
DARS	1615	broad.mit.edu	37	2	136734182	136734183	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136734182_136734183insA	uc002tux.1	-						DARS_uc010fnj.1_Intron	NM_001349	NP_001340			aspartyl-tRNA synthetase						aspartyl-tRNA aminoacylation|protein complex assembly	cytosol|nuclear membrane|plasma membrane|soluble fraction	aminoacylase activity|aspartate-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.168)	L-Aspartic Acid(DB00128)													---	---	---	---
Unknown	0	broad.mit.edu	37	2	137463986	137463986	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:137463986delT								CXCR4 (588261 upstream) : THSD7B (59129 downstream)																																			---	---	---	---
THSD7B	80731	broad.mit.edu	37	2	137549934	137549935	+	Intron	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:137549934_137549935delGA	uc010zbj.1	+											Homo sapiens mRNA for KIAA1679 protein, partial cds.											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)														---	---	---	---
THSD7B	80731	broad.mit.edu	37	2	138000234	138000234	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:138000234delT	uc002tva.1	+						THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)														---	---	---	---
THSD7B	80731	broad.mit.edu	37	2	138099498	138099499	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:138099498_138099499insT	uc002tva.1	+						THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	138838224	138838224	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:138838224delT								HNMT (64291 upstream) : SPOPL (421126 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	138856504	138856504	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:138856504delA								HNMT (82571 upstream) : SPOPL (402846 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	138982155	138982155	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:138982155delA								HNMT (208222 upstream) : SPOPL (277195 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	139208830	139208830	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:139208830delT	uc002tvg.2	-											full-length cDNA clone CS0DL004YM17 of B cells (Ramos cell line) Cot 25-normalized of Homo sapiens (human).																														---	---	---	---
SPOPL	339745	broad.mit.edu	37	2	139329569	139329570	+	3'UTR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:139329569_139329570delGT	uc002tvh.2	+	11						NM_001001664	NP_001001664			speckle-type POZ protein-like							nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	140937668	140937669	+	IGR	INS	-	ACAC	ACAC	rs147875454	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:140937668_140937669insACAC								None (None upstream) : LRP1B (51327 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	140940477	140940477	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:140940477delA								None (None upstream) : LRP1B (48519 downstream)																																			---	---	---	---
LRP1B	53353	broad.mit.edu	37	2	141174223	141174223	+	Intron	DEL	A	-	-	rs113247793		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141174223delA	uc002tvj.1	-							NM_018557	NP_061027			low density lipoprotein-related protein 1B						protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)											TSP Lung(27;0.18)			---	---	---	---
LRP1B	53353	broad.mit.edu	37	2	141333511	141333512	+	Intron	INS	-	A	A	rs144026660	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141333511_141333512insA	uc002tvj.1	-							NM_018557	NP_061027			low density lipoprotein-related protein 1B						protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)											TSP Lung(27;0.18)			---	---	---	---
LRP1B	53353	broad.mit.edu	37	2	141654071	141654072	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141654071_141654072insA	uc002tvj.1	-						LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027			low density lipoprotein-related protein 1B						protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)											TSP Lung(27;0.18)			---	---	---	---
LRP1B	53353	broad.mit.edu	37	2	142089679	142089679	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:142089679delT	uc002tvj.1	-						LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027			low density lipoprotein-related protein 1B						protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)											TSP Lung(27;0.18)			---	---	---	---
LRP1B	53353	broad.mit.edu	37	2	142138935	142138935	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:142138935delA	uc002tvj.1	-						LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027			low density lipoprotein-related protein 1B						protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)											TSP Lung(27;0.18)			---	---	---	---
LRP1B	53353	broad.mit.edu	37	2	142212818	142212819	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:142212818_142212819delAA	uc002tvj.1	-						LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027			low density lipoprotein-related protein 1B						protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)											TSP Lung(27;0.18)	OREG0004888	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	---	---	---	---
LRP1B	53353	broad.mit.edu	37	2	142291613	142291616	+	Intron	DEL	AGAA	-	-	rs145137915		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:142291613_142291616delAGAA	uc002tvj.1	-						LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027			low density lipoprotein-related protein 1B						protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)											TSP Lung(27;0.18)			---	---	---	---
LRP1B	53353	broad.mit.edu	37	2	142545774	142545774	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:142545774delC	uc002tvj.1	-						LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027			low density lipoprotein-related protein 1B						protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)											TSP Lung(27;0.18)			---	---	---	---
Unknown	0	broad.mit.edu	37	2	143185649	143185649	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:143185649delT								LRP1B (296379 upstream) : KYNU (449546 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	143413662	143413662	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:143413662delA								LRP1B (524392 upstream) : KYNU (221533 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	143614175	143614175	+	IGR	DEL	A	-	-	rs80223601		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:143614175delA								LRP1B (724905 upstream) : KYNU (21020 downstream)																																			---	---	---	---
KYNU	8942	broad.mit.edu	37	2	143718078	143718078	+	Intron	DEL	A	-	-	rs74847108		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:143718078delA	uc002tvl.2	+						KYNU_uc002tvk.2_Intron|KYNU_uc010fnm.2_Intron	NM_003937	NP_003928			kynureninase (L-kynurenine hydrolase) isoform a						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)													---	---	---	---
Unknown	0	broad.mit.edu	37	2	143836898	143836899	+	IGR	DEL	GG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:143836898_143836899delGG								KYNU (37014 upstream) : ARHGAP15 (50000 downstream)																																			---	---	---	---
ARHGAP15	55843	broad.mit.edu	37	2	143941064	143941064	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:143941064delT	uc002tvm.3	+						ARHGAP15_uc010zbl.1_Intron	NM_018460	NP_060930			ARHGAP15						regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)														---	---	---	---
ARHGAP15	55843	broad.mit.edu	37	2	144276716	144276716	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:144276716delA	uc002tvm.3	+						ARHGAP15_uc002tvn.2_Intron	NM_018460	NP_060930			ARHGAP15						regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)														---	---	---	---
ARHGAP15	55843	broad.mit.edu	37	2	144381556	144381556	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:144381556delA	uc002tvm.3	+						ARHGAP15_uc002tvn.2_Intron	NM_018460	NP_060930			ARHGAP15						regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)														---	---	---	---
ARHGAP15	55843	broad.mit.edu	37	2	144514215	144514215	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:144514215delA	uc002tvm.3	+						ARHGAP15_uc002tvn.2_Intron	NM_018460	NP_060930			ARHGAP15						regulation of cell shape|small GTPase mediated signal transduction	cytosol|membrane	protein binding|Rac GTPase activator activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.151)														---	---	---	---
GTDC1	79712	broad.mit.edu	37	2	144779137	144779137	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:144779137delA	uc002tvp.2	-						GTDC1_uc002tvo.2_Intron|GTDC1_uc002tvq.2_Intron|GTDC1_uc002tvr.2_Intron|GTDC1_uc010fnn.2_Intron|GTDC1_uc002tvs.2_Intron|GTDC1_uc010fno.2_Intron|GTDC1_uc002tvt.1_Intron	NM_001006636	NP_001006637			glycosyltransferase-like domain containing 1						biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)														---	---	---	---
GTDC1	79712	broad.mit.edu	37	2	145015833	145015833	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:145015833delA	uc002tvp.2	-						GTDC1_uc002tvq.2_Intron|GTDC1_uc002tvr.2_Intron|GTDC1_uc010fnn.2_Intron|GTDC1_uc002tvs.2_Intron|GTDC1_uc010fno.2_Intron|GTDC1_uc002tvt.1_Intron	NM_001006636	NP_001006637			glycosyltransferase-like domain containing 1						biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	145733045	145733046	+	Intron	DEL	AA	-	-	rs140902152		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:145733045_145733046delAA	uc002twc.2	+											Homo sapiens hypothetical gene supported by BC043549; BX648102, mRNA (cDNA clone IMAGE:5172341).																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	145743656	145743657	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:145743656_145743657delTT	uc002twc.2	+											Homo sapiens hypothetical gene supported by BC043549; BX648102, mRNA (cDNA clone IMAGE:5172341).																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	146656727	146656727	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:146656727delT								None (None upstream) : PABPC1P2 (687898 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	146862132	146862132	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:146862132delA								None (None upstream) : PABPC1P2 (482493 downstream)																																			---	---	---	---
ACVR2A	92	broad.mit.edu	37	2	148636325	148636325	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:148636325delA	uc002twg.2	+						ACVR2A_uc010zbn.1_Intron|ACVR2A_uc002twh.2_Intron	NM_001616	NP_001607			activin A receptor, type IIA precursor						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)														---	---	---	---
ORC4L	5000	broad.mit.edu	37	2	148762369	148762369	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:148762369delA	uc002twi.2	-						ORC4L_uc002twj.2_Intron|ORC4L_uc010zbo.1_Intron|ORC4L_uc010zbp.1_Intron|ORC4L_uc010fnr.2_Intron|ORC4L_uc010zbq.1_Intron|ORC4L_uc002twk.2_Intron|ORC4L_uc010zbr.1_Intron	NM_181741	NP_859525			origin recognition complex subunit 4						cell cycle checkpoint|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	nuclear origin of replication recognition complex|nucleoplasm	ATP binding|DNA replication origin binding|nucleoside-triphosphatase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.0963)|COAD - Colon adenocarcinoma(177;0.203)														---	---	---	---
MBD5	55777	broad.mit.edu	37	2	148917966	148917966	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:148917966delA	uc002twm.3	+							NM_018328	NP_060798			methyl-CpG binding domain protein 5							chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)														---	---	---	---
MBD5	55777	broad.mit.edu	37	2	149058069	149058069	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:149058069delA	uc002twm.3	+							NM_018328	NP_060798			methyl-CpG binding domain protein 5							chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	149549899	149549899	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:149549899delT								EPC2 (4764 upstream) : KIF5C (82920 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	149613676	149613676	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:149613676delC								EPC2 (68541 upstream) : KIF5C (19143 downstream)																																			---	---	---	---
KIF5C	3800	broad.mit.edu	37	2	149815498	149815498	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:149815498delA	uc010zbu.1	+						KIF5C_uc002tws.1_Intron	NM_004522	NP_004513			kinesin family member 5C						microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)														---	---	---	---
LYPD6	130574	broad.mit.edu	37	2	150251617	150251617	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:150251617delT	uc002twy.2	+						LYPD6_uc010fnt.2_Intron|LYPD6_uc002twz.2_Intron|LYPD6_uc002txa.2_Intron	NM_194317	NP_919298			LY6/PLAUR domain containing 6 precursor							extracellular region					0				BRCA - Breast invasive adenocarcinoma(221;0.0667)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	150858801	150858802	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:150858801_150858802delAA								MMADHC (414471 upstream) : RND3 (465910 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	150914569	150914569	+	IGR	DEL	T	-	-	rs35362156		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:150914569delT								MMADHC (470239 upstream) : RND3 (410143 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	150941307	150941308	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:150941307_150941308delAG								MMADHC (496977 upstream) : RND3 (383404 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	151187813	151187813	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:151187813delA								MMADHC (743483 upstream) : RND3 (136899 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	151436301	151436301	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:151436301delG								RND3 (92121 upstream) : RBM43 (668428 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	151488446	151488446	+	IGR	DEL	A	-	-	rs72161383		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:151488446delA								RND3 (144266 upstream) : RBM43 (616283 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	151552330	151552330	+	IGR	DEL	A	-	-	rs9973439	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:151552330delA								RND3 (208150 upstream) : RBM43 (552399 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	151554650	151554650	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:151554650delA								RND3 (210470 upstream) : RBM43 (550079 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	151637650	151637651	+	IGR	INS	-	TTG	TTG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:151637650_151637651insTTG								RND3 (293470 upstream) : RBM43 (467078 downstream)																																			---	---	---	---
TNFAIP6	7130	broad.mit.edu	37	2	152227585	152227586	+	Intron	DEL	AA	-	-	rs113294897		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152227585_152227586delAA	uc002txk.2	+							NM_007115	NP_009046			tumor necrosis factor, alpha-induced protein 6						cell adhesion|cell-cell signaling|inflammatory response|signal transduction		hyaluronic acid binding				0				BRCA - Breast invasive adenocarcinoma(221;0.131)														---	---	---	---
RIF1	55183	broad.mit.edu	37	2	152293643	152293643	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152293643delT	uc002txm.2	+						RIF1_uc002txl.2_Intron|RIF1_uc010fnv.1_Intron|RIF1_uc002txn.2_Intron|RIF1_uc002txo.2_Intron|RIF1_uc010zby.1_Intron	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)														---	---	---	---
RIF1	55183	broad.mit.edu	37	2	152302071	152302071	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152302071delT	uc002txm.2	+						RIF1_uc002txl.2_Intron|RIF1_uc010fnv.1_Intron|RIF1_uc002txn.2_Intron|RIF1_uc002txo.2_Intron	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)														---	---	---	---
RIF1	55183	broad.mit.edu	37	2	152331770	152331770	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152331770delT	uc002txm.2	+	36					RIF1_uc002txl.2_3'UTR|RIF1_uc002txn.2_3'UTR|RIF1_uc002txo.2_3'UTR|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	152346393	152346394	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152346393_152346394insA	uc010fnx.2	-						NEB_uc002txr.2_Intron|RIF1_uc002txp.2_Intron|NEB_uc010zbz.1_Intron|NEB_uc002txq.2_Intron|NEB_uc010zca.1_Intron|NEB_uc010zcb.1_Intron	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)														---	---	---	---
NEB	4703	broad.mit.edu	37	2	152386563	152386563	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152386563delT	uc010fnx.2	-						NEB_uc002txr.2_Intron|NEB_uc002txt.3_Intron	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)														---	---	---	---
NEB	4703	broad.mit.edu	37	2	152402090	152402090	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152402090delA	uc010fnx.2	-						NEB_uc002txr.2_Intron	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)														---	---	---	---
NEB	4703	broad.mit.edu	37	2	152417500	152417500	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152417500delA	uc010fnx.2	-						NEB_uc002txr.2_Intron	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)														---	---	---	---
CACNB4	785	broad.mit.edu	37	2	152768151	152768151	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152768151delT	uc002tya.2	-						CACNB4_uc002txy.2_Intron|CACNB4_uc002txz.2_Intron|CACNB4_uc010fnz.2_Intron|CACNB4_uc002tyb.2_Intron	NM_000726	NP_000717			calcium channel, voltage-dependent, beta 4						axon guidance|membrane depolarization|synaptic transmission	cytosol|internal side of plasma membrane|plasma membrane|synapse|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.156)	Verapamil(DB00661)													---	---	---	---
CACNB4	785	broad.mit.edu	37	2	152929162	152929162	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152929162delT	uc002tya.2	-						CACNB4_uc002txz.2_Intron|CACNB4_uc010fnz.2_Intron	NM_000726	NP_000717			calcium channel, voltage-dependent, beta 4						axon guidance|membrane depolarization|synaptic transmission	cytosol|internal side of plasma membrane|plasma membrane|synapse|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.156)	Verapamil(DB00661)													---	---	---	---
STAM2	10254	broad.mit.edu	37	2	152993941	152993941	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152993941delT	uc002tyc.3	-						STAM2_uc010foa.1_Intron|STAM2_uc002tyd.2_Intron	NM_005843	NP_005834			signal transducing adaptor molecule 2						cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.22)														---	---	---	---
STAM2	10254	broad.mit.edu	37	2	153029725	153029726	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:153029725_153029726delAA	uc002tyc.3	-						STAM2_uc010foa.1_Intron|STAM2_uc002tyd.2_Intron	NM_005843	NP_005834			signal transducing adaptor molecule 2						cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.22)														---	---	---	---
FMNL2	114793	broad.mit.edu	37	2	153431784	153431784	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:153431784delA	uc002tye.2	+							NM_052905	NP_443137			formin-like 2						actin cytoskeleton organization	cytoplasm	actin binding|Rho GTPase binding			central_nervous_system(2)|ovary(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	153656554	153656554	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:153656554delT								ARL6IP6 (38787 upstream) : RPRM (677298 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	153890788	153890788	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:153890788delA								ARL6IP6 (273021 upstream) : RPRM (443064 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	154323597	154323597	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:154323597delT								ARL6IP6 (705830 upstream) : RPRM (10255 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	154398873	154398873	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:154398873delA								RPRM (63551 upstream) : GALNT13 (329553 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	154422016	154422017	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:154422016_154422017delGT								RPRM (86694 upstream) : GALNT13 (306409 downstream)																																			---	---	---	---
GALNT13	114805	broad.mit.edu	37	2	154993468	154993468	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:154993468delG	uc002tyr.3	+						GALNT13_uc002tyt.3_Intron	NM_052917	NP_443149			UDP-N-acetyl-alpha-D-galactosamine:polypeptide							Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	155485045	155485045	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:155485045delA								GALNT13 (174557 upstream) : KCNJ3 (70048 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	155527357	155527357	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:155527357delC								GALNT13 (216869 upstream) : KCNJ3 (27736 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	155882438	155882439	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:155882438_155882439insT								KCNJ3 (169424 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	155963366	155963366	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:155963366delA								KCNJ3 (250352 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	156061239	156061239	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:156061239delA								KCNJ3 (348225 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	156889928	156889929	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:156889928_156889929delTT	uc002tyw.2	-											Homo sapiens cDNA clone IMAGE:5209417.																														---	---	---	---
NR4A2	4929	broad.mit.edu	37	2	157189457	157189457	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:157189457delT	uc002tyz.3	-						NR4A2_uc002tyx.3_5'Flank|NR4A2_uc010zcf.1_5'Flank	NM_006186	NP_006177			nuclear receptor subfamily 4, group A, member 2						cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3																		---	---	---	---
GALNT5	11227	broad.mit.edu	37	2	158121110	158121110	+	Intron	DEL	T	-	-	rs113192643		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:158121110delT	uc002tzg.2	+						GALNT5_uc010zci.1_Intron	NM_014568	NP_055383			N-acetylgalactosaminyltransferase 5						glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	158361850	158361850	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:158361850delA								CYTIP (16377 upstream) : ACVR1C (21430 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	158489174	158489175	+	IGR	DEL	TC	-	-	rs75252891	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:158489174_158489175delTC								ACVR1C (3775 upstream) : ACVR1 (103783 downstream)																																			---	---	---	---
ACVR1	90	broad.mit.edu	37	2	158598143	158598144	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:158598143_158598144delAA	uc002tzm.3	-						ACVR1_uc002tzn.3_Intron|ACVR1_uc010fog.2_Intron	NM_001111067	NP_001104537			activin A receptor, type I precursor						BMP signaling pathway|G1/S transition of mitotic cell cycle|negative regulation of activin receptor signaling pathway|negative regulation of apoptosis|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	activin receptor complex	activin binding|ATP binding|follistatin binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta binding			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.104)	Adenosine triphosphate(DB00171)													---	---	---	---
ACVR1	90	broad.mit.edu	37	2	158694596	158694597	+	Intron	INS	-	T	T	rs144308737	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:158694596_158694597insT	uc002tzm.3	-						ACVR1_uc002tzn.3_Intron|ACVR1_uc010fog.2_Intron	NM_001111067	NP_001104537			activin A receptor, type I precursor						BMP signaling pathway|G1/S transition of mitotic cell cycle|negative regulation of activin receptor signaling pathway|negative regulation of apoptosis|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	activin receptor complex	activin binding|ATP binding|follistatin binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta binding			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.104)	Adenosine triphosphate(DB00171)													---	---	---	---
Unknown	0	broad.mit.edu	37	2	158829625	158829625	+	IGR	DEL	T	-	-	rs71404326		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:158829625delT								ACVR1 (97251 upstream) : UPP2 (22066 downstream)																																			---	---	---	---
UPP2	151531	broad.mit.edu	37	2	158973746	158973747	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:158973746_158973747insA	uc002tzp.2	+						UPP2_uc002tzo.2_Intron	NM_173355	NP_775491			uridine phosphorylase 2 isoform a						nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage|uridine metabolic process	cytosol|type III intermediate filament	uridine phosphorylase activity				0																		---	---	---	---
PKP4	8502	broad.mit.edu	37	2	159432305	159432306	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:159432305_159432306insA	uc002tzv.2	+						PKP4_uc002tzt.1_Intron|PKP4_uc002tzu.2_Intron|PKP4_uc002tzw.2_Intron|PKP4_uc002tzx.2_Intron|PKP4_uc002tzy.1_Intron|PKP4_uc002tzz.1_Intron|PKP4_uc002uaa.2_5'Flank	NM_003628	NP_003619			plakophilin 4 isoform a						cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7															HNSCC(62;0.18)			---	---	---	---
PKP4	8502	broad.mit.edu	37	2	159531833	159531834	+	Intron	DEL	TT	-	-	rs78238796		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:159531833_159531834delTT	uc002tzv.2	+						PKP4_uc002tzw.2_Intron|PKP4_uc002tzx.2_Intron|PKP4_uc002uaa.2_Intron|uc002uab.1_Intron|PKP4_uc002uac.2_Intron|PKP4_uc002uad.2_Intron|PKP4_uc002uae.1_Intron	NM_003628	NP_003619			plakophilin 4 isoform a						cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7															HNSCC(62;0.18)			---	---	---	---
BAZ2B	29994	broad.mit.edu	37	2	160239444	160239444	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160239444delA	uc002uao.2	-						BAZ2B_uc002uap.2_Intron	NM_013450	NP_038478			bromodomain adjacent to zinc finger domain, 2B						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4																		---	---	---	---
BAZ2B	29994	broad.mit.edu	37	2	160248864	160248864	+	Intron	DEL	T	-	-	rs79916287		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160248864delT	uc002uao.2	-						BAZ2B_uc002uap.2_Intron	NM_013450	NP_038478			bromodomain adjacent to zinc finger domain, 2B						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4																		---	---	---	---
BAZ2B	29994	broad.mit.edu	37	2	160556057	160556057	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160556057delA	uc002uau.1	-						uc002uaw.2_Intron					SubName: Full=Putative uncharacterized protein DKFZp686H10114;						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4																		---	---	---	---
LY75	4065	broad.mit.edu	37	2	160642844	160642849	+	Intron	DEL	TTTTTT	-	-	rs72130723		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160642844_160642849delTTTTTT	uc002ubb.3	-						LY75_uc010fos.2_Intron|CD302_uc002uba.2_Intron|CD302_uc010zco.1_Intron	NM_002349	NP_002340			lymphocyte antigen 75 precursor						endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)														---	---	---	---
PLA2R1	22925	broad.mit.edu	37	2	160812130	160812131	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160812130_160812131insA	uc002ube.1	-						PLA2R1_uc010zcp.1_Intron|PLA2R1_uc002ubf.2_Intron	NM_007366	NP_031392			phospholipase A2 receptor 1 isoform 1 precursor						endocytosis	extracellular space|integral to plasma membrane	receptor activity|sugar binding			skin(2)|ovary(1)	3																		---	---	---	---
PLA2R1	22925	broad.mit.edu	37	2	160876323	160876323	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160876323delT	uc002ube.1	-						PLA2R1_uc010zcp.1_Intron|PLA2R1_uc002ubf.2_Intron	NM_007366	NP_031392			phospholipase A2 receptor 1 isoform 1 precursor						endocytosis	extracellular space|integral to plasma membrane	receptor activity|sugar binding			skin(2)|ovary(1)	3																		---	---	---	---
ITGB6	3694	broad.mit.edu	37	2	161106928	161106929	+	Intron	INS	-	GT	GT	rs141453522	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:161106928_161106929insGT	uc010fow.1	-											Synthetic construct DNA, clone: pF1KB8424, Homo sapiens ITGB6 gene for integrin, beta 6, without stop codon, in Flexi system.						cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|multicellular organismal development	integrin complex	receptor activity			ovary(1)|lung(1)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	161777668	161777668	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:161777668delT								RBMS1 (427350 upstream) : TANK (215798 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	162149929	162149929	+	IGR	DEL	T	-	-	rs11323967		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:162149929delT								TANK (57247 upstream) : PSMD14 (14857 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	162152962	162152962	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:162152962delA								TANK (60280 upstream) : PSMD14 (11824 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	162346933	162346944	+	IGR	DEL	CACACACACACA	-	-	rs67568215	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:162346933_162346944delCACACACACACA								TBR1 (65360 upstream) : SLC4A10 (133901 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	163116126	163116126	+	IGR	DEL	T	-	-	rs112760765		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:163116126delT								FAP (16081 upstream) : IFIH1 (7464 downstream)																																			---	---	---	---
IFIH1	64135	broad.mit.edu	37	2	163136372	163136372	+	Intron	DEL	A	-	-	rs35303795		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:163136372delA	uc002uce.2	-							NM_022168	NP_071451			interferon induced with helicase C domain 1						detection of virus|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|regulation of apoptosis	cytosol|nucleus	ATP binding|DNA binding|double-stranded RNA binding|helicase activity|protein binding|ribonucleoprotein binding|zinc ion binding			ovary(1)	1																		---	---	---	---
KCNH7	90134	broad.mit.edu	37	2	163292254	163292254	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:163292254delT	uc002uch.1	-						KCNH7_uc002uci.2_Intron	NM_033272	NP_150375			potassium voltage-gated channel, subfamily H,						regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)													---	---	---	---
KCNH7	90134	broad.mit.edu	37	2	163314615	163314616	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:163314615_163314616delGT	uc002uch.1	-						KCNH7_uc002uci.2_Intron	NM_033272	NP_150375			potassium voltage-gated channel, subfamily H,						regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)													---	---	---	---
KCNH7	90134	broad.mit.edu	37	2	163537755	163537755	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:163537755delA	uc002uch.1	-						KCNH7_uc002uci.2_Intron	NM_033272	NP_150375			potassium voltage-gated channel, subfamily H,						regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)													---	---	---	---
FIGN	55137	broad.mit.edu	37	2	164464437	164464437	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:164464437delA	uc002uck.1	-	3						NM_018086	NP_060556			fidgetin							nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4																		---	---	---	---
FIGN	55137	broad.mit.edu	37	2	164531331	164531331	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:164531331delA	uc002uck.1	-							NM_018086	NP_060556			fidgetin							nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4																		---	---	---	---
FIGN	55137	broad.mit.edu	37	2	164591255	164591255	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:164591255delA	uc002uck.1	-							NM_018086	NP_060556			fidgetin							nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	164606436	164606437	+	IGR	INS	-	AGAG	AGAG	rs144230035	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:164606436_164606437insAGAG								FIGN (13923 upstream) : GRB14 (742896 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	165134555	165134555	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165134555delT								FIGN (542042 upstream) : GRB14 (214778 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	165177848	165177849	+	IGR	DEL	GT	-	-	rs72284397		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165177848_165177849delGT								FIGN (585335 upstream) : GRB14 (171484 downstream)																																			---	---	---	---
GRB14	2888	broad.mit.edu	37	2	165473932	165473932	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165473932delT	uc002ucl.2	-						GRB14_uc002ucm.2_Intron	NM_004490	NP_004481			growth factor receptor-bound protein 14						blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7																		---	---	---	---
COBLL1	22837	broad.mit.edu	37	2	165569455	165569456	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165569455_165569456delAC	uc010zcw.1	-						COBLL1_uc002ucp.2_Intron|COBLL1_uc002ucq.2_Intron|COBLL1_uc010zcx.1_Intron|COBLL1_uc002ucs.1_Intron|COBLL1_uc002uco.2_Intron	NM_014900	NP_055715			COBL-like 1											ovary(2)|pancreas(1)	3																		---	---	---	---
COBLL1	22837	broad.mit.edu	37	2	165649300	165649300	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165649300delC	uc010zcw.1	-						COBLL1_uc002ucp.2_Intron|COBLL1_uc002ucq.2_Intron|COBLL1_uc010zcx.1_Intron|COBLL1_uc002ucs.1_Intron|COBLL1_uc002uct.2_Intron	NM_014900	NP_055715			COBL-like 1											ovary(2)|pancreas(1)	3																		---	---	---	---
SCN3A	6328	broad.mit.edu	37	2	165949190	165949190	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165949190delA	uc002ucx.2	-						SCN3A_uc010zcy.1_Intron|SCN3A_uc002ucy.2_Intron|SCN3A_uc002ucz.2_Intron	NM_006922	NP_008853			sodium channel, voltage-gated, type III, alpha							voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)													---	---	---	---
SCN3A	6328	broad.mit.edu	37	2	165996926	165996926	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165996926delT	uc002ucx.2	-						SCN3A_uc002ucy.2_Intron|SCN3A_uc002ucz.2_Intron|SCN3A_uc002uda.1_Intron|SCN3A_uc002udb.1_Intron	NM_006922	NP_008853			sodium channel, voltage-gated, type III, alpha							voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)													---	---	---	---
SCN2A	6326	broad.mit.edu	37	2	166243113	166243113	+	Intron	DEL	T	-	-	rs112640887		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166243113delT	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)													---	---	---	---
CSRNP3	80034	broad.mit.edu	37	2	166529823	166529823	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166529823delT	uc002udf.2	+						CSRNP3_uc002udg.2_Intron	NM_024969	NP_079245			cysteine-serine-rich nuclear protein 3						apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5																		---	---	---	---
TTC21B	79809	broad.mit.edu	37	2	166786883	166786883	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166786883delA	uc002udk.2	-						TTC21B_uc002udl.2_Intron	NM_024753	NP_079029			tetratricopeptide repeat domain 21B							cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5																		---	---	---	---
SCN9A	6335	broad.mit.edu	37	2	167160479	167160479	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167160479delT	uc010fpl.2	-						SCN9A_uc002udr.1_Intron|SCN9A_uc002uds.1_Intron|SCN9A_uc002udt.1_Intron	NM_002977	NP_002968			sodium channel, voltage-gated, type IX, alpha							voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)													---	---	---	---
Unknown	0	broad.mit.edu	37	2	167464202	167464202	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167464202delT								SCN7A (113485 upstream) : XIRP2 (280795 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	167639208	167639208	+	IGR	DEL	A	-	-	rs75945762		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167639208delA								SCN7A (288491 upstream) : XIRP2 (105789 downstream)																																			---	---	---	---
XIRP2	129446	broad.mit.edu	37	2	167818326	167818326	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167818326delT	uc002udx.2	+						XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron	NM_152381	NP_689594			xin actin-binding repeat containing 2 isoform 1						actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	168209942	168209942	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168209942delA								XIRP2 (93683 upstream) : B3GALT1 (465240 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	168379937	168379938	+	IGR	DEL	TT	-	-	rs71395287		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168379937_168379938delTT								XIRP2 (263678 upstream) : B3GALT1 (295244 downstream)																																			---	---	---	---
STK39	27347	broad.mit.edu	37	2	169038733	169038733	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:169038733delT	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																		---	---	---	---
LASS6	253782	broad.mit.edu	37	2	169547524	169547524	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:169547524delT	uc002ueb.1	+						LASS6_uc002uec.1_Intron	NM_203463	NP_982288			longevity assurance homolog 6							endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	169631153	169631154	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:169631153_169631154delAA	uc002ued.2	-											Homo sapiens LAG1 longevity assurance homolog 6 (S. cerevisiae), mRNA (cDNA clone IMAGE:4827066).																														---	---	---	---
SPC25	57405	broad.mit.edu	37	2	169745701	169745701	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:169745701delA	uc002uel.2	-							NM_020675	NP_065726			spindle pole body component 25						cell division|chromosome segregation|mitotic prometaphase|mitotic spindle organization	condensed chromosome kinetochore|cytosol|Ndc80 complex|nucleus	protein binding			central_nervous_system(1)	1																		---	---	---	---
FASTKD1	79675	broad.mit.edu	37	2	170430874	170430874	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170430874delA	uc002uev.3	-						FASTKD1_uc002uew.3_5'Flank|FASTKD1_uc002uex.3_5'Flank|FASTKD1_uc002uey.2_5'Flank	NM_024622	NP_078898			FAST kinase domains 1						apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(4)	4																		---	---	---	---
PPIG	9360	broad.mit.edu	37	2	170446181	170446181	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170446181delT	uc002uez.2	+						PPIG_uc010fpx.2_Intron|PPIG_uc010fpy.2_Intron|PPIG_uc002ufa.2_Intron|PPIG_uc002ufb.2_Intron|PPIG_uc002ufc.1_Intron	NM_004792	NP_004783			peptidylprolyl isomerase G						protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|central_nervous_system(1)	3					L-Proline(DB00172)													---	---	---	---
UBR3	130507	broad.mit.edu	37	2	170709969	170709969	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170709969delT	uc010zdi.1	+							NM_172070	NP_742067			E3 ubiquitin-protein ligase UBR3						sensory perception of smell|suckling behavior|ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0																		---	---	---	---
MYO3B	140469	broad.mit.edu	37	2	171419630	171419631	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171419630_171419631delAC	uc002ufy.2	+						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																		---	---	---	---
MYO3B	140469	broad.mit.edu	37	2	171422282	171422282	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171422282delG	uc002ufy.2	+						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																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	171531504	171531504	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171531504delT	uc002ugc.1	-											Homo sapiens cDNA FLJ25833 fis, clone TST08193.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	171543726	171543726	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171543726delA	uc002ugc.1	-											Homo sapiens cDNA FLJ25833 fis, clone TST08193.																														---	---	---	---
GORASP2	26003	broad.mit.edu	37	2	171806410	171806410	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171806410delT	uc002ugk.2	+						GORASP2_uc002ugj.2_Intron|GORASP2_uc010zdl.1_Intron|GORASP2_uc010zdm.1_Intron|GORASP2_uc002ugl.2_Intron	NM_015530	NP_056345			golgi reassembly stacking protein 2							Golgi membrane				breast(1)|central_nervous_system(1)	2																		---	---	---	---
TLK1	9874	broad.mit.edu	37	2	171850598	171850598	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171850598delA	uc002ugn.2	-						TLK1_uc002ugo.2_Intron|TLK1_uc002ugp.2_Intron|TLK1_uc010zdn.1_Intron	NM_012290	NP_036422			tousled-like kinase 1 isoform 1						cell cycle|chromatin modification|intracellular protein transport|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(1)	1																		---	---	---	---
TLK1	9874	broad.mit.edu	37	2	171916563	171916563	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171916563delA	uc002ugn.2	-						TLK1_uc002ugo.2_Intron|TLK1_uc002ugp.2_Intron|TLK1_uc002ugq.2_Intron|TLK1_uc010zdn.1_Intron	NM_012290	NP_036422			tousled-like kinase 1 isoform 1						cell cycle|chromatin modification|intracellular protein transport|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(1)	1																		---	---	---	---
TLK1	9874	broad.mit.edu	37	2	171963010	171963011	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171963010_171963011insA	uc002ugn.2	-						TLK1_uc002ugo.2_Intron|TLK1_uc002ugp.2_Intron|TLK1_uc002ugq.2_Intron	NM_012290	NP_036422			tousled-like kinase 1 isoform 1						cell cycle|chromatin modification|intracellular protein transport|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(1)	1																		---	---	---	---
TLK1	9874	broad.mit.edu	37	2	172002825	172002826	+	Intron	DEL	CT	-	-	rs66569612		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:172002825_172002826delCT	uc002ugn.2	-						TLK1_uc002ugo.2_Intron|TLK1_uc002ugp.2_Intron|TLK1_uc002ugq.2_Intron	NM_012290	NP_036422			tousled-like kinase 1 isoform 1						cell cycle|chromatin modification|intracellular protein transport|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(1)	1																		---	---	---	---
METTL8	79828	broad.mit.edu	37	2	172182461	172182461	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:172182461delA	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																		---	---	---	---
METTL8	79828	broad.mit.edu	37	2	172194040	172194040	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:172194040delA	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																		---	---	---	---
DCAF17	80067	broad.mit.edu	37	2	172295248	172295248	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:172295248delT	uc002ugx.2	+						DCAF17_uc010zdq.1_Intron|DCAF17_uc010fqf.1_Intron|DCAF17_uc010zdr.1_Intron	NM_025000	NP_079276			DDB1 and CUL4 associated factor 17 isoform 1							CUL4 RING ubiquitin ligase complex|integral to membrane|nucleolus					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	172522773	172522773	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:172522773delT								CYBRD1 (108130 upstream) : DYNC1I2 (21209 downstream)																																			---	---	---	---
HAT1	8520	broad.mit.edu	37	2	172788191	172788191	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:172788191delA	uc002uhi.2	+						HAT1_uc010fqi.2_Intron|HAT1_uc002uhj.2_Intron	NM_003642	NP_003633			histone acetyltransferase 1						chromatin silencing at telomere|DNA packaging	cytoplasm|nuclear matrix|nucleoplasm	histone acetyltransferase activity|protein binding			large_intestine(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.216)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	172994505	172994505	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:172994505delT								DLX2 (27027 upstream) : ITGA6 (297577 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	173020728	173020728	+	IGR	DEL	T	-	-	rs35217322	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:173020728delT								DLX2 (53250 upstream) : ITGA6 (271354 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	173051403	173051403	+	IGR	DEL	T	-	-	rs147197263		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:173051403delT								DLX2 (83925 upstream) : ITGA6 (240679 downstream)																																			---	---	---	---
ITGA6	3655	broad.mit.edu	37	2	173310381	173310381	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:173310381delA	uc002uhp.1	+						ITGA6_uc010fqk.1_Intron|ITGA6_uc010zdy.1_Intron|ITGA6_uc002uho.1_Intron	NM_001079818	NP_001073286			integrin alpha chain, alpha 6 isoform a						blood coagulation|cell adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter	integrin complex	protein binding|receptor activity			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0979)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	173406728	173406728	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:173406728delA								ITGA6 (35547 upstream) : PDK1 (13373 downstream)																																			---	---	---	---
RAPGEF4	11069	broad.mit.edu	37	2	173916115	173916115	+	Intron	DEL	T	-	-	rs72119219		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:173916115delT	uc002uhv.3	+						RAPGEF4_uc002uhw.3_Intron	NM_007023	NP_008954			Rap guanine nucleotide exchange factor (GEF) 4						blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	174290759	174290759	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:174290759delA								CDCA7 (57041 upstream) : SP3 (482500 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	174417876	174417876	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:174417876delA								CDCA7 (184158 upstream) : SP3 (355383 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	174548006	174548006	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:174548006delT								CDCA7 (314288 upstream) : SP3 (225253 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	174759921	174759922	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:174759921_174759922delTT								CDCA7 (526203 upstream) : SP3 (13337 downstream)																																			---	---	---	---
SP3	6670	broad.mit.edu	37	2	174797865	174797865	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:174797865delT	uc002uig.2	-						SP3_uc002uie.2_Intron|SP3_uc002uif.2_Intron|SP3_uc010zel.1_Intron	NM_003111	NP_003102			Sp3 transcription factor isoform 1						negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	protein binding|zinc ion binding		EWSR1/SP3(3)	soft_tissue(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.185)															---	---	---	---
SP3	6670	broad.mit.edu	37	2	174827376	174827377	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:174827376_174827377delAA	uc002uig.2	-						SP3_uc002uie.2_Intron|SP3_uc002uif.2_Intron|SP3_uc010zel.1_Intron	NM_003111	NP_003102			Sp3 transcription factor isoform 1						negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	protein binding|zinc ion binding		EWSR1/SP3(3)	soft_tissue(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.185)															---	---	---	---
WIPF1	7456	broad.mit.edu	37	2	175442999	175442999	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:175442999delT	uc002uiy.2	-						uc002uiw.2_Intron|uc002uix.1_Intron|WIPF1_uc002uja.2_Intron|WIPF1_uc010fqt.1_Intron|WIPF1_uc002ujc.1_Intron|WIPF1_uc002uiz.2_Intron|WIPF1_uc002ujb.1_Intron|WIPF1_uc010zep.1_Intron	NM_003387	NP_003378			WAS/WASL interacting protein family, member 1						actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	175890551	175890551	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:175890551delA								CHN1 (20381 upstream) : ATF2 (48457 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	176767943	176767943	+	IGR	DEL	T	-	-	rs139633743		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:176767943delT								ATP5G3 (721453 upstream) : KIAA1715 (22467 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	177099823	177099823	+	IGR	DEL	A	-	-	rs146175400		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:177099823delA								HOXD1 (44188 upstream) : MTX2 (34300 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	177345789	177345789	+	IGR	DEL	A	-	-	rs77450899		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:177345789delA								MTX2 (143038 upstream) : MIR1246 (119919 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	177986135	177986135	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:177986135delT								MIR1246 (520355 upstream) : HNRNPA3 (91287 downstream)																																			---	---	---	---
AGPS	8540	broad.mit.edu	37	2	178294232	178294232	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:178294232delT	uc002ull.2	+						AGPS_uc010zfb.1_Intron	NM_003659	NP_003650			alkyldihydroxyacetone phosphate synthase						ether lipid biosynthetic process	peroxisomal matrix|peroxisomal membrane|plasma membrane	alkylglycerone-phosphate synthase activity|flavin adenine dinucleotide binding|oxidoreductase activity			ovary(2)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0018)|Epithelial(96;0.00919)|all cancers(119;0.0358)															---	---	---	---
AGPS	8540	broad.mit.edu	37	2	178402088	178402088	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:178402088delA	uc002ull.2	+						AGPS_uc010zfb.1_Intron	NM_003659	NP_003650			alkyldihydroxyacetone phosphate synthase						ether lipid biosynthetic process	peroxisomal matrix|peroxisomal membrane|plasma membrane	alkylglycerone-phosphate synthase activity|flavin adenine dinucleotide binding|oxidoreductase activity			ovary(2)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0018)|Epithelial(96;0.00919)|all cancers(119;0.0358)															---	---	---	---
PDE11A	50940	broad.mit.edu	37	2	178833784	178833785	+	Intron	DEL	AC	-	-	rs146984301	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:178833784_178833785delAC	uc002ulq.2	-						PDE11A_uc002ulr.2_Intron|PDE11A_uc002ult.1_Intron	NM_016953	NP_058649			phosphodiesterase 11A isoform 4						platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)											Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				---	---	---	---
RBM45	129831	broad.mit.edu	37	2	178985887	178985887	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:178985887delT	uc002ulv.2	+							NM_152945	NP_694453			RNA binding motif protein 45						cell differentiation|nervous system development	cytoplasm|nucleus	nucleotide binding|RNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.00957)|all cancers(119;0.037)															---	---	---	---
TTN	7273	broad.mit.edu	37	2	179406780	179406780	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179406780delA	uc010zfg.1	-						uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron	NM_133378	NP_596869			titin isoform N2-A								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	179548634	179548634	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179548634delT	uc010zfg.1	-						TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron	NM_133378	NP_596869			titin isoform N2-A								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	179563644	179563647	+	Intron	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179563644_179563647delAAAA	uc010zfg.1	-						TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron	NM_133378	NP_596869			titin isoform N2-A								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)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	179679683	179679683	+	IGR	DEL	A	-	-	rs112738096		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179679683delA								TTN (7533 upstream) : CCDC141 (17664 downstream)																																			---	---	---	---
CCDC141	285025	broad.mit.edu	37	2	179762984	179762984	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179762984delT	uc002ung.2	-											SubName: Full=Putative uncharacterized protein CCDC141; SubName: Full=Putative uncharacterized protein FLJ39502;								protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	179924140	179924140	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179924140delA								CCDC141 (9354 upstream) : SESTD1 (42281 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	180288529	180288529	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:180288529delT								SESTD1 (159179 upstream) : ZNF385B (18191 downstream)																																			---	---	---	---
ZNF385B	151126	broad.mit.edu	37	2	180499871	180499871	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:180499871delA	uc002unn.3	-						ZNF385B_uc002unm.2_Intron	NM_152520	NP_689733			zinc finger protein 385B isoform 1							nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)															---	---	---	---
ZNF385B	151126	broad.mit.edu	37	2	180554943	180554943	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:180554943delA	uc002unn.3	-						ZNF385B_uc002unm.2_Intron	NM_152520	NP_689733			zinc finger protein 385B isoform 1							nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	180875416	180875416	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:180875416delT								CWC22 (3576 upstream) : UBE2E3 (969696 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	180945316	180945316	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:180945316delT								CWC22 (73476 upstream) : UBE2E3 (899796 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	180961865	180961865	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:180961865delA								CWC22 (90025 upstream) : UBE2E3 (883247 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	181012830	181012830	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:181012830delA								CWC22 (140990 upstream) : UBE2E3 (832282 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	181146738	181146741	+	IGR	DEL	TCTA	-	-	rs141544640		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:181146738_181146741delTCTA								CWC22 (274898 upstream) : UBE2E3 (698371 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	181161607	181161607	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:181161607delT								CWC22 (289767 upstream) : UBE2E3 (683505 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	181460017	181460017	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:181460017delT								CWC22 (588177 upstream) : UBE2E3 (385095 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	181973452	181973452	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:181973452delA								UBE2E3 (45302 upstream) : ITGA4 (348167 downstream)																																			---	---	---	---
SSFA2	6744	broad.mit.edu	37	2	182765412	182765412	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:182765412delT	uc002uoi.2	+						SSFA2_uc002uoh.2_Intron|SSFA2_uc002uoj.2_Intron|SSFA2_uc002uok.2_Intron|SSFA2_uc010zfo.1_Intron|SSFA2_uc002uol.2_Intron	NM_001130445	NP_001123917			sperm specific antigen 2 isoform 1							cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)															---	---	---	---
PDE1A	5136	broad.mit.edu	37	2	183367733	183367734	+	Intron	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:183367733_183367734delTC	uc002uos.2	-						PDE1A_uc010zfp.1_Intron|PDE1A_uc002uoq.1_Intron|PDE1A_uc010zfq.1_Intron|PDE1A_uc002uov.1_Intron	NM_001003683	NP_001003683			phosphodiesterase 1A isoform 2						activation of phospholipase C activity|nerve growth factor receptor signaling pathway|platelet activation	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.061)															---	---	---	---
DNAJC10	54431	broad.mit.edu	37	2	183593883	183593883	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:183593883delT	uc002uow.1	+						DNAJC10_uc002uox.1_Intron|DNAJC10_uc002uoy.1_Intron|DNAJC10_uc002uoz.1_Intron|DNAJC10_uc010fro.1_Intron	NM_018981	NP_061854			DnaJ (Hsp40) homolog, subfamily C, member 10						apoptosis in response to endoplasmic reticulum stress|cell redox homeostasis|ER-associated protein catabolic process|glycerol ether metabolic process|negative regulation of protein phosphorylation|protein folding|response to endoplasmic reticulum stress	endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|extracellular region	ATPase activator activity|ATPase binding|chaperone binding|electron carrier activity|heat shock protein binding|misfolded protein binding|protein disulfide oxidoreductase activity|unfolded protein binding			ovary(1)|large_intestine(1)|breast(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	183661637	183661637	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:183661637delA								DNAJC10 (18382 upstream) : FRZB (37100 downstream)																																			---	---	---	---
NCKAP1	10787	broad.mit.edu	37	2	183863111	183863111	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:183863111delA	uc002upc.2	-						NCKAP1_uc002upb.2_Intron	NM_013436	NP_038464			NCK-associated protein 1 isoform 1						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)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	184408463	184408464	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:184408463_184408464insA								NUP35 (382056 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	185283563	185283563	+	IGR	DEL	C	-	-	rs72890091	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:185283563delC								None (None upstream) : ZNF804A (179530 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	185296119	185296119	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:185296119delT								None (None upstream) : ZNF804A (166974 downstream)																																			---	---	---	---
ZNF804A	91752	broad.mit.edu	37	2	185561030	185561030	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:185561030delA	uc002uph.2	+							NM_194250	NP_919226			zinc finger protein 804A							intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11																		---	---	---	---
ZNF804A	91752	broad.mit.edu	37	2	185654959	185654959	+	Intron	DEL	T	-	-	rs145727369	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:185654959delT	uc002uph.2	+							NM_194250	NP_919226			zinc finger protein 804A							intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	186106392	186106392	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:186106392delT								ZNF804A (302180 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	186117248	186117248	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:186117248delT								ZNF804A (313036 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	186272027	186272027	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:186272027delT								ZNF804A (467815 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	186281341	186281341	+	IGR	DEL	A	-	-	rs66468659		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:186281341delA								ZNF804A (477129 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	186611016	186611016	+	5'Flank	DEL	T	-	-	rs71836042		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:186611016delT	uc002upl.2	+						uc002upj.1_Intron|uc010frr.1_Intron					Homo sapiens cDNA FLJ34780 fis, clone NT2NE2003705, weakly similar to U2 SMALL NUCLEAR RIBONUCLEOPROTEIN AUXILIARY FACTOR 35 KDA SUBUNIT RELATED-PROTEIN 2.																														---	---	---	---
ITGAV	3685	broad.mit.edu	37	2	187541309	187541309	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:187541309delA	uc002upq.2	+						ITGAV_uc010frs.2_Intron|ITGAV_uc010zfv.1_Intron	NM_002210	NP_002201			integrin alpha-V isoform 1 precursor						angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	187636151	187636151	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:187636151delA								FAM171B (5467 upstream) : ZSWIM2 (56056 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	187656199	187656199	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:187656199delA								FAM171B (25515 upstream) : ZSWIM2 (36008 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	187958388	187958389	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:187958388_187958389insA								ZSWIM2 (244491 upstream) : CALCRL (249462 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	188006870	188006870	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:188006870delC								ZSWIM2 (292973 upstream) : CALCRL (200981 downstream)																																			---	---	---	---
TFPI	7035	broad.mit.edu	37	2	188342185	188342185	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:188342185delT	uc002upx.2	-						TFPI_uc002upy.2_Intron|TFPI_uc002upz.2_Intron	NM_006287	NP_006278			tissue factor pathway inhibitor isoform a						blood coagulation, extrinsic pathway	extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0554)		Coagulation factor VIIa(DB00036)													---	---	---	---
Unknown	0	broad.mit.edu	37	2	188452577	188452577	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:188452577delT								TFPI (33358 upstream) : GULP1 (704027 downstream)																																			---	---	---	---
GULP1	51454	broad.mit.edu	37	2	189188473	189188473	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:189188473delT	uc010fru.2	+						GULP1_uc002uqc.3_Intron|GULP1_uc002uqd.2_Intron|GULP1_uc010zfw.1_Intron|GULP1_uc002uqe.2_Intron|GULP1_uc002uqf.2_Intron|GULP1_uc002uqg.2_Intron	NM_016315	NP_057399			GULP, engulfment adaptor PTB domain containing						apoptosis|lipid transport|phagocytosis, engulfment	cytoplasm|intracellular membrane-bounded organelle	signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0423)|Epithelial(96;0.158)															---	---	---	---
GULP1	51454	broad.mit.edu	37	2	189294441	189294441	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:189294441delT	uc010fru.2	+						GULP1_uc002uqc.3_Intron|GULP1_uc002uqd.2_Intron|GULP1_uc010zfw.1_Intron|GULP1_uc002uqe.2_Intron|GULP1_uc002uqf.2_Intron|GULP1_uc002uqg.2_Intron	NM_016315	NP_057399			GULP, engulfment adaptor PTB domain containing						apoptosis|lipid transport|phagocytosis, engulfment	cytoplasm|intracellular membrane-bounded organelle	signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0423)|Epithelial(96;0.158)															---	---	---	---
GULP1	51454	broad.mit.edu	37	2	189313483	189313483	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:189313483delA	uc010fru.2	+						GULP1_uc002uqc.3_Intron|GULP1_uc002uqd.2_Intron|GULP1_uc010zfw.1_Intron|GULP1_uc002uqe.2_Intron|GULP1_uc002uqf.2_Intron|GULP1_uc002uqg.2_Intron	NM_016315	NP_057399			GULP, engulfment adaptor PTB domain containing						apoptosis|lipid transport|phagocytosis, engulfment	cytoplasm|intracellular membrane-bounded organelle	signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0423)|Epithelial(96;0.158)															---	---	---	---
GULP1	51454	broad.mit.edu	37	2	189359517	189359518	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:189359517_189359518insT	uc010fru.2	+						GULP1_uc002uqc.3_Intron|GULP1_uc002uqd.2_Intron|GULP1_uc010zfw.1_Intron|GULP1_uc002uqe.2_Intron|GULP1_uc002uqf.2_Intron|GULP1_uc002uqg.2_Intron	NM_016315	NP_057399			GULP, engulfment adaptor PTB domain containing						apoptosis|lipid transport|phagocytosis, engulfment	cytoplasm|intracellular membrane-bounded organelle	signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0423)|Epithelial(96;0.158)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	189584705	189584706	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:189584705_189584706insA								GULP1 (124055 upstream) : DIRC1 (13759 downstream)																																			---	---	---	---
COL5A2	1290	broad.mit.edu	37	2	189928885	189928885	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:189928885delT	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)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	190293344	190293344	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:190293344delA								COL5A2 (248739 upstream) : WDR75 (12815 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	190405002	190405002	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:190405002delT								WDR75 (64738 upstream) : SLC40A1 (20316 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	190455891	190455891	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:190455891delA								SLC40A1 (7407 upstream) : ASNSD1 (70234 downstream)																																			---	---	---	---
PMS1	5378	broad.mit.edu	37	2	190652786	190652786	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:190652786delA	uc002urh.3	+						PMS1_uc010zga.1_Intron|PMS1_uc010zgb.1_Intron|PMS1_uc002urk.3_Intron|PMS1_uc002uri.3_Intron|PMS1_uc010zgc.1_Intron|PMS1_uc010zgd.1_Intron|PMS1_uc002urj.2_Intron|PMS1_uc010zfz.1_Intron	NM_000534	NP_000525			postmeiotic segregation 1 isoform a						mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)					Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					---	---	---	---
Unknown	0	broad.mit.edu	37	2	191654908	191654908	+	IGR	DEL	A	-	-	rs66585225		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:191654908delA								NAB1 (97417 upstream) : GLS (90639 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	191656955	191656955	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:191656955delT								NAB1 (99464 upstream) : GLS (88592 downstream)																																			---	---	---	---
GLS	2744	broad.mit.edu	37	2	191779158	191779158	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:191779158delT	uc002usf.2	+						GLS_uc002use.2_Intron	NM_014905	NP_055720			glutaminase precursor						cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)													---	---	---	---
STAT1	6772	broad.mit.edu	37	2	191840779	191840780	+	Intron	DEL	GG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:191840779_191840780delGG	uc002usj.2	-						STAT1_uc010fse.1_Intron|STAT1_uc002usk.2_Intron|STAT1_uc002usl.2_Intron	NM_007315	NP_009330			signal transducer and activator of transcription						activation of caspase activity|I-kappaB kinase/NF-kappaB cascade|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway|tyrosine phosphorylation of STAT protein	cytosol|nucleolus|nucleoplasm	calcium ion binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity|signal transducer activity			lung(3)|breast(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)		Fludarabine(DB01073)													---	---	---	---
STAT4	6775	broad.mit.edu	37	2	191922708	191922708	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:191922708delA	uc002usm.1	-						STAT4_uc002usn.1_Intron|STAT4_uc010zgk.1_Intron|STAT4_uc002uso.2_Intron	NM_003151	NP_003142			signal transducer and activator of transcription						JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)															---	---	---	---
STAT4	6775	broad.mit.edu	37	2	192001444	192001447	+	Intron	DEL	TCTA	-	-	rs71301540		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:192001444_192001447delTCTA	uc002usm.1	-						STAT4_uc002usn.1_Intron|STAT4_uc002uso.2_Intron|STAT4_uc002usp.3_Intron	NM_003151	NP_003142			signal transducer and activator of transcription						JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)															---	---	---	---
MYO1B	4430	broad.mit.edu	37	2	192228356	192228356	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:192228356delT	uc010fsg.2	+						MYO1B_uc002usq.2_Intron|MYO1B_uc002usr.2_Intron|MYO1B_uc002uss.1_Intron	NM_001130158	NP_001123630			myosin IB isoform 1							myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	192619847	192619847	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:192619847delA								OBFC2A (66600 upstream) : SDPR (79194 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	193591791	193591791	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:193591791delA								TMEFF2 (532147 upstream) : PCGEM1 (22780 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	193606021	193606021	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:193606021delA								TMEFF2 (546377 upstream) : PCGEM1 (8550 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	194166288	194166288	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:194166288delA								PCGEM1 (524667 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	194799461	194799461	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:194799461delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	195566231	195566232	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:195566231_195566232delAA								None (None upstream) : SLC39A10 (955300 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	195606771	195606771	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:195606771delT								None (None upstream) : SLC39A10 (914761 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	195644165	195644165	+	IGR	DEL	T	-	-	rs113078090		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:195644165delT								None (None upstream) : SLC39A10 (877367 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	195658972	195658972	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:195658972delT								None (None upstream) : SLC39A10 (862560 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	195677333	195677333	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:195677333delT								None (None upstream) : SLC39A10 (844199 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	195704000	195704000	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:195704000delA								None (None upstream) : SLC39A10 (817532 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	195712907	195712907	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:195712907delA								None (None upstream) : SLC39A10 (808625 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	195754246	195754246	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:195754246delA								None (None upstream) : SLC39A10 (767286 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	195892052	195892052	+	IGR	DEL	A	-	-	rs11430766		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:195892052delA								None (None upstream) : SLC39A10 (629480 downstream)																																			---	---	---	---
DNAH7	56171	broad.mit.edu	37	2	196674803	196674803	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:196674803delT	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	196834464	196834464	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:196834464delA	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																		---	---	---	---
STK17B	9262	broad.mit.edu	37	2	197028246	197028246	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:197028246delA	uc002utk.2	-						STK17B_uc010fsh.2_Intron	NM_004226	NP_004217			serine/threonine kinase 17B						apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)															---	---	---	---
CCDC150	284992	broad.mit.edu	37	2	197584401	197584401	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:197584401delT	uc002utp.1	+						CCDC150_uc010zgs.1_Intron|CCDC150_uc010zgt.1_Intron|CCDC150_uc002utq.1_Intron|CCDC150_uc002utr.1_Intron	NM_001080539	NP_001074008			coiled-coil domain containing 150												0																		---	---	---	---
PGAP1	80055	broad.mit.edu	37	2	197712538	197712538	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:197712538delA	uc002utw.2	-						PGAP1_uc002utx.2_Intron|PGAP1_uc002uty.1_3'UTR|PGAP1_uc010fsi.2_5'Flank	NM_024989	NP_079265			GPI deacylase						attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4																		---	---	---	---
ANKRD44	91526	broad.mit.edu	37	2	197834176	197834176	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:197834176delA	uc002utz.3	-							NM_153697	NP_710181			ankyrin repeat domain 44								protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)															---	---	---	---
ANKRD44	91526	broad.mit.edu	37	2	198155160	198155160	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198155160delT	uc002uuc.2	-						ANKRD44_uc002uub.2_Intron|ANKRD44_uc010zgw.1_Intron|ANKRD44_uc002uud.1_Intron	NM_153697	NP_710181			ankyrin repeat domain 44								protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)															---	---	---	---
Unknown	0	broad.mit.edu	37	2	198232001	198232001	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198232001delA								ANKRD44 (56506 upstream) : SF3B1 (24699 downstream)																																			---	---	---	---
SF3B1	23451	broad.mit.edu	37	2	198302429	198302429	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198302429delT	uc002uue.2	-						SF3B1_uc010fsk.1_5'Flank|SF3B1_uc002uuf.2_5'Flank|SF3B1_uc002uug.2_5'Flank	NM_012433	NP_036565			splicing factor 3b, subunit 1 isoform 1						nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)															---	---	---	---
COQ10B	80219	broad.mit.edu	37	2	198324472	198324473	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198324472_198324473insT	uc002uuh.1	+						COQ10B_uc010fsl.1_Intron	NM_025147	NP_079423			coenzyme Q10 homolog B precursor							mitochondrial inner membrane					0			Epithelial(96;0.231)|OV - Ovarian serous cystadenocarcinoma(117;0.246)															---	---	---	---
HSPD1	3329	broad.mit.edu	37	2	198354581	198354581	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198354581delA	uc002uui.2	-						HSPD1_uc002uuj.2_Intron|HSPD1_uc010zgx.1_Intron|HSPD1_uc010fsm.2_Intron|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)															---	---	---	---
RFTN2	130132	broad.mit.edu	37	2	198466957	198466957	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198466957delT	uc002uuo.3	-							NM_144629	NP_653230			raftlin family member 2							plasma membrane					0																		---	---	---	---
PLCL1	5334	broad.mit.edu	37	2	198865464	198865467	+	Intron	DEL	TTTT	-	-	rs111755074		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198865464_198865467delTTTT	uc010fsp.2	+						PLCL1_uc002uuv.3_Intron	NM_001114661	NP_001108133			RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;						intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)													---	---	---	---
Unknown	0	broad.mit.edu	37	2	199158064	199158065	+	IGR	INS	-	GTGT	GTGT	rs142731075	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:199158064_199158065insGTGT								PLCL1 (143458 upstream) : SATB2 (976159 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	199355412	199355412	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:199355412delT								PLCL1 (340806 upstream) : SATB2 (778812 downstream)																																			---	---	---	---
SATB2	23314	broad.mit.edu	37	2	200193649	200193649	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:200193649delA	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	200356447	200356447	+	IGR	DEL	T	-	-	rs80248250		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:200356447delT								FLJ32063 (14789 upstream) : C2orf69 (419532 downstream)																																			---	---	---	---
C2orf60	129450	broad.mit.edu	37	2	200817197	200817197	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:200817197delT	uc002uvi.3	-						C2orf60_uc002uvj.3_Intron|C2orf60_uc002uvk.3_Intron|C2orf60_uc010fss.2_Intron|C2orf60_uc002uvl.2_Intron|C2orf47_uc002uvm.2_5'Flank	NM_001039693	NP_001034782			hypothetical protein LOC129450						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																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	200963647	200963647	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:200963647delT								C2orf47 (134802 upstream) : SPATS2L (206957 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	201084248	201084248	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201084248delT								C2orf47 (255403 upstream) : SPATS2L (86356 downstream)																																			---	---	---	---
SGOL2	151246	broad.mit.edu	37	2	201426185	201426186	+	Intron	DEL	TA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201426185_201426186delTA	uc002uvw.2	+						SGOL2_uc002uvv.3_Intron|SGOL2_uc010zhd.1_Intron|SGOL2_uc010zhe.1_Intron	NM_152524	NP_689737			shugoshin-like 2 isoform 1						cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4																		---	---	---	---
AOX1	316	broad.mit.edu	37	2	201495240	201495240	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201495240delA	uc002uvx.2	+						AOX1_uc010zhf.1_Intron|AOX1_uc010fsu.2_Intron	NM_001159	NP_001150			aldehyde oxidase 1						inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)													---	---	---	---
Unknown	0	broad.mit.edu	37	2	201585952	201585952	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201585952delA	uc002uvy.1	-											Homo sapiens cDNA clone IMAGE:5294477.																														---	---	---	---
CLK1	1195	broad.mit.edu	37	2	201719893	201719894	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201719893_201719894delAA	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																		---	---	---	---
CLK1	1195	broad.mit.edu	37	2	201724120	201724120	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201724120delA	uc002uwe.2	-						CLK1_uc002uwd.2_5'Flank|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																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	201734418	201734418	+	IGR	DEL	A	-	-	rs78832810		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201734418delA								CLK1 (4951 upstream) : PPIL3 (1262 downstream)																																			---	---	---	---
ORC2L	4999	broad.mit.edu	37	2	201791818	201791819	+	Intron	DEL	TT	-	-	rs77724287		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201791818_201791819delTT	uc002uwr.2	-						ORC2L_uc010zhj.1_Intron	NM_006190	NP_006181			origin recognition complex, subunit 2						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																		---	---	---	---
FAM126B	285172	broad.mit.edu	37	2	201935376	201935376	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201935376delA	uc002uws.3	-						FAM126B_uc002uwu.2_Intron|FAM126B_uc002uwv.2_Intron|FAM126B_uc002uww.1_Intron|NDUFB3_uc002uwx.3_5'Flank	NM_173822	NP_776183			hypothetical protein LOC285172							intracellular				ovary(1)	1																		---	---	---	---
TRAK2	66008	broad.mit.edu	37	2	202247401	202247401	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:202247401delT	uc002uyb.3	-							NM_015049	NP_055864			trafficking protein, kinesin binding 2							early endosome|plasma membrane	GABA receptor binding				0																		---	---	---	---
TRAK2	66008	broad.mit.edu	37	2	202265542	202265542	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:202265542delA	uc002uyb.3	-						TRAK2_uc002uyc.2_Intron	NM_015049	NP_055864			trafficking protein, kinesin binding 2							early endosome|plasma membrane	GABA receptor binding				0																		---	---	---	---
ALS2	57679	broad.mit.edu	37	2	202619990	202619990	+	Intron	DEL	T	-	-	rs76069121		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:202619990delT	uc002uyo.2	-						ALS2_uc002uyp.3_Intron|ALS2_uc002uyq.2_Intron	NM_020919	NP_065970			alsin isoform 1						cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7																		---	---	---	---
NOP58	51602	broad.mit.edu	37	2	203149027	203149027	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:203149027delT	uc002uzb.2	+						NOP58_uc010zhv.1_Intron	NM_015934	NP_057018			NOP58 ribonucleoprotein homolog						cell growth|rRNA processing|snRNP protein import into nucleus	box C/D snoRNP complex|Cajal body|cytoplasm|pre-snoRNP complex	protein binding|snoRNA binding				0																		---	---	---	---
BMPR2	659	broad.mit.edu	37	2	203267324	203267324	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:203267324delT	uc002uzf.3	+						BMPR2_uc010ftr.2_Intron|BMPR2_uc002uze.2_Intron	NM_001204	NP_001195			bone morphogenetic protein receptor type II						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	203290052	203290052	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:203290052delA	uc002uzf.3	+						BMPR2_uc010ftr.2_Intron|BMPR2_uc002uze.2_Intron	NM_001204	NP_001195			bone morphogenetic protein receptor type II						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	203397633	203397633	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:203397633delT	uc002uzf.3	+						BMPR2_uc010ftr.2_Intron	NM_001204	NP_001195			bone morphogenetic protein receptor type II						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																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	203462898	203462898	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:203462898delT								BMPR2 (30425 upstream) : FAM117B (37003 downstream)																																			---	---	---	---
ALS2CR8	79800	broad.mit.edu	37	2	203840904	203840905	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:203840904_203840905delTT	uc002uzo.2	+						ALS2CR8_uc010zia.1_Intron|ALS2CR8_uc010zib.1_Intron|ALS2CR8_uc010zic.1_Intron|ALS2CR8_uc002uzp.2_Intron	NM_001104586	NP_001098056			amyotrophic lateral sclerosis 2 (juvenile)											large_intestine(1)|ovary(1)	2																		---	---	---	---
NBEAL1	65065	broad.mit.edu	37	2	203922058	203922058	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:203922058delA	uc002uzt.3	+	6	730	c.397delA	c.(397-399)AAAfs	p.K133fs	NBEAL1_uc002uzq.3_Frame_Shift_Del_p.K133fs|NBEAL1_uc010zid.1_Frame_Shift_Del_p.K82fs|NBEAL1_uc010zie.1_RNA	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	133							binding			ovary(1)|skin(1)	2																		---	---	---	---
ABI2	10152	broad.mit.edu	37	2	204205925	204205925	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:204205925delT	uc002vaa.2	+						ABI2_uc010zig.1_Intron|ABI2_uc002uzz.2_Intron|ABI2_uc010zih.1_Intron|ABI2_uc010zii.1_Intron|ABI2_uc010zij.1_Intron	NM_005759	NP_005750			abl interactor 2						actin polymerization or depolymerization|cell migration|peptidyl-tyrosine phosphorylation	cytoskeleton|cytosol|filopodium|lamellipodium	cytoskeletal adaptor activity|DNA binding|kinase binding|proline-rich region binding|SH3 domain binding|ubiquitin protein ligase binding				0																		---	---	---	---
ABI2	10152	broad.mit.edu	37	2	204291747	204291747	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:204291747delA	uc002vaa.2	+						ABI2_uc002uzz.2_Intron|ABI2_uc010zih.1_Intron|ABI2_uc010zii.1_Intron|ABI2_uc010zij.1_Intron|ABI2_uc002vab.2_Intron|ABI2_uc010zik.1_Intron|ABI2_uc010zil.1_Intron|ABI2_uc010zim.1_Intron|ABI2_uc002vac.2_Intron|ABI2_uc010zin.1_Intron	NM_005759	NP_005750			abl interactor 2						actin polymerization or depolymerization|cell migration|peptidyl-tyrosine phosphorylation	cytoskeleton|cytosol|filopodium|lamellipodium	cytoskeletal adaptor activity|DNA binding|kinase binding|proline-rich region binding|SH3 domain binding|ubiquitin protein ligase binding				0																		---	---	---	---
RAPH1	65059	broad.mit.edu	37	2	204367543	204367545	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:204367543_204367545delAAA	uc002vad.2	-						RAPH1_uc002vae.2_Intron|RAPH1_uc002vaf.2_Intron	NM_213589	NP_998754			Ras association and pleckstrin homology domains						cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				ovary(3)|breast(3)|central_nervous_system(2)|lung(1)|skin(1)	10																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	204505378	204505378	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:204505378delT								RAPH1 (105320 upstream) : CD28 (65820 downstream)																																			---	---	---	---
CD28	940	broad.mit.edu	37	2	204571164	204571164	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:204571164delA	uc002vah.3	+						CD28_uc002vag.1_5'Flank|CD28_uc010zio.1_5'Flank|CD28_uc010ftx.2_5'Flank|CD28_uc002vaj.3_5'Flank	NM_006139	NP_006130			CD28 antigen precursor						cell surface receptor linked signaling pathway|cytokine biosynthetic process|humoral immune response|positive regulation of anti-apoptosis|positive regulation of interleukin-2 biosynthetic process|positive regulation of mitosis|positive regulation of translation|positive regulation of viral genome replication|regulation of defense response to virus by virus|regulatory T cell differentiation|T cell costimulation|viral reproduction	cytosol|external side of plasma membrane|integral to plasma membrane	coreceptor activity|protease binding|SH3/SH2 adaptor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	204675370	204675371	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:204675370_204675371delTT								CD28 (72814 upstream) : CTLA4 (57138 downstream)																																			---	---	---	---
ICOS	29851	broad.mit.edu	37	2	204805839	204805839	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:204805839delT	uc002vam.2	+						ICOS_uc010zip.1_Intron|ICOS_uc010fua.2_Intron	NM_012092	NP_036224			inducible T-cell co-stimulator precursor						immune response|T cell costimulation	extracellular region					0																		---	---	---	---
PARD3B	117583	broad.mit.edu	37	2	205645604	205645604	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:205645604delA	uc002var.1	+						PARD3B_uc010fub.1_Intron|PARD3B_uc002vao.1_Intron|PARD3B_uc002vap.1_Intron|PARD3B_uc002vaq.1_Intron	NM_152526	NP_689739			par-3 partitioning defective 3 homolog B isoform						cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)														---	---	---	---
PARD3B	117583	broad.mit.edu	37	2	205822633	205822633	+	Intron	DEL	T	-	-	rs13399116	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:205822633delT	uc002var.1	+						PARD3B_uc010fub.1_Intron|PARD3B_uc002vao.1_Intron|PARD3B_uc002vap.1_Intron|PARD3B_uc002vaq.1_Intron	NM_152526	NP_689739			par-3 partitioning defective 3 homolog B isoform						cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)														---	---	---	---
PARD3B	117583	broad.mit.edu	37	2	206081748	206081748	+	Intron	DEL	A	-	-	rs11294783		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:206081748delA	uc002var.1	+						PARD3B_uc010fub.1_Intron|PARD3B_uc002vao.1_Intron|PARD3B_uc002vap.1_Intron|PARD3B_uc002vaq.1_Intron	NM_152526	NP_689739			par-3 partitioning defective 3 homolog B isoform						cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)														---	---	---	---
PARD3B	117583	broad.mit.edu	37	2	206107523	206107523	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:206107523delT	uc002var.1	+						PARD3B_uc010fub.1_Intron|PARD3B_uc002vao.1_Intron|PARD3B_uc002vap.1_Intron|PARD3B_uc002vaq.1_Intron	NM_152526	NP_689739			par-3 partitioning defective 3 homolog B isoform						cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)														---	---	---	---
PARD3B	117583	broad.mit.edu	37	2	206337108	206337108	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:206337108delA	uc002var.1	+						PARD3B_uc002vao.1_Intron|PARD3B_uc002vap.1_Intron|PARD3B_uc002vaq.1_Intron	NM_152526	NP_689739			par-3 partitioning defective 3 homolog B isoform						cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)														---	---	---	---
NRP2	8828	broad.mit.edu	37	2	206652430	206652430	+	Intron	DEL	A	-	-	rs66472113		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:206652430delA	uc002vaw.2	+						NRP2_uc002vax.2_Intron|NRP2_uc002vay.2_Intron	NM_201266	NP_957718			neuropilin 2 isoform 1 precursor						angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4																		---	---	---	---
GPR1	2825	broad.mit.edu	37	2	207076494	207076496	+	Intron	DEL	AAG	-	-	rs4675591	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207076494_207076496delAAG	uc002vbl.3	-						GPR1_uc010fue.2_Intron|GPR1_uc010fuf.2_Intron	NM_005279	NP_005270			G protein-coupled receptor 1							integral to plasma membrane	G-protein coupled receptor activity				0		Lung NSC(271;7.93e-06)|Renal(323;0.000147)|Hepatocellular(293;0.000888)		UCEC - Uterine corpus endometrioid carcinoma (47;0.000241)|Epithelial(149;1.91e-37)|STAD - Stomach adenocarcinoma(1183;0.00178)|Lung(261;0.111)|LUSC - Lung squamous cell carcinoma(261;0.184)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	207094019	207094019	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207094019delT								GPR1 (11248 upstream) : ZDBF2 (45504 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	207197360	207197360	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207197360delA								ZDBF2 (18212 upstream) : ADAM23 (111008 downstream)																																			---	---	---	---
ADAM23	8745	broad.mit.edu	37	2	207397920	207397921	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207397920_207397921insT	uc002vbq.2	+						ADAM23_uc010ziv.1_Intron	NM_003812	NP_003803			ADAM metallopeptidase domain 23 preproprotein						cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	207484415	207484415	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207484415delT								ADAM23 (1738 upstream) : LOC200726 (22727 downstream)																																			---	---	---	---
FASTKD2	22868	broad.mit.edu	37	2	207631228	207631228	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207631228delA	uc002vbu.2	+						MDH1B_uc010ziw.1_5'Flank|MDH1B_uc002vbs.2_5'Flank|MDH1B_uc010fui.2_5'Flank|MDH1B_uc010fuj.2_5'Flank|MDH1B_uc002vbt.2_5'Flank|FASTKD2_uc002vbv.2_Intron|FASTKD2_uc002vbx.2_Intron|FASTKD2_uc002vbw.1_5'Flank	NM_001136193	NP_001129665			FAST kinase domains 2						apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|skin(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0718)|Epithelial(149;0.119)|Lung(261;0.138)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	207740075	207740075	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207740075delA								FASTKD2 (79166 upstream) : CPO (64203 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	208287412	208287412	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208287412delT								MIR1302-4 (153264 upstream) : CREB1 (107204 downstream)																																			---	---	---	---
CREB1	1385	broad.mit.edu	37	2	208407945	208407945	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208407945delT	uc002vcc.2	+						CREB1_uc010ziz.1_Intron|CREB1_uc002vcd.2_Intron	NM_134442	NP_604391			cAMP responsive element binding protein 1						activation of phospholipase C activity|axon guidance|innate immune response|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|stress-activated MAPK cascade|synaptic transmission|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		protein dimerization activity|transcription cofactor activity		EWSR1/CREB1(42)	soft_tissue(42)|breast(1)|central_nervous_system(1)	44				LUSC - Lung squamous cell carcinoma(261;0.0768)|Epithelial(149;0.127)|Lung(261;0.145)	Adenosine monophosphate(DB00131)|Bromocriptine(DB01200)|Naloxone(DB01183)			T	EWSR1	clear cell sarcoma|angiomatoid fibrous histiocytoma								---	---	---	---
Unknown	0	broad.mit.edu	37	2	208527349	208527349	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208527349delT								FAM119A (37284 upstream) : CCNYL1 (48915 downstream)																																			---	---	---	---
PLEKHM3	389072	broad.mit.edu	37	2	208692910	208692911	+	3'UTR	DEL	AT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208692910_208692911delAT	uc002vcl.2	-	8						NM_001080475	NP_001073944			pleckstrin homology domain containing, family M,						intracellular signal transduction		metal ion binding			ovary(1)	1																		---	---	---	---
PLEKHM3	389072	broad.mit.edu	37	2	208698219	208698220	+	Intron	DEL	TT	-	-	rs72012206		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208698219_208698220delTT	uc002vcl.2	-							NM_001080475	NP_001073944			pleckstrin homology domain containing, family M,						intracellular signal transduction		metal ion binding			ovary(1)	1																		---	---	---	---
PLEKHM3	389072	broad.mit.edu	37	2	208728471	208728471	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208728471delA	uc002vcl.2	-							NM_001080475	NP_001073944			pleckstrin homology domain containing, family M,						intracellular signal transduction		metal ion binding			ovary(1)	1																		---	---	---	---
PLEKHM3	389072	broad.mit.edu	37	2	208851401	208851401	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208851401delT	uc002vcl.2	-						PLEKHM3_uc002vcm.2_Intron	NM_001080475	NP_001073944			pleckstrin homology domain containing, family M,						intracellular signal transduction		metal ion binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	208921915	208921915	+	IGR	DEL	T	-	-	rs74577733	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208921915delT								PLEKHM3 (31631 upstream) : CRYGD (64417 downstream)																																			---	---	---	---
CRYGA	1418	broad.mit.edu	37	2	209028422	209028422	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:209028422delT	uc002vcq.3	-							NM_014617	NP_055432			crystallin, gamma A						visual perception		structural constituent of eye lens				0				Epithelial(149;0.067)|LUSC - Lung squamous cell carcinoma(261;0.0708)|Lung(261;0.135)														---	---	---	---
PIKFYVE	200576	broad.mit.edu	37	2	209133148	209133158	+	Intron	DEL	TTTTTTTTTTT	-	-	rs71848654		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:209133148_209133158delTTTTTTTTTTT	uc002vcz.2	+						PIKFYVE_uc010fun.1_Intron|PIKFYVE_uc002vcy.1_Intron|PIKFYVE_uc002vcv.2_Intron|PIKFYVE_uc002vcw.2_Intron|PIKFYVE_uc002vcx.2_Intron	NM_015040	NP_055855			phosphatidylinositol-3-phosphate 5-kinase type						cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10																		---	---	---	---
PTH2R	5746	broad.mit.edu	37	2	209233238	209233238	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:209233238delT	uc010zjb.1	+							NM_005048	NP_005039			parathyroid hormone 2 receptor precursor							integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)														---	---	---	---
PTH2R	5746	broad.mit.edu	37	2	209244586	209244587	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:209244586_209244587delAA	uc010zjb.1	+							NM_005048	NP_005039			parathyroid hormone 2 receptor precursor							integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)														---	---	---	---
PTH2R	5746	broad.mit.edu	37	2	209363852	209363853	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:209363852_209363853insA	uc010fuo.1	+											Homo sapiens cDNA FLJ60238 complete cds, highly similar to Parathyroid hormone receptor precursor.							integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)														---	---	---	---
PTH2R	5746	broad.mit.edu	37	2	209424270	209424270	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:209424270delG	uc010fuo.1	+											Homo sapiens cDNA FLJ60238 complete cds, highly similar to Parathyroid hormone receptor precursor.							integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	209881958	209881958	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:209881958delT								PTH2R (177140 upstream) : MAP2 (406813 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	210145247	210145247	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:210145247delA								PTH2R (440429 upstream) : MAP2 (143524 downstream)																																			---	---	---	---
MAP2	4133	broad.mit.edu	37	2	210428566	210428566	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:210428566delT	uc002vdc.1	+						MAP2_uc002vdd.1_Intron	NM_002374	NP_002365			microtubule-associated protein 2 isoform 1						central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)													---	---	---	---
MAP2	4133	broad.mit.edu	37	2	210466789	210466791	+	Intron	DEL	TGT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:210466789_210466791delTGT	uc002vde.1	+						MAP2_uc002vdc.1_Intron|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron	NM_002374	NP_002365			microtubule-associated protein 2 isoform 1						central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)													---	---	---	---
MAP2	4133	broad.mit.edu	37	2	210504485	210504486	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:210504485_210504486delTT	uc002vde.1	+						MAP2_uc002vdc.1_Intron|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron	NM_002374	NP_002365			microtubule-associated protein 2 isoform 1						central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)													---	---	---	---
UNC80	285175	broad.mit.edu	37	2	210658325	210658325	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:210658325delA	uc010zjc.1	+						UNC80_uc002vdj.1_Intron	NM_032504	NP_115893			chromosome 2 open reading frame 21 isoform 1							integral to membrane					0																		---	---	---	---
C2orf67	151050	broad.mit.edu	37	2	210962709	210962709	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:210962709delA	uc002vds.2	-						C2orf67_uc002vdt.2_Intron|C2orf67_uc002vdw.2_Intron|C2orf67_uc002vdv.2_Intron|C2orf67_uc002vdx.1_Intron	NM_152519	NP_689732			hypothetical protein LOC151050											ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)														---	---	---	---
ACADL	33	broad.mit.edu	37	2	211076860	211076862	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:211076860_211076862delTTT	uc002vdz.3	-							NM_001608	NP_001599			long-chain acyl-CoA dehydrogenase precursor						carnitine catabolic process|carnitine metabolic process, CoA-linked|fatty acid beta-oxidation using acyl-CoA dehydrogenase|negative regulation of fatty acid biosynthetic process|negative regulation of fatty acid oxidation|regulation of cholesterol metabolic process|temperature homeostasis	mitochondrial matrix	long-chain-acyl-CoA dehydrogenase activity|palmitoyl-CoA oxidase activity				0		Renal(323;0.202)		Epithelial(149;0.00631)|Lung(261;0.0438)|LUSC - Lung squamous cell carcinoma(261;0.0466)|all cancers(144;0.0621)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	211183528	211183528	+	IGR	DEL	A	-	-	rs147671450		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:211183528delA								MYL1 (3633 upstream) : LANCL1 (112446 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	211251994	211251994	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:211251994delT								MYL1 (72099 upstream) : LANCL1 (43980 downstream)																																			---	---	---	---
CPS1	1373	broad.mit.edu	37	2	211457714	211457714	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:211457714delA	uc002vee.3	+						CPS1_uc010fur.2_Intron|CPS1_uc010fus.2_5'Flank	NM_001875	NP_001866			carbamoyl-phosphate synthetase 1 isoform b						carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)														---	---	---	---
ERBB4	2066	broad.mit.edu	37	2	212252004	212252005	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:212252004_212252005insC	uc002veg.1	-						ERBB4_uc002veh.1_Intron|ERBB4_uc010zji.1_Intron|ERBB4_uc010zjj.1_Intron	NM_005235	NP_005226			v-erb-a erythroblastic leukemia viral oncogene						cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)											TSP Lung(8;0.080)			---	---	---	---
ERBB4	2066	broad.mit.edu	37	2	212253298	212253299	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:212253298_212253299delTT	uc002veg.1	-						ERBB4_uc002veh.1_Intron|ERBB4_uc010zji.1_Intron|ERBB4_uc010zjj.1_Intron	NM_005235	NP_005226			v-erb-a erythroblastic leukemia viral oncogene						cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)											TSP Lung(8;0.080)			---	---	---	---
ERBB4	2066	broad.mit.edu	37	2	212664677	212664677	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:212664677delA	uc002veg.1	-						ERBB4_uc002veh.1_Intron|ERBB4_uc010zji.1_Intron|ERBB4_uc010zjj.1_Intron|ERBB4_uc010fut.1_Intron	NM_005235	NP_005226			v-erb-a erythroblastic leukemia viral oncogene						cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)											TSP Lung(8;0.080)			---	---	---	---
ERBB4	2066	broad.mit.edu	37	2	212926463	212926463	+	Intron	DEL	T	-	-	rs138083524		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:212926463delT	uc002veg.1	-						ERBB4_uc002veh.1_Intron|ERBB4_uc010zji.1_Intron|ERBB4_uc010zjj.1_Intron|ERBB4_uc010fut.1_Intron	NM_005235	NP_005226			v-erb-a erythroblastic leukemia viral oncogene						cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)											TSP Lung(8;0.080)			---	---	---	---
IKZF2	22807	broad.mit.edu	37	2	213899977	213899978	+	Intron	INS	-	T	T	rs148059034	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:213899977_213899978insT	uc002vem.2	-						IKZF2_uc010fuu.2_Intron|IKZF2_uc002vej.2_Intron|IKZF2_uc002vek.2_Intron|IKZF2_uc010fuv.2_Intron|IKZF2_uc002vel.2_Intron|IKZF2_uc010fuw.2_Intron|IKZF2_uc010fux.2_Intron|IKZF2_uc010fuy.2_Intron|IKZF2_uc002ven.2_Intron	NM_016260	NP_057344			helios isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	214021845	214021847	+	IGR	DEL	AAA	-	-	rs71880395		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:214021845_214021847delAAA								IKZF2 (5512 upstream) : SPAG16 (127269 downstream)																																			---	---	---	---
SPAG16	79582	broad.mit.edu	37	2	214222309	214222309	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:214222309delT	uc002veq.2	+						SPAG16_uc010fuz.1_Intron|SPAG16_uc002ver.2_Intron|SPAG16_uc010zjk.1_Intron|SPAG16_uc002vep.1_Intron|SPAG16_uc002ves.1_Intron	NM_024532	NP_078808			sperm associated antigen 16 isoform 1						cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)														---	---	---	---
SPAG16	79582	broad.mit.edu	37	2	214589759	214589759	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:214589759delT	uc002veq.2	+						SPAG16_uc010fuz.1_Intron|SPAG16_uc002ver.2_Intron|SPAG16_uc010zjk.1_Intron	NM_024532	NP_078808			sperm associated antigen 16 isoform 1						cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	215510897	215510898	+	IGR	INS	-	C	C	rs145910720	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:215510897_215510898insC								VWC2L (70244 upstream) : BARD1 (82377 downstream)																																			---	---	---	---
BARD1	580	broad.mit.edu	37	2	215617303	215617303	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:215617303delT	uc002veu.2	-						BARD1_uc010zjm.1_Intron	NM_000465	NP_000456			BRCA1 associated RING domain 1						cell cycle arrest|DNA repair|negative regulation of apoptosis|negative regulation of mRNA 3'-end processing|negative regulation of protein export from nucleus|positive regulation of apoptosis|positive regulation of protein catabolic process|protein K6-linked ubiquitination|regulation of phosphorylation|tissue homeostasis	BRCA1-A complex|BRCA1-BARD1 complex|cytoplasm	kinase binding|protein heterodimerization activity|protein homodimerization activity|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2		Renal(323;0.0243)		Epithelial(149;3.2e-06)|all cancers(144;0.000461)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)										Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				---	---	---	---
ABCA12	26154	broad.mit.edu	37	2	215873518	215873518	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:215873518delA	uc002vew.2	-						ABCA12_uc002vev.2_Intron|ABCA12_uc010zjn.1_Intron	NM_173076	NP_775099			ATP-binding cassette, sub-family A, member 12						cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)														---	---	---	---
ABCA12	26154	broad.mit.edu	37	2	215934197	215934197	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:215934197delT	uc002vew.2	-						ABCA12_uc010zjn.1_Intron	NM_173076	NP_775099			ATP-binding cassette, sub-family A, member 12						cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	216613773	216613773	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:216613773delT	uc002vfm.1	-						uc002vfn.1_Intron					Homo sapiens cDNA FLJ34546 fis, clone HLUNG2008959.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	216684151	216684151	+	Intron	DEL	T	-	-	rs113956928		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:216684151delT	uc002vfm.1	-						uc002vfn.1_Intron					Homo sapiens cDNA FLJ34546 fis, clone HLUNG2008959.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	217095446	217095447	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:217095446_217095447insT								XRCC5 (24432 upstream) : MARCH4 (27139 downstream)																																			---	---	---	---
IGFBP5	3488	broad.mit.edu	37	2	217541832	217541833	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:217541832_217541833delTT	uc002vgj.3	-							NM_000599	NP_000590			insulin-like growth factor binding protein 5						negative regulation of insulin-like growth factor receptor signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|negative regulation of translation|signal transduction		insulin-like growth factor I binding				0		Renal(323;0.0822)		Epithelial(149;2.1e-06)|all cancers(144;0.000165)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)														---	---	---	---
DIRC3	729582	broad.mit.edu	37	2	218384181	218384182	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:218384181_218384182delTT	uc002vgn.1	-						DIRC3_uc002vgo.2_Intron					Homo sapiens cDNA FLJ14199 fis, clone NT2RP3002713.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	218891836	218891837	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:218891836_218891837delAC								TNS1 (24118 upstream) : RUFY4 (7874 downstream)																																			---	---	---	---
CXCR2	3579	broad.mit.edu	37	2	218988684	218988684	+	5'Flank	DEL	T	-	-	rs79964071		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:218988684delT	uc002vgz.1	+						CXCR2_uc002vha.1_5'Flank|CXCR2_uc002vhb.1_5'Flank	NM_001557	NP_001548			interleukin 8 receptor beta						activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cellular defense response|dendritic cell chemotaxis|inflammatory response|neutrophil activation|neutrophil chemotaxis|positive regulation of cell proliferation	cell surface|integral to plasma membrane|mast cell granule	interleukin-8 receptor activity			lung(1)|breast(1)	2																		---	---	---	---
PNKD	25953	broad.mit.edu	37	2	219185849	219185850	+	Intron	INS	-	CTTGAGCA	CTTGAGCA	rs138606165	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219185849_219185850insCTTGAGCA	uc002vhn.2	+						PNKD_uc002vhq.2_5'Flank	NM_015488	NP_056303			myofibrillogenesis regulator 1 isoform 1							membrane|mitochondrion|nucleus	hydroxyacylglutathione hydrolase activity|zinc ion binding				0		Renal(207;0.0474)		Epithelial(149;7.33e-07)|all cancers(144;0.000133)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)														---	---	---	---
USP37	57695	broad.mit.edu	37	2	219382689	219382689	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219382689delT	uc002vie.2	-						USP37_uc010fvs.1_Intron|USP37_uc010zkf.1_Intron|USP37_uc002vif.2_Intron|USP37_uc002vig.2_Intron	NM_020935	NP_065986			ubiquitin specific peptidase 37						ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)														---	---	---	---
RQCD1	9125	broad.mit.edu	37	2	219445567	219445567	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219445567delA	uc010zkh.1	+						RQCD1_uc002vih.1_Intron|RQCD1_uc010zki.1_Intron	NM_005444	NP_005435			RCD1 required for cell differentiation1 homolog						nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|sex differentiation|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(1)|skin(1)	2		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000192)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)														---	---	---	---
PLCD4	84812	broad.mit.edu	37	2	219490027	219490027	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219490027delA	uc002vij.1	+						PLCD4_uc002vik.1_Intron|PLCD4_uc010zkk.1_Intron	NM_032726	NP_116115			phospholipase C, delta 4						intracellular signal transduction|lipid catabolic process	endoplasmic reticulum|membrane|nucleus	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)	3		Renal(207;0.0915)		Epithelial(149;5.11e-07)|all cancers(144;0.000104)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)														---	---	---	---
ZNF142	7701	broad.mit.edu	37	2	219517456	219517457	+	Intron	INS	-	T	T	rs141357054	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219517456_219517457insT	uc002vin.2	-						ZNF142_uc002vil.2_Intron|ZNF142_uc010fvt.2_Intron|ZNF142_uc002vim.2_Intron	NM_001105537	NP_001099007			zinc finger protein 142						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	219705041	219705041	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219705041delA								PRKAG3 (8529 upstream) : WNT6 (19505 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	219778496	219778496	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219778496delT	uc002vje.1	-											Homo sapiens, clone IMAGE:5191738, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	219911668	219911668	+	IGR	DEL	T	-	-	rs34020973		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219911668delT								CCDC108 (5423 upstream) : IHH (7478 downstream)																																			---	---	---	---
NHEJ1	79840	broad.mit.edu	37	2	220023604	220023604	+	Intron	DEL	A	-	-	rs2293070	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220023604delA	uc002vjp.3	-						NHEJ1_uc002vjq.3_Intron	NM_024782	NP_079058			nonhomologous end-joining factor 1						B cell differentiation|central nervous system development|DNA recombination|double-strand break repair via nonhomologous end joining|positive regulation of ligase activity|response to ionizing radiation|T cell differentiation	nonhomologous end joining complex|nucleus	DNA binding|identical protein binding			lung(1)	1		Renal(207;0.0915)		Epithelial(149;2.15e-06)|all cancers(144;0.000339)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(261;0.0112)									Direct_reversal_of_damage|NHEJ					---	---	---	---
DNPEP	23549	broad.mit.edu	37	2	220262049	220262049	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220262049delT	uc010zlg.1	-						uc002vlk.1_Intron	NM_012100	NP_036232			aspartyl aminopeptidase						peptide metabolic process|proteolysis	cytoplasm	aminopeptidase activity|metallopeptidase activity|protein binding|zinc ion binding				0		Renal(207;0.0474)		Epithelial(149;1.09e-06)|all cancers(144;0.000179)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)	L-Glutamic Acid(DB00142)													---	---	---	---
OBSL1	23363	broad.mit.edu	37	2	220434073	220434073	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220434073delT	uc010fwk.2	-						OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Intron|OBSL1_uc002vmj.2_Intron|INHA_uc002vmk.1_5'Flank	NM_015311	NP_056126			obscurin-like 1						cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	220456120	220456120	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220456120delT								INHA (15693 upstream) : STK11IP (6476 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	221187497	221187498	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:221187497_221187498delGA								SLC4A3 (680796 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	221276392	221276392	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:221276392delT								SLC4A3 (769691 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	221378105	221378105	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:221378105delA								SLC4A3 (871404 upstream) : EPHA4 (904644 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	221640891	221640892	+	IGR	INS	-	CCT	CCT	rs145650415	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:221640891_221640892insCCT								None (None upstream) : EPHA4 (641857 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	221670292	221670292	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:221670292delC								None (None upstream) : EPHA4 (612457 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	221693589	221693590	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:221693589_221693590insA								None (None upstream) : EPHA4 (589159 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	222805619	222805620	+	IGR	DEL	AG	-	-	rs1095111		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:222805619_222805620delAG								EPHA4 (366697 upstream) : PAX3 (258987 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	222809530	222809530	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:222809530delA								EPHA4 (370608 upstream) : PAX3 (255077 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	222920063	222920063	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:222920063delT								EPHA4 (481141 upstream) : PAX3 (144544 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	222956517	222956518	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:222956517_222956518insA								EPHA4 (517595 upstream) : PAX3 (108089 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	222964245	222964245	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:222964245delT								EPHA4 (525323 upstream) : PAX3 (100362 downstream)																																			---	---	---	---
SGPP2	130367	broad.mit.edu	37	2	223308381	223308381	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:223308381delT	uc010zlo.1	+						SGPP2_uc010zlp.1_Intron	NM_152386	NP_689599			sphingosine-1-phosphate phosphotase 2						sphingosine metabolic process	endoplasmic reticulum membrane|integral to membrane	dihydrosphingosine-1-phosphate phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)|skin(1)	2		Renal(207;0.0376)		Epithelial(121;2.08e-09)|all cancers(144;9.25e-07)|LUSC - Lung squamous cell carcinoma(224;0.011)|Lung(261;0.0143)														---	---	---	---
SGPP2	130367	broad.mit.edu	37	2	223414460	223414460	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:223414460delT	uc010zlo.1	+						SGPP2_uc010zlp.1_Intron	NM_152386	NP_689599			sphingosine-1-phosphate phosphotase 2						sphingosine metabolic process	endoplasmic reticulum membrane|integral to membrane	dihydrosphingosine-1-phosphate phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)|skin(1)	2		Renal(207;0.0376)		Epithelial(121;2.08e-09)|all cancers(144;9.25e-07)|LUSC - Lung squamous cell carcinoma(224;0.011)|Lung(261;0.0143)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	223706261	223706262	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:223706261_223706262delTT								MOGAT1 (131612 upstream) : ACSL3 (19470 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	224015457	224015457	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:224015457delA								KCNE4 (95104 upstream) : SCG2 (446203 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	224485606	224485609	+	IGR	DEL	GTGT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:224485606_224485609delGTGT								SCG2 (18485 upstream) : AP1S3 (134439 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	224565082	224565082	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:224565082delT								SCG2 (97961 upstream) : AP1S3 (54966 downstream)																																			---	---	---	---
AP1S3	130340	broad.mit.edu	37	2	224673711	224673711	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:224673711delA	uc010fwx.1	-						AP1S3_uc002vnn.2_Intron|AP1S3_uc010fww.2_Intron|AP1S3_uc002vno.2_Intron	NM_001039569	NP_001034658			adaptor-related protein complex 1, sigma 3						endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	coated pit|cytoplasmic vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|membrane coat	protein transporter activity				0		Renal(207;0.0112)|Lung NSC(271;0.0186)|all_lung(227;0.0272)		Epithelial(121;7.6e-10)|all cancers(144;3.62e-07)|Lung(261;0.0086)|LUSC - Lung squamous cell carcinoma(224;0.00902)														---	---	---	---
CUL3	8452	broad.mit.edu	37	2	225414596	225414597	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225414596_225414597delCA	uc002vny.2	-						CUL3_uc010zls.1_Intron|CUL3_uc010fwy.1_Intron	NM_003590	NP_003581			cullin 3						cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)														---	---	---	---
CUL3	8452	broad.mit.edu	37	2	225447381	225447381	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225447381delA	uc002vny.2	-						CUL3_uc010zls.1_Intron	NM_003590	NP_003581			cullin 3						cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	225474103	225474104	+	IGR	DEL	AA	-	-	rs77621589		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225474103_225474104delAA								CUL3 (23993 upstream) : DOCK10 (155703 downstream)																																			---	---	---	---
DOCK10	55619	broad.mit.edu	37	2	225661961	225661963	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225661961_225661963delTTT	uc010fwz.1	-						DOCK10_uc002vob.2_Intron|DOCK10_uc002voa.2_Intron|DOCK10_uc002voc.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)														---	---	---	---
DOCK10	55619	broad.mit.edu	37	2	225698034	225698034	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225698034delT	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)														---	---	---	---
DOCK10	55619	broad.mit.edu	37	2	225748421	225748421	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225748421delT	uc010fwz.1	-						DOCK10_uc002vob.2_Intron|DOCK10_uc002vod.1_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)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	225973754	225973754	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225973754delT								DOCK10 (66424 upstream) : KIAA1486 (291848 downstream)																																			---	---	---	---
KIAA1486	57624	broad.mit.edu	37	2	226282721	226282721	+	Intron	DEL	A	-	-	rs71725017		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:226282721delA	uc002voe.2	+						KIAA1486_uc010fxa.1_Intron	NM_020864	NP_065915			hypothetical protein LOC57624											ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	226679480	226679480	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:226679480delA								KIAA1486 (84009 upstream) : IRS1 (916554 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	227364876	227364876	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:227364876delA								KIAA1486 (769405 upstream) : IRS1 (231158 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	227429944	227429944	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:227429944delA								KIAA1486 (834473 upstream) : IRS1 (166090 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	227585570	227585570	+	IGR	DEL	A	-	-	rs35516765		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:227585570delA								KIAA1486 (990099 upstream) : IRS1 (10464 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	227672731	227672731	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:227672731delA								IRS1 (9225 upstream) : RHBDD1 (28042 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	227689991	227689991	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:227689991delA								IRS1 (26485 upstream) : RHBDD1 (10782 downstream)																																			---	---	---	---
COL4A3	1285	broad.mit.edu	37	2	228062250	228062250	+	Intron	DEL	A	-	-	rs116153356	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228062250delA	uc002vom.1	+						COL4A3_uc002von.1_Intron|COL4A3_uc002voo.1_Intron|COL4A3_uc002vop.1_Intron	NM_000091	NP_000082			alpha 3 type IV collagen isoform 1 precursor						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	228086161	228086163	+	Intron	DEL	TTC	-	-	rs142774118		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228086161_228086163delTTC	uc002vom.1	+						COL4A3_uc002von.1_Intron|COL4A3_uc002voo.1_Intron|COL4A3_uc002vop.1_Intron	NM_000091	NP_000082			alpha 3 type IV collagen isoform 1 precursor						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)														---	---	---	---
MFF	56947	broad.mit.edu	37	2	228207712	228207713	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228207712_228207713delAA	uc002vos.2	+						MFF_uc002vot.2_Intron|MFF_uc002vou.2_Intron|MFF_uc002vov.2_Intron|MFF_uc002vow.2_Intron|MFF_uc002vox.2_Intron|MFF_uc002voy.2_Intron|MFF_uc002voz.2_Intron	NM_020194	NP_064579			mitochondrial fission factor							integral to membrane|mitochondrial outer membrane				large_intestine(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	228260871	228260871	+	IGR	DEL	A	-	-	rs11288700		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228260871delA								TM4SF20 (16849 upstream) : AGFG1 (76017 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	228283415	228283415	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228283415delT								TM4SF20 (39393 upstream) : AGFG1 (53473 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	228326740	228326740	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228326740delT								TM4SF20 (82718 upstream) : AGFG1 (10148 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	228444217	228444217	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228444217delT								AGFG1 (18279 upstream) : C2orf83 (30590 downstream)																																			---	---	---	---
CCL20	6364	broad.mit.edu	37	2	228678439	228678439	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228678439delT	uc002vpl.2	+						CCL20_uc002vpm.2_5'Flank	NM_004591	NP_004582			chemokine (C-C motif) ligand 20 isoform 1						cell-cell signaling|chemotaxis|defense response to bacterium|immune response|inflammatory response|signal transduction	extracellular space	chemokine activity				0		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;7.3e-11)|all cancers(144;4.13e-08)|Lung(261;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0115)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	228842374	228842374	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228842374delA								WDR69 (53348 upstream) : SPHKAP (2296 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	229552059	229552059	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:229552059delA								SPHKAP (505698 upstream) : PID1 (336631 downstream)																																			---	---	---	---
DNER	92737	broad.mit.edu	37	2	230357554	230357554	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:230357554delT	uc002vpv.2	-						DNER_uc010zly.1_Intron	NM_139072	NP_620711			delta-notch-like EGF repeat-containing						central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)														---	---	---	---
TRIP12	9320	broad.mit.edu	37	2	230638274	230638274	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:230638274delT	uc002vpw.1	-						TRIP12_uc002vpx.1_Intron|TRIP12_uc002vpy.1_Intron	NM_004238	NP_004229			thyroid hormone receptor interactor 12						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)														---	---	---	---
TRIP12	9320	broad.mit.edu	37	2	230667607	230667607	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:230667607delA	uc002vpw.1	-						TRIP12_uc002vpx.1_Intron|TRIP12_uc002vpy.1_Intron|TRIP12_uc010zlz.1_Intron	NM_004238	NP_004229			thyroid hormone receptor interactor 12						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)														---	---	---	---
SP140	11262	broad.mit.edu	37	2	231118280	231118280	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231118280delT	uc002vql.2	+						SP140_uc010zma.1_Intron|SP140_uc002vqk.2_Intron|SP140_uc002vqn.2_Intron|SP140_uc002vqm.2_Intron|SP140_uc010fxl.2_Intron	NM_007237	NP_009168			SP140 nuclear body protein isoform 1						defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|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	231350932	231350932	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231350932delT	uc002vqt.2	+						SP100_uc002vqs.2_Intron|SP100_uc002vqu.1_Intron	NM_003113	NP_003104			nuclear antigen Sp100 isoform 2						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	231492735	231492735	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231492735delA								SP100 (82418 upstream) : CAB39 (84822 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	231543639	231543640	+	IGR	DEL	AA	-	-	rs72062748		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231543639_231543640delAA								SP100 (133322 upstream) : CAB39 (33917 downstream)																																			---	---	---	---
CAB39	51719	broad.mit.edu	37	2	231612824	231612826	+	Intron	DEL	TTT	-	-	rs76983740		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231612824_231612826delTTT	uc002vqx.2	+						CAB39_uc010fxr.2_Intron|CAB39_uc010fxq.2_Intron	NM_016289	NP_057373			calcium binding protein 39						cell cycle arrest|insulin receptor signaling pathway|regulation of fatty acid oxidation	cytosol	kinase binding			central_nervous_system(1)	1		all_lung(227;4.63e-07)|all_hematologic(139;1.83e-06)|Lung NSC(271;2.11e-05)|Acute lymphoblastic leukemia(138;5.51e-05)|Hepatocellular(293;0.0207)|Lung SC(224;0.187)		all cancers(144;1.64e-12)|Epithelial(121;5.29e-11)|LUSC - Lung squamous cell carcinoma(224;0.0154)|Lung(119;0.0177)|COAD - Colon adenocarcinoma(134;0.226)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	231718596	231718597	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231718596_231718597delCA								CAB39 (32807 upstream) : ITM2C (11024 downstream)																																			---	---	---	---
ARMC9	80210	broad.mit.edu	37	2	232084919	232084920	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232084919_232084920insT	uc002vrq.3	+						ARMC9_uc002vrp.3_Intron	NM_025139	NP_079415			armadillo repeat containing 9								binding			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0744)|all_hematologic(139;0.0749)|Acute lymphoblastic leukemia(138;0.167)|Medulloblastoma(418;0.184)|Lung NSC(271;0.205)		Epithelial(121;1.43e-10)|LUSC - Lung squamous cell carcinoma(224;0.017)|Lung(119;0.0189)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	232305396	232305397	+	IGR	INS	-	TTC	TTC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232305396_232305397insTTC								B3GNT7 (39523 upstream) : NCL (14063 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	232404996	232404996	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232404996delT								NMUR1 (9814 upstream) : C2orf57 (52616 downstream)																																			---	---	---	---
PDE6D	5147	broad.mit.edu	37	2	232623020	232623020	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232623020delT	uc002vse.1	-						PDE6D_uc002vsf.1_Intron	NM_002601	NP_002592			phosphodiesterase 6D						regulation of GTP catabolic process|response to stimulus|visual perception		3',5'-cyclic-nucleotide phosphodiesterase activity|GTPase inhibitor activity|protein binding				0		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.142)		Epithelial(121;2.19e-12)|BRCA - Breast invasive adenocarcinoma(100;0.00145)|LUSC - Lung squamous cell carcinoma(224;0.0125)|Lung(119;0.0154)														---	---	---	---
COPS7B	64708	broad.mit.edu	37	2	232657669	232657669	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232657669delT	uc002vsg.1	+						COPS7B_uc010fxy.1_Intron|COPS7B_uc002vsh.1_Intron|COPS7B_uc002vsi.1_Intron|COPS7B_uc002vsj.1_Intron|COPS7B_uc002vsk.1_5'Flank	NM_022730	NP_073567			COP9 constitutive photomorphogenic homolog						cullin deneddylation	cytoplasm|signalosome				ovary(1)|liver(1)|skin(1)	3		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Renal(207;0.025)		Epithelial(121;1.36e-12)|BRCA - Breast invasive adenocarcinoma(100;0.00136)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	232770675	232770675	+	IGR	DEL	A	-	-	rs74565218		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232770675delA								MIR1471 (13667 upstream) : NPPC (19460 downstream)																																			---	---	---	---
DIS3L2	129563	broad.mit.edu	37	2	232913441	232913442	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232913441_232913442delAA	uc010fxz.2	+						DIS3L2_uc002vsm.3_Intron|DIS3L2_uc002vsn.1_Intron|DIS3L2_uc002vso.2_Intron	NM_152383	NP_689596			DIS3 mitotic control homolog (S.								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)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	233456161	233456163	+	IGR	DEL	AAG	-	-	rs148692012	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233456161_233456163delAAG								EIF4E2 (7812 upstream) : EFHD1 (14604 downstream)																																			---	---	---	---
EFHD1	80303	broad.mit.edu	37	2	233487339	233487341	+	Intron	DEL	GAG	-	-	rs145057993		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233487339_233487341delGAG	uc010fyf.2	+							NM_025202	NP_079478			EF-hand domain family, member D1								calcium ion binding|protein binding				0		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Breast(86;0.0199)|Renal(207;0.025)		Epithelial(121;2.08e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00825)|Lung(119;0.0101)														---	---	---	---
EFHD1	80303	broad.mit.edu	37	2	233494835	233494835	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233494835delT	uc010fyf.2	+							NM_025202	NP_079478			EF-hand domain family, member D1								calcium ion binding|protein binding				0		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Breast(86;0.0199)|Renal(207;0.025)		Epithelial(121;2.08e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00825)|Lung(119;0.0101)														---	---	---	---
EFHD1	80303	broad.mit.edu	37	2	233508121	233508121	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233508121delT	uc002vtc.2	+						EFHD1_uc010fyf.2_Intron	NM_025202	NP_079478			EF-hand domain family, member D1								calcium ion binding|protein binding				0		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Breast(86;0.0199)|Renal(207;0.025)		Epithelial(121;2.08e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00825)|Lung(119;0.0101)														---	---	---	---
EFHD1	80303	broad.mit.edu	37	2	233546020	233546020	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233546020delA	uc002vtc.2	+						EFHD1_uc010fyf.2_Intron|EFHD1_uc002vtd.2_Intron	NM_025202	NP_079478			EF-hand domain family, member D1								calcium ion binding|protein binding				0		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Breast(86;0.0199)|Renal(207;0.025)		Epithelial(121;2.08e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00825)|Lung(119;0.0101)														---	---	---	---
GIGYF2	26058	broad.mit.edu	37	2	233600141	233600141	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233600141delT	uc002vti.3	+						GIGYF2_uc002vte.2_Intron|GIGYF2_uc002vtf.2_Intron|GIGYF2_uc010zmj.1_Intron|GIGYF2_uc002vtg.2_Intron|GIGYF2_uc002vtj.3_Intron|GIGYF2_uc002vtk.3_Intron|GIGYF2_uc002vth.3_Intron|GIGYF2_uc002vtl.2_Intron|GIGYF2_uc010zmk.1_Intron	NM_015575	NP_056390			GRB10 interacting GYF protein 2 isoform b						cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)														---	---	---	---
NEU2	4759	broad.mit.edu	37	2	233895638	233895638	+	5'Flank	DEL	A	-	-	rs113358191		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233895638delA	uc010zmn.1	+							NM_005383	NP_005374			neuraminidase 2								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)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	233908397	233908397	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233908397delT								NEU2 (8631 upstream) : INPP5D (16639 downstream)																																			---	---	---	---
ATG16L1	55054	broad.mit.edu	37	2	234191135	234191135	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234191135delA	uc002vty.2	+						ATG16L1_uc002vtx.1_Intron|ATG16L1_uc002vua.2_Intron|ATG16L1_uc002vub.2_Intron|ATG16L1_uc002vtz.2_Intron|ATG16L1_uc002vud.3_Intron	NM_030803	NP_110430			APG16 autophagy 16-like isoform 1						autophagic vacuole assembly|protein homooligomerization|protein transport	autophagic vacuole|pre-autophagosomal structure membrane	protein binding				0		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0539)		Epithelial(121;1.53e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000379)|LUSC - Lung squamous cell carcinoma(224;0.00619)|Lung(119;0.00732)|GBM - Glioblastoma multiforme(43;0.11)														---	---	---	---
UGT1A8	54576	broad.mit.edu	37	2	234596937	234596937	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234596937delT	uc002vup.2	+						UGT1A8_uc010zmv.1_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron	NM_019076	NP_061949			UDP glycosyltransferase 1 family, polypeptide A8						drug metabolic process|fatty acid metabolic process|flavone metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme inhibitor activity|fatty acid binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|steroid binding			ovary(2)	2		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0334)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;2.56e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000482)|Lung(119;0.00404)|LUSC - Lung squamous cell carcinoma(224;0.008)														---	---	---	---
UGT1A8	54576	broad.mit.edu	37	2	234599235	234599235	+	Intron	DEL	A	-	-	rs150580345		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234599235delA	uc002vup.2	+						UGT1A8_uc010zmv.1_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_5'Flank|UGT1A6_uc010zmy.1_5'Flank|UGT1A6_uc002vuv.3_5'Flank	NM_019076	NP_061949			UDP glycosyltransferase 1 family, polypeptide A8						drug metabolic process|fatty acid metabolic process|flavone metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme inhibitor activity|fatty acid binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|steroid binding			ovary(2)	2		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0334)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;2.56e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000482)|Lung(119;0.00404)|LUSC - Lung squamous cell carcinoma(224;0.008)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	234787921	234787921	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234787921delT								MSL3L2 (10866 upstream) : TRPM8 (38122 downstream)																																			---	---	---	---
TRPM8	79054	broad.mit.edu	37	2	234925317	234925317	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234925317delT	uc002vvh.2	+						TRPM8_uc010fyj.2_Intron|TRPM8_uc010fyk.2_Intron	NM_024080	NP_076985			transient receptor potential cation channel,							integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)													---	---	---	---
Unknown	0	broad.mit.edu	37	2	235161789	235161790	+	IGR	INS	-	A	A	rs116606271		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:235161789_235161790insA								SPP2 (176013 upstream) : ARL4C (239898 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	235969991	235969991	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:235969991delA								SH3BP4 (5635 upstream) : AGAP1 (432745 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	235987909	235987917	+	IGR	DEL	TGTGTGTGA	-	-	rs144973095		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:235987909_235987917delTGTGTGTGA								SH3BP4 (23553 upstream) : AGAP1 (414819 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	236059419	236059419	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:236059419delG								SH3BP4 (95063 upstream) : AGAP1 (343317 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	236147728	236147728	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:236147728delT								SH3BP4 (183372 upstream) : AGAP1 (255008 downstream)																																			---	---	---	---
AGAP1	116987	broad.mit.edu	37	2	236516965	236516965	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:236516965delT	uc002vvs.2	+						AGAP1_uc002vvt.2_Intron	NM_001037131	NP_001032208			centaurin, gamma 2 isoform 1						protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3																		---	---	---	---
AGAP1	116987	broad.mit.edu	37	2	236807275	236807275	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:236807275delT	uc002vvs.2	+						AGAP1_uc002vvt.2_Intron	NM_001037131	NP_001032208			centaurin, gamma 2 isoform 1						protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3																		---	---	---	---
AGAP1	116987	broad.mit.edu	37	2	236971127	236971129	+	Intron	DEL	TAT	-	-	rs148493554	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:236971127_236971129delTAT	uc002vvs.2	+						AGAP1_uc002vvt.2_Intron	NM_001037131	NP_001032208			centaurin, gamma 2 isoform 1						protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3																		---	---	---	---
ASB18	401036	broad.mit.edu	37	2	237111960	237111960	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:237111960delA	uc010znh.1	-							NM_212556	NP_997721			ankyrin repeat and SOCS box-containing 18						intracellular signal transduction					ovary(1)	1		all_hematologic(139;0.00615)|Renal(207;0.00963)|Breast(86;0.0126)|Acute lymphoblastic leukemia(138;0.0815)		Epithelial(121;2.04e-26)|OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(100;2.88e-05)|Lung(119;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00644)|GBM - Glioblastoma multiforme(43;0.244)														---	---	---	---
ASB18	401036	broad.mit.edu	37	2	237114834	237114837	+	Intron	DEL	TTTT	-	-	rs11894606		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:237114834_237114837delTTTT	uc010znh.1	-							NM_212556	NP_997721			ankyrin repeat and SOCS box-containing 18						intracellular signal transduction					ovary(1)	1		all_hematologic(139;0.00615)|Renal(207;0.00963)|Breast(86;0.0126)|Acute lymphoblastic leukemia(138;0.0815)		Epithelial(121;2.04e-26)|OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(100;2.88e-05)|Lung(119;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00644)|GBM - Glioblastoma multiforme(43;0.244)														---	---	---	---
IQCA1	79781	broad.mit.edu	37	2	237349775	237349775	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:237349775delA	uc002vvz.1	-						IQCA1_uc002vwb.2_Intron|IQCA1_uc002vwa.1_Intron|IQCA1_uc010zni.1_Intron	NM_024726	NP_079002			IQ motif containing with AAA domain 1								ATP binding			ovary(1)	1																		---	---	---	---
IQCA1	79781	broad.mit.edu	37	2	237403294	237403294	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:237403294delT	uc002vvz.1	-						IQCA1_uc002vwb.2_Intron|IQCA1_uc002vwa.1_Intron|IQCA1_uc010zni.1_Intron	NM_024726	NP_079002			IQ motif containing with AAA domain 1								ATP binding			ovary(1)	1																		---	---	---	---
IQCA1	79781	broad.mit.edu	37	2	237405767	237405767	+	Intron	DEL	A	-	-	rs80261665		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:237405767delA	uc002vvz.1	-						IQCA1_uc002vwb.2_Intron|IQCA1_uc002vwa.1_Intron|IQCA1_uc010zni.1_Intron	NM_024726	NP_079002			IQ motif containing with AAA domain 1								ATP binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	237608951	237608951	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:237608951delT								CXCR7 (117959 upstream) : COPS8 (385133 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	237782015	237782015	+	IGR	DEL	T	-	-	rs66487257		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:237782015delT								CXCR7 (291023 upstream) : COPS8 (212069 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	238087568	238087568	+	IGR	DEL	T	-	-	rs60506435	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:238087568delT								COPS8 (80081 upstream) : COL6A3 (145087 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	238158640	238158640	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:238158640delG								COPS8 (151153 upstream) : COL6A3 (74015 downstream)																																			---	---	---	---
LRRFIP1	9208	broad.mit.edu	37	2	238656574	238656574	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:238656574delA	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)														---	---	---	---
LRRFIP1	9208	broad.mit.edu	37	2	238682982	238682982	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:238682982delT	uc002vxc.2	+						LRRFIP1_uc010znm.1_Intron|LRRFIP1_uc002vxg.2_Intron	NM_001137550	NP_001131022			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)														---	---	---	---
TRAF3IP1	26146	broad.mit.edu	37	2	239267175	239267175	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:239267175delA	uc002vye.2	+						TRAF3IP1_uc002vyf.2_Intron	NM_015650	NP_056465			TNF receptor-associated factor 3 interacting							cytoplasm|cytoskeleton	protein binding			ovary(1)	1		all_epithelial(40;3.22e-10)|Breast(86;0.000523)|Renal(207;0.00571)|Ovarian(221;0.156)|all_hematologic(139;0.182)		Epithelial(121;9.92e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.85e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.01e-07)|BRCA - Breast invasive adenocarcinoma(100;7.72e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0184)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	240855542	240855543	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:240855542_240855543delAG								HDAC4 (532196 upstream) : NDUFA10 (44615 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	240882038	240882038	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:240882038delT								HDAC4 (558692 upstream) : NDUFA10 (18120 downstream)																																			---	---	---	---
ANKMY1	51281	broad.mit.edu	37	2	241437604	241437604	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241437604delG	uc002vyz.1	-						ANKMY1_uc002vza.1_Intron|ANKMY1_uc010fzd.1_Intron|ANKMY1_uc002vzb.1_Intron|ANKMY1_uc002vzc.1_Intron|ANKMY1_uc002vzd.1_Intron	NM_016552	NP_057636			ankyrin repeat and MYND domain containing 1								zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)														---	---	---	---
GPR35	2859	broad.mit.edu	37	2	241565684	241565685	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241565684_241565685insC	uc010fzh.1	+						GPR35_uc010fzi.1_Intron	NM_005301	NP_005292			G protein-coupled receptor 35							integral to plasma membrane	G-protein coupled receptor activity			skin(2)|pancreas(1)	3		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;5.29e-32)|all cancers(36;1.38e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.02e-06)|Lung(119;0.00163)|Colorectal(34;0.00463)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.031)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	241902256	241902256	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241902256delG	uc002waf.2	-											Homo sapiens, clone IMAGE:5745636, mRNA.																														---	---	---	---
SNED1	25992	broad.mit.edu	37	2	242015270	242015271	+	Intron	INS	-	TG	TG	rs148216891	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242015270_242015271insTG	uc002wah.1	+						SNED1_uc002wai.1_Intron|SNED1_uc002waj.1_Intron	NM_001080437	NP_001073906			6720455I24Rik homolog precursor						cell-matrix adhesion	extracellular region	calcium ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)														---	---	---	---
MTERFD2	130916	broad.mit.edu	37	2	242040136	242040137	+	5'Flank	INS	-	AT	AT	rs142098493	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242040136_242040137insAT	uc002wan.1	-						MTERFD2_uc010zoj.1_Intron|MTERFD2_uc010zok.1_Intron	NM_182501	NP_872307			MTERF domain containing 2											ovary(1)	1		all_cancers(19;4.67e-31)|all_epithelial(40;8.67e-13)|Breast(86;0.000141)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;2.47e-32)|all cancers(36;1.79e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-14)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;2.81e-06)|Lung(119;0.000509)|LUSC - Lung squamous cell carcinoma(224;0.00442)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0886)														---	---	---	---
SEPT2	4735	broad.mit.edu	37	2	242266829	242266830	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242266829_242266830insA	uc002wbc.2	+						SEPT2_uc002wbd.2_Intron|SEPT2_uc002wbf.2_Intron|SEPT2_uc002wbg.2_Intron|SEPT2_uc002wbh.2_Intron|SEPT2_uc010zop.1_Intron	NM_001008491	NP_001008491			septin 2						cell division|mitosis	actin cytoskeleton|cleavage furrow|condensed chromosome kinetochore|midbody|nucleolus|septin complex|spindle	GTP binding			central_nervous_system(1)	1		all_cancers(19;7.62e-41)|all_epithelial(40;1.71e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.24e-34)|all cancers(36;7.15e-32)|OV - Ovarian serous cystadenocarcinoma(60;1.21e-15)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;3.16e-06)|Lung(119;7.81e-05)|LUSC - Lung squamous cell carcinoma(224;0.000742)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0889)														---	---	---	---
SEPT2	4735	broad.mit.edu	37	2	242280540	242280540	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242280540delT	uc002wbc.2	+						SEPT2_uc002wbd.2_Intron|SEPT2_uc002wbf.2_Intron|SEPT2_uc002wbg.2_Intron|SEPT2_uc002wbh.2_Intron|SEPT2_uc010zop.1_Intron	NM_001008491	NP_001008491			septin 2						cell division|mitosis	actin cytoskeleton|cleavage furrow|condensed chromosome kinetochore|midbody|nucleolus|septin complex|spindle	GTP binding			central_nervous_system(1)	1		all_cancers(19;7.62e-41)|all_epithelial(40;1.71e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.24e-34)|all cancers(36;7.15e-32)|OV - Ovarian serous cystadenocarcinoma(60;1.21e-15)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;3.16e-06)|Lung(119;7.81e-05)|LUSC - Lung squamous cell carcinoma(224;0.000742)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0889)														---	---	---	---
ING5	84289	broad.mit.edu	37	2	242656493	242656493	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242656493delT	uc002wcd.2	+						ING5_uc002wcc.1_Intron	NM_032329	NP_115705			inhibitor of growth family, member 5						DNA replication|histone H3 acetylation|negative regulation of cell proliferation|negative regulation of growth|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion 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;2.16e-33)|all cancers(36;4.99e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.6e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.65e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0839)														---	---	---	---
D2HGDH	728294	broad.mit.edu	37	2	242684394	242684394	+	Intron	DEL	G	-	-	rs4675884	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242684394delG	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	242877885	242877885	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242877885delA								C2orf85 (62403 upstream) : LOC728323 (152959 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	242910456	242910456	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242910456delT	uc002wcs.1	+											Homo sapiens cDNA FLJ40615 fis, clone THYMU2012882.																														---	---	---	---
Unknown	0	broad.mit.edu	37	3	958100	958100	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:958100delA								CHL1 (507005 upstream) : CNTN6 (176520 downstream)																																			---	---	---	---
CNTN6	27255	broad.mit.edu	37	3	1253325	1253325	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:1253325delC	uc003boz.2	+						CNTN6_uc010hbo.2_Intron|CNTN6_uc011asj.1_Intron|CNTN6_uc003bpa.2_Intron	NM_014461	NP_055276			contactin 6 precursor						axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)														---	---	---	---
CNTN6	27255	broad.mit.edu	37	3	1262335	1262335	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:1262335delT	uc003boz.2	+						CNTN6_uc010hbo.2_Intron|CNTN6_uc011asj.1_Intron|CNTN6_uc003bpa.2_Intron	NM_014461	NP_055276			contactin 6 precursor						axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)														---	---	---	---
CNTN6	27255	broad.mit.edu	37	3	1373523	1373523	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:1373523delA	uc003boz.2	+						CNTN6_uc011asj.1_Intron|CNTN6_uc003bpa.2_Intron	NM_014461	NP_055276			contactin 6 precursor						axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	1486304	1486305	+	IGR	INS	-	AAC	AAC	rs142101740	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:1486304_1486305insAAC								CNTN6 (41027 upstream) : CNTN4 (654245 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	1820825	1820825	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:1820825delA								CNTN6 (375548 upstream) : CNTN4 (319725 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	1992162	1992162	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:1992162delA								CNTN6 (546885 upstream) : CNTN4 (148388 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	2088431	2088432	+	IGR	INS	-	AAGA	AAGA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:2088431_2088432insAAGA								CNTN6 (643154 upstream) : CNTN4 (52118 downstream)																																			---	---	---	---
CNTN4	152330	broad.mit.edu	37	3	2225149	2225149	+	Intron	DEL	G	-	-	rs34016870	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:2225149delG	uc003bpc.2	+						CNTN4_uc003bpb.1_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)														---	---	---	---
CNTN4	152330	broad.mit.edu	37	3	2556618	2556618	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:2556618delC	uc003bpc.2	+						CNTN4_uc003bpb.1_Intron|CNTN4_uc003bpd.1_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)														---	---	---	---
CNTN4	152330	broad.mit.edu	37	3	2726079	2726079	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:2726079delA	uc003bpc.2	+						CNTN4_uc003bpb.1_Intron|CNTN4_uc003bpd.1_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)														---	---	---	---
CNTN4	152330	broad.mit.edu	37	3	2973744	2973744	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:2973744delG	uc003bpc.2	+						CNTN4_uc003bpb.1_Intron|CNTN4_uc003bpd.1_Intron|CNTN4_uc003bpe.2_Intron|CNTN4_uc003bpf.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)														---	---	---	---
CRBN	51185	broad.mit.edu	37	3	3215413	3215414	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:3215413_3215414insA	uc003bpq.2	-						CRBN_uc003bpr.2_Intron|CRBN_uc010hbw.2_Intron|CRBN_uc011aso.1_Intron	NM_016302	NP_057386			cereblon						proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul4A-RING ubiquitin ligase complex|cytoplasm|membrane|nucleus	ATP-dependent peptidase activity|protein binding			ovary(1)	1				Epithelial(13;0.00244)|OV - Ovarian serous cystadenocarcinoma(96;0.00617)|all cancers(10;0.0079)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	3320089	3320090	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:3320089_3320090delTT								CRBN (98699 upstream) : SUMF1 (502946 downstream)																																			---	---	---	---
SUMF1	285362	broad.mit.edu	37	3	4019198	4019199	+	Intron	DEL	GA	-	-	rs79895718		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:4019198_4019199delGA	uc003bps.1	-							NM_182760				sulfatase modifying factor 1 isoform 1							endoplasmic reticulum lumen	metal ion binding|oxidoreductase activity			upper_aerodigestive_tract(1)	1		Melanoma(143;0.068)|Colorectal(144;0.233)		Epithelial(13;0.0147)|OV - Ovarian serous cystadenocarcinoma(96;0.0444)|all cancers(10;0.0549)														---	---	---	---
SUMF1	285362	broad.mit.edu	37	3	4065388	4065393	+	Intron	DEL	CACACG	-	-	rs10593898		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:4065388_4065393delCACACG	uc003bps.1	-							NM_182760				sulfatase modifying factor 1 isoform 1							endoplasmic reticulum lumen	metal ion binding|oxidoreductase activity			upper_aerodigestive_tract(1)	1		Melanoma(143;0.068)|Colorectal(144;0.233)		Epithelial(13;0.0147)|OV - Ovarian serous cystadenocarcinoma(96;0.0444)|all cancers(10;0.0549)														---	---	---	---
SUMF1	285362	broad.mit.edu	37	3	4089872	4089872	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:4089872delT	uc003bps.1	-							NM_182760				sulfatase modifying factor 1 isoform 1							endoplasmic reticulum lumen	metal ion binding|oxidoreductase activity			upper_aerodigestive_tract(1)	1		Melanoma(143;0.068)|Colorectal(144;0.233)		Epithelial(13;0.0147)|OV - Ovarian serous cystadenocarcinoma(96;0.0444)|all cancers(10;0.0549)														---	---	---	---
ITPR1	3708	broad.mit.edu	37	3	4532553	4532556	+	5'Flank	DEL	TTTT	-	-	rs35908760		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:4532553_4532556delTTTT	uc003bqa.2	+						ITPR1_uc010hbz.2_5'Flank|ITPR1_uc010hca.1_5'Flank|ITPR1_uc011asu.1_5'Flank	NM_001099952	NP_001093422			inositol 1,4,5-triphosphate receptor, type 1						activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)														---	---	---	---
ITPR1	3708	broad.mit.edu	37	3	4715262	4715273	+	Intron	DEL	TTTGTTTGTTTG	-	-	rs112871347		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:4715262_4715273delTTTGTTTGTTTG	uc003bqa.2	+						ITPR1_uc010hca.1_Intron|ITPR1_uc011asu.1_Intron|ITPR1_uc010hcb.1_Intron	NM_001099952	NP_001093422			inositol 1,4,5-triphosphate receptor, type 1						activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)														---	---	---	---
ITPR1	3708	broad.mit.edu	37	3	4798372	4798372	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:4798372delA	uc003bqa.2	+						ITPR1_uc010hca.1_Intron|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Intron	NM_001099952	NP_001093422			inositol 1,4,5-triphosphate receptor, type 1						activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)														---	---	---	---
ITPR1	3708	broad.mit.edu	37	3	4810573	4810573	+	Intron	DEL	T	-	-	rs13086334	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:4810573delT	uc003bqa.2	+						ITPR1_uc010hca.1_Intron|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Intron	NM_001099952	NP_001093422			inositol 1,4,5-triphosphate receptor, type 1						activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	5073818	5073818	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:5073818delA								BHLHE40 (46955 upstream) : ARL8B (90112 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	5341362	5341362	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:5341362delA								EDEM1 (79713 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	5426809	5426811	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:5426809_5426811delTTT								EDEM1 (165160 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	5450047	5450047	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:5450047delC								EDEM1 (188398 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	5643998	5643998	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:5643998delA								EDEM1 (382349 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	5677438	5677438	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:5677438delA								EDEM1 (415789 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	5735655	5735655	+	IGR	DEL	T	-	-	rs34856657		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:5735655delT								EDEM1 (474006 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	5938452	5938452	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:5938452delT								EDEM1 (676803 upstream) : GRM7 (964350 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	6512516	6512516	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:6512516delT								None (None upstream) : GRM7 (390286 downstream)																																			---	---	---	---
GRM7	2917	broad.mit.edu	37	3	7175692	7175693	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:7175692_7175693delAC	uc003bqm.2	+						GRM7_uc011ata.1_Intron|GRM7_uc011atb.1_Intron|GRM7_uc010hcf.2_Intron|GRM7_uc011atc.1_Intron|GRM7_uc010hcg.2_Intron|GRM7_uc003bql.2_Intron	NM_000844	NP_000835			glutamate receptor, metabotropic 7 isoform a						negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)													---	---	---	---
GRM7	2917	broad.mit.edu	37	3	7295011	7295011	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:7295011delT	uc003bqm.2	+						GRM7_uc011ata.1_Intron|GRM7_uc011atb.1_Intron|GRM7_uc010hcf.2_Intron|GRM7_uc011atc.1_Intron|GRM7_uc010hcg.2_Intron|GRM7_uc003bql.2_Intron	NM_000844	NP_000835			glutamate receptor, metabotropic 7 isoform a						negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)													---	---	---	---
GRM7	2917	broad.mit.edu	37	3	7299740	7299740	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:7299740delT	uc003bqm.2	+						GRM7_uc011ata.1_Intron|GRM7_uc011atb.1_Intron|GRM7_uc010hcf.2_Intron|GRM7_uc011atc.1_Intron|GRM7_uc010hcg.2_Intron|GRM7_uc003bql.2_Intron	NM_000844	NP_000835			glutamate receptor, metabotropic 7 isoform a						negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)													---	---	---	---
GRM7	2917	broad.mit.edu	37	3	7484927	7484927	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:7484927delT	uc003bqm.2	+						GRM7_uc011ata.1_Intron|GRM7_uc011atb.1_Intron|GRM7_uc010hcf.2_Intron|GRM7_uc011atc.1_Intron|GRM7_uc010hcg.2_Intron|GRM7_uc003bql.2_Intron|GRM7_uc003bqn.1_Intron	NM_000844	NP_000835			glutamate receptor, metabotropic 7 isoform a						negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)													---	---	---	---
GRM7	2917	broad.mit.edu	37	3	7545990	7545992	+	Intron	DEL	CTT	-	-	rs61479043	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:7545990_7545992delCTT	uc003bqm.2	+						GRM7_uc011ata.1_Intron|GRM7_uc011atb.1_Intron|GRM7_uc010hcf.2_Intron|GRM7_uc011atc.1_Intron|GRM7_uc010hcg.2_Intron|GRM7_uc003bql.2_Intron|GRM7_uc003bqn.1_Intron|GRM7_uc010hch.1_Intron	NM_000844	NP_000835			glutamate receptor, metabotropic 7 isoform a						negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)													---	---	---	---
Unknown	0	broad.mit.edu	37	3	7906826	7906826	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:7906826delG								GRM7 (123608 upstream) : LMCD1 (636685 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	8064310	8064310	+	IGR	DEL	A	-	-	rs35747488		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:8064310delA								GRM7 (281092 upstream) : LMCD1 (479201 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	8143961	8143962	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:8143961_8143962delGA								GRM7 (360743 upstream) : LMCD1 (399549 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	8367227	8367228	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:8367227_8367228insA	uc003bqp.2	-											Homo sapiens cDNA FLJ42094 fis, clone TESOP2002489.																														---	---	---	---
Unknown	0	broad.mit.edu	37	3	8443619	8443620	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:8443619_8443620delTT	uc003bqp.2	-											Homo sapiens cDNA FLJ42094 fis, clone TESOP2002489.																														---	---	---	---
Unknown	0	broad.mit.edu	37	3	8478103	8478103	+	Intron	DEL	C	-	-	rs2324623	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:8478103delC	uc003bqp.2	-											Homo sapiens cDNA FLJ42094 fis, clone TESOP2002489.																														---	---	---	---
LOC440944	440944	broad.mit.edu	37	3	9395813	9395813	+	Intron	DEL	G	-	-	rs35281505		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9395813delG	uc003brm.2	-											Homo sapiens hypothetical gene supported by AK128398, mRNA (cDNA clone IMAGE:5266032).											breast(1)	1																		---	---	---	---
THUMPD3	25917	broad.mit.edu	37	3	9418888	9418889	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9418888_9418889delGT	uc003bro.3	+						LOC440944_uc003brm.2_Intron|THUMPD3_uc003brn.3_Intron	NM_001114092	NP_001107564			THUMP domain containing 3								methyltransferase activity|protein binding|RNA binding			ovary(1)	1	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.101)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	9523877	9523879	+	IGR	DEL	AAA	-	-	rs139970256		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9523877_9523879delAAA								SETD5 (4041 upstream) : LHFPL4 (16167 downstream)																																			---	---	---	---
LHFPL4	375323	broad.mit.edu	37	3	9558157	9558157	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9558157delT	uc003bry.2	-							NM_198560	NP_940962			lipoma HMGIC fusion partner-like 4							integral to membrane				ovary(2)|skin(1)	3	Medulloblastoma(99;0.227)																	---	---	---	---
MTMR14	64419	broad.mit.edu	37	3	9701946	9701947	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9701946_9701947delTT	uc003brz.2	+						MTMR14_uc003bsa.2_Intron|MTMR14_uc003bsb.2_Intron|MTMR14_uc011ath.1_Intron|MTMR14_uc010hcl.2_Intron	NM_001077525	NP_001070993			jumpy isoform 2							perinuclear region of cytoplasm|ruffle	phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(99;0.227)																	---	---	---	---
MTMR14	64419	broad.mit.edu	37	3	9713145	9713145	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9713145delT	uc003brz.2	+						MTMR14_uc003bsa.2_Intron|MTMR14_uc003bsb.2_Intron|MTMR14_uc011ath.1_Intron|MTMR14_uc010hcl.2_Intron|MTMR14_uc003bsc.2_Intron	NM_001077525	NP_001070993			jumpy isoform 2							perinuclear region of cytoplasm|ruffle	phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(99;0.227)																	---	---	---	---
MTMR14	64419	broad.mit.edu	37	3	9714262	9714262	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9714262delT	uc003brz.2	+						MTMR14_uc003bsa.2_Intron|MTMR14_uc003bsb.2_Intron|MTMR14_uc011ath.1_Intron|MTMR14_uc010hcl.2_Intron|MTMR14_uc003bsc.2_Intron	NM_001077525	NP_001070993			jumpy isoform 2							perinuclear region of cytoplasm|ruffle	phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(99;0.227)																	---	---	---	---
MTMR14	64419	broad.mit.edu	37	3	9739253	9739253	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9739253delT	uc003brz.2	+						MTMR14_uc003bsa.2_Intron|MTMR14_uc003bsb.2_Intron|MTMR14_uc011ath.1_Intron|MTMR14_uc010hcl.2_Intron|MTMR14_uc003bsc.2_Intron	NM_001077525	NP_001070993			jumpy isoform 2							perinuclear region of cytoplasm|ruffle	phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(99;0.227)																	---	---	---	---
PRRT3	285368	broad.mit.edu	37	3	9991859	9991859	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9991859delA	uc003bul.2	-						CIDEC_uc003bto.2_Intron|PRRT3_uc003buk.2_Intron|PRRT3_uc003bum.2_Intron	NM_207351	NP_997234			proline-rich transmembrane protein 3 precursor							integral to membrane					0																		---	---	---	---
TMEM111	55831	broad.mit.edu	37	3	10009014	10009014	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10009014delT	uc003bun.2	-						CIDEC_uc003bto.2_Intron	NM_018447	NP_060917			transmembrane protein 111							integral to membrane					0																		---	---	---	---
TMEM111	55831	broad.mit.edu	37	3	10018418	10018418	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10018418delT	uc003bun.2	-						CIDEC_uc003bto.2_Intron|TMEM111_uc003buo.2_Intron	NM_018447	NP_060917			transmembrane protein 111							integral to membrane					0																		---	---	---	---
IRAK2	3656	broad.mit.edu	37	3	10224902	10224902	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10224902delT	uc003bve.1	+							NM_001570	NP_001561			interleukin-1 receptor-associated kinase 2						activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|endosome membrane|plasma membrane	ATP binding|NF-kappaB-inducing kinase activity|protein heterodimerization activity|protein homodimerization activity			lung(5)|breast(3)	8																		---	---	---	---
ATP2B2	491	broad.mit.edu	37	3	10427117	10427117	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10427117delA	uc003bvt.2	-						ATP2B2_uc003bvv.2_Intron|ATP2B2_uc003bvw.2_Intron|ATP2B2_uc010hdo.2_Intron	NM_001001331	NP_001001331			plasma membrane calcium ATPase 2 isoform 1						ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6																		---	---	---	---
ATP2B2	491	broad.mit.edu	37	3	10520892	10520893	+	Intron	INS	-	TCCTGCCCACTTT	TCCTGCCCACTTT	rs141404018	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10520892_10520893insTCCTGCCCACTTT	uc003bvt.2	-						ATP2B2_uc003bvv.2_Intron|ATP2B2_uc003bvw.2_Intron|ATP2B2_uc010hdp.2_Intron	NM_001001331	NP_001001331			plasma membrane calcium ATPase 2 isoform 1						ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6																		---	---	---	---
ATP2B2	491	broad.mit.edu	37	3	10651758	10651761	+	Intron	DEL	ACAT	-	-	rs144005565	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10651758_10651761delACAT	uc003bvw.2	-							NM_001683	NP_001674			plasma membrane calcium ATPase 2 isoform 2						ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	10776845	10776845	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10776845delA								ATP2B2 (27129 upstream) : LOC285370 (24324 downstream)																																			---	---	---	---
ATG7	10533	broad.mit.edu	37	3	11472864	11472864	+	Intron	DEL	A	-	-	rs11707842	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:11472864delA	uc003bwc.2	+						ATG7_uc003bwd.2_Intron|ATG7_uc011aum.1_Intron	NM_006395	NP_006386			APG7 autophagy 7-like isoform a						autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1																		---	---	---	---
ATG7	10533	broad.mit.edu	37	3	11509640	11509640	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:11509640delG	uc003bwc.2	+						ATG7_uc003bwd.2_Intron|ATG7_uc011aum.1_Intron	NM_006395	NP_006386			APG7 autophagy 7-like isoform a						autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1																		---	---	---	---
ATG7	10533	broad.mit.edu	37	3	11580992	11580995	+	Intron	DEL	CTAA	-	-	rs144807915		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:11580992_11580995delCTAA	uc003bwc.2	+						ATG7_uc003bwd.2_Intron|ATG7_uc011aum.1_Intron	NM_006395	NP_006386			APG7 autophagy 7-like isoform a						autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1																		---	---	---	---
VGLL4	9686	broad.mit.edu	37	3	11765077	11765077	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:11765077delA	uc003bwf.2	-						VGLL4_uc003bwg.2_5'Flank	NM_014667	NP_055482			vestigial like 4 isoform b						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1				LUSC - Lung squamous cell carcinoma(1;0.089)|Lung(1;0.111)														---	---	---	---
PPARG	5468	broad.mit.edu	37	3	12450918	12450918	+	Intron	DEL	A	-	-	rs73027225		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:12450918delA	uc003bwx.2	+						PPARG_uc003bwr.2_Intron|PPARG_uc003bws.2_Intron|PPARG_uc003bwu.2_Intron|PPARG_uc003bwv.2_Intron|PPARG_uc010hea.1_Intron	NM_015869	NP_056953			peroxisome proliferative activated receptor						activation of caspase activity|cell fate commitment|cell maturation|cellular response to insulin stimulus|epithelial cell differentiation|glucose homeostasis|induction of apoptosis|innate immune response|lipid homeostasis|lipoprotein transport|long-chain fatty acid transport|low-density lipoprotein particle receptor biosynthetic process|monocyte differentiation|negative regulation of cholesterol storage|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of macrophage derived foam cell differentiation|negative regulation of receptor biosynthetic process|negative regulation of sequestering of triglyceride|negative regulation of transcription from RNA polymerase II promoter|placenta development|positive regulation of fat cell differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to lipid|response to low-density lipoprotein particle stimulus|white fat cell differentiation	cytosol|nucleoplasm	activating transcription factor binding|arachidonic acid binding|drug binding|enzyme binding|prostaglandin receptor activity|retinoid X receptor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|kidney(1)	2					Atorvastatin(DB01076)|Icosapent(DB00159)|Pioglitazone(DB01132)|Rosiglitazone(DB00412)|Troglitazone(DB00197)			T	PAX8	follicular thyroid		Insulin resistance ; lipodystrophy|familial partial L;diabetes mellitus|insulin-resistantI|with acanthosis nigricans and hypertension						---	---	---	---
PPARG	5468	broad.mit.edu	37	3	12474488	12474488	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:12474488delA	uc003bwx.2	+						PPARG_uc003bwr.2_Intron|PPARG_uc003bws.2_Intron|PPARG_uc003bwu.2_Intron|PPARG_uc003bwv.2_Intron	NM_015869	NP_056953			peroxisome proliferative activated receptor						activation of caspase activity|cell fate commitment|cell maturation|cellular response to insulin stimulus|epithelial cell differentiation|glucose homeostasis|induction of apoptosis|innate immune response|lipid homeostasis|lipoprotein transport|long-chain fatty acid transport|low-density lipoprotein particle receptor biosynthetic process|monocyte differentiation|negative regulation of cholesterol storage|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of macrophage derived foam cell differentiation|negative regulation of receptor biosynthetic process|negative regulation of sequestering of triglyceride|negative regulation of transcription from RNA polymerase II promoter|placenta development|positive regulation of fat cell differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to lipid|response to low-density lipoprotein particle stimulus|white fat cell differentiation	cytosol|nucleoplasm	activating transcription factor binding|arachidonic acid binding|drug binding|enzyme binding|prostaglandin receptor activity|retinoid X receptor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|kidney(1)	2					Atorvastatin(DB01076)|Icosapent(DB00159)|Pioglitazone(DB01132)|Rosiglitazone(DB00412)|Troglitazone(DB00197)			T	PAX8	follicular thyroid		Insulin resistance ; lipodystrophy|familial partial L;diabetes mellitus|insulin-resistantI|with acanthosis nigricans and hypertension						---	---	---	---
Unknown	0	broad.mit.edu	37	3	12520998	12520998	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:12520998delA								PPARG (45144 upstream) : TSEN2 (4933 downstream)																																			---	---	---	---
RAF1	5894	broad.mit.edu	37	3	12659890	12659890	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:12659890delA	uc003bxf.3	-						RAF1_uc011auu.1_Intron	NM_002880	NP_002871			v-raf-1 murine leukemia viral oncogene homolog						activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				---	---	---	---
TMEM40	55287	broad.mit.edu	37	3	12788686	12788688	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:12788686_12788688delTTT	uc003bxg.1	-						TMEM40_uc003bxh.1_Intron|TMEM40_uc003bxi.1_Intron|TMEM40_uc011auv.1_Intron	NM_018306	NP_060776			transmembrane protein 40							integral to membrane					0																		---	---	---	---
IQSEC1	9922	broad.mit.edu	37	3	13085028	13085029	+	Intron	INS	-	C	C	rs13081589		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:13085028_13085029insC	uc011auw.1	-							NM_001134382	NP_001127854			IQ motif and Sec7 domain 1 isoform a						regulation of ARF protein signal transduction	cytoplasm|nucleus	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1																		---	---	---	---
WNT7A	7476	broad.mit.edu	37	3	13875718	13875718	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:13875718delT	uc003bye.1	-							NM_004625	NP_004616			wingless-type MMTV integration site family,						activation of JUN kinase activity|anterior/posterior pattern formation|canonical Wnt receptor signaling pathway|cell proliferation in forebrain|cellular response to transforming growth factor beta stimulus|central nervous system vasculogenesis|cerebellar granule cell differentiation|dorsal/ventral pattern formation|embryonic axis specification|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic leg morphogenesis|lens fiber cell development|negative regulation of neurogenesis|palate development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of JNK cascade|positive regulation of synaptogenesis|positive regulation of transcription from RNA polymerase II promoter|regulation of axon diameter|satellite cell activation|satellite cell maintenance involved in skeletal muscle regeneration|sex differentiation|uterus development|Wnt receptor signaling pathway involved in wound healing, spreading of epidermal cells|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled binding|receptor agonist activity|signal transducer activity			ovary(2)|breast(1)	3																		---	---	---	---
WNT7A	7476	broad.mit.edu	37	3	13901555	13901556	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:13901555_13901556delTT	uc003bye.1	-							NM_004625	NP_004616			wingless-type MMTV integration site family,						activation of JUN kinase activity|anterior/posterior pattern formation|canonical Wnt receptor signaling pathway|cell proliferation in forebrain|cellular response to transforming growth factor beta stimulus|central nervous system vasculogenesis|cerebellar granule cell differentiation|dorsal/ventral pattern formation|embryonic axis specification|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic leg morphogenesis|lens fiber cell development|negative regulation of neurogenesis|palate development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of JNK cascade|positive regulation of synaptogenesis|positive regulation of transcription from RNA polymerase II promoter|regulation of axon diameter|satellite cell activation|satellite cell maintenance involved in skeletal muscle regeneration|sex differentiation|uterus development|Wnt receptor signaling pathway involved in wound healing, spreading of epidermal cells|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled binding|receptor agonist activity|signal transducer activity			ovary(2)|breast(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	14135812	14135812	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:14135812delA								TPRXL (28333 upstream) : CHCHD4 (17766 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	14312878	14312879	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:14312878_14312879insT								LSM3 (73042 upstream) : SLC6A6 (131227 downstream)																																			---	---	---	---
SLC6A6	6533	broad.mit.edu	37	3	14472595	14472596	+	Intron	INS	-	AT	AT	rs141408267	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:14472595_14472596insAT	uc010heg.2	+						SLC6A6_uc010hee.1_Intron|SLC6A6_uc003byp.2_Intron|SLC6A6_uc010hef.1_Intron|SLC6A6_uc003byq.2_Intron|SLC6A6_uc003byr.2_Intron	NM_001134367	NP_001127839			solute carrier family 6 (neurotransmitter						cellular amino acid metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity|taurine:sodium symporter activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	14639854	14639855	+	IGR	INS	-	AC	AC	rs147215778	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:14639854_14639855insAC								GRIP2 (56266 upstream) : C3orf19 (53398 downstream)																																			---	---	---	---
C3orf20	84077	broad.mit.edu	37	3	14783314	14783315	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:14783314_14783315insT	uc003byy.2	+						C3orf20_uc003byz.2_Intron|C3orf20_uc003bza.2_Intron|C3orf20_uc003bzb.1_Intron	NM_032137	NP_115513			hypothetical protein LOC84077							cytoplasm|integral to membrane				ovary(3)|skin(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	14832450	14832450	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:14832450delT								C3orf20 (17910 upstream) : FGD5 (28019 downstream)																																			---	---	---	---
CAPN7	23473	broad.mit.edu	37	3	15282164	15282164	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15282164delA	uc003bzn.2	+							NM_014296	NP_055111			calpain 7						proteolysis	nucleus	calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1																		---	---	---	---
SH3BP5	9467	broad.mit.edu	37	3	15303208	15303208	+	Intron	DEL	A	-	-	rs11327793		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15303208delA	uc003bzp.1	-						SH3BP5_uc010hem.1_Intron|SH3BP5_uc003bzq.1_Intron|SH3BP5_uc003bzr.1_Intron|uc003bzo.1_Intron	NM_004844	NP_004835			SH3-domain binding protein 5 (BTK-associated)						intracellular signal transduction	mitochondrion	protein kinase inhibitor activity|SH3 domain binding				0																		---	---	---	---
EAF1	85403	broad.mit.edu	37	3	15480599	15480599	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15480599delT	uc003bzu.2	+						EAF1_uc011avq.1_Intron	NM_033083	NP_149074			ELL associated factor 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	Cajal body|nuclear speck	protein binding			central_nervous_system(1)	1																		---	---	---	---
BTD	686	broad.mit.edu	37	3	15668287	15668288	+	Intron	INS	-	A	A	rs75371537		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15668287_15668288insA	uc003cah.2	+						BTD_uc011avv.1_Intron|BTD_uc011avw.1_Intron|BTD_uc011avx.1_Intron	NM_000060	NP_000051			biotinidase precursor						central nervous system development|epidermis development|nitrogen compound metabolic process	extracellular space	biotin carboxylase activity|biotinidase activity				0																		---	---	---	---
ANKRD28	23243	broad.mit.edu	37	3	15752582	15752582	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15752582delT	uc003caj.1	-						ANKRD28_uc003cai.1_Intron|ANKRD28_uc011avz.1_Intron|ANKRD28_uc003cak.1_Intron|ANKRD28_uc011awa.1_Intron|ANKRD28_uc003cal.1_Intron|ANKRD28_uc003cam.2_Intron	NM_015199	NP_056014			ankyrin repeat domain 28							nucleoplasm	protein binding			breast(1)	1																		---	---	---	---
ANKRD28	23243	broad.mit.edu	37	3	15837004	15837005	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15837004_15837005delAA	uc003caj.1	-						ANKRD28_uc011avz.1_Intron|ANKRD28_uc003cak.1_Intron|ANKRD28_uc011awa.1_Intron|ANKRD28_uc003cal.1_Intron|ANKRD28_uc003cam.2_Intron	NM_015199	NP_056014			ankyrin repeat domain 28							nucleoplasm	protein binding			breast(1)	1																		---	---	---	---
GALNTL2	117248	broad.mit.edu	37	3	16025479	16025479	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:16025479delT	uc003caq.3	+							NM_054110	NP_473451			UDP-N-acetyl-alpha-D-galactosamine:polypeptide							Golgi membrane|integral to membrane|transport vesicle	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(1)	1																		---	---	---	---
GALNTL2	117248	broad.mit.edu	37	3	16163551	16163551	+	Intron	DEL	A	-	-	rs79885667		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:16163551delA	uc003caq.3	+							NM_054110	NP_473451			UDP-N-acetyl-alpha-D-galactosamine:polypeptide							Golgi membrane|integral to membrane|transport vesicle	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	16283948	16283948	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:16283948delT								GALNTL2 (12696 upstream) : DPH3 (14621 downstream)																																			---	---	---	---
OXNAD1	92106	broad.mit.edu	37	3	16348282	16348282	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:16348282delT	uc011awb.1	+						OXNAD1_uc003cax.2_Intron	NM_138381	NP_612390			oxidoreductase NAD-binding domain containing 1								oxidoreductase activity			skin(1)	1																		---	---	---	---
RFTN1	23180	broad.mit.edu	37	3	16435925	16435926	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:16435925_16435926delAC	uc003cay.2	-						RFTN1_uc010hes.2_Intron	NM_015150	NP_055965			raft-linking protein							plasma membrane				ovary(3)|central_nervous_system(1)	4																		---	---	---	---
DAZL	1618	broad.mit.edu	37	3	16637510	16637511	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:16637510_16637511insT	uc003cbb.2	-						DAZL_uc003cba.2_Intron	NM_001351	NP_001342			deleted in azoospermia-like						germ cell development|multicellular organismal development|positive regulation of translational initiation|spermatogenesis	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding|translation activator activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	17146611	17146611	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:17146611delA								PLCL2 (14514 upstream) : TBC1D5 (52044 downstream)																																			---	---	---	---
TBC1D5	9779	broad.mit.edu	37	3	17300086	17300086	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:17300086delA	uc003cbf.2	-						TBC1D5_uc010heu.2_Intron|TBC1D5_uc010hev.2_Intron|TBC1D5_uc003cbe.2_Intron|TBC1D5_uc010hew.1_Intron	NM_014744	NP_055559			TBC1 domain family, member 5 isoform b							intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1																		---	---	---	---
TBC1D5	9779	broad.mit.edu	37	3	17311858	17311858	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:17311858delT	uc003cbf.2	-						TBC1D5_uc010heu.2_Intron|TBC1D5_uc010hev.2_Intron|TBC1D5_uc003cbe.2_Intron|TBC1D5_uc010hew.1_Intron	NM_014744	NP_055559			TBC1 domain family, member 5 isoform b							intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1																		---	---	---	---
TBC1D5	9779	broad.mit.edu	37	3	17488463	17488463	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:17488463delA	uc003cbf.2	-						TBC1D5_uc010hev.2_Intron|TBC1D5_uc003cbe.2_Intron	NM_014744	NP_055559			TBC1 domain family, member 5 isoform b							intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1																		---	---	---	---
TBC1D5	9779	broad.mit.edu	37	3	17512258	17512258	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:17512258delA	uc003cbf.2	-						TBC1D5_uc010hev.2_Intron|TBC1D5_uc003cbe.2_Intron	NM_014744	NP_055559			TBC1 domain family, member 5 isoform b							intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1																		---	---	---	---
TBC1D5	9779	broad.mit.edu	37	3	17519614	17519614	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:17519614delT	uc003cbf.2	-						TBC1D5_uc010hev.2_Intron|TBC1D5_uc003cbe.2_Intron	NM_014744	NP_055559			TBC1 domain family, member 5 isoform b							intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	18097016	18097016	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:18097016delT	uc003cbg.2	+											Homo sapiens cDNA clone IMAGE:5584035.																														---	---	---	---
Unknown	0	broad.mit.edu	37	3	18278723	18278723	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:18278723delA	uc003cbg.2	+											Homo sapiens cDNA clone IMAGE:5584035.																														---	---	---	---
Unknown	0	broad.mit.edu	37	3	18506894	18506894	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:18506894delT								SATB1 (26642 upstream) : KCNH8 (683123 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	18568401	18568402	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:18568401_18568402insA								SATB1 (88149 upstream) : KCNH8 (621615 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	18693544	18693544	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:18693544delT								SATB1 (213292 upstream) : KCNH8 (496473 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	18903861	18903861	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:18903861delA								SATB1 (423609 upstream) : KCNH8 (286156 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	19594524	19594524	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:19594524delT								KCNH8 (17389 upstream) : EFHB (326444 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	19595306	19595306	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:19595306delT								KCNH8 (18171 upstream) : EFHB (325662 downstream)																																			---	---	---	---
RAB5A	5868	broad.mit.edu	37	3	20016928	20016928	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:20016928delT	uc003cbn.2	+						RAB5A_uc010hey.2_Intron|RAB5A_uc011awg.1_Intron	NM_004162	NP_004153			RAB5A, member RAS oncogene family						blood coagulation|protein transport|receptor internalization|regulation of filopodium assembly|small GTPase mediated signal transduction	early endosome membrane|melanosome|plasma membrane	GDP binding|GTP binding|GTPase activity				0																		---	---	---	---
KAT2B	8850	broad.mit.edu	37	3	20194018	20194018	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:20194018delT	uc003cbq.2	+	18						NM_003884	NP_003875			K(lysine) acetyltransferase 2B						cell cycle arrest|cellular response to insulin stimulus|chromatin remodeling|histone H3 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|negative regulation of cell proliferation|transcription initiation from RNA polymerase I promoter	Ada2/Gcn5/Ada3 transcription activator complex|chromatin remodeling complex|PCAF complex	cyclin-dependent protein kinase inhibitor activity|histone acetyltransferase activity|histone deacetylase binding|protein kinase binding|transcription coactivator activity|transcription factor binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	20307495	20307495	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:20307495delC								SGOL1 (79812 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	20630273	20630273	+	IGR	DEL	T	-	-	rs36043356		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:20630273delT								SGOL1 (402590 upstream) : VENTXP7 (816945 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	20631226	20631226	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:20631226delT								SGOL1 (403543 upstream) : VENTXP7 (815992 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	21084375	21084375	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:21084375delT								SGOL1 (856692 upstream) : VENTXP7 (362843 downstream)																																			---	---	---	---
ZNF385D	79750	broad.mit.edu	37	3	21748595	21748595	+	Intron	DEL	T	-	-	rs71891577		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:21748595delT	uc003cce.2	-						ZNF385D_uc010hfb.1_Intron	NM_024697	NP_078973			zinc finger protein 385D							nucleus	nucleic acid binding|zinc ion binding			large_intestine(2)|skin(2)|ovary(1)	5																		---	---	---	---
ZNF385D	79750	broad.mit.edu	37	3	21997521	21997522	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:21997521_21997522insA	uc010hfb.1	-											Homo sapiens cDNA: FLJ22419 fis, clone HRC08593.							nucleus	nucleic acid binding|zinc ion binding			large_intestine(2)|skin(2)|ovary(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	23001797	23001798	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:23001797_23001798insT								ZNF385D (587674 upstream) : UBE2E2 (242855 downstream)																																			---	---	---	---
UBE2E2	7325	broad.mit.edu	37	3	23436869	23436870	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:23436869_23436870insT	uc003ccg.2	+						UBE2E2_uc010hfc.2_Intron	NM_152653	NP_689866			ubiquitin-conjugating enzyme E2E 2						ISG15-protein conjugation|protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination	nucleolus	ATP binding|ISG15 ligase activity|ubiquitin-protein ligase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	23772271	23772271	+	IGR	DEL	T	-	-	rs4858539		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:23772271delT								UBE2E2 (139975 upstream) : UBE2E1 (75168 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	23818984	23818986	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:23818984_23818986delTTT								UBE2E2 (186688 upstream) : UBE2E1 (28453 downstream)																																			---	---	---	---
UBE2E1	7324	broad.mit.edu	37	3	23907998	23907998	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:23907998delT	uc003cch.2	+						UBE2E1_uc003cci.2_Intron|UBE2E1_uc011awh.1_Intron	NM_003341	NP_003332			ubiquitin-conjugating enzyme E2E 1 isoform 1						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|histone H2B ubiquitination|histone monoubiquitination|ISG15-protein conjugation|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 K48-linked ubiquitination	cytosol|nucleoplasm|ubiquitin ligase complex	ATP binding|ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity				0																		---	---	---	---
THRB	7068	broad.mit.edu	37	3	24176654	24176654	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:24176654delA	uc003ccx.3	-						THRB_uc010hfe.2_Intron|THRB_uc003ccy.3_Intron|THRB_uc003ccz.3_Intron	NM_001128176	NP_001121648			thyroid hormone receptor, beta						regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)													---	---	---	---
THRB	7068	broad.mit.edu	37	3	24219981	24219981	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:24219981delA	uc003ccx.3	-						THRB_uc010hfe.2_Intron|THRB_uc003ccy.3_Intron|THRB_uc003ccz.3_Intron|THRB_uc003cdc.2_Intron|THRB_uc003cdd.2_Intron|THRB_uc003cde.1_Intron	NM_001128176	NP_001121648			thyroid hormone receptor, beta						regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)													---	---	---	---
THRB	7068	broad.mit.edu	37	3	24313839	24313841	+	Intron	DEL	AAC	-	-	rs66701128		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:24313839_24313841delAAC	uc003ccx.3	-						THRB_uc010hfe.2_Intron|THRB_uc003ccy.3_Intron|THRB_uc003ccz.3_Intron|THRB_uc003cdc.2_Intron|THRB_uc003cdd.2_Intron|THRB_uc003cde.1_Intron	NM_001128176	NP_001121648			thyroid hormone receptor, beta						regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)													---	---	---	---
THRB	7068	broad.mit.edu	37	3	24539299	24539299	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:24539299delT	uc010hfe.2	-						THRB_uc003ccy.3_5'Flank|THRB_uc003ccz.3_5'Flank|THRB_uc003cde.1_5'Flank	NM_001128177	NP_001121649			thyroid hormone receptor, beta						regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)													---	---	---	---
Unknown	0	broad.mit.edu	37	3	24555215	24555216	+	IGR	INS	-	CA	CA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:24555215_24555216insCA								THRB (18762 upstream) : RARB (660607 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	24641672	24641673	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:24641672_24641673delAC								THRB (105219 upstream) : RARB (574150 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	24671164	24671164	+	IGR	DEL	A	-	-	rs75290049		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:24671164delA								THRB (134711 upstream) : RARB (544659 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	24771339	24771339	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:24771339delG								THRB (234886 upstream) : RARB (444484 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	24919854	24919854	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:24919854delT								THRB (383401 upstream) : RARB (295969 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	25050836	25050836	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:25050836delT								THRB (514383 upstream) : RARB (164987 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	25053822	25053822	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:25053822delC								THRB (517369 upstream) : RARB (162001 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	25189753	25189757	+	IGR	DEL	TTCAA	-	-	rs75238229		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:25189753_25189757delTTCAA								THRB (653300 upstream) : RARB (26066 downstream)																																			---	---	---	---
RARB	5915	broad.mit.edu	37	3	25333539	25333539	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:25333539delT	uc011awl.1	+							NM_016152	NP_057236			retinoic acid receptor, beta isoform 2						embryonic digestive tract development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	protein binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|large_intestine(1)|pancreas(1)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tamibarotene(DB04942)|Tazarotene(DB00799)													---	---	---	---
Unknown	0	broad.mit.edu	37	3	26130978	26130978	+	IGR	DEL	T	-	-	rs78588899		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:26130978delT								OXSM (294954 upstream) : LRRC3B (533322 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	26516594	26516597	+	IGR	DEL	AAAC	-	-	rs35304776		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:26516594_26516597delAAAC								OXSM (680570 upstream) : LRRC3B (147703 downstream)																																			---	---	---	---
LRRC3B	116135	broad.mit.edu	37	3	26671598	26671598	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:26671598delA	uc003cdp.2	+						LRRC3B_uc003cdq.2_Intron	NM_052953	NP_443185			leucine rich repeat containing 3B precursor							integral to membrane				pancreas(2)|ovary(1)|skin(1)	4																		---	---	---	---
LRRC3B	116135	broad.mit.edu	37	3	26691736	26691736	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:26691736delC	uc003cdp.2	+						LRRC3B_uc003cdq.2_Intron	NM_052953	NP_443185			leucine rich repeat containing 3B precursor							integral to membrane				pancreas(2)|ovary(1)|skin(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	26861185	26861185	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:26861185delT								LRRC3B (108922 upstream) : NEK10 (291210 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	27047737	27047738	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:27047737_27047738delTT								LRRC3B (295474 upstream) : NEK10 (104657 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	27120941	27120941	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:27120941delA								LRRC3B (368678 upstream) : NEK10 (31454 downstream)																																			---	---	---	---
NEK10	152110	broad.mit.edu	37	3	27175532	27175532	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:27175532delA	uc010hfk.2	-						NEK10_uc010hfj.2_Intron					RecName: Full=Serine/threonine-protein kinase Nek10;          EC=2.7.11.1; AltName: Full=NimA-related protein kinase 10;								ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13																OREG0015448	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	3	27679112	27679112	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:27679112delT								SLC4A7 (153274 upstream) : EOMES (78776 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	27744902	27744902	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:27744902delA								SLC4A7 (219064 upstream) : EOMES (12986 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	27923578	27923578	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:27923578delA								EOMES (159372 upstream) : CMC1 (359546 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	28071575	28071576	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:28071575_28071576delAC								EOMES (307369 upstream) : CMC1 (211548 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	28245640	28245640	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:28245640delA								EOMES (481434 upstream) : CMC1 (37484 downstream)																																			---	---	---	---
ZCWPW2	152098	broad.mit.edu	37	3	28501335	28501335	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:28501335delA	uc003ceh.2	+						ZCWPW2_uc003cei.2_Intron|ZCWPW2_uc010hfo.2_Intron	NM_001040432	NP_001035522			zinc finger, CW type with PWWP domain 2								zinc ion binding			ovary(2)	2																		---	---	---	---
ZCWPW2	152098	broad.mit.edu	37	3	28557191	28557191	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:28557191delA	uc003ceh.2	+						ZCWPW2_uc003cei.2_Intron|ZCWPW2_uc010hfo.2_Intron	NM_001040432	NP_001035522			zinc finger, CW type with PWWP domain 2								zinc ion binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	28691047	28691048	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:28691047_28691048insA								ZCWPW2 (124417 upstream) : RBMS3 (631895 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	29023559	29023559	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:29023559delT								ZCWPW2 (456929 upstream) : RBMS3 (299384 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	29303016	29303016	+	IGR	DEL	A	-	-	rs72303006		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:29303016delA								ZCWPW2 (736386 upstream) : RBMS3 (19927 downstream)																																			---	---	---	---
RBMS3	27303	broad.mit.edu	37	3	29351101	29351101	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:29351101delG	uc003cel.2	+						RBMS3_uc003cek.2_Intron|RBMS3_uc010hfq.2_Intron|RBMS3_uc003cem.2_Intron|RBMS3_uc010hfr.2_Intron	NM_001003793	NP_001003793			RNA binding motif, single stranded interacting							cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)																---	---	---	---
RBMS3	27303	broad.mit.edu	37	3	29622602	29622602	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:29622602delT	uc003cel.2	+						RBMS3_uc003cek.2_Intron|RBMS3_uc010hfq.2_Intron|RBMS3_uc003cem.2_Intron|RBMS3_uc010hfr.2_Intron	NM_001003793	NP_001003793			RNA binding motif, single stranded interacting							cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)																---	---	---	---
RBMS3	27303	broad.mit.edu	37	3	30045474	30045474	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:30045474delT	uc003cel.2	+	15					RBMS3_uc003cem.2_3'UTR|RBMS3_uc010hfr.2_3'UTR	NM_001003793	NP_001003793			RNA binding motif, single stranded interacting							cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)																---	---	---	---
Unknown	0	broad.mit.edu	37	3	30272615	30272615	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:30272615delT								RBMS3 (225996 upstream) : TGFBR2 (375379 downstream)																																			---	---	---	---
TGFBR2	7048	broad.mit.edu	37	3	30691260	30691260	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:30691260delA	uc003ceo.2	+						TGFBR2_uc003cen.2_Intron	NM_003242	NP_003233			transforming growth factor, beta receptor II						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																		---	---	---	---
TGFBR2	7048	broad.mit.edu	37	3	30708299	30708299	+	Intron	DEL	T	-	-	rs34116262		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:30708299delT	uc003ceo.2	+						TGFBR2_uc003cen.2_Intron	NM_003242	NP_003233			transforming growth factor, beta receptor II						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																		---	---	---	---
GADL1	339896	broad.mit.edu	37	3	30800510	30800511	+	Intron	INS	-	CATAAGC	CATAAGC	rs139738417	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:30800510_30800511insCATAAGC	uc003cep.2	-							NM_207359	NP_997242			glutamate decarboxylase-like 1						carboxylic acid metabolic process		carboxy-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)													---	---	---	---
Unknown	0	broad.mit.edu	37	3	30950325	30950325	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:30950325delT								GADL1 (14172 upstream) : STT3B (624166 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	30969496	30969496	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:30969496delA								GADL1 (33343 upstream) : STT3B (604995 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	31090021	31090021	+	IGR	DEL	T	-	-	rs34425884		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:31090021delT								GADL1 (153868 upstream) : STT3B (484470 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	31266292	31266292	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:31266292delA								GADL1 (330139 upstream) : STT3B (308199 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	31335472	31335473	+	IGR	INS	-	T	T	rs35191511		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:31335472_31335473insT								GADL1 (399319 upstream) : STT3B (239018 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	31490719	31490719	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:31490719delA								GADL1 (554566 upstream) : STT3B (83772 downstream)																																			---	---	---	---
STT3B	201595	broad.mit.edu	37	3	31600575	31600575	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:31600575delT	uc011axe.1	+						STT3B_uc010hft.1_Intron|STT3B_uc003cer.1_Intron	NM_178862	NP_849193			source of immunodominant MHC-associated						protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding				0																		---	---	---	---
GPD1L	23171	broad.mit.edu	37	3	32178259	32178259	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:32178259delT	uc003cew.2	+							NM_015141	NP_055956			glycerol-3-phosphate dehydrogenase 1-like						glycerol-3-phosphate catabolic process	glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|NAD binding|protein homodimerization activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	32618551	32618551	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:32618551delT								DYNC1LI1 (6201 upstream) : CNOT10 (108147 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	32975244	32975245	+	IGR	DEL	AA	-	-	rs78314440		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:32975244_32975245delAA								TRIM71 (41474 upstream) : CCR4 (17821 downstream)																																			---	---	---	---
CRTAP	10491	broad.mit.edu	37	3	33180635	33180635	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:33180635delA	uc003cfl.3	+						CRTAP_uc010hfz.2_Intron|CRTAP_uc003cfm.2_Intron|CRTAP_uc003cfn.2_Intron	NM_006371	NP_006362			cartilage associated protein precursor							proteinaceous extracellular matrix	binding				0																		---	---	---	---
UBP1	7342	broad.mit.edu	37	3	33437262	33437266	+	Intron	DEL	AAAAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:33437262_33437266delAAAAG	uc003cfq.3	-						FBXL2_uc011axq.1_Intron|FBXL2_uc011axr.1_Intron|UBP1_uc003cfr.3_Intron|UBP1_uc010hga.2_Intron	NM_014517	NP_055332			upstream binding protein 1 (LBP-1a) isoform a						negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|viral genome replication	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			kidney(2)	2																		---	---	---	---
PDCD6IP	10015	broad.mit.edu	37	3	33877438	33877438	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:33877438delT	uc003cfx.2	+						PDCD6IP_uc003cfy.2_Intron|PDCD6IP_uc011axw.1_Intron	NM_013374	NP_037506			programmed cell death 6 interacting protein						apoptosis|cell cycle|cell division|interspecies interaction between organisms|protein transport	cytosol|melanosome|microtubule organizing center	calcium-dependent protein binding			ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	34382099	34382100	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:34382099_34382100delGA								PDCD6IP (470905 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	34635356	34635356	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:34635356delA								PDCD6IP (724162 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	34648561	34648561	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:34648561delT								PDCD6IP (737367 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	34664046	34664046	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:34664046delT								PDCD6IP (752852 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	35020877	35020878	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:35020877_35020878delAA								None (None upstream) : ARPP21 (660203 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	35120008	35120008	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:35120008delT								None (None upstream) : ARPP21 (561073 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	35275011	35275011	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:35275011delA								None (None upstream) : ARPP21 (406070 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	35310388	35310388	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:35310388delA								None (None upstream) : ARPP21 (370693 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	35647475	35647475	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:35647475delT								None (None upstream) : ARPP21 (33606 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	35978736	35978736	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:35978736delT								ARPP21 (142749 upstream) : STAC (443361 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	36073100	36073100	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:36073100delT								ARPP21 (237113 upstream) : STAC (348997 downstream)																																			---	---	---	---
EPM2AIP1	9852	broad.mit.edu	37	3	37032256	37032256	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37032256delA	uc003cgk.2	-	1					MLH1_uc003cgl.2_5'Flank|MLH1_uc011ayb.1_5'Flank|MLH1_uc010hge.2_5'Flank	NM_014805	NP_055620			EPM2A interacting protein 1							endoplasmic reticulum					0																		---	---	---	---
LRRFIP2	9209	broad.mit.edu	37	3	37098401	37098402	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37098401_37098402delCA	uc003cgp.2	-						MLH1_uc011aye.1_Intron|LRRFIP2_uc011ayf.1_Intron|LRRFIP2_uc003cgr.2_Intron|LRRFIP2_uc003cgs.3_Intron|LRRFIP2_uc003cgt.3_Intron	NM_006309	NP_006300			leucine rich repeat (in FLII) interacting						Wnt receptor signaling pathway		LRR domain binding			ovary(1)	1																		---	---	---	---
LRRFIP2	9209	broad.mit.edu	37	3	37212936	37212937	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37212936_37212937delTT	uc003cgp.2	-						LRRFIP2_uc011ayf.1_Intron|LRRFIP2_uc003cgr.2_Intron|LRRFIP2_uc003cgs.3_Intron|LRRFIP2_uc003cgt.3_Intron	NM_006309	NP_006300			leucine rich repeat (in FLII) interacting						Wnt receptor signaling pathway		LRR domain binding			ovary(1)	1																		---	---	---	---
ITGA9	3680	broad.mit.edu	37	3	37790239	37790243	+	Intron	DEL	AAAAA	-	-	rs34841037		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37790239_37790243delAAAAA	uc003chd.2	+							NM_002207	NP_002198			integrin, alpha 9 precursor						axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)														---	---	---	---
ITGA9	3680	broad.mit.edu	37	3	37792994	37792994	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37792994delT	uc003chd.2	+							NM_002207	NP_002198			integrin, alpha 9 precursor						axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)														---	---	---	---
ITGA9	3680	broad.mit.edu	37	3	37821583	37821583	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37821583delA	uc003chd.2	+							NM_002207	NP_002198			integrin, alpha 9 precursor						axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)														---	---	---	---
OXSR1	9943	broad.mit.edu	37	3	38261612	38261612	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38261612delT	uc003chy.2	+						OXSR1_uc010hhb.2_Intron|OXSR1_uc010hha.1_Intron	NM_005109	NP_005100			oxidative-stress responsive 1						intracellular protein kinase cascade|response to oxidative stress		ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)														---	---	---	---
SLC22A13	9390	broad.mit.edu	37	3	38307879	38307879	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38307879delT	uc003chz.3	+						SLC22A13_uc011aym.1_Intron|SLC22A13_uc011ayn.1_Intron	NM_004256	NP_004247			solute carrier family 22 (organic anion							integral to plasma membrane	organic cation transmembrane transporter activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0533)|Kidney(284;0.067)														---	---	---	---
ACVR2B	93	broad.mit.edu	37	3	38507999	38507999	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38507999delT	uc003cif.2	+						ACVR2B_uc003cig.2_Intron	NM_001106	NP_001097			activin A receptor, type IIB precursor						activin receptor signaling pathway|anterior/posterior pattern formation|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|regulation of transcription, DNA-dependent	cell surface|cytoplasm|integral to plasma membrane	activin receptor activity|ATP binding|growth factor binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			lung(1)	1	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0565)|Kidney(284;0.071)														---	---	---	---
SCN5A	6331	broad.mit.edu	37	3	38627007	38627007	+	Intron	DEL	G	-	-	rs63151661		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38627007delG	uc003cio.2	-						SCN5A_uc003cin.2_Intron|SCN5A_uc003cil.3_Intron|SCN5A_uc010hhi.2_Intron|SCN5A_uc010hhk.2_Intron|SCN5A_uc011ayr.1_Intron|SCN5A_uc010hhj.1_Intron	NM_198056	NP_932173			voltage-gated sodium channel type V alpha						blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)													---	---	---	---
Unknown	0	broad.mit.edu	37	3	38699265	38699266	+	IGR	INS	-	T	T	rs148996786	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38699265_38699266insT								SCN5A (8101 upstream) : SCN10A (39572 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	38876819	38876819	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38876819delT								SCN10A (41318 upstream) : SCN11A (10441 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	39001225	39001225	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39001225delA								SCN11A (9173 upstream) : WDR48 (92282 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	39073034	39073034	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39073034delA								SCN11A (80982 upstream) : WDR48 (20473 downstream)																																			---	---	---	---
CX3CR1	1524	broad.mit.edu	37	3	39310502	39310502	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39310502delT	uc003cjl.2	-							NM_001337	NP_001328			chemokine (C-X3-C motif) receptor 1						cell adhesion|cellular defense response|chemotaxis|interspecies interaction between organisms|response to wounding	integral to plasma membrane	chemokine receptor activity			lung(3)	3				KIRC - Kidney renal clear cell carcinoma(284;0.0557)|Kidney(284;0.0699)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	39339554	39339554	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39339554delA								CX3CR1 (18027 upstream) : CCR8 (31643 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	39376897	39376897	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39376897delA								CCR8 (1726 upstream) : SLC25A38 (47918 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	39486068	39486068	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39486068delT								RPSA (32038 upstream) : MOBP (23002 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	39572414	39572414	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39572414delT								MOBP (4559 upstream) : MYRIP (278889 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	39578577	39578577	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39578577delT								MOBP (10722 upstream) : MYRIP (272726 downstream)																																			---	---	---	---
MYRIP	25924	broad.mit.edu	37	3	40278338	40278338	+	Intron	DEL	T	-	-	rs139285068		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:40278338delT	uc003cka.2	+						MYRIP_uc010hhu.2_Intron|MYRIP_uc010hhv.2_Intron|MYRIP_uc010hhw.2_Intron|MYRIP_uc011ayz.1_Intron|uc003ckb.2_Intron	NM_015460	NP_056275			myosin VIIA and Rab interacting protein						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	40684962	40684962	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:40684962delA								ZNF621 (103919 upstream) : CTNNB1 (551439 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	41210574	41210574	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:41210574delT								ZNF621 (629531 upstream) : CTNNB1 (25827 downstream)																																			---	---	---	---
ULK4	54986	broad.mit.edu	37	3	41578684	41578684	+	Intron	DEL	T	-	-	rs72080221		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:41578684delT	uc003ckv.3	-							NM_017886	NP_060356			unc-51-like kinase 4								ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)														---	---	---	---
ULK4	54986	broad.mit.edu	37	3	41696637	41696637	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:41696637delA	uc003ckv.3	-							NM_017886	NP_060356			unc-51-like kinase 4								ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)														---	---	---	---
ULK4	54986	broad.mit.edu	37	3	41888299	41888299	+	Intron	DEL	A	-	-	rs72410539		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:41888299delA	uc003ckv.3	-						ULK4_uc003ckw.2_Intron	NM_017886	NP_060356			unc-51-like kinase 4								ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)														---	---	---	---
ULK4	54986	broad.mit.edu	37	3	41941092	41941092	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:41941092delT	uc003ckv.3	-						ULK4_uc003ckw.2_Intron|ULK4_uc003ckx.1_Intron	NM_017886	NP_060356			unc-51-like kinase 4								ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	42047881	42047881	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:42047881delA								ULK4 (44221 upstream) : TRAK1 (84865 downstream)																																			---	---	---	---
TRAK1	22906	broad.mit.edu	37	3	42165198	42165199	+	Intron	DEL	TT	-	-	rs35539731		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:42165198_42165199delTT	uc003cky.2	+						TRAK1_uc011azh.1_Intron|TRAK1_uc011azi.1_Intron	NM_001042646	NP_001036111			OGT(O-Glc-NAc transferase)-interacting protein						endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	42475438	42475439	+	IGR	INS	-	ACACAC	ACACAC	rs141075838	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:42475438_42475439insACACAC								LYZL4 (23373 upstream) : VIPR1 (68665 downstream)																																			---	---	---	---
NKTR	4820	broad.mit.edu	37	3	42649001	42649001	+	Intron	DEL	A	-	-	rs79836326		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:42649001delA	uc003clo.2	+						NKTR_uc003cll.1_Intron|NKTR_uc003clm.1_Intron|NKTR_uc003clp.2_Intron|NKTR_uc011azp.1_Intron	NM_005385	NP_005376			natural killer-tumor recognition sequence						protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.24)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	43159469	43159470	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:43159469_43159470delAG								C3orf39 (11904 upstream) : SNRK (168534 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	43219704	43219704	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:43219704delT								C3orf39 (72139 upstream) : SNRK (108300 downstream)																																			---	---	---	---
ANO10	55129	broad.mit.edu	37	3	43414413	43414413	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:43414413delT	uc003cmv.2	-						ANO10_uc011azs.1_Intron|ANO10_uc003cmw.2_Intron|ANO10_uc010hil.2_Intron|ANO10_uc011azt.1_Intron	NM_018075	NP_060545			transmembrane protein 16K						cell death	chloride channel complex	chloride channel activity			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	44235713	44235713	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44235713delT								MIR138-1 (79911 upstream) : C3orf77 (47665 downstream)																																			---	---	---	---
C3orf77	375337	broad.mit.edu	37	3	44342345	44342348	+	Intron	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44342345_44342348delAAAA	uc003cna.3	+							NM_001145030	NP_001138502			hypothetical protein LOC375337											pancreas(1)	1																		---	---	---	---
C3orf77	375337	broad.mit.edu	37	3	44366509	44366509	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44366509delT	uc003cna.3	+							NM_001145030	NP_001138502			hypothetical protein LOC375337											pancreas(1)	1																		---	---	---	---
ZNF445	353274	broad.mit.edu	37	3	44495708	44495708	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44495708delA	uc003cnf.2	-						ZNF445_uc011azv.1_Intron|ZNF445_uc011azw.1_Intron	NM_181489	NP_852466			zinc finger protein 445						viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)														---	---	---	---
TGM4	7047	broad.mit.edu	37	3	44953816	44953816	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44953816delT	uc003coc.3	+							NM_003241	NP_003232			transglutaminase 4 (prostate)						peptide cross-linking|protein polyamination		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)													---	---	---	---
ZDHHC3	51304	broad.mit.edu	37	3	45003648	45003648	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:45003648delT	uc003cod.2	-						ZDHHC3_uc003cog.2_Intron|ZDHHC3_uc011bad.1_Intron	NM_016598	NP_057682			zinc finger, DHHC-type containing 3 isoform 2							Golgi membrane|integral to membrane	zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00943)|KIRC - Kidney renal clear cell carcinoma(197;0.053)|Kidney(197;0.0665)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	45082639	45082639	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:45082639delT								CLEC3B (5077 upstream) : CDCP1 (41131 downstream)																																			---	---	---	---
TMEM158	25907	broad.mit.edu	37	3	45270451	45270451	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:45270451delT	uc011baf.1	-							NM_015444	NP_056259			Ras-induced senescence 1 precursor							integral to membrane					0				BRCA - Breast invasive adenocarcinoma(193;0.00839)|KIRC - Kidney renal clear cell carcinoma(197;0.0461)|Kidney(197;0.0576)														---	---	---	---
LARS2	23395	broad.mit.edu	37	3	45488230	45488231	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:45488230_45488231delCT	uc003cop.1	+						LARS2_uc010hit.1_Intron	NM_015340	NP_056155			leucyl-tRNA synthetase 2, mitochondrial						leucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|leucine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.0122)|KIRC - Kidney renal clear cell carcinoma(197;0.0313)|Kidney(197;0.0372)	L-Leucine(DB00149)													---	---	---	---
Unknown	0	broad.mit.edu	37	3	45603481	45603482	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:45603481_45603482delTT								LARS2 (13153 upstream) : LIMD1 (32841 downstream)																																			---	---	---	---
SACM1L	22908	broad.mit.edu	37	3	45765062	45765062	+	Intron	DEL	A	-	-	rs34076210		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:45765062delA	uc003cos.2	+						SACM1L_uc011bag.1_Intron|SACM1L_uc011bah.1_Intron	NM_014016	NP_054735			suppressor of actin 1							Golgi apparatus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0102)|KIRC - Kidney renal clear cell carcinoma(197;0.0234)|Kidney(197;0.0277)														---	---	---	---
FYCO1	79443	broad.mit.edu	37	3	45965219	45965221	+	In_Frame_Del	DEL	CTC	-	-	rs148020105		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:45965219_45965221delCTC	uc003cpb.3	-	17	4494_4496	c.4288_4290delGAG	c.(4288-4290)GAGdel	p.E1430del	FYCO1_uc011bal.1_In_Frame_Del_p.E1450del	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	1430	GOLD.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)														---	---	---	---
FYCO1	79443	broad.mit.edu	37	3	46019034	46019034	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:46019034delT	uc003cpb.3	-						FYCO1_uc011bal.1_Intron	NM_024513	NP_078789			FYVE and coiled-coil domain containing 1						transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	46108480	46108481	+	IGR	DEL	AG	-	-	rs139166285		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:46108480_46108481delAG								XCR1 (39501 upstream) : CCR3 (96615 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	47233845	47233845	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47233845delA	uc003cqw.1	+											Homo sapiens cDNA FLJ39534 fis, clone PUAEN2005247.																														---	---	---	---
KIF9	64147	broad.mit.edu	37	3	47282813	47282814	+	Intron	DEL	TT	-	-	rs79493874		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47282813_47282814delTT	uc010hjp.2	-						KIF9_uc003cqx.2_Intron|KIF9_uc003cqy.2_Intron|KIF9_uc011bat.1_Intron|uc003cqw.1_Intron	NM_001134878	NP_001128350			kinesin family member 9 isoform 2						blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)														---	---	---	---
KIF9	64147	broad.mit.edu	37	3	47304276	47304276	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47304276delA	uc010hjp.2	-						KIF9_uc003cqx.2_Intron|KIF9_uc003cqy.2_Intron|KIF9_uc011bat.1_Intron|KIF9_uc011bau.1_Intron	NM_001134878	NP_001128350			kinesin family member 9 isoform 2						blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)														---	---	---	---
KLHL18	23276	broad.mit.edu	37	3	47356420	47356420	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47356420delT	uc003crd.2	+						KLHL18_uc003crc.2_Intron|KLHL18_uc011bav.1_Intron	NM_025010	NP_079286			kelch-like 18												0		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00645)|Kidney(197;0.00741)														---	---	---	---
KLHL18	23276	broad.mit.edu	37	3	47380823	47380823	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47380823delA	uc003crd.2	+						KLHL18_uc011bav.1_Intron	NM_025010	NP_079286			kelch-like 18												0		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00645)|Kidney(197;0.00741)														---	---	---	---
MAP4	4134	broad.mit.edu	37	3	47904456	47904459	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47904456_47904459delTTTT	uc003csb.2	-						MAP4_uc003csc.3_Intron|MAP4_uc003crw.2_Intron|MAP4_uc003crx.2_Intron|MAP4_uc011bbe.1_Intron|MAP4_uc003cry.2_Intron|MAP4_uc003csa.3_Intron|MAP4_uc003crz.3_Intron	NM_002375	NP_002366			microtubule-associated protein 4 isoform 1						negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000721)|KIRC - Kidney renal clear cell carcinoma(197;0.00641)|Kidney(197;0.00736)														---	---	---	---
MAP4	4134	broad.mit.edu	37	3	47960427	47960427	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47960427delT	uc003csb.2	-						MAP4_uc003csc.3_Intron|MAP4_uc011bbf.1_Intron|MAP4_uc003csf.3_Intron	NM_002375	NP_002366			microtubule-associated protein 4 isoform 1						negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000721)|KIRC - Kidney renal clear cell carcinoma(197;0.00641)|Kidney(197;0.00736)														---	---	---	---
MAP4	4134	broad.mit.edu	37	3	48101839	48101839	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:48101839delA	uc003csb.2	-						MAP4_uc003csc.3_Intron|MAP4_uc011bbf.1_Intron|MAP4_uc003csf.3_Intron|MAP4_uc003csg.2_Intron	NM_002375	NP_002366			microtubule-associated protein 4 isoform 1						negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000721)|KIRC - Kidney renal clear cell carcinoma(197;0.00641)|Kidney(197;0.00736)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	48162109	48162109	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:48162109delT								MAP4 (31340 upstream) : CDC25A (36559 downstream)																																			---	---	---	---
FBXW12	285231	broad.mit.edu	37	3	48423615	48423615	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:48423615delT	uc003csr.2	+						FBXW12_uc010hjv.2_Intron|FBXW12_uc003css.2_Intron|FBXW12_uc010hjw.2_Intron	NM_207102	NP_996985			F-box and WD repeat domain containing 12 isoform												0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)														---	---	---	---
QARS	5859	broad.mit.edu	37	3	49135228	49135228	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49135228delA	uc003cvx.2	-						QARS_uc011bcc.1_Intron|QARS_uc011bcd.1_Intron|QARS_uc003cvy.2_Intron|QARS_uc011bce.1_Intron	NM_005051	NP_005042			glutaminyl-tRNA synthetase						glutaminyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|glutamine-tRNA ligase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)	L-Glutamine(DB00130)													---	---	---	---
USP4	7375	broad.mit.edu	37	3	49354915	49354915	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49354915delT	uc003cwq.2	-						USP4_uc003cwr.2_Intron	NM_003363	NP_003354			ubiquitin specific protease 4 isoform a						negative regulation of protein ubiquitination|protein deubiquitination|protein localization at cell surface|regulation of protein stability|ubiquitin-dependent protein catabolic process	lysosome|nucleus	adenosine receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|urinary_tract(1)|lung(1)	4		Ovarian(412;0.00308)|Myeloproliferative disorder(1037;0.0255)|Hepatocellular(537;0.121)		OV - Ovarian serous cystadenocarcinoma(275;4.74e-26)|Kidney(197;2.22e-07)|KIRC - Kidney renal clear cell carcinoma(197;5.14e-06)|BRCA - Breast invasive adenocarcinoma(193;9.46e-05)														---	---	---	---
RHOA	387	broad.mit.edu	37	3	49398192	49398192	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49398192delA	uc003cwu.2	-						RHOA_uc010hku.2_Intron|GPX1_uc011bcl.1_5'Flank|GPX1_uc011bcm.1_5'Flank	NM_001664	NP_001655			ras homolog gene family, member A precursor						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)													---	---	---	---
RHOA	387	broad.mit.edu	37	3	49419299	49419300	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49419299_49419300delAA	uc003cwu.2	-						RHOA_uc010hku.2_Intron	NM_001664	NP_001655			ras homolog gene family, member A precursor						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)													---	---	---	---
RHOA	387	broad.mit.edu	37	3	49425441	49425444	+	Intron	DEL	TTTT	-	-	rs77783300		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49425441_49425444delTTTT	uc003cwu.2	-						RHOA_uc010hku.2_Intron	NM_001664	NP_001655			ras homolog gene family, member A precursor						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)													---	---	---	---
NICN1	84276	broad.mit.edu	37	3	49465654	49465655	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49465654_49465655delAA	uc003cwz.1	-						NICN1_uc003cxa.2_Intron|NICN1_uc011bcr.1_Intron	NM_032316	NP_115692			nicolin 1							microtubule|nucleus					0				BRCA - Breast invasive adenocarcinoma(193;4.52e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)														---	---	---	---
DAG1	1605	broad.mit.edu	37	3	49526532	49526533	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49526532_49526533delTT	uc003cxc.3	+							NM_004393	NP_004384			dystroglycan 1 preproprotein						cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)														---	---	---	---
DAG1	1605	broad.mit.edu	37	3	49547840	49547840	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49547840delT	uc003cxc.3	+							NM_004393	NP_004384			dystroglycan 1 preproprotein						cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)														---	---	---	---
BSN	8927	broad.mit.edu	37	3	49622173	49622173	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49622173delT	uc003cxe.3	+							NM_003458	NP_003449			bassoon protein						synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)														---	---	---	---
BSN	8927	broad.mit.edu	37	3	49670735	49670737	+	Intron	DEL	AAA	-	-	rs75155734		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49670735_49670737delAAA	uc003cxe.3	+							NM_003458	NP_003449			bassoon protein						synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)														---	---	---	---
IP6K1	9807	broad.mit.edu	37	3	49812312	49812312	+	Intron	DEL	T	-	-	rs78992774		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49812312delT	uc003cxm.1	-						IP6K1_uc003cxn.1_Intron|IP6K1_uc011bcv.1_Intron|IP6K1_uc003cxo.2_Intron	NM_153273	NP_695005			inositol hexakisphosphate kinase 1 isoform 1						phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	49864925	49864927	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49864925_49864927delAAA								UBA7 (13534 upstream) : TRAIP (1101 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	49973843	49973843	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49973843delT								MON1A (6398 upstream) : RBM6 (3749 downstream)																																			---	---	---	---
RBM6	10180	broad.mit.edu	37	3	50025080	50025080	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50025080delT	uc003cyc.2	+						RBM6_uc011bdh.1_Intron|RBM6_uc010hlc.1_Intron|RBM6_uc003cyd.2_Intron|RBM6_uc003cye.2_Intron|RBM6_uc011bdi.1_Intron|RBM6_uc010hld.1_Intron|RBM6_uc010hle.1_Intron|RBM6_uc010hlf.1_Intron	NM_005777	NP_005768			RNA binding motif protein 6						RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)														---	---	---	---
DOCK3	1795	broad.mit.edu	37	3	50717647	50717647	+	Intron	DEL	T	-	-	rs13098803		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50717647delT	uc011bds.1	+							NM_004947	NP_004938			dedicator of cytokinesis 3							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	50746176	50746176	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50746176delT	uc011bds.1	+							NM_004947	NP_004938			dedicator of cytokinesis 3							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	50769843	50769843	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50769843delA	uc011bds.1	+							NM_004947	NP_004938			dedicator of cytokinesis 3							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	50922796	50922801	+	Intron	DEL	TTTTTT	-	-	rs62977761		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50922796_50922801delTTTTTT	uc011bds.1	+							NM_004947	NP_004938			dedicator of cytokinesis 3							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	51063483	51063483	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51063483delA	uc011bds.1	+							NM_004947	NP_004938			dedicator of cytokinesis 3							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	51095844	51095844	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51095844delA	uc011bds.1	+							NM_004947	NP_004938			dedicator of cytokinesis 3							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	51385550	51385550	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51385550delT	uc011bds.1	+							NM_004947	NP_004938			dedicator of cytokinesis 3							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)														---	---	---	---
VPRBP	9730	broad.mit.edu	37	3	51482934	51482934	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51482934delT	uc003dbe.1	-						VPRBP_uc003dbg.1_Intron	NM_014703	NP_055518			HIV-1 Vpr binding protein						interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	51761841	51761841	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51761841delA								GRM2 (9218 upstream) : IQCF6 (50737 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	51771542	51771542	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51771542delT								GRM2 (18919 upstream) : IQCF6 (41036 downstream)																																			---	---	---	---
GPR62	118442	broad.mit.edu	37	3	51987148	51987150	+	5'Flank	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51987148_51987150delAAA	uc003dca.3	+							NM_080865	NP_543141			G protein-coupled receptor 62							integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	52221046	52221047	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52221046_52221047insA								POC1A (32340 upstream) : ALAS1 (11069 downstream)																																			---	---	---	---
GLYCTK	132158	broad.mit.edu	37	3	52321625	52321625	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52321625delA	uc003ddo.2	+						GLYCTK_uc003ddq.2_5'Flank|GLYCTK_uc003ddm.2_5'Flank|GLYCTK_uc003ddn.2_5'Flank|GLYCTK_uc003ddp.1_5'Flank	NM_145262	NP_660305			glycerate kinase isoform 1						protein phosphorylation	Golgi apparatus|mitochondrion	ATP binding|glycerate kinase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;3.56e-05)|Kidney(197;0.00171)|KIRC - Kidney renal clear cell carcinoma(197;0.00194)|OV - Ovarian serous cystadenocarcinoma(275;0.235)														---	---	---	---
DNAH1	25981	broad.mit.edu	37	3	52411772	52411773	+	Intron	INS	-	GT	GT	rs72582002	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52411772_52411773insGT	uc011bef.1	+							NM_015512	NP_056327			dynein, axonemal, heavy chain 1						ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)														---	---	---	---
PBRM1	55193	broad.mit.edu	37	3	52673457	52673457	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52673457delT	uc003des.2	-						PBRM1_uc003dex.2_Intron|PBRM1_uc003deq.2_Intron|PBRM1_uc003der.2_Intron|PBRM1_uc003det.2_Intron|PBRM1_uc003deu.2_Intron|PBRM1_uc003dev.2_Intron|PBRM1_uc003dew.2_Intron|PBRM1_uc010hmk.1_Intron|PBRM1_uc003dey.2_Intron|PBRM1_uc003dez.1_Intron|PBRM1_uc003dfb.1_Intron	NM_181042	NP_060635			polybromo 1 isoform 4						chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)				Mis|N|F|S|D|O		clear cell renal carcinoma|breast								---	---	---	---
GLT8D1	55830	broad.mit.edu	37	3	52731588	52731588	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52731588delA	uc003dfi.3	-						GLT8D1_uc003dfj.2_Intron|GLT8D1_uc003dfk.2_Intron|GLT8D1_uc003dfl.2_Intron|GLT8D1_uc003dfm.2_Intron|GLT8D1_uc003dfn.2_Intron|GLT8D1_uc003dfo.1_Intron	NM_152932	NP_690909			glycosyltransferase 8 domain containing 1							integral to membrane|mitochondrion	transferase activity, transferring glycosyl groups				0				BRCA - Breast invasive adenocarcinoma(193;6.78e-05)|Kidney(197;0.000618)|KIRC - Kidney renal clear cell carcinoma(197;0.000779)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)														---	---	---	---
TMEM110	375346	broad.mit.edu	37	3	52884750	52884750	+	Intron	DEL	T	-	-	rs75546270		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52884750delT	uc003dge.2	-						TMEM110_uc003dgc.3_Intron	NM_198563	NP_940965			transmembrane protein 110							integral to membrane				large_intestine(1)	1				BRCA - Breast invasive adenocarcinoma(193;7.72e-05)|Kidney(197;0.000777)|KIRC - Kidney renal clear cell carcinoma(197;0.000915)|OV - Ovarian serous cystadenocarcinoma(275;0.0541)														---	---	---	---
SFMBT1	51460	broad.mit.edu	37	3	53021230	53021230	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53021230delT	uc003dgf.2	-						SFMBT1_uc003dgg.2_Intron|SFMBT1_uc003dgh.2_Intron	NM_001005159	NP_001005159			Scm-like with four mbt domains 1						regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	53121543	53121543	+	IGR	DEL	T	-	-	rs138507991		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53121543delT								SFMBT1 (41473 upstream) : RFT1 (960 downstream)																																			---	---	---	---
PRKCD	5580	broad.mit.edu	37	3	53221076	53221077	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53221076_53221077delTG	uc003dgl.2	+						PRKCD_uc003dgm.2_Intron	NM_006254	NP_006245			protein kinase C, delta						activation of phospholipase C activity|cellular component disassembly involved in apoptosis|cellular senescence|interferon-gamma-mediated signaling pathway|intracellular signal transduction|mRNA metabolic process|negative regulation of insulin receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein binding|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of ceramide biosynthetic process|positive regulation of glucosylceramide catabolic process|positive regulation of protein dephosphorylation|positive regulation of sphingomyelin catabolic process|protein stabilization|regulation of receptor activity|termination of signal transduction	cytosol|endoplasmic reticulum|nucleoplasm	ATP binding|calcium-independent protein kinase C activity|enzyme activator activity|enzyme binding|insulin receptor substrate binding|metal ion binding|protein C-terminus binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9		Ovarian(412;0.0728)		OV - Ovarian serous cystadenocarcinoma(275;3.58e-08)|BRCA - Breast invasive adenocarcinoma(193;0.000142)|Kidney(197;0.00153)|KIRC - Kidney renal clear cell carcinoma(197;0.00173)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	53238861	53238862	+	IGR	INS	-	GA	GA	rs140626878	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53238861_53238862insGA								PRKCD (12130 upstream) : TKT (19862 downstream)																																			---	---	---	---
DCP1A	55802	broad.mit.edu	37	3	53379914	53379914	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53379914delA	uc003dgs.3	-						DCP1A_uc003dgt.3_Intron	NM_018403	NP_060873			DCP1 decapping enzyme homolog A						exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasmic mRNA processing body|cytosol|nucleus	hydrolase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000164)|KIRC - Kidney renal clear cell carcinoma(197;0.00525)|Kidney(197;0.00579)|OV - Ovarian serous cystadenocarcinoma(275;0.0647)														---	---	---	---
CACNA1D	776	broad.mit.edu	37	3	53662643	53662643	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53662643delA	uc003dgv.3	+						CACNA1D_uc003dgu.3_Intron|CACNA1D_uc003dgy.3_Intron	NM_001128840	NP_001122312			calcium channel, voltage-dependent, L type,						axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)													---	---	---	---
CACNA2D3	55799	broad.mit.edu	37	3	54244470	54244471	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:54244470_54244471delTG	uc003dhf.2	+						CACNA2D3_uc011beu.1_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron|CACNA2D3_uc010hmv.1_Intron	NM_018398	NP_060868			calcium channel, voltage-dependent, alpha							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)														---	---	---	---
CACNA2D3	55799	broad.mit.edu	37	3	54294744	54294744	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:54294744delT	uc003dhf.2	+						CACNA2D3_uc011beu.1_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron|CACNA2D3_uc010hmv.1_Intron	NM_018398	NP_060868			calcium channel, voltage-dependent, alpha							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)														---	---	---	---
CACNA2D3	55799	broad.mit.edu	37	3	54773156	54773156	+	Intron	DEL	A	-	-	rs112332837		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:54773156delA	uc003dhf.2	+						CACNA2D3_uc011beu.1_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron|CACNA2D3_uc010hmv.1_Intron	NM_018398	NP_060868			calcium channel, voltage-dependent, alpha							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)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	55123081	55123081	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:55123081delA								CACNA2D3 (14499 upstream) : WNT5A (376663 downstream)																																			---	---	---	---
ERC2	26059	broad.mit.edu	37	3	56022447	56022447	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:56022447delA	uc003dhr.1	-						ERC2_uc003dht.1_Intron	NM_015576	NP_056391			cytomatrix protein p110							cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)														---	---	---	---
ERC2	26059	broad.mit.edu	37	3	56125102	56125102	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:56125102delT	uc003dhr.1	-							NM_015576	NP_056391			cytomatrix protein p110							cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	56585729	56585729	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:56585729delA								ERC2 (83338 upstream) : CCDC66 (5455 downstream)																																			---	---	---	---
CCDC66	285331	broad.mit.edu	37	3	56595914	56595914	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:56595914delT	uc003dhz.2	+						CCDC66_uc003dhy.2_Intron|CCDC66_uc003dhu.2_Intron|CCDC66_uc003dhx.2_Intron|CCDC66_uc003dhv.2_Intron|CCDC66_uc003dhw.2_Intron	NM_001141947	NP_001135419			coiled-coil domain containing 66 isoform 1											breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)														---	---	---	---
CCDC66	285331	broad.mit.edu	37	3	56639452	56639452	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:56639452delT	uc003dhz.2	+						CCDC66_uc003dhy.2_Intron|CCDC66_uc003dhu.2_Intron|CCDC66_uc003dhx.2_Intron	NM_001141947	NP_001135419			coiled-coil domain containing 66 isoform 1											breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)														---	---	---	---
ARHGEF3	50650	broad.mit.edu	37	3	56820751	56820751	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:56820751delA	uc003dig.2	-						ARHGEF3_uc011bew.1_Intron|ARHGEF3_uc003dih.2_Intron|ARHGEF3_uc010hmy.1_Intron|ARHGEF3_uc003dii.2_Intron	NM_019555	NP_062455			Rho guanine nucleotide exchange factor 3 isoform						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0161)|Kidney(284;0.019)|OV - Ovarian serous cystadenocarcinoma(275;0.193)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	57227621	57227621	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:57227621delA								IL17RD (23290 upstream) : HESX1 (4326 downstream)																																			---	---	---	---
DNAH12	201625	broad.mit.edu	37	3	57375781	57375781	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:57375781delA	uc003dit.2	-						DNAH12_uc010hnc.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																		---	---	---	---
DNAH12	201625	broad.mit.edu	37	3	57478733	57478736	+	Intron	DEL	AAAC	-	-	rs71941515		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:57478733_57478736delAAAC	uc003dit.2	-							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																		---	---	---	---
ABHD6	57406	broad.mit.edu	37	3	58252192	58252192	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:58252192delA	uc003djs.3	+						ABHD6_uc003djr.2_Intron|ABHD6_uc003djt.3_Intron	NM_020676	NP_065727			abhydrolase domain containing 6							integral to membrane	acylglycerol lipase activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(55;0.000225)|KIRC - Kidney renal clear cell carcinoma(284;0.0471)|Kidney(284;0.0589)|OV - Ovarian serous cystadenocarcinoma(275;0.209)														---	---	---	---
ABHD6	57406	broad.mit.edu	37	3	58256869	58256869	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:58256869delT	uc003djs.3	+						ABHD6_uc003djr.2_Intron|ABHD6_uc003djt.3_Intron	NM_020676	NP_065727			abhydrolase domain containing 6							integral to membrane	acylglycerol lipase activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(55;0.000225)|KIRC - Kidney renal clear cell carcinoma(284;0.0471)|Kidney(284;0.0589)|OV - Ovarian serous cystadenocarcinoma(275;0.209)														---	---	---	---
C3orf67	200844	broad.mit.edu	37	3	58852557	58852557	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:58852557delT	uc003dkt.1	-						C3orf67_uc003dks.1_Intron|uc003dku.1_Intron|C3orf67_uc003dkv.1_Intron|C3orf67_uc003dkw.2_Intron	NM_198463	NP_940865			hypothetical protein LOC200844												0		all_cancers(2;0.000156)|all_epithelial(2;0.000493)|Breast(2;0.00446)|all_lung(2;0.074)|Lung NSC(2;0.248)		BRCA - Breast invasive adenocarcinoma(55;5.93e-06)|Kidney(10;0.00155)|KIRC - Kidney renal clear cell carcinoma(10;0.00172)|OV - Ovarian serous cystadenocarcinoma(275;0.23)														---	---	---	---
C3orf67	200844	broad.mit.edu	37	3	59006270	59006271	+	Intron	DEL	TG	-	-	rs112497186		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:59006270_59006271delTG	uc003dkt.1	-						C3orf67_uc003dkv.1_Intron|C3orf67_uc003dkw.2_Intron|C3orf67_uc011bfg.1_Intron	NM_198463	NP_940865			hypothetical protein LOC200844												0		all_cancers(2;0.000156)|all_epithelial(2;0.000493)|Breast(2;0.00446)|all_lung(2;0.074)|Lung NSC(2;0.248)		BRCA - Breast invasive adenocarcinoma(55;5.93e-06)|Kidney(10;0.00155)|KIRC - Kidney renal clear cell carcinoma(10;0.00172)|OV - Ovarian serous cystadenocarcinoma(275;0.23)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	59076484	59076484	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:59076484delT								C3orf67 (40726 upstream) : FHIT (658554 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	59348354	59348355	+	IGR	DEL	AA	-	-	rs1348472		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:59348354_59348355delAA								C3orf67 (312596 upstream) : FHIT (386683 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	59529975	59529978	+	IGR	DEL	TGTG	-	-	rs35205778		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:59529975_59529978delTGTG								C3orf67 (494217 upstream) : FHIT (205060 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	59589768	59589768	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:59589768delA								C3orf67 (554010 upstream) : FHIT (145270 downstream)																																			---	---	---	---
FHIT	2272	broad.mit.edu	37	3	60030770	60030770	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:60030770delA	uc003dkx.3	-						FHIT_uc003dky.2_Intron|FHIT_uc010hnn.1_Intron	NM_002012	NP_002003			fragile histidine triad gene						nucleotide metabolic process		bis(5'-adenosyl)-triphosphatase activity|protein binding				0		all_cancers(2;2.37e-314)|all_epithelial(2;5.17e-286)|Colorectal(2;1.24e-68)|all_lung(2;1.31e-45)|Lung NSC(2;1.79e-44)|all_hematologic(2;1.59e-23)|Renal(2;1.03e-13)|Breast(2;1.06e-10)|Esophageal squamous(2;6.31e-09)|Melanoma(2;1.83e-07)|Acute lymphoblastic leukemia(2;5.46e-05)|all_neural(2;0.00118)|Medulloblastoma(2;0.00263)|Hepatocellular(2;0.0245)|Ovarian(2;0.0408)		UCEC - Uterine corpus endometrioid carcinoma (45;0.0887)|Epithelial(1;9.28e-70)|all cancers(1;3.07e-60)|Colorectal(1;2.33e-53)|STAD - Stomach adenocarcinoma(1;7.22e-48)|COAD - Colon adenocarcinoma(3;1.05e-44)|READ - Rectum adenocarcinoma(3;2.41e-08)|KIRC - Kidney renal clear cell carcinoma(10;0.000109)|Kidney(10;0.000125)|Lung(1;0.000161)|LUSC - Lung squamous cell carcinoma(1;0.000742)|OV - Ovarian serous cystadenocarcinoma(275;0.00372)|BRCA - Breast invasive adenocarcinoma(55;0.00448)				T	HMGA2	pleomorphic salivary gland adenoma				Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				---	---	---	---
FHIT	2272	broad.mit.edu	37	3	60195829	60195829	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:60195829delA	uc003dkx.3	-						FHIT_uc003dky.2_Intron|FHIT_uc010hnn.1_Intron	NM_002012	NP_002003			fragile histidine triad gene						nucleotide metabolic process		bis(5'-adenosyl)-triphosphatase activity|protein binding				0		all_cancers(2;2.37e-314)|all_epithelial(2;5.17e-286)|Colorectal(2;1.24e-68)|all_lung(2;1.31e-45)|Lung NSC(2;1.79e-44)|all_hematologic(2;1.59e-23)|Renal(2;1.03e-13)|Breast(2;1.06e-10)|Esophageal squamous(2;6.31e-09)|Melanoma(2;1.83e-07)|Acute lymphoblastic leukemia(2;5.46e-05)|all_neural(2;0.00118)|Medulloblastoma(2;0.00263)|Hepatocellular(2;0.0245)|Ovarian(2;0.0408)		UCEC - Uterine corpus endometrioid carcinoma (45;0.0887)|Epithelial(1;9.28e-70)|all cancers(1;3.07e-60)|Colorectal(1;2.33e-53)|STAD - Stomach adenocarcinoma(1;7.22e-48)|COAD - Colon adenocarcinoma(3;1.05e-44)|READ - Rectum adenocarcinoma(3;2.41e-08)|KIRC - Kidney renal clear cell carcinoma(10;0.000109)|Kidney(10;0.000125)|Lung(1;0.000161)|LUSC - Lung squamous cell carcinoma(1;0.000742)|OV - Ovarian serous cystadenocarcinoma(275;0.00372)|BRCA - Breast invasive adenocarcinoma(55;0.00448)				T	HMGA2	pleomorphic salivary gland adenoma				Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				---	---	---	---
FHIT	2272	broad.mit.edu	37	3	60766151	60766151	+	Intron	DEL	T	-	-	rs2205346	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:60766151delT	uc003dkx.3	-						FHIT_uc003dky.2_Intron|FHIT_uc010hnn.1_Intron	NM_002012	NP_002003			fragile histidine triad gene						nucleotide metabolic process		bis(5'-adenosyl)-triphosphatase activity|protein binding				0		all_cancers(2;2.37e-314)|all_epithelial(2;5.17e-286)|Colorectal(2;1.24e-68)|all_lung(2;1.31e-45)|Lung NSC(2;1.79e-44)|all_hematologic(2;1.59e-23)|Renal(2;1.03e-13)|Breast(2;1.06e-10)|Esophageal squamous(2;6.31e-09)|Melanoma(2;1.83e-07)|Acute lymphoblastic leukemia(2;5.46e-05)|all_neural(2;0.00118)|Medulloblastoma(2;0.00263)|Hepatocellular(2;0.0245)|Ovarian(2;0.0408)		UCEC - Uterine corpus endometrioid carcinoma (45;0.0887)|Epithelial(1;9.28e-70)|all cancers(1;3.07e-60)|Colorectal(1;2.33e-53)|STAD - Stomach adenocarcinoma(1;7.22e-48)|COAD - Colon adenocarcinoma(3;1.05e-44)|READ - Rectum adenocarcinoma(3;2.41e-08)|KIRC - Kidney renal clear cell carcinoma(10;0.000109)|Kidney(10;0.000125)|Lung(1;0.000161)|LUSC - Lung squamous cell carcinoma(1;0.000742)|OV - Ovarian serous cystadenocarcinoma(275;0.00372)|BRCA - Breast invasive adenocarcinoma(55;0.00448)				T	HMGA2	pleomorphic salivary gland adenoma				Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				---	---	---	---
FHIT	2272	broad.mit.edu	37	3	60833494	60833494	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:60833494delT	uc003dkx.3	-						FHIT_uc003dky.2_Intron|FHIT_uc010hnn.1_Intron	NM_002012	NP_002003			fragile histidine triad gene						nucleotide metabolic process		bis(5'-adenosyl)-triphosphatase activity|protein binding				0		all_cancers(2;2.37e-314)|all_epithelial(2;5.17e-286)|Colorectal(2;1.24e-68)|all_lung(2;1.31e-45)|Lung NSC(2;1.79e-44)|all_hematologic(2;1.59e-23)|Renal(2;1.03e-13)|Breast(2;1.06e-10)|Esophageal squamous(2;6.31e-09)|Melanoma(2;1.83e-07)|Acute lymphoblastic leukemia(2;5.46e-05)|all_neural(2;0.00118)|Medulloblastoma(2;0.00263)|Hepatocellular(2;0.0245)|Ovarian(2;0.0408)		UCEC - Uterine corpus endometrioid carcinoma (45;0.0887)|Epithelial(1;9.28e-70)|all cancers(1;3.07e-60)|Colorectal(1;2.33e-53)|STAD - Stomach adenocarcinoma(1;7.22e-48)|COAD - Colon adenocarcinoma(3;1.05e-44)|READ - Rectum adenocarcinoma(3;2.41e-08)|KIRC - Kidney renal clear cell carcinoma(10;0.000109)|Kidney(10;0.000125)|Lung(1;0.000161)|LUSC - Lung squamous cell carcinoma(1;0.000742)|OV - Ovarian serous cystadenocarcinoma(275;0.00372)|BRCA - Breast invasive adenocarcinoma(55;0.00448)				T	HMGA2	pleomorphic salivary gland adenoma				Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				---	---	---	---
FHIT	2272	broad.mit.edu	37	3	60900186	60900187	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:60900186_60900187delAA	uc003dkx.3	-						FHIT_uc003dky.2_Intron|FHIT_uc010hnn.1_Intron	NM_002012	NP_002003			fragile histidine triad gene						nucleotide metabolic process		bis(5'-adenosyl)-triphosphatase activity|protein binding				0		all_cancers(2;2.37e-314)|all_epithelial(2;5.17e-286)|Colorectal(2;1.24e-68)|all_lung(2;1.31e-45)|Lung NSC(2;1.79e-44)|all_hematologic(2;1.59e-23)|Renal(2;1.03e-13)|Breast(2;1.06e-10)|Esophageal squamous(2;6.31e-09)|Melanoma(2;1.83e-07)|Acute lymphoblastic leukemia(2;5.46e-05)|all_neural(2;0.00118)|Medulloblastoma(2;0.00263)|Hepatocellular(2;0.0245)|Ovarian(2;0.0408)		UCEC - Uterine corpus endometrioid carcinoma (45;0.0887)|Epithelial(1;9.28e-70)|all cancers(1;3.07e-60)|Colorectal(1;2.33e-53)|STAD - Stomach adenocarcinoma(1;7.22e-48)|COAD - Colon adenocarcinoma(3;1.05e-44)|READ - Rectum adenocarcinoma(3;2.41e-08)|KIRC - Kidney renal clear cell carcinoma(10;0.000109)|Kidney(10;0.000125)|Lung(1;0.000161)|LUSC - Lung squamous cell carcinoma(1;0.000742)|OV - Ovarian serous cystadenocarcinoma(275;0.00372)|BRCA - Breast invasive adenocarcinoma(55;0.00448)				T	HMGA2	pleomorphic salivary gland adenoma				Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				---	---	---	---
FHIT	2272	broad.mit.edu	37	3	61028512	61028512	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:61028512delA	uc003dkx.3	-						FHIT_uc003dky.2_Intron|FHIT_uc010hnn.1_Intron	NM_002012	NP_002003			fragile histidine triad gene						nucleotide metabolic process		bis(5'-adenosyl)-triphosphatase activity|protein binding				0		all_cancers(2;2.37e-314)|all_epithelial(2;5.17e-286)|Colorectal(2;1.24e-68)|all_lung(2;1.31e-45)|Lung NSC(2;1.79e-44)|all_hematologic(2;1.59e-23)|Renal(2;1.03e-13)|Breast(2;1.06e-10)|Esophageal squamous(2;6.31e-09)|Melanoma(2;1.83e-07)|Acute lymphoblastic leukemia(2;5.46e-05)|all_neural(2;0.00118)|Medulloblastoma(2;0.00263)|Hepatocellular(2;0.0245)|Ovarian(2;0.0408)		UCEC - Uterine corpus endometrioid carcinoma (45;0.0887)|Epithelial(1;9.28e-70)|all cancers(1;3.07e-60)|Colorectal(1;2.33e-53)|STAD - Stomach adenocarcinoma(1;7.22e-48)|COAD - Colon adenocarcinoma(3;1.05e-44)|READ - Rectum adenocarcinoma(3;2.41e-08)|KIRC - Kidney renal clear cell carcinoma(10;0.000109)|Kidney(10;0.000125)|Lung(1;0.000161)|LUSC - Lung squamous cell carcinoma(1;0.000742)|OV - Ovarian serous cystadenocarcinoma(275;0.00372)|BRCA - Breast invasive adenocarcinoma(55;0.00448)				T	HMGA2	pleomorphic salivary gland adenoma				Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				---	---	---	---
FHIT	2272	broad.mit.edu	37	3	61190315	61190315	+	Intron	DEL	T	-	-	rs67796587		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:61190315delT	uc003dkx.3	-						FHIT_uc003dky.2_Intron|FHIT_uc010hnn.1_Intron	NM_002012	NP_002003			fragile histidine triad gene						nucleotide metabolic process		bis(5'-adenosyl)-triphosphatase activity|protein binding				0		all_cancers(2;2.37e-314)|all_epithelial(2;5.17e-286)|Colorectal(2;1.24e-68)|all_lung(2;1.31e-45)|Lung NSC(2;1.79e-44)|all_hematologic(2;1.59e-23)|Renal(2;1.03e-13)|Breast(2;1.06e-10)|Esophageal squamous(2;6.31e-09)|Melanoma(2;1.83e-07)|Acute lymphoblastic leukemia(2;5.46e-05)|all_neural(2;0.00118)|Medulloblastoma(2;0.00263)|Hepatocellular(2;0.0245)|Ovarian(2;0.0408)		UCEC - Uterine corpus endometrioid carcinoma (45;0.0887)|Epithelial(1;9.28e-70)|all cancers(1;3.07e-60)|Colorectal(1;2.33e-53)|STAD - Stomach adenocarcinoma(1;7.22e-48)|COAD - Colon adenocarcinoma(3;1.05e-44)|READ - Rectum adenocarcinoma(3;2.41e-08)|KIRC - Kidney renal clear cell carcinoma(10;0.000109)|Kidney(10;0.000125)|Lung(1;0.000161)|LUSC - Lung squamous cell carcinoma(1;0.000742)|OV - Ovarian serous cystadenocarcinoma(275;0.00372)|BRCA - Breast invasive adenocarcinoma(55;0.00448)				T	HMGA2	pleomorphic salivary gland adenoma				Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				---	---	---	---
Unknown	0	broad.mit.edu	37	3	61322402	61322402	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:61322402delT								FHIT (85269 upstream) : PTPRG (224841 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	61406035	61406036	+	IGR	INS	-	TG	TG	rs141000393	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:61406035_61406036insTG								FHIT (168902 upstream) : PTPRG (141207 downstream)																																			---	---	---	---
PTPRG	5793	broad.mit.edu	37	3	61710852	61710852	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:61710852delT	uc003dlb.2	+						PTPRG_uc003dlc.2_Intron|PTPRG_uc003dla.3_Intron	NM_002841	NP_002832			protein tyrosine phosphatase, receptor type, G						transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)														---	---	---	---
PTPRG	5793	broad.mit.edu	37	3	61806851	61806851	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:61806851delT	uc003dlb.2	+						PTPRG_uc003dlc.2_Intron	NM_002841	NP_002832			protein tyrosine phosphatase, receptor type, G						transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)														---	---	---	---
PTPRG	5793	broad.mit.edu	37	3	62105776	62105776	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:62105776delT	uc003dlb.2	+						PTPRG_uc003dlc.2_Intron	NM_002841	NP_002832			protein tyrosine phosphatase, receptor type, G						transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)														---	---	---	---
PTPRG	5793	broad.mit.edu	37	3	62127573	62127573	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:62127573delA	uc003dlb.2	+						PTPRG_uc003dlc.2_Intron	NM_002841	NP_002832			protein tyrosine phosphatase, receptor type, G						transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)														---	---	---	---
PTPRG	5793	broad.mit.edu	37	3	62261532	62261533	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:62261532_62261533insT	uc003dlb.2	+						PTPRG_uc003dlc.2_Intron|PTPRG_uc011bfi.1_Intron|uc010hno.2_Intron|uc003dld.3_Intron|uc010hnp.2_Intron|uc003dle.3_Intron	NM_002841	NP_002832			protein tyrosine phosphatase, receptor type, G						transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)														---	---	---	---
CADPS	8618	broad.mit.edu	37	3	62567442	62567442	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:62567442delG	uc003dll.2	-						CADPS_uc003dlk.1_Intron|CADPS_uc003dlm.2_Intron|CADPS_uc003dln.2_Intron	NM_003716	NP_003707			Ca2+-dependent secretion activator isoform 1						exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	62899833	62899833	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:62899833delT								CADPS (38769 upstream) : LOC285401 (36300 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	63760391	63760392	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:63760391_63760392insA								SNTN (109510 upstream) : C3orf49 (44649 downstream)																																			---	---	---	---
C3orf49	132200	broad.mit.edu	37	3	63808809	63808809	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:63808809delT	uc003dls.3	+							NR_026866				RecName: Full=Putative uncharacterized protein C3orf49;												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	64307835	64307835	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:64307835delT								PRICKLE2 (96704 upstream) : ADAMTS9 (193498 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	64325200	64325200	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:64325200delT								PRICKLE2 (114069 upstream) : ADAMTS9 (176133 downstream)																																			---	---	---	---
MAGI1	9223	broad.mit.edu	37	3	65426650	65426650	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:65426650delT	uc003dmn.2	-						MAGI1_uc003dmm.2_Intron|MAGI1_uc003dmo.2_Intron|MAGI1_uc003dmp.2_Intron|MAGI1_uc010hny.2_Intron	NM_001033057	NP_001028229			membrane associated guanylate kinase, WW and PDZ						cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)														---	---	---	---
SLC25A26	115286	broad.mit.edu	37	3	66397443	66397443	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:66397443delA	uc011bfq.1	+						SLC25A26_uc011bfs.1_Intron|SLC25A26_uc011bft.1_Intron|SLC25A26_uc011bfr.1_Intron|SLC25A26_uc003dmt.2_Intron	NM_173471	NP_775742			solute carrier family 25, member 26 isoform a							integral to membrane|mitochondrial inner membrane|nucleus	S-adenosylmethionine transmembrane transporter activity			pancreas(1)	1		Lung NSC(201;0.00774)		BRCA - Breast invasive adenocarcinoma(55;0.00046)|KIRC - Kidney renal clear cell carcinoma(15;0.0515)|Kidney(15;0.0648)														---	---	---	---
LRIG1	26018	broad.mit.edu	37	3	66455158	66455158	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:66455158delA	uc003dmx.2	-						LRIG1_uc011bfu.1_5'Flank|LRIG1_uc003dmw.2_Intron|LRIG1_uc010hnz.2_Intron|LRIG1_uc010hoa.2_Intron	NM_015541	NP_056356			leucine-rich repeats and immunoglobulin-like							integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	66814848	66814848	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:66814848delT								LRIG1 (264003 upstream) : KBTBD8 (233879 downstream)																																			---	---	---	---
SUCLG2	8801	broad.mit.edu	37	3	67665677	67665677	+	Intron	DEL	A	-	-	rs68073136		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:67665677delA	uc003dna.3	-							NM_003848	NP_003839			succinate-CoA ligase, GDP-forming beta subunit						succinyl-CoA metabolic process|tricarboxylic acid cycle	mitochondrial matrix	ATP binding|GTP binding|succinate-CoA ligase (GDP-forming) activity			central_nervous_system(1)|skin(1)	2		Renal(2;0.00294)|Lung NSC(201;0.012)|Hepatocellular(537;0.121)		BRCA - Breast invasive adenocarcinoma(55;3.53e-05)|Epithelial(33;0.000153)	Succinic acid(DB00139)													---	---	---	---
Unknown	0	broad.mit.edu	37	3	67741424	67741424	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:67741424delT	uc003dnb.2	+						uc003dnc.2_Intron					Homo sapiens mRNA; cDNA DKFZp686F1220 (from clone DKFZp686F1220).																														---	---	---	---
Unknown	0	broad.mit.edu	37	3	67775267	67775268	+	Intron	INS	-	ATTCCATTTGG	ATTCCATTTGG	rs142579488	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:67775267_67775268insATTCCATTTGG	uc003dnb.2	+						uc003dnc.2_Intron					Homo sapiens mRNA; cDNA DKFZp686F1220 (from clone DKFZp686F1220).																														---	---	---	---
Unknown	0	broad.mit.edu	37	3	67980508	67980508	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:67980508delA	uc003dnc.2	+											Homo sapiens mRNA; cDNA DKFZp686F1220 (from clone DKFZp686F1220).																														---	---	---	---
FAM19A1	407738	broad.mit.edu	37	3	68168723	68168723	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:68168723delT	uc003dnd.2	+						FAM19A1_uc003dne.2_Intron|FAM19A1_uc003dng.2_Intron	NM_213609	NP_998774			family with sequence similarity 19 (chemokine							endoplasmic reticulum|extracellular region				ovary(1)	1		Lung NSC(201;0.0117)		BRCA - Breast invasive adenocarcinoma(55;7.7e-05)|Epithelial(33;0.000937)|KIRC - Kidney renal clear cell carcinoma(39;0.0579)|Kidney(39;0.0743)														---	---	---	---
FAM19A1	407738	broad.mit.edu	37	3	68492649	68492650	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:68492649_68492650delAA	uc003dnd.2	+						FAM19A1_uc003dne.2_Intron|FAM19A1_uc003dng.2_Intron	NM_213609	NP_998774			family with sequence similarity 19 (chemokine							endoplasmic reticulum|extracellular region				ovary(1)	1		Lung NSC(201;0.0117)		BRCA - Breast invasive adenocarcinoma(55;7.7e-05)|Epithelial(33;0.000937)|KIRC - Kidney renal clear cell carcinoma(39;0.0579)|Kidney(39;0.0743)														---	---	---	---
FAM19A1	407738	broad.mit.edu	37	3	68522621	68522621	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:68522621delT	uc003dnd.2	+						FAM19A1_uc003dne.2_Intron|FAM19A1_uc003dng.2_Intron	NM_213609	NP_998774			family with sequence similarity 19 (chemokine							endoplasmic reticulum|extracellular region				ovary(1)	1		Lung NSC(201;0.0117)		BRCA - Breast invasive adenocarcinoma(55;7.7e-05)|Epithelial(33;0.000937)|KIRC - Kidney renal clear cell carcinoma(39;0.0579)|Kidney(39;0.0743)														---	---	---	---
FAM19A1	407738	broad.mit.edu	37	3	68568262	68568263	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:68568262_68568263delTG	uc003dnd.2	+						FAM19A1_uc003dne.2_Intron|FAM19A1_uc003dng.2_Intron	NM_213609	NP_998774			family with sequence similarity 19 (chemokine							endoplasmic reticulum|extracellular region				ovary(1)	1		Lung NSC(201;0.0117)		BRCA - Breast invasive adenocarcinoma(55;7.7e-05)|Epithelial(33;0.000937)|KIRC - Kidney renal clear cell carcinoma(39;0.0579)|Kidney(39;0.0743)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	68653917	68653918	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:68653917_68653918delAA								FAM19A1 (59148 upstream) : FAM19A4 (126999 downstream)																																			---	---	---	---
ARL6IP5	10550	broad.mit.edu	37	3	69149253	69149253	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:69149253delT	uc003dnr.2	+							NM_006407	NP_006398			ADP-ribosylation-like factor 6 interacting						L-glutamate transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.78e-05)|Epithelial(33;0.000818)|LUSC - Lung squamous cell carcinoma(21;0.0118)|Lung(16;0.0189)|KIRC - Kidney renal clear cell carcinoma(39;0.203)|Kidney(39;0.238)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	69638880	69638880	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:69638880delA								FRMD4B (47147 upstream) : MITF (149753 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	69641463	69641463	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:69641463delT								FRMD4B (49730 upstream) : MITF (147170 downstream)																																			---	---	---	---
MITF	4286	broad.mit.edu	37	3	69813354	69813355	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:69813354_69813355insT	uc003dnz.2	+						MITF_uc011bgb.1_Intron|MITF_uc003doa.2_Intron	NM_198159	NP_937802			microphthalmia-associated transcription factor						melanocyte differentiation|multicellular organismal development|protein complex assembly	nucleus|protein complex	DNA binding|protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			ovary(2)	2		Lung NSC(201;0.0384)|Prostate(884;0.0526)		BRCA - Breast invasive adenocarcinoma(55;3.07e-05)|Epithelial(33;0.000138)|LUSC - Lung squamous cell carcinoma(21;0.008)|Lung(16;0.0107)|KIRC - Kidney renal clear cell carcinoma(39;0.204)|Kidney(39;0.239)				A		melanoma 		Waardenburg syndrome type 2|Tietz syndrome						---	---	---	---
MITF	4286	broad.mit.edu	37	3	69857642	69857642	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:69857642delA	uc003dnz.2	+						MITF_uc011bgb.1_Intron|MITF_uc003doa.2_Intron	NM_198159	NP_937802			microphthalmia-associated transcription factor						melanocyte differentiation|multicellular organismal development|protein complex assembly	nucleus|protein complex	DNA binding|protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			ovary(2)	2		Lung NSC(201;0.0384)|Prostate(884;0.0526)		BRCA - Breast invasive adenocarcinoma(55;3.07e-05)|Epithelial(33;0.000138)|LUSC - Lung squamous cell carcinoma(21;0.008)|Lung(16;0.0107)|KIRC - Kidney renal clear cell carcinoma(39;0.204)|Kidney(39;0.239)				A		melanoma 		Waardenburg syndrome type 2|Tietz syndrome						---	---	---	---
Unknown	0	broad.mit.edu	37	3	70147528	70147528	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:70147528delT								MITF (130042 upstream) : FOXP1 (857209 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	70304779	70304779	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:70304779delT								MITF (287293 upstream) : FOXP1 (699958 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	70381755	70381755	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:70381755delT								MITF (364269 upstream) : FOXP1 (622982 downstream)																																			---	---	---	---
FOXP1	27086	broad.mit.edu	37	3	71318250	71318250	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:71318250delT	uc003dop.2	-						FOXP1_uc003dom.2_Intron|FOXP1_uc003don.2_Intron|FOXP1_uc003doo.2_Intron|FOXP1_uc003doq.1_Intron|FOXP1_uc003dos.2_Intron	NM_032682	NP_116071			forkhead box P1 isoform 1						cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)				T	PAX5	ALL								---	---	---	---
FOXP1	27086	broad.mit.edu	37	3	71510955	71510956	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:71510955_71510956delAA	uc003dop.2	-						FOXP1_uc003don.2_Intron|FOXP1_uc003doo.2_Intron|FOXP1_uc003dos.2_Intron	NM_032682	NP_116071			forkhead box P1 isoform 1						cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)				T	PAX5	ALL								---	---	---	---
FOXP1	27086	broad.mit.edu	37	3	71597915	71597916	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:71597915_71597916insC	uc003dop.2	-						FOXP1_uc003doo.2_Intron|FOXP1_uc003dos.2_Intron	NM_032682	NP_116071			forkhead box P1 isoform 1						cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)				T	PAX5	ALL								---	---	---	---
FOXP1	27086	broad.mit.edu	37	3	71620116	71620117	+	Intron	INS	-	T	T	rs138802567	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:71620116_71620117insT	uc003dop.2	-						FOXP1_uc003doo.2_Intron|FOXP1_uc003dos.2_Intron|uc003dou.2_RNA	NM_032682	NP_116071			forkhead box P1 isoform 1						cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)				T	PAX5	ALL								---	---	---	---
Unknown	0	broad.mit.edu	37	3	71808091	71808091	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:71808091delT								GPR27 (3764 upstream) : PROK2 (12716 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	71991163	71991163	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:71991163delT								PROK2 (156806 upstream) : RYBP (432588 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	72155132	72155132	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:72155132delA								PROK2 (320775 upstream) : RYBP (268619 downstream)																																			---	---	---	---
SHQ1	55164	broad.mit.edu	37	3	72845343	72845343	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:72845343delA	uc003dpf.2	-						SHQ1_uc010hod.2_Intron	NM_018130	NP_060600			SHQ1 homolog						ribonucleoprotein complex assembly	cytosol|nucleoplasm	protein binding			ovary(2)|large_intestine(1)	3		Prostate(10;0.00482)|Lung NSC(201;0.0339)|Myeloproliferative disorder(1037;0.204)		BRCA - Breast invasive adenocarcinoma(55;9.68e-05)|Epithelial(33;0.000563)|LUSC - Lung squamous cell carcinoma(21;0.00229)|Lung(16;0.00688)|KIRC - Kidney renal clear cell carcinoma(39;0.018)|Kidney(39;0.0213)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	73783658	73783658	+	IGR	DEL	A	-	-	rs78753352		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:73783658delA								PDZRN3 (109586 upstream) : CNTN3 (528064 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	73911579	73911580	+	IGR	INS	-	CCT	CCT	rs140095664	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:73911579_73911580insCCT								PDZRN3 (237507 upstream) : CNTN3 (400142 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	73958688	73958688	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:73958688delT								PDZRN3 (284616 upstream) : CNTN3 (353034 downstream)																																			---	---	---	---
CNTN3	5067	broad.mit.edu	37	3	74533511	74533511	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:74533511delA	uc003dpm.1	-							NM_020872	NP_065923			contactin 3 precursor						cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)														---	---	---	---
CNTN3	5067	broad.mit.edu	37	3	74571935	74571935	+	5'Flank	DEL	A	-	-	rs141929219		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:74571935delA	uc003dpm.1	-							NM_020872	NP_065923			contactin 3 precursor						cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	74736549	74736550	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:74736549_74736550delGA								CNTN3 (166206 upstream) : FAM86D (734155 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	75133402	75133402	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:75133402delA								CNTN3 (563059 upstream) : FAM86D (337303 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	75695808	75695809	+	IGR	INS	-	G	G	rs148569965		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:75695808_75695809insG								MIR1324 (15799 upstream) : ZNF717 (62985 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	76003117	76003117	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:76003117delT								ZNF717 (168447 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	76057888	76057889	+	IGR	DEL	TT	-	-	rs35043424		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:76057888_76057889delTT								ZNF717 (223218 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	76061773	76061773	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:76061773delT								ZNF717 (227103 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	76116650	76116651	+	IGR	INS	-	A	A	rs143590001	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:76116650_76116651insA								ZNF717 (281980 upstream) : ROBO2 (972643 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	76292081	76292084	+	IGR	DEL	AAAC	-	-	rs140231081		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:76292081_76292084delAAAC								ZNF717 (457411 upstream) : ROBO2 (797210 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	76492499	76492499	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:76492499delA								ZNF717 (657829 upstream) : ROBO2 (596795 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	76612257	76612257	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:76612257delT								ZNF717 (777587 upstream) : ROBO2 (477037 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	76693425	76693425	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:76693425delA								ZNF717 (858755 upstream) : ROBO2 (395869 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	76788780	76788780	+	IGR	DEL	A	-	-	rs113387149		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:76788780delA								ZNF717 (954110 upstream) : ROBO2 (300514 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	76984111	76984114	+	IGR	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:76984111_76984114delTTTT								None (None upstream) : ROBO2 (105180 downstream)																																			---	---	---	---
ROBO2	6092	broad.mit.edu	37	3	77685743	77685743	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:77685743delA	uc003dpy.3	+						ROBO2_uc003dpz.2_Intron|ROBO2_uc011bgj.1_Intron|ROBO2_uc011bgk.1_Intron	NM_002942	NP_002933			roundabout, axon guidance receptor, homolog 2						apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	77734702	77734702	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:77734702delT								ROBO2 (38041 upstream) : ROBO1 (911686 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	77834996	77834996	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:77834996delA								ROBO2 (138335 upstream) : ROBO1 (811392 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	77877395	77877395	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:77877395delA								ROBO2 (180734 upstream) : ROBO1 (768993 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	78353522	78353522	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:78353522delA								ROBO2 (656861 upstream) : ROBO1 (292866 downstream)																																			---	---	---	---
ROBO1	6091	broad.mit.edu	37	3	78754129	78754129	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:78754129delT	uc003dqe.2	-						ROBO1_uc003dqb.2_Intron|ROBO1_uc003dqc.2_Intron|ROBO1_uc003dqd.2_Intron|ROBO1_uc003dqf.1_Intron	NM_002941	NP_002932			roundabout 1 isoform a						activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)														---	---	---	---
ROBO1	6091	broad.mit.edu	37	3	79209384	79209385	+	Intron	INS	-	TGTG	TGTG	rs142663481	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:79209384_79209385insTGTG	uc003dqe.2	-							NM_002941	NP_002932			roundabout 1 isoform a						activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)														---	---	---	---
ROBO1	6091	broad.mit.edu	37	3	79416358	79416358	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:79416358delT	uc003dqe.2	-							NM_002941	NP_002932			roundabout 1 isoform a						activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)														---	---	---	---
ROBO1	6091	broad.mit.edu	37	3	79547160	79547161	+	Intron	INS	-	TT	TT	rs139198623	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:79547160_79547161insTT	uc003dqe.2	-							NM_002941	NP_002932			roundabout 1 isoform a						activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)														---	---	---	---
ROBO1	6091	broad.mit.edu	37	3	79618172	79618172	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:79618172delA	uc003dqe.2	-							NM_002941	NP_002932			roundabout 1 isoform a						activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)														---	---	---	---
ROBO1	6091	broad.mit.edu	37	3	79804587	79804587	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:79804587delC	uc003dqe.2	-							NM_002941	NP_002932			roundabout 1 isoform a						activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	80034972	80034972	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:80034972delT								ROBO1 (217913 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	80070441	80070441	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:80070441delT								ROBO1 (253382 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	80214127	80214127	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:80214127delA								ROBO1 (397068 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	80510354	80510355	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:80510354_80510355delAC								ROBO1 (693295 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	81180099	81180099	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:81180099delT								None (None upstream) : GBE1 (358751 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	81492263	81492263	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:81492263delG								None (None upstream) : GBE1 (46587 downstream)																																			---	---	---	---
GBE1	2632	broad.mit.edu	37	3	81541898	81541898	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:81541898delT	uc003dqg.2	-							NM_000158	NP_000149			glucan (1,4-alpha-), branching enzyme 1						glucose metabolic process|glycogen biosynthetic process	cytosol	1,4-alpha-glucan branching enzyme activity|cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(3)	3		Lung NSC(201;0.0117)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0654)|Epithelial(33;0.00305)|LUSC - Lung squamous cell carcinoma(29;0.00646)|BRCA - Breast invasive adenocarcinoma(55;0.00813)|Lung(72;0.0129)|KIRC - Kidney renal clear cell carcinoma(39;0.212)|Kidney(39;0.247)										Glycogen_Storage_Disease_type_IV				---	---	---	---
GBE1	2632	broad.mit.edu	37	3	81663180	81663180	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:81663180delT	uc003dqg.2	-						GBE1_uc011bgm.1_Intron	NM_000158	NP_000149			glucan (1,4-alpha-), branching enzyme 1						glucose metabolic process|glycogen biosynthetic process	cytosol	1,4-alpha-glucan branching enzyme activity|cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(3)	3		Lung NSC(201;0.0117)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0654)|Epithelial(33;0.00305)|LUSC - Lung squamous cell carcinoma(29;0.00646)|BRCA - Breast invasive adenocarcinoma(55;0.00813)|Lung(72;0.0129)|KIRC - Kidney renal clear cell carcinoma(39;0.212)|Kidney(39;0.247)										Glycogen_Storage_Disease_type_IV				---	---	---	---
Unknown	0	broad.mit.edu	37	3	82182440	82182440	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:82182440delA	uc003dqh.1	+											Homo sapiens cDNA clone IMAGE:5271111.																														---	---	---	---
Unknown	0	broad.mit.edu	37	3	82354696	82354696	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:82354696delG	uc003dqh.1	+											Homo sapiens cDNA clone IMAGE:5271111.																														---	---	---	---
Unknown	0	broad.mit.edu	37	3	82676397	82676397	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:82676397delT								GBE1 (865447 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	82708986	82708987	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:82708986_82708987insT								GBE1 (898036 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	82883976	82883976	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:82883976delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	83643492	83643492	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:83643492delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	83837517	83837517	+	IGR	DEL	T	-	-	rs77515042		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:83837517delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	83877998	83877998	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:83877998delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	83939905	83939905	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:83939905delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	84289453	84289453	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:84289453delA								None (None upstream) : CADM2 (718680 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	84669053	84669055	+	IGR	DEL	CTG	-	-	rs142421617		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:84669053_84669055delCTG								None (None upstream) : CADM2 (339078 downstream)																																			---	---	---	---
CADM2	253559	broad.mit.edu	37	3	85268926	85268927	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:85268926_85268927insA	uc003dqj.2	+						CADM2_uc003dqk.2_Intron	NM_153184	NP_694854			immunoglobulin superfamily, member 4D						adherens junction organization|cell junction assembly	integral to membrane|plasma membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4		Lung NSC(201;0.0148)		LUSC - Lung squamous cell carcinoma(29;0.000815)|Lung(72;0.00304)|BRCA - Breast invasive adenocarcinoma(55;0.156)|Epithelial(33;0.157)														---	---	---	---
CADM2	253559	broad.mit.edu	37	3	86048653	86048653	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:86048653delA	uc003dqj.2	+						CADM2_uc003dqk.2_Intron|CADM2_uc003dql.2_Intron	NM_153184	NP_694854			immunoglobulin superfamily, member 4D						adherens junction organization|cell junction assembly	integral to membrane|plasma membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4		Lung NSC(201;0.0148)		LUSC - Lung squamous cell carcinoma(29;0.000815)|Lung(72;0.00304)|BRCA - Breast invasive adenocarcinoma(55;0.156)|Epithelial(33;0.157)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	86198050	86198051	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:86198050_86198051insA								CADM2 (80102 upstream) : VGLL3 (789074 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	86714974	86714975	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:86714974_86714975insT								CADM2 (597026 upstream) : VGLL3 (272150 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	86960019	86960019	+	IGR	DEL	A	-	-	rs11356282		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:86960019delA								CADM2 (842071 upstream) : VGLL3 (27106 downstream)																																			---	---	---	---
VGLL3	389136	broad.mit.edu	37	3	87025265	87025265	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:87025265delA	uc003dqn.2	-							NM_016206	NP_057290			colon carcinoma related protein						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	all_cancers(8;0.109)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00241)|Lung(72;0.00712)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	87396907	87396907	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:87396907delA								POU1F1 (71170 upstream) : HTR1F (634819 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	87427121	87427121	+	IGR	DEL	A	-	-	rs72106144		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:87427121delA								POU1F1 (101384 upstream) : HTR1F (604605 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	87694337	87694337	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:87694337delA								POU1F1 (368600 upstream) : HTR1F (337389 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	87855076	87855076	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:87855076delT								POU1F1 (529339 upstream) : HTR1F (176650 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	88333428	88333428	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:88333428delA								C3orf38 (126315 upstream) : EPHA3 (823246 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	89087289	89087290	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:89087289_89087290insA								C3orf38 (880176 upstream) : EPHA3 (69384 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	89836452	89836452	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:89836452delT								EPHA3 (305170 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	93514110	93514110	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:93514110delA								None (None upstream) : PROS1 (77772 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	94057602	94057602	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:94057602delT								NSUN3 (211972 upstream) : LOC255025 (599505 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	94240094	94240094	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:94240094delT								NSUN3 (394464 upstream) : LOC255025 (417013 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	94373222	94373222	+	IGR	DEL	C	-	-	rs112299580		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:94373222delC								NSUN3 (527592 upstream) : LOC255025 (283885 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	95047971	95047971	+	IGR	DEL	A	-	-	rs75009731		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:95047971delA								LOC255025 (152892 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	95064286	95064286	+	IGR	DEL	A	-	-	rs5850983		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:95064286delA								LOC255025 (169207 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	95164327	95164327	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:95164327delA								LOC255025 (269248 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	95565786	95565787	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:95565786_95565787insA								LOC255025 (670707 upstream) : EPHA6 (967638 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	95642168	95642168	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:95642168delC								LOC255025 (747089 upstream) : EPHA6 (891257 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	95924743	95924743	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:95924743delA								None (None upstream) : EPHA6 (608682 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	96082766	96082766	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:96082766delA								None (None upstream) : EPHA6 (450659 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	96186359	96186359	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:96186359delA								None (None upstream) : EPHA6 (347066 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	96286289	96286289	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:96286289delT								None (None upstream) : EPHA6 (247136 downstream)																																			---	---	---	---
EPHA6	285220	broad.mit.edu	37	3	96544110	96544110	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:96544110delT	uc010how.1	+						EPHA6_uc003drp.1_Intron	NM_001080448	NP_001073917			EPH receptor A6 isoform a							integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16																		---	---	---	---
EPHA6	285220	broad.mit.edu	37	3	97018028	97018029	+	Intron	DEL	TG	-	-	rs71869402		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97018028_97018029delTG	uc010how.1	+							NM_001080448	NP_001073917			EPH receptor A6 isoform a							integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16																		---	---	---	---
EPHA6	285220	broad.mit.edu	37	3	97026826	97026826	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97026826delT	uc010how.1	+							NM_001080448	NP_001073917			EPH receptor A6 isoform a							integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16																		---	---	---	---
EPHA6	285220	broad.mit.edu	37	3	97063926	97063927	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97063926_97063927delAA	uc010how.1	+							NM_001080448	NP_001073917			EPH receptor A6 isoform a							integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16																		---	---	---	---
EPHA6	285220	broad.mit.edu	37	3	97443595	97443595	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97443595delT	uc010how.1	+						EPHA6_uc003drt.2_Intron|EPHA6_uc010hox.1_Intron	NM_001080448	NP_001073917			EPH receptor A6 isoform a							integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16																		---	---	---	---
EPHA6	285220	broad.mit.edu	37	3	97454698	97454698	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97454698delA	uc010how.1	+						EPHA6_uc003drt.2_Intron|EPHA6_uc010hox.1_Intron	NM_001080448	NP_001073917			EPH receptor A6 isoform a							integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16																		---	---	---	---
GABRR3	200959	broad.mit.edu	37	3	97738198	97738198	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97738198delC	uc011bgr.1	-							NM_001105580	NP_001099050			gamma-aminobutyric acid (GABA) receptor, rho 3						gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0																		---	---	---	---
GABRR3	200959	broad.mit.edu	37	3	97738438	97738438	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97738438delT	uc011bgr.1	-							NM_001105580	NP_001099050			gamma-aminobutyric acid (GABA) receptor, rho 3						gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	98403038	98403038	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:98403038delA								CPOX (90597 upstream) : ST3GAL6 (48114 downstream)																																			---	---	---	---
DCBLD2	131566	broad.mit.edu	37	3	98589501	98589502	+	Intron	DEL	AG	-	-	rs147387406		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:98589501_98589502delAG	uc003dtd.2	-						DCBLD2_uc003dte.2_Intron|DCBLD2_uc003dtf.1_Intron	NM_080927	NP_563615			discoidin, CUB and LCCL domain containing 2						cell adhesion|intracellular receptor mediated signaling pathway|negative regulation of cell growth|wound healing	cell surface|integral to plasma membrane				ovary(2)|central_nervous_system(1)	3																		---	---	---	---
COL8A1	1295	broad.mit.edu	37	3	99509436	99509436	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:99509436delT	uc003dtg.1	+						COL8A1_uc003dth.1_Intron|COL8A1_uc003dti.1_Intron	NM_001850	NP_001841			alpha 1 type VIII collagen precursor						angiogenesis|cell adhesion	basement membrane|collagen type VIII					0																		---	---	---	---
FILIP1L	11259	broad.mit.edu	37	3	99660035	99660035	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:99660035delT	uc003dtm.2	-						C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Intron	NM_182909	NP_878913			filamin A interacting protein 1-like isoform 1							cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1																		---	---	---	---
FILIP1L	11259	broad.mit.edu	37	3	99753910	99753910	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:99753910delT	uc003dtm.2	-						C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Intron	NM_182909	NP_878913			filamin A interacting protein 1-like isoform 1							cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1																		---	---	---	---
FILIP1L	11259	broad.mit.edu	37	3	99788818	99788818	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:99788818delT	uc003dtm.2	-						C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Intron	NM_182909	NP_878913			filamin A interacting protein 1-like isoform 1							cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1																		---	---	---	---
TBC1D23	55773	broad.mit.edu	37	3	99994324	99994324	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:99994324delT	uc003dtt.2	+						TBC1D23_uc003dts.2_Intron	NM_018309	NP_060779			TBC1 domain family, member 23							intracellular	Rab GTPase activator activity			ovary(1)|liver(1)	2																		---	---	---	---
TBC1D23	55773	broad.mit.edu	37	3	100038275	100038275	+	Intron	DEL	T	-	-	rs11383888		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100038275delT	uc003dtt.2	+						TBC1D23_uc003dts.2_Intron|TBC1D23_uc003dtu.2_Intron	NM_018309	NP_060779			TBC1 domain family, member 23							intracellular	Rab GTPase activator activity			ovary(1)|liver(1)	2																		---	---	---	---
NIT2	56954	broad.mit.edu	37	3	100051291	100051291	+	5'Flank	DEL	T	-	-	rs139002027		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100051291delT	uc003dtv.2	+						NIT2_uc011bha.1_5'Flank	NM_020202	NP_064587			nitrilase family, member 2						nitrogen compound metabolic process		omega-amidase activity			ovary(1)	1																		---	---	---	---
NIT2	56954	broad.mit.edu	37	3	100060223	100060223	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100060223delT	uc003dtv.2	+						NIT2_uc011bha.1_Intron	NM_020202	NP_064587			nitrilase family, member 2						nitrogen compound metabolic process		omega-amidase activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	100183000	100183000	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100183000delT								LNP1 (7831 upstream) : TMEM45A (28463 downstream)																																			---	---	---	---
ABI3BP	25890	broad.mit.edu	37	3	100583652	100583652	+	Intron	DEL	A	-	-	rs10711419		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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	100586086	100586086	+	Intron	DEL	A	-	-	rs11346453		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100586086delA	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																		---	---	---	---
ABI3BP	25890	broad.mit.edu	37	3	100595247	100595247	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100595247delA	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	101364525	101364525	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:101364525delA								PCNP (51246 upstream) : ZBTB11 (3760 downstream)																																			---	---	---	---
ZPLD1	131368	broad.mit.edu	37	3	101900154	101900154	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:101900154delT	uc003dvs.1	+							NM_175056	NP_778226			zona pellucida-like domain containing 1							integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	102221268	102221270	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:102221268_102221270delTTT								ZPLD1 (22583 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	102299894	102299894	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:102299894delT								ZPLD1 (101209 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	102403305	102403305	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:102403305delC								ZPLD1 (204620 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	102865271	102865271	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:102865271delT								ZPLD1 (666586 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	102970153	102970153	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:102970153delT								ZPLD1 (771468 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	103264464	103264464	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:103264464delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	103309508	103309508	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:103309508delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	103402562	103402562	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:103402562delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	103511301	103511301	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:103511301delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	103623452	103623453	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:103623452_103623453insA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	104071337	104071337	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:104071337delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	104302122	104302122	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:104302122delA								None (None upstream) : ALCAM (783591 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	104324631	104324631	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:104324631delT								None (None upstream) : ALCAM (761082 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	104666330	104666330	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:104666330delT								None (None upstream) : ALCAM (419383 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	104944875	104944875	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:104944875delA								None (None upstream) : ALCAM (140838 downstream)																																			---	---	---	---
ALCAM	214	broad.mit.edu	37	3	105087305	105087305	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:105087305delT	uc003dvx.2	+						ALCAM_uc003dvv.2_Intron|ALCAM_uc003dvw.1_Intron|ALCAM_uc003dvy.2_Intron	NM_001627	NP_001618			activated leukocyte cell adhesion molecule						cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	106296573	106296573	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:106296573delA								CBLB (708307 upstream) : LOC100302640 (259087 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	106347305	106347306	+	IGR	INS	-	AC	AC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:106347305_106347306insAC								CBLB (759039 upstream) : LOC100302640 (208354 downstream)																																			---	---	---	---
LOC100302640	100302640	broad.mit.edu	37	3	106630551	106630552	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:106630551_106630552delTT	uc003dwf.3	-											Homo sapiens cDNA clone IMAGE:5284861.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	107138505	107138506	+	IGR	DEL	AA	-	-	rs150962431		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:107138505_107138506delAA								CCDC54 (41024 upstream) : BBX (103277 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	107682097	107682097	+	IGR	DEL	G	-	-	rs7632081	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:107682097delG								LOC285205 (34346 upstream) : CD47 (79844 downstream)																																			---	---	---	---
MYH15	22989	broad.mit.edu	37	3	108113444	108113444	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108113444delA	uc003dxa.1	-							NM_014981	NP_055796			myosin, heavy polypeptide 15							myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7																		---	---	---	---
MYH15	22989	broad.mit.edu	37	3	108170837	108170839	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108170837_108170839delAAA	uc003dxa.1	-							NM_014981	NP_055796			myosin, heavy polypeptide 15							myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7																		---	---	---	---
MYH15	22989	broad.mit.edu	37	3	108193072	108193072	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108193072delA	uc003dxa.1	-							NM_014981	NP_055796			myosin, heavy polypeptide 15							myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7																		---	---	---	---
KIAA1524	57650	broad.mit.edu	37	3	108299483	108299483	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108299483delT	uc003dxb.3	-						KIAA1524_uc003dxc.1_Intron|KIAA1524_uc010hpw.1_Intron	NM_020890	NP_065941			p90 autoantigen							cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
KIAA1524	57650	broad.mit.edu	37	3	108300479	108300479	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108300479delA	uc003dxb.3	-						KIAA1524_uc003dxc.1_Intron|KIAA1524_uc010hpw.1_Intron	NM_020890	NP_065941			p90 autoantigen							cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
DZIP3	9666	broad.mit.edu	37	3	108356320	108356320	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108356320delT	uc003dxd.2	+						DZIP3_uc003dxf.1_Intron|DZIP3_uc011bhm.1_Intron|DZIP3_uc003dxe.1_Intron|DZIP3_uc003dxg.1_Intron	NM_014648	NP_055463			DAZ interacting protein 3, zinc finger						protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	108527847	108527847	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108527847delA								RETNLB (51717 upstream) : TRAT1 (13784 downstream)																																			---	---	---	---
MORC1	27136	broad.mit.edu	37	3	108813667	108813667	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108813667delA	uc003dxl.2	-						MORC1_uc011bhn.1_Intron	NM_014429	NP_055244			MORC family CW-type zinc finger 1						cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8																		---	---	---	---
MORC1	27136	broad.mit.edu	37	3	108813922	108813922	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108813922delA	uc003dxl.2	-						MORC1_uc011bhn.1_Intron	NM_014429	NP_055244			MORC family CW-type zinc finger 1						cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8																		---	---	---	---
MORC1	27136	broad.mit.edu	37	3	108819640	108819641	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108819640_108819641insT	uc003dxl.2	-						MORC1_uc011bhn.1_Intron	NM_014429	NP_055244			MORC family CW-type zinc finger 1						cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	108887566	108887566	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108887566delA								MORC1 (50573 upstream) : C3orf66 (9446 downstream)																																			---	---	---	---
C3orf66	677779	broad.mit.edu	37	3	108899746	108899746	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108899746delG	uc003dxn.2	+							NR_026767				Homo sapiens cDNA FLJ41232 fis, clone BRAMY2030799.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	109385911	109385911	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:109385911delA								FLJ25363 (171897 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	109562799	109562799	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:109562799delA								FLJ25363 (348785 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	109711805	109711806	+	IGR	DEL	TT	-	-	rs112030134		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:109711805_109711806delTT								FLJ25363 (497791 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	109713289	109713289	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:109713289delT								FLJ25363 (499275 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	109947407	109947408	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:109947407_109947408delAA								FLJ25363 (733393 upstream) : PVRL3 (843457 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	110379613	110379614	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:110379613_110379614delAA								None (None upstream) : PVRL3 (411251 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	111202431	111202431	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111202431delG								PVRL3 (290058 upstream) : CD96 (58495 downstream)																																			---	---	---	---
CD96	10225	broad.mit.edu	37	3	111299251	111299251	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111299251delT	uc003dxw.2	+						CD96_uc003dxv.2_Intron|CD96_uc003dxx.2_Intron|CD96_uc010hpy.1_Intron	NM_198196	NP_937839			CD96 antigen isoform 1 precursor						cell adhesion|immune response|regulation of immune response	integral to plasma membrane				skin(2)|central_nervous_system(1)	3														Opitz_Trigonocephaly_syndrome				---	---	---	---
PHLDB2	90102	broad.mit.edu	37	3	111480428	111480429	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111480428_111480429delCT	uc003dyc.2	+						PLCXD2_uc003dya.2_Intron|PLCXD2_uc003dxz.2_Intron	NM_001134437	NP_001127909			pleckstrin homology-like domain, family B,							cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6																		---	---	---	---
TMPRSS7	344805	broad.mit.edu	37	3	111794515	111794515	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111794515delA	uc010hqb.2	+						TMPRSS7_uc011bhr.1_Intron	NM_001042575	NP_001036040			transmembrane protease, serine 7						proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2																		---	---	---	---
SLC9A10	285335	broad.mit.edu	37	3	111874037	111874037	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111874037delA	uc003dyu.2	-						SLC9A10_uc011bhu.1_Intron|SLC9A10_uc010hqc.2_Intron	NM_183061	NP_898884			sperm-specific sodium proton exchanger						cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5																		---	---	---	---
SLC9A10	285335	broad.mit.edu	37	3	111947800	111947800	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111947800delA	uc003dyu.2	-						SLC9A10_uc011bhu.1_Intron|SLC9A10_uc010hqc.2_Intron	NM_183061	NP_898884			sperm-specific sodium proton exchanger						cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5																		---	---	---	---
SLC35A5	55032	broad.mit.edu	37	3	112286646	112286646	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:112286646delA	uc003dze.2	+							NM_017945	NP_060415			solute carrier family 35, member A5							Golgi membrane|integral to membrane	nucleotide-sugar transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	112388707	112388707	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:112388707delC								CCDC80 (28730 upstream) : CD200R1L (145849 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	112851016	112851016	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:112851016delT								C3orf17 (112461 upstream) : BOC (79396 downstream)																																			---	---	---	---
BOC	91653	broad.mit.edu	37	3	113005753	113005754	+	3'UTR	DEL	TA	-	-	rs76380714	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113005753_113005754delTA	uc003dzx.2	+	20					BOC_uc003dzy.2_3'UTR|BOC_uc003dzz.2_3'UTR|BOC_uc003eab.2_3'UTR|BOC_uc003eac.2_Intron	NM_033254	NP_150279			brother of CDO precursor						cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)															---	---	---	---
WDR52	55779	broad.mit.edu	37	3	113079774	113079775	+	Intron	DEL	AA	-	-	rs111698499		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113079774_113079775delAA	uc003ead.1	-											RecName: Full=WD repeat protein 52.; Flags: Fragment;											central_nervous_system(1)	1																		---	---	---	---
CCDC52	152185	broad.mit.edu	37	3	113221547	113221547	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113221547delA	uc003eag.3	-						CCDC52_uc003eaf.3_Intron|CCDC52_uc011bie.1_Intron|CCDC52_uc003eai.1_Intron	NM_144718	NP_653319			coiled-coil domain containing 52						cell division|mitosis	centriole|spindle	protein binding				0																		---	---	---	---
NAA50	80218	broad.mit.edu	37	3	113459588	113459588	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113459588delT	uc003ean.1	-						NAA50_uc010hqm.1_5'Flank|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	113630082	113630082	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113630082delT	uc003eaq.3	+						GRAMD1C_uc011bil.1_Intron|GRAMD1C_uc011bim.1_Intron|GRAMD1C_uc003ear.2_Intron|GRAMD1C_uc003eas.2_Intron	NM_017577	NP_060047			GRAM domain containing 1C							integral to membrane				ovary(2)|skin(1)	3																		---	---	---	---
KIAA1407	57577	broad.mit.edu	37	3	113748648	113748648	+	Intron	DEL	A	-	-	rs12491049		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113748648delA	uc003eax.2	-						KIAA1407_uc011bin.1_Intron|KIAA1407_uc011bio.1_Intron|KIAA1407_uc011bip.1_Intron	NM_020817	NP_065868			hypothetical protein LOC57577											ovary(2)	2																		---	---	---	---
KIAA1407	57577	broad.mit.edu	37	3	113757930	113757930	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113757930delA	uc003eax.2	-						KIAA1407_uc011bin.1_Intron|KIAA1407_uc011bio.1_Intron|KIAA1407_uc011bip.1_Intron	NM_020817	NP_065868			hypothetical protein LOC57577											ovary(2)	2																		---	---	---	---
ZBTB20	26137	broad.mit.edu	37	3	114137363	114137363	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:114137363delA	uc003ebj.2	-						ZBTB20_uc010hqp.2_Intron|ZBTB20_uc003ebk.2_Intron|ZBTB20_uc003ebl.2_Intron|ZBTB20_uc003ebm.2_Intron|ZBTB20_uc003ebn.2_Intron	NM_015642	NP_056457			zinc finger and BTB domain containing 20 isoform						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)														---	---	---	---
ZBTB20	26137	broad.mit.edu	37	3	114167128	114167129	+	Intron	DEL	AA	-	-	rs111894767		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:114167128_114167129delAA	uc003ebj.2	-						ZBTB20_uc010hqp.2_Intron|ZBTB20_uc003ebk.2_Intron|ZBTB20_uc003ebl.2_Intron|ZBTB20_uc003ebm.2_Intron|ZBTB20_uc003ebn.2_Intron	NM_015642	NP_056457			zinc finger and BTB domain containing 20 isoform						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)														---	---	---	---
ZBTB20	26137	broad.mit.edu	37	3	114814432	114814432	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:114814432delA	uc003ebn.2	-						ZBTB20_uc003ebp.2_Intron	NM_015642	NP_056457			zinc finger and BTB domain containing 20 isoform						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	115005258	115005258	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:115005258delT								ZBTB20 (139131 upstream) : GAP43 (336893 downstream)																																			---	---	---	---
GAP43	2596	broad.mit.edu	37	3	115394250	115394250	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:115394250delA	uc003ebq.2	+						GAP43_uc003ebr.2_Intron	NM_002045	NP_002036			growth associated protein 43 isoform 2						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell differentiation|nervous system development|regulation of filopodium assembly|regulation of growth|response to wounding	cell junction|filopodium membrane|growth cone membrane|synapse	calmodulin binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.164)														---	---	---	---
LSAMP	4045	broad.mit.edu	37	3	115910869	115910870	+	Intron	INS	-	A	A	rs149692586	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:115910869_115910870insA	uc003ebt.2	-						LSAMP_uc011bis.1_Intron	NM_002338	NP_002329			limbic system-associated membrane protein						cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)														---	---	---	---
LSAMP	4045	broad.mit.edu	37	3	115920991	115920991	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:115920991delT	uc003ebt.2	-						LSAMP_uc011bis.1_Intron	NM_002338	NP_002329			limbic system-associated membrane protein						cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)														---	---	---	---
LSAMP	4045	broad.mit.edu	37	3	115945863	115945863	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:115945863delT	uc003ebt.2	-						LSAMP_uc011bis.1_Intron	NM_002338	NP_002329			limbic system-associated membrane protein						cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)														---	---	---	---
LSAMP	4045	broad.mit.edu	37	3	116002033	116002033	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:116002033delA	uc003ebt.2	-						LSAMP_uc011bis.1_Intron	NM_002338	NP_002329			limbic system-associated membrane protein						cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	116265601	116265601	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:116265601delA								LSAMP (741583 upstream) : LOC285194 (163034 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	116359086	116359089	+	IGR	DEL	TCCT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:116359086_116359089delTCCT								LSAMP (835068 upstream) : LOC285194 (69546 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	116402964	116402964	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:116402964delT								LSAMP (878946 upstream) : LOC285194 (25671 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	116442808	116442808	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:116442808delA								LOC285194 (6923 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	117003368	117003368	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:117003368delA								LOC285194 (567483 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	117182665	117182665	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:117182665delA								LOC285194 (746780 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	117428208	117428209	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:117428208_117428209insT								LOC285194 (992323 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	117482465	117482465	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:117482465delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	117579517	117579517	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:117579517delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	117632969	117632969	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:117632969delA								None (None upstream) : IGSF11 (986512 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	117913206	117913206	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:117913206delT								None (None upstream) : IGSF11 (706275 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	118009215	118009215	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:118009215delT								None (None upstream) : IGSF11 (610266 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	118428914	118428914	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:118428914delA	uc011biu.1	-											Homo sapiens clone HA_003061 mRNA sequence.																														---	---	---	---
Unknown	0	broad.mit.edu	37	3	118927922	118927922	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:118927922delT								UPK1B (3923 upstream) : B4GALT4 (2665 downstream)																																			---	---	---	---
C3orf1	51300	broad.mit.edu	37	3	119239211	119239212	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119239211_119239212insA	uc003ecn.2	+						C3orf1_uc003eco.2_Intron|C3orf1_uc003ecp.2_Intron	NM_016589	NP_057673			hypothetical protein LOC51300							integral to membrane|mitochondrial inner membrane	protein transporter activity				0				GBM - Glioblastoma multiforme(114;0.186)														---	---	---	---
GPR156	165829	broad.mit.edu	37	3	119910104	119910106	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119910104_119910106delAAA	uc011bjf.1	-						GPR156_uc011bjg.1_Intron	NM_153002	NP_694547			G protein-coupled receptor 156							integral to membrane|plasma membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.19)														---	---	---	---
FSTL1	11167	broad.mit.edu	37	3	120150506	120150506	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:120150506delA	uc003eds.2	-						FSTL1_uc011bjh.1_Intron|FSTL1_uc010hrb.2_Intron	NM_007085	NP_009016			follistatin-like 1 precursor						BMP signaling pathway	extracellular space	calcium ion binding|heparin binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.189)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	120216465	120216465	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:120216465delT								FSTL1 (46547 upstream) : NDUFB4 (98663 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	120566861	120566861	+	IGR	DEL	G	-	-	rs72293917		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:120566861delG								GTF2E1 (64946 upstream) : STXBP5L (60189 downstream)																																			---	---	---	---
STXBP5L	9515	broad.mit.edu	37	3	120759908	120759908	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:120759908delT	uc003eec.3	+						STXBP5L_uc011bji.1_Intron	NM_014980	NP_055795			syntaxin binding protein 5-like						exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)														---	---	---	---
STXBP5L	9515	broad.mit.edu	37	3	120808374	120808374	+	Intron	DEL	T	-	-	rs10713183		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:120808374delT	uc003eec.3	+						STXBP5L_uc011bji.1_Intron	NM_014980	NP_055795			syntaxin binding protein 5-like						exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)														---	---	---	---
POLQ	10721	broad.mit.edu	37	3	121199342	121199342	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121199342delT	uc003eee.3	-						POLQ_uc003eed.2_Intron	NM_199420	NP_955452			DNA polymerase theta						DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)									DNA_polymerases_(catalytic_subunits)					---	---	---	---
POLQ	10721	broad.mit.edu	37	3	121217164	121217164	+	Intron	DEL	A	-	-	rs76023468		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121217164delA	uc003eee.3	-							NM_199420	NP_955452			DNA polymerase theta						DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)									DNA_polymerases_(catalytic_subunits)					---	---	---	---
GOLGB1	2804	broad.mit.edu	37	3	121389364	121389364	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121389364delT	uc003eei.3	-						GOLGB1_uc010hrc.2_Intron|GOLGB1_uc003eej.3_Intron	NM_004487	NP_004478			golgi autoantigen, golgin subfamily b,						Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)														---	---	---	---
GOLGB1	2804	broad.mit.edu	37	3	121453239	121453246	+	Intron	DEL	GAAAAAAA	-	-	rs149545002		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121453239_121453246delGAAAAAAA	uc003eei.3	-						GOLGB1_uc010hrc.2_Intron|GOLGB1_uc003eej.3_Intron|GOLGB1_uc010hrd.1_Intron	NM_004487	NP_004478			golgi autoantigen, golgin subfamily b,						Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)														---	---	---	---
IQCB1	9657	broad.mit.edu	37	3	121497747	121497749	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121497747_121497749delAAA	uc010hre.1	-						IQCB1_uc003eek.2_Intron|IQCB1_uc010hrf.1_Intron	NM_001023570	NP_001018864			IQ motif containing B1 isoform a						cilium assembly|maintenance of organ identity|photoreceptor cell maintenance	centrosome|photoreceptor connecting cilium	calmodulin binding				0				GBM - Glioblastoma multiforme(114;0.0983)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	121605953	121605953	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121605953delT								EAF2 (581 upstream) : SLC15A2 (7218 downstream)																																			---	---	---	---
SLC15A2	6565	broad.mit.edu	37	3	121660273	121660273	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121660273delT	uc003eep.2	+	22					SLC15A2_uc011bjn.1_3'UTR	NM_021082	NP_066568			peptide transporter 2 isoform a						protein transport	integral to plasma membrane	peptide:hydrogen symporter activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.0967)	Cefadroxil(DB01140)													---	---	---	---
ILDR1	286676	broad.mit.edu	37	3	121716653	121716653	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121716653delA	uc003ees.2	-						ILDR1_uc003eeq.2_Intron|ILDR1_uc003eer.2_Intron|ILDR1_uc010hrg.2_Intron	NM_175924	NP_787120			immunoglobulin-like domain containing receptor							cytosol|integral to membrane|plasma membrane	receptor activity			skin(1)	1				GBM - Glioblastoma multiforme(114;0.156)														---	---	---	---
CASR	846	broad.mit.edu	37	3	121993592	121993592	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121993592delA	uc003eev.3	+						CASR_uc003eew.3_Intron	NM_000388	NP_000379			calcium-sensing receptor precursor						anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)													---	---	---	---
PARP15	165631	broad.mit.edu	37	3	122352371	122352373	+	Intron	DEL	TTT	-	-	rs76156427		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:122352371_122352373delTTT	uc003efm.2	+						PARP15_uc003efn.2_Intron|PARP15_uc003efo.1_Intron|PARP15_uc003efp.1_Intron|PARP15_uc011bjt.1_Intron	NM_001113523	NP_001106995			poly (ADP-ribose) polymerase family, member 15						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	NAD+ ADP-ribosyltransferase activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)	5				GBM - Glioblastoma multiforme(114;0.0531)														---	---	---	---
PARP14	54625	broad.mit.edu	37	3	122409240	122409240	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:122409240delT	uc003efq.3	+							NM_017554	NP_060024			poly (ADP-ribose) polymerase family, member 14						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)														---	---	---	---
SEMA5B	54437	broad.mit.edu	37	3	122631464	122631464	+	Intron	DEL	A	-	-	rs150722244		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:122631464delA	uc003efz.1	-						SEMA5B_uc011bju.1_Intron|SEMA5B_uc003ega.1_Intron|SEMA5B_uc003egb.1_Intron|SEMA5B_uc003efy.1_5'Flank	NM_001031702	NP_001026872			semaphorin 5B isoform 1						cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)														---	---	---	---
PDIA5	10954	broad.mit.edu	37	3	122811188	122811188	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:122811188delT	uc003egc.1	+						PDIA5_uc003egd.1_Intron	NM_006810	NP_006801			protein disulfide isomerase A5 precursor						cell redox homeostasis|glycerol ether metabolic process|protein folding|response to stress	endoplasmic reticulum lumen	electron carrier activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.0427)														---	---	---	---
SEC22A	26984	broad.mit.edu	37	3	122964979	122964979	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:122964979delT	uc003ege.2	+						SEC22A_uc003egf.2_Intron	NM_012430	NP_036562			SEC22 vesicle trafficking protein homolog A						ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|integral to membrane	transporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.0548)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	123318833	123318833	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:123318833delC	uc003egk.2	+											Homo sapiens cDNA clone IMAGE:5288594.																														---	---	---	---
MYLK	4638	broad.mit.edu	37	3	123371141	123371141	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:123371141delA	uc003ego.2	-						MYLK_uc010hrr.2_Intron|MYLK_uc011bjv.1_Intron|MYLK_uc011bjw.1_Intron|MYLK_uc003egp.2_Intron|MYLK_uc003egq.2_Intron|MYLK_uc003egr.2_Intron|MYLK_uc003egs.2_Intron	NM_053025	NP_444253			myosin light chain kinase isoform 1						aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)												OREG0015744	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
KALRN	8997	broad.mit.edu	37	3	124175366	124175366	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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																		---	---	---	---
KALRN	8997	broad.mit.edu	37	3	124311157	124311163	+	Intron	DEL	AAAAAAA	-	-	rs10575664		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:124311157_124311163delAAAAAAA	uc003ehg.2	+						KALRN_uc003ehi.2_Intron|KALRN_uc003ehk.2_Intron|KALRN_uc003ehj.2_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																		---	---	---	---
ITGB5	3693	broad.mit.edu	37	3	124513721	124513721	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:124513721delA	uc003eho.2	-						ITGB5_uc010hrx.2_Intron	NM_002213	NP_002204			integrin, beta 5 precursor						cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|muscle contraction	integrin complex	receptor activity			skin(2)	2				GBM - Glioblastoma multiforme(114;0.163)														---	---	---	---
ITGB5	3693	broad.mit.edu	37	3	124595819	124595819	+	Intron	DEL	T	-	-	rs71706983		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:124595819delT	uc003eho.2	-							NM_002213	NP_002204			integrin, beta 5 precursor						cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|muscle contraction	integrin complex	receptor activity			skin(2)	2				GBM - Glioblastoma multiforme(114;0.163)														---	---	---	---
HEG1	57493	broad.mit.edu	37	3	124714150	124714151	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:124714150_124714151delAA	uc003ehs.3	-						HEG1_uc003ehr.3_Intron|HEG1_uc011bke.1_Intron	NM_020733	NP_065784			HEG homolog 1 precursor							extracellular region|integral to membrane	calcium ion binding			ovary(2)	2																		---	---	---	---
ZNF148	7707	broad.mit.edu	37	3	124988224	124988225	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:124988224_124988225delAA	uc003ehx.3	-						SLC12A8_uc003ehw.3_Intron|ZNF148_uc003ehz.3_Intron|ZNF148_uc010hsa.2_Intron|ZNF148_uc003eia.3_Intron|ZNF148_uc003ehy.2_Intron	NM_021964	NP_068799			zinc finger protein 148						cellular defense response|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4																		---	---	---	---
OSBPL11	114885	broad.mit.edu	37	3	125279106	125279106	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:125279106delA	uc003eic.2	-							NM_022776	NP_073613			oxysterol binding protein-like 11						lipid transport		lipid binding			ovary(3)|breast(1)|kidney(1)	5																		---	---	---	---
ALDH1L1	10840	broad.mit.edu	37	3	125836958	125836958	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:125836958delG	uc003eim.1	-						ALDH1L1_uc010hse.1_Intron|ALDH1L1_uc011bki.1_Intron|ALDH1L1_uc003ein.1_5'Flank	NM_012190	NP_036322			aldehyde dehydrogenase 1 family, member L1						10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)													---	---	---	---
TXNRD3IT1	645840	broad.mit.edu	37	3	126361095	126361095	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126361095delG	uc003ejd.1	-						TXNRD3IT1_uc011bkl.1_Intron					RecName: Full=Thioredoxin reductase 3;          EC=1.8.1.9; AltName: Full=Thioredoxin reductase TR2; AltName: Full=Thioredoxin and glutathione reductase;												0																		---	---	---	---
CHCHD6	84303	broad.mit.edu	37	3	126490053	126490054	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126490053_126490054delTT	uc003ejf.1	+						CHCHD6_uc010hsj.1_Intron	NM_032343	NP_115719			coiled-coil-helix-coiled-coil-helix domain												0																		---	---	---	---
PODXL2	50512	broad.mit.edu	37	3	127367945	127367946	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127367945_127367946delTT	uc003ejq.2	+							NM_015720	NP_056535			podocalyxin-like 2 precursor						leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
RUVBL1	8607	broad.mit.edu	37	3	127839824	127839824	+	Intron	DEL	A	-	-	rs77898614		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127839824delA	uc003ekh.2	-						RUVBL1_uc003ekf.2_Intron|RUVBL1_uc010hss.2_Intron	NM_003707	NP_003698			RuvB-like 1						cell division|CenH3-containing nucleosome assembly at centromere|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|mitosis|regulation of growth|regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription, DNA-dependent	Golgi apparatus|Ino80 complex|membrane|microtubule organizing center|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|DNA helicase activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.181)														---	---	---	---
EEFSEC	60678	broad.mit.edu	37	3	127905638	127905638	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127905638delT	uc003eki.2	+						EEFSEC_uc003ekj.2_Intron	NM_021937	NP_068756			eukaryotic elongation factor,							cytoplasm|nucleus	GTP binding|GTPase activity|translation elongation factor activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	128435152	128435156	+	IGR	DEL	TTTTT	-	-	rs78939892		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:128435152_128435156delTTTTT								RPN1 (35234 upstream) : RAB7A (9823 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	128436527	128436527	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:128436527delA								RPN1 (36609 upstream) : RAB7A (8452 downstream)																																			---	---	---	---
RAB7A	7879	broad.mit.edu	37	3	128476809	128476809	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:128476809delT	uc003eks.1	+						RAB7A_uc010hsv.1_Intron	NM_004637	NP_004628			RAB7, member RAS oncogene family						endocytosis|endosome to lysosome transport|epidermal growth factor catabolic process|protein transport|small GTPase mediated signal transduction	Golgi apparatus|late endosome|lysosome|melanosome|phagocytic vesicle	GDP binding|GTP binding|GTPase activity|protein binding				0				GBM - Glioblastoma multiforme(114;0.231)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	128957607	128957607	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:128957607delT								CNBP (54797 upstream) : COPG (10846 downstream)																																			---	---	---	---
IFT122	55764	broad.mit.edu	37	3	129161424	129161425	+	Intron	INS	-	C	C	rs61060445	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129161424_129161425insC	uc003emm.2	+						IFT122_uc003eml.2_Intron|IFT122_uc003emn.2_Intron|IFT122_uc003emo.2_Intron|IFT122_uc003emp.2_Intron|IFT122_uc010htc.2_Intron|IFT122_uc011bky.1_Intron|IFT122_uc003emq.2_Intron|MBD4_uc003emh.1_5'Flank|MBD4_uc003emi.1_5'Flank|MBD4_uc003emj.1_5'Flank|MBD4_uc003emk.1_5'Flank|MBD4_uc011bkw.1_5'Flank|IFT122_uc011bkx.1_Intron	NM_052989	NP_443715			WD repeat domain 10 isoform 2						camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2																		---	---	---	---
IFT122	55764	broad.mit.edu	37	3	129183764	129183764	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129183764delT	uc003emm.2	+						IFT122_uc003eml.2_Intron|IFT122_uc003emn.2_Intron|IFT122_uc003emo.2_Intron|IFT122_uc003emp.2_Intron|IFT122_uc010htc.2_Intron|IFT122_uc011bky.1_Intron|IFT122_uc003emq.2_Intron|IFT122_uc003emr.2_Intron|IFT122_uc011bla.1_Intron|IFT122_uc011bkx.1_Intron|IFT122_uc011bkz.1_Intron	NM_052989	NP_443715			WD repeat domain 10 isoform 2						camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2																		---	---	---	---
IFT122	55764	broad.mit.edu	37	3	129183958	129183977	+	Intron	DEL	GTGTGTGTGTGTGTGTGTGT	-	-	rs72400649		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129183958_129183977delGTGTGTGTGTGTGTGTGTGT	uc003emm.2	+						IFT122_uc003eml.2_Intron|IFT122_uc003emn.2_Intron|IFT122_uc003emo.2_Intron|IFT122_uc003emp.2_Intron|IFT122_uc010htc.2_Intron|IFT122_uc011bky.1_Intron|IFT122_uc003emq.2_Intron|IFT122_uc003emr.2_Intron|IFT122_uc011bla.1_Intron|IFT122_uc011bkx.1_Intron|IFT122_uc011bkz.1_Intron	NM_052989	NP_443715			WD repeat domain 10 isoform 2						camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2																		---	---	---	---
IFT122	55764	broad.mit.edu	37	3	129223752	129223753	+	Intron	INS	-	CTCAC	CTCAC	rs143085494	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129223752_129223753insCTCAC	uc003emm.2	+						IFT122_uc003eml.2_Intron|IFT122_uc003emn.2_Intron|IFT122_uc003emo.2_Intron|IFT122_uc003emp.2_Intron|IFT122_uc010htc.2_Intron|IFT122_uc011bky.1_Intron|IFT122_uc003emq.2_Intron|IFT122_uc003emr.2_Intron|IFT122_uc011bla.1_Intron|IFT122_uc010hte.2_Intron|IFT122_uc003ems.2_Intron|IFT122_uc011bkx.1_Intron|IFT122_uc010htd.1_Intron	NM_052989	NP_443715			WD repeat domain 10 isoform 2						camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2																		---	---	---	---
TMCC1	23023	broad.mit.edu	37	3	129575769	129575770	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129575769_129575770delTT	uc003emz.3	-						TMCC1_uc010htg.2_Intron	NM_001017395	NP_001017395			transmembrane and coiled-coil domain family 1							integral to membrane				skin(1)	1																		---	---	---	---
TMCC1	23023	broad.mit.edu	37	3	129579086	129579086	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129579086delT	uc003emz.3	-						TMCC1_uc010htg.2_Intron	NM_001017395	NP_001017395			transmembrane and coiled-coil domain family 1							integral to membrane				skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	130032394	130032394	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130032394delT								COL6A4P2 (39746 upstream) : COL29A1 (31965 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	130049809	130049809	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130049809delA								COL6A4P2 (57161 upstream) : COL29A1 (14550 downstream)																																			---	---	---	---
COL29A1	256076	broad.mit.edu	37	3	130111919	130111921	+	Intron	DEL	TTG	-	-	rs111656352		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130111919_130111921delTTG	uc010htj.1	+						COL29A1_uc010hti.1_Intron	NM_153264	NP_694996			collagen, type XXIX, alpha 1						axon guidance|cell adhesion	collagen					0																		---	---	---	---
COL29A1	256076	broad.mit.edu	37	3	130155533	130155533	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130155533delT	uc010htj.1	+						COL29A1_uc010hti.1_Intron	NM_153264	NP_694996			collagen, type XXIX, alpha 1						axon guidance|cell adhesion	collagen					0																		---	---	---	---
COL6A6	131873	broad.mit.edu	37	3	130381353	130381353	+	Intron	DEL	T	-	-	rs146981165		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130381353delT	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																		---	---	---	---
PIK3R4	30849	broad.mit.edu	37	3	130423986	130423987	+	Intron	INS	-	A	A	rs4682628	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130423986_130423987insA	uc003enj.2	-							NM_014602	NP_055417			phosphoinositide-3-kinase, regulatory subunit 4						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																		---	---	---	---
PIK3R4	30849	broad.mit.edu	37	3	130446995	130446995	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130446995delA	uc003enj.2	-							NM_014602	NP_055417			phosphoinositide-3-kinase, regulatory subunit 4						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																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	130475689	130475689	+	IGR	DEL	T	-	-	rs76545437		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130475689delT								PIK3R4 (9993 upstream) : ATP2C1 (93756 downstream)																																			---	---	---	---
ATP2C1	27032	broad.mit.edu	37	3	130576305	130576305	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130576305delA	uc011bli.1	+						ATP2C1_uc011blg.1_Intron|ATP2C1_uc011blh.1_Intron	NM_001001487	NP_001001487			calcium-transporting ATPase 2C1 isoform 1b						actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)									Hailey-Hailey_disease				---	---	---	---
ATP2C1	27032	broad.mit.edu	37	3	130636820	130636820	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130636820delT	uc003enl.2	+						ATP2C1_uc011blg.1_Intron|ATP2C1_uc011blh.1_Intron|ATP2C1_uc011bli.1_Intron|ATP2C1_uc003enk.2_Intron|ATP2C1_uc003enm.2_Intron|ATP2C1_uc003enn.2_Intron|ATP2C1_uc003eno.2_Intron|ATP2C1_uc003enp.2_Intron|ATP2C1_uc003enq.2_Intron|ATP2C1_uc003enr.2_Intron|ATP2C1_uc003ens.2_Intron|ATP2C1_uc003ent.2_Intron	NM_014382	NP_055197			calcium-transporting ATPase 2C1 isoform 1a						actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)									Hailey-Hailey_disease				---	---	---	---
NEK11	79858	broad.mit.edu	37	3	130904042	130904042	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130904042delT	uc003eny.2	+						NEK11_uc003eoa.2_Intron|NEK11_uc003enz.2_Intron|NEK11_uc010htn.2_Intron|NEK11_uc011blk.1_Intron|NEK11_uc011bll.1_Intron	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																		---	---	---	---
CPNE4	131034	broad.mit.edu	37	3	131883249	131883249	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:131883249delA	uc003eom.2	-							NM_130808	NP_570720			copine IV											upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
DNAJC13	23317	broad.mit.edu	37	3	132148148	132148148	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:132148148delT	uc003eor.2	+						DNAJC13_uc010htq.1_Intron	NM_015268	NP_056083			DnaJ (Hsp40) homolog, subfamily C, member 13								heat shock protein binding			ovary(1)|breast(1)	2																		---	---	---	---
NCRNA00119	348808	broad.mit.edu	37	3	132486730	132486731	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:132486730_132486731delTT	uc003epg.1	+							NR_002811				Homo sapiens cDNA clone IMAGE:4826885.												0																		---	---	---	---
NCRNA00119	348808	broad.mit.edu	37	3	132514452	132514452	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:132514452delT	uc003epg.1	+							NR_002811				Homo sapiens cDNA clone IMAGE:4826885.												0																		---	---	---	---
RAB6B	51560	broad.mit.edu	37	3	133580975	133580975	+	Intron	DEL	A	-	-	rs35280163		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:133580975delA	uc003epy.2	-						RAB6B_uc011blu.1_Intron	NM_016577	NP_057661			RAB6B, member RAS oncogene family						protein transport|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle|Golgi membrane	GTP binding|GTPase activity|protein binding			pancreas(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	134042521	134042521	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:134042521delA								RYK (72935 upstream) : AMOTL2 (28173 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	134113489	134113491	+	IGR	DEL	TTT	-	-	rs112965351		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:134113489_134113491delTTT								AMOTL2 (19230 upstream) : ANAPC13 (83056 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	134120178	134120179	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:134120178_134120179delAA								AMOTL2 (25919 upstream) : ANAPC13 (76368 downstream)																																			---	---	---	---
EPHB1	2047	broad.mit.edu	37	3	134825278	134825279	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:134825278_134825279delTT	uc003eqt.2	+						EPHB1_uc010htz.1_Intron|EPHB1_uc011bly.1_Intron|EPHB1_uc003equ.2_Intron	NM_004441	NP_004432			ephrin receptor EphB1 precursor							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																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	135524340	135524341	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:135524340_135524341delAA								EPHB1 (545035 upstream) : PPP2R3A (160226 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	135601087	135601087	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:135601087delA								EPHB1 (621782 upstream) : PPP2R3A (83480 downstream)																																			---	---	---	---
PPP2R3A	5523	broad.mit.edu	37	3	135698215	135698215	+	Intron	DEL	A	-	-	rs76548388		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:135698215delA	uc003eqv.1	+						PPP2R3A_uc011blz.1_Intron	NM_002718	NP_002709			protein phosphatase 2, regulatory subunit B'',						protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7																		---	---	---	---
PPP2R3A	5523	broad.mit.edu	37	3	135722518	135722519	+	Intron	DEL	AA	-	-	rs78480126		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:135722518_135722519delAA	uc003eqv.1	+						PPP2R3A_uc011blz.1_Intron	NM_002718	NP_002709			protein phosphatase 2, regulatory subunit B'',						protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7																		---	---	---	---
PPP2R3A	5523	broad.mit.edu	37	3	135730063	135730064	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:135730063_135730064delTT	uc003eqv.1	+						PPP2R3A_uc011blz.1_Intron	NM_002718	NP_002709			protein phosphatase 2, regulatory subunit B'',						protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7																		---	---	---	---
PPP2R3A	5523	broad.mit.edu	37	3	135825019	135825020	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:135825019_135825020insT	uc003eqv.1	+						PPP2R3A_uc011blz.1_Intron|PPP2R3A_uc003eqw.1_Intron	NM_002718	NP_002709			protein phosphatase 2, regulatory subunit B'',						protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7																		---	---	---	---
PPP2R3A	5523	broad.mit.edu	37	3	135832639	135832642	+	Intron	DEL	AAAA	-	-	rs111452142		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:135832639_135832642delAAAA	uc003eqv.1	+						PPP2R3A_uc011blz.1_Intron|PPP2R3A_uc003eqw.1_Intron	NM_002718	NP_002709			protein phosphatase 2, regulatory subunit B'',						protein dephosphorylation	protein phosphatase type 2A complex	calcium ion binding|protein binding|protein phosphatase type 2A regulator activity			ovary(3)|pancreas(1)|lung(1)|breast(1)|skin(1)	7																		---	---	---	---
MSL2	55167	broad.mit.edu	37	3	135912345	135912345	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:135912345delA	uc003eqx.1	-						MSL2_uc011bmb.1_Intron	NM_018133	NP_060603			ring finger protein 184 isoform 1						histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1																		---	---	---	---
STAG1	10274	broad.mit.edu	37	3	136155816	136155816	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:136155816delA	uc003era.1	-						STAG1_uc003erb.1_Intron|STAG1_uc003erc.1_Intron|STAG1_uc010hua.1_Intron	NM_005862	NP_005853			stromal antigen 1						cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2																		---	---	---	---
STAG1	10274	broad.mit.edu	37	3	136196443	136196443	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:136196443delA	uc003era.1	-						STAG1_uc003erb.1_Intron|STAG1_uc003erc.1_Intron|STAG1_uc010hua.1_Intron	NM_005862	NP_005853			stromal antigen 1						cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2																		---	---	---	---
STAG1	10274	broad.mit.edu	37	3	136219005	136219005	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:136219005delA	uc003era.1	-						STAG1_uc003erb.1_Intron|STAG1_uc003erc.1_Intron|STAG1_uc010hua.1_Intron|STAG1_uc003erd.2_3'UTR	NM_005862	NP_005853			stromal antigen 1						cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2																		---	---	---	---
STAG1	10274	broad.mit.edu	37	3	136281109	136281109	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:136281109delT	uc003era.1	-						STAG1_uc003erb.1_Intron|STAG1_uc003erc.1_Intron|STAG1_uc010hua.1_Intron|STAG1_uc003erd.2_Intron|STAG1_uc003ere.2_Intron	NM_005862	NP_005853			stromal antigen 1						cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2																		---	---	---	---
STAG1	10274	broad.mit.edu	37	3	136448025	136448025	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:136448025delT	uc003era.1	-						STAG1_uc003erb.1_Intron|STAG1_uc003erc.1_Intron|STAG1_uc010hua.1_Intron|STAG1_uc003ere.2_Intron	NM_005862	NP_005853			stromal antigen 1						cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2																		---	---	---	---
IL20RB	53833	broad.mit.edu	37	3	136681603	136681603	+	Intron	DEL	C	-	-	rs147854059		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:136681603delC	uc003eri.1	+						IL20RB_uc003erj.1_Intron	NM_144717	NP_653318			interleukin 20 receptor beta precursor							integral to membrane	receptor activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	137046701	137046701	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:137046701delT								IL20RB (316781 upstream) : SOX14 (436878 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	137169825	137169825	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:137169825delA								IL20RB (439905 upstream) : SOX14 (313754 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	137555195	137555196	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:137555195_137555196insT								SOX14 (70799 upstream) : CLDN18 (162462 downstream)																																			---	---	---	---
DBR1	51163	broad.mit.edu	37	3	137895379	137895379	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:137895379delT	uc003erv.2	-						DBR1_uc003eru.2_5'Flank	NM_016216	NP_057300			debranching enzyme homolog 1							nucleus	metal ion binding|RNA lariat debranching enzyme activity				0																		---	---	---	---
PIK3CB	5291	broad.mit.edu	37	3	138471065	138471065	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138471065delA	uc011bmq.1	-							NM_006219	NP_006210			catalytic phosphatidylinositol 3-kinase beta						activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	138958314	138958315	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138958314_138958315delTT								PISRT1 (5950 upstream) : MRPS22 (104483 downstream)																																			---	---	---	---
CLSTN2	64084	broad.mit.edu	37	3	140124403	140124404	+	Intron	INS	-	T	T	rs151137031	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:140124403_140124404insT	uc003etn.2	+						CLSTN2_uc003etm.2_Intron	NM_022131	NP_071414			calsyntenin 2 precursor						homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7															HNSCC(16;0.037)			---	---	---	---
CLSTN2	64084	broad.mit.edu	37	3	140260661	140260661	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:140260661delT	uc003etn.2	+						CLSTN2_uc003etm.2_Intron	NM_022131	NP_071414			calsyntenin 2 precursor						homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7															HNSCC(16;0.037)			---	---	---	---
Unknown	0	broad.mit.edu	37	3	140600014	140600014	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:140600014delA								TRIM42 (180023 upstream) : SLC25A36 (60648 downstream)																																			---	---	---	---
ZBTB38	253461	broad.mit.edu	37	3	141064111	141064111	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141064111delT	uc003etw.2	+							NM_001080412	NP_001073881			zinc finger and BTB domain containing 38						positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3																		---	---	---	---
ZBTB38	253461	broad.mit.edu	37	3	141097204	141097205	+	Intron	DEL	AC	-	-	rs10575001		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141097204_141097205delAC	uc003etw.2	+							NM_001080412	NP_001073881			zinc finger and BTB domain containing 38						positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3																		---	---	---	---
ZBTB38	253461	broad.mit.edu	37	3	141145859	141145859	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141145859delT	uc003etw.2	+						ZBTB38_uc010hun.2_Intron|ZBTB38_uc010huo.2_Intron|ZBTB38_uc003ety.2_Intron|ZBTB38_uc010hup.2_Intron	NM_001080412	NP_001073881			zinc finger and BTB domain containing 38						positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3																		---	---	---	---
RASA2	5922	broad.mit.edu	37	3	141310121	141310121	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141310121delA	uc003etz.1	+						RASA2_uc010huq.1_Intron|RASA2_uc003eua.1_Intron	NM_006506	NP_006497			RAS p21 protein activator 2						intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity			ovary(2)|lung(2)|breast(1)|skin(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	141435956	141435956	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141435956delT								RASA2 (104759 upstream) : RNF7 (21095 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	141655244	141655244	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141655244delA								ATP1B3 (9862 upstream) : TFDP2 (16085 downstream)																																			---	---	---	---
TFDP2	7029	broad.mit.edu	37	3	141673818	141673819	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141673818_141673819delAA	uc003eun.3	-						TFDP2_uc003euk.3_Intron|TFDP2_uc010hur.2_Intron|TFDP2_uc003eul.3_Intron|TFDP2_uc011bnf.1_Intron|TFDP2_uc011bng.1_Intron|TFDP2_uc003eum.3_Intron	NM_006286	NP_006277			transcription factor Dp-2 (E2F dimerization						cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|transcription factor binding			kidney(1)	1																		---	---	---	---
TFDP2	7029	broad.mit.edu	37	3	141703773	141703774	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141703773_141703774delTT	uc003eun.3	-						TFDP2_uc003euk.3_Intron|TFDP2_uc010hur.2_Intron|TFDP2_uc003eul.3_Intron|TFDP2_uc011bnf.1_Intron|TFDP2_uc011bng.1_Intron|TFDP2_uc003eum.3_Intron	NM_006286	NP_006277			transcription factor Dp-2 (E2F dimerization						cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|transcription factor binding			kidney(1)	1																		---	---	---	---
GK5	256356	broad.mit.edu	37	3	141885383	141885383	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141885383delT	uc003euq.1	-						GK5_uc003eup.1_Intron|GK5_uc010hus.1_Intron	NM_001039547	NP_001034636			glycerol kinase 5 (putative)						glycerol metabolic process		ATP binding|glycerol kinase activity				0																		---	---	---	---
GK5	256356	broad.mit.edu	37	3	141916864	141916866	+	Intron	DEL	AAA	-	-	rs77874467		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141916864_141916866delAAA	uc003euq.1	-						GK5_uc010hus.1_Intron	NM_001039547	NP_001034636			glycerol kinase 5 (putative)						glycerol metabolic process		ATP binding|glycerol kinase activity				0																		---	---	---	---
XRN1	54464	broad.mit.edu	37	3	142051517	142051517	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:142051517delA	uc003eus.2	-						XRN1_uc010huu.2_Intron|XRN1_uc003eut.2_Intron|XRN1_uc003euu.2_Intron	NM_019001	NP_061874			5'-3' exoribonuclease 1 isoform a						exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3																		---	---	---	---
XRN1	54464	broad.mit.edu	37	3	142065328	142065328	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:142065328delT	uc003eus.2	-						XRN1_uc010huu.2_Intron|XRN1_uc003eut.2_Intron|XRN1_uc003euu.2_Intron	NM_019001	NP_061874			5'-3' exoribonuclease 1 isoform a						exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	142869993	142869993	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:142869993delT								CHST2 (28183 upstream) : SLC9A9 (114072 downstream)																																			---	---	---	---
SLC9A9	285195	broad.mit.edu	37	3	143041757	143041758	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:143041757_143041758insA	uc003evn.2	-							NM_173653	NP_775924			solute carrier family 9 (sodium/hydrogen						regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	144056275	144056276	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:144056275_144056276delTC								C3orf58 (345066 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	144195649	144195650	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:144195649_144195650delTC								C3orf58 (484440 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	144383452	144383452	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:144383452delT								C3orf58 (672243 upstream) : None (None downstream)																																			---	---	---	---
PLOD2	5352	broad.mit.edu	37	3	145880366	145880366	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:145880366delA	uc003evs.1	-						PLOD2_uc011bnm.1_5'Flank|PLOD2_uc003evr.1_5'Flank	NM_000935	NP_000926			procollagen-lysine, 2-oxoglutarate 5-dioxygenase						protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2					Vitamin C(DB00126)													---	---	---	---
Unknown	0	broad.mit.edu	37	3	146001574	146001574	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:146001574delT								PLSCR4 (32608 upstream) : PLSCR2 (149508 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	146677319	146677319	+	IGR	DEL	A	-	-	rs113039217		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:146677319delA								PLSCR5 (353316 upstream) : ZIC4 (426518 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	146911390	146911390	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:146911390delA								PLSCR5 (587387 upstream) : ZIC4 (192447 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	147029604	147029604	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:147029604delA								PLSCR5 (705601 upstream) : ZIC4 (74233 downstream)																																			---	---	---	---
ZIC4	84107	broad.mit.edu	37	3	147114865	147114866	+	Intron	INS	-	T	T	rs143830108	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:147114865_147114866insT	uc003ewd.1	-						ZIC4_uc003ewc.1_5'UTR|ZIC4_uc011bno.1_Intron	NM_032153	NP_115529			zinc finger protein of the cerebellum 4							nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	147140581	147140582	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:147140581_147140582delTG								ZIC1 (6077 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	147175033	147175034	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:147175033_147175034delTT								ZIC1 (40529 upstream) : None (None downstream)																																			---	---	---	---
CPB1	1360	broad.mit.edu	37	3	148558100	148558101	+	Intron	INS	-	AGAT	AGAT	rs140702627	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148558100_148558101insAGAT	uc003ewl.2	+							NM_001871	NP_001862			pancreatic carboxypeptidase B1 preproprotein						proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)															---	---	---	---
CPA3	1359	broad.mit.edu	37	3	148591164	148591165	+	Intron	INS	-	CA	CA	rs75963661		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148591164_148591165insCA	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)															---	---	---	---
HLTF	6596	broad.mit.edu	37	3	148770200	148770200	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148770200delA	uc003ewq.1	-						HLTF_uc003ewr.1_Intron|HLTF_uc003ews.1_Intron|HLTF_uc010hve.1_Intron	NM_139048	NP_620636			helicase-like transcription factor						chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)															---	---	---	---
CP	1356	broad.mit.edu	37	3	148906535	148906535	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148906535delA	uc003ewy.3	-						CP_uc011bnr.1_Intron|CP_uc003ewx.3_Intron|CP_uc003ewz.2_Intron|CP_uc010hvf.1_Intron	NM_000096	NP_000087			ceruloplasmin precursor						cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)													---	---	---	---
CP	1356	broad.mit.edu	37	3	148930106	148930107	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148930106_148930107insA	uc003ewy.3	-						CP_uc011bnr.1_Intron|CP_uc003ewx.3_5'Flank|CP_uc003ewz.2_Intron	NM_000096	NP_000087			ceruloplasmin precursor						cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)													---	---	---	---
Unknown	0	broad.mit.edu	37	3	149004385	149004385	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:149004385delT								CP (64553 upstream) : TM4SF18 (34471 downstream)																																			---	---	---	---
WWTR1	25937	broad.mit.edu	37	3	149344298	149344300	+	Intron	DEL	AAA	-	-	rs62914060		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:149344298_149344300delAAA	uc003exe.2	-						WWTR1_uc003exf.2_Intron|WWTR1_uc011bns.1_Intron|WWTR1_uc003exh.2_Intron	NM_015472	NP_056287			WW domain containing transcription regulator 1						hippo signaling cascade|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of protein kinase activity|negative regulation of protein phosphorylation|positive regulation of cell proliferation|positive regulation of epithelial to mesenchymal transition|regulation of SMAD protein import into nucleus|stem cell division|transcription, DNA-dependent	cytoplasm	transcription coactivator activity			breast(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	149900956	149900956	+	IGR	DEL	A	-	-	rs140541040		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:149900956delA								PFN2 (212215 upstream) : TSC22D2 (225832 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	150068778	150068779	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:150068778_150068779delTT								PFN2 (380037 upstream) : TSC22D2 (58009 downstream)																																			---	---	---	---
FAM194A	131831	broad.mit.edu	37	3	150393495	150393496	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:150393495_150393496delTT	uc003eyg.2	-						FAM194A_uc003eyh.2_Intron	NM_152394	NP_689607			hypothetical protein LOC131831											skin(2)|ovary(1)	3																		---	---	---	---
MED12L	116931	broad.mit.edu	37	3	151017275	151017275	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:151017275delT	uc003eyp.2	+						MED12L_uc011bnz.1_Intron|GPR87_uc003eyt.2_Intron	NM_053002	NP_443728			mediator of RNA polymerase II transcription,						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)															---	---	---	---
MED12L	116931	broad.mit.edu	37	3	151041420	151041422	+	Intron	DEL	CTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:151041420_151041422delCTT	uc003eyp.2	+						MED12L_uc011bnz.1_Intron	NM_053002	NP_443728			mediator of RNA polymerase II transcription,						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)															---	---	---	---
AADAC	13	broad.mit.edu	37	3	151546096	151546096	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:151546096delT	uc003eze.2	+	5						NM_001086	NP_001077			arylacetamide deacetylase						positive regulation of triglyceride catabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	carboxylesterase activity|deacetylase activity|serine hydrolase activity|triglyceride lipase activity			skin(2)	2		Myeloproliferative disorder(1037;0.0255)|all_neural(597;0.112)	LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	151684470	151684470	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:151684470delA								SUCNR1 (84820 upstream) : LOC401093 (295943 downstream)																																			---	---	---	---
MBNL1	4154	broad.mit.edu	37	3	152143954	152143954	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:152143954delG	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	152313207	152313207	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:152313207delA								MBNL1 (129639 upstream) : P2RY1 (239529 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	152545694	152545702	+	IGR	DEL	TTTTTTTTC	-	-	rs57035534		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:152545694_152545702delTTTTTTTTC								MBNL1 (362126 upstream) : P2RY1 (7034 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	152567360	152567361	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:152567360_152567361delAC								P2RY1 (11519 upstream) : RAP2B (312668 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	152842749	152842749	+	IGR	DEL	T	-	-	rs144870072		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:152842749delT								P2RY1 (286908 upstream) : RAP2B (37280 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	153434714	153434717	+	IGR	DEL	TATG	-	-	rs113454317		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:153434714_153434717delTATG								C3orf79 (214231 upstream) : SGEF (404432 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	153536716	153536717	+	IGR	DEL	AA	-	-	rs13098501	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:153536716_153536717delAA								C3orf79 (316233 upstream) : SGEF (302432 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	153610487	153610487	+	IGR	DEL	T	-	-	rs66651417		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:153610487delT								C3orf79 (390004 upstream) : SGEF (228662 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	153620697	153620697	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:153620697delA								C3orf79 (400214 upstream) : SGEF (218452 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	153819323	153819323	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:153819323delA	uc003ezu.1	-											Homo sapiens cDNA clone IMAGE:4823793.																														---	---	---	---
SGEF	26084	broad.mit.edu	37	3	153905449	153905449	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:153905449delT	uc011bog.1	+						SGEF_uc011boh.1_Intron	NM_015595	NP_056410			Src homology 3 domain-containing guanine						regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)															---	---	---	---
DHX36	170506	broad.mit.edu	37	3	154035626	154035626	+	Intron	DEL	A	-	-	rs355776		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:154035626delA	uc003ezy.3	-						DHX36_uc010hvq.2_Intron|DHX36_uc003ezz.3_Intron	NM_020865	NP_065916			DEAH (Asp-Glu-Ala-His) box polypeptide 36							cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	154182313	154182313	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:154182313delA								GPR149 (34809 upstream) : MME (559600 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	155038156	155038156	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155038156delT								MME (136638 upstream) : PLCH1 (159515 downstream)																																			---	---	---	---
GMPS	8833	broad.mit.edu	37	3	155654423	155654423	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155654423delT	uc003faq.2	+						GMPS_uc011bom.1_Intron	NM_003875	NP_003866			guanine monophosphate synthetase						glutamine metabolic process|purine base biosynthetic process	cytosol	ATP binding|GMP synthase (glutamine-hydrolyzing) activity|GMP synthase activity			ovary(2)|lung(1)	3			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)			T	MLL	AML								---	---	---	---
Unknown	0	broad.mit.edu	37	3	155697956	155697956	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155697956delT								GMPS (42438 upstream) : KCNAB1 (140381 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	155751261	155751261	+	IGR	DEL	C	-	-	rs78856771		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155751261delC								GMPS (95743 upstream) : KCNAB1 (87076 downstream)																																			---	---	---	---
KCNAB1	7881	broad.mit.edu	37	3	155859322	155859322	+	Intron	DEL	T	-	-	rs111355824		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155859322delT	uc003far.2	+						KCNAB1_uc011bon.1_Intron|KCNAB1_uc003fas.2_5'Flank	NM_172160	NP_751892			potassium voltage-gated channel, shaker-related							cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)															---	---	---	---
KCNAB1	7881	broad.mit.edu	37	3	155995415	155995415	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155995415delA	uc003far.2	+						KCNAB1_uc011bon.1_Intron|KCNAB1_uc003fas.2_Intron	NM_172160	NP_751892			potassium voltage-gated channel, shaker-related							cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)															---	---	---	---
KCNAB1	7881	broad.mit.edu	37	3	156236250	156236251	+	Intron	INS	-	AAAGA	AAAGA	rs144279774	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:156236250_156236251insAAAGA	uc003far.2	+						KCNAB1_uc011bon.1_Intron|KCNAB1_uc003fas.2_Intron|KCNAB1_uc003fat.2_Intron|KCNAB1_uc010hvt.1_Intron|KCNAB1_uc011boo.1_Intron	NM_172160	NP_751892			potassium voltage-gated channel, shaker-related							cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	156319174	156319174	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:156319174delT								SSR3 (46239 upstream) : LOC100287227 (71790 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	156526691	156526692	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:156526691_156526692insT	uc003fax.1	-											Homo sapiens cDNA FLJ31839 fis, clone NT2RP7000086.																														---	---	---	---
LEKR1	389170	broad.mit.edu	37	3	156695830	156695830	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:156695830delT	uc003fba.1	+							NM_001004316	NP_001004316			leucine, glutamate and lysine rich 1												0			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)															---	---	---	---
VEPH1	79674	broad.mit.edu	37	3	157145995	157145995	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:157145995delA	uc003fbj.1	-						VEPH1_uc003fbk.1_Intron|VEPH1_uc010hvu.1_Intron	NM_024621	NP_078897			ventricular zone expressed PH domain homolog 1							plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)															---	---	---	---
C3orf55	152078	broad.mit.edu	37	3	157318421	157318422	+	3'UTR	DEL	CA	-	-	rs34101142		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:157318421_157318422delCA	uc003fbp.3	+	5					C3orf55_uc010hvv.2_3'UTR	NM_001130002	NP_001123474			hypothetical protein LOC152078 isoform 1												0			Lung(72;0.0215)|LUSC - Lung squamous cell carcinoma(72;0.037)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	157638422	157638422	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:157638422delT								C3orf55 (319403 upstream) : SHOX2 (175379 downstream)																																			---	---	---	---
RSRC1	51319	broad.mit.edu	37	3	157972229	157972229	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:157972229delT	uc003fbt.2	+						RSRC1_uc011bou.1_Intron|RSRC1_uc003fbu.1_Intron|RSRC1_uc003fbv.2_Intron	NM_016625	NP_057709			arginine/serine-rich coiled-coil 1						nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	158330798	158330798	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:158330798delT								MLF1 (6546 upstream) : GFM1 (31519 downstream)																																			---	---	---	---
MFSD1	64747	broad.mit.edu	37	3	158542255	158542256	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:158542255_158542256delAA	uc003fcl.1	+						MFSD1_uc003fcm.1_Intron|MFSD1_uc003fcn.1_Intron|MFSD1_uc011bow.1_Intron|MFSD1_uc011box.1_Intron	NM_022736	NP_073573			major facilitator superfamily domain containing						transmembrane transport	integral to membrane					0			Lung(72;0.00372)|LUSC - Lung squamous cell carcinoma(72;0.00523)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	159822067	159822069	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:159822067_159822069delAAA	uc003fcw.1	-											Homo sapiens cDNA FLJ39842 fis, clone SPLEN2014293.																														---	---	---	---
IFT80	57560	broad.mit.edu	37	3	160024374	160024374	+	Intron	DEL	A	-	-	rs7426572	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:160024374delA	uc011boy.1	-						IFT80_uc003fda.2_Intron|IFT80_uc003fdb.1_Intron|IFT80_uc003fdd.1_Intron|IFT80_uc003fde.1_Intron	NM_020800	NP_065851			WD repeat domain 56							cilium axoneme|microtubule basal body				ovary(1)	1			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)															---	---	---	---
IFT80	57560	broad.mit.edu	37	3	160047613	160047613	+	Intron	DEL	T	-	-	rs144967861		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:160047613delT	uc011boy.1	-						IFT80_uc003fda.2_Intron|IFT80_uc003fdb.1_Intron|IFT80_uc003fdd.1_Intron|IFT80_uc003fde.1_Intron	NM_020800	NP_065851			WD repeat domain 56							cilium axoneme|microtubule basal body				ovary(1)	1			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	160458191	160458191	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:160458191delA								ARL14 (61958 upstream) : PPM1L (15805 downstream)																																			---	---	---	---
PPM1L	151742	broad.mit.edu	37	3	160585116	160585119	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:160585116_160585119delTTTT	uc003fdr.2	+						PPM1L_uc003fds.2_Intron|PPM1L_uc003fdt.2_Intron	NM_139245	NP_640338			protein phosphatase 1 (formerly 2C)-like						protein dephosphorylation|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(1)	1			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)															---	---	---	---
PPM1L	151742	broad.mit.edu	37	3	160700193	160700193	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:160700193delA	uc003fdr.2	+						PPM1L_uc003fds.2_Intron|PPM1L_uc003fdt.2_Intron|PPM1L_uc010hwf.2_Intron	NM_139245	NP_640338			protein phosphatase 1 (formerly 2C)-like						protein dephosphorylation|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(1)	1			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	160914467	160914467	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:160914467delA								B3GALNT1 (91307 upstream) : NMD3 (24632 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	160972063	160972063	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:160972063delT								NMD3 (744 upstream) : C3orf57 (90518 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	161656438	161656438	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:161656438delG								OTOL1 (434710 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	162782975	162782975	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:162782975delA	uc003feg.2	+											Homo sapiens, clone IMAGE:2905387, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	3	162821112	162821112	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:162821112delT	uc003feg.2	+											Homo sapiens, clone IMAGE:2905387, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	3	163293917	163293917	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:163293917delT								None (None upstream) : MIR1263 (595342 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	163638343	163638343	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:163638343delA								None (None upstream) : MIR1263 (250916 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	164024310	164024310	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:164024310delA								MIR1263 (134966 upstream) : MIR720 (34819 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	165049053	165049053	+	IGR	DEL	T	-	-	rs60991157	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:165049053delT								SLITRK3 (134584 upstream) : BCHE (441641 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	165161336	165161336	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:165161336delA								SLITRK3 (246867 upstream) : BCHE (329358 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	165232412	165232412	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:165232412delT	uc003fel.2	-											full-length cDNA clone CS0DA002YJ24 of Neuroblastoma of Homo sapiens (human).																														---	---	---	---
Unknown	0	broad.mit.edu	37	3	165389727	165389728	+	IGR	DEL	TG	-	-	rs71811107		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:165389727_165389728delTG								SLITRK3 (475258 upstream) : BCHE (100966 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	165811973	165811973	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:165811973delA								BCHE (256720 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	165992766	165992767	+	IGR	INS	-	T	T	rs77077428		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:165992766_165992767insT								BCHE (437513 upstream) : ZBBX (965314 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	167112344	167112344	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:167112344delT								ZBBX (14273 upstream) : SERPINI2 (47379 downstream)																																			---	---	---	---
WDR49	151790	broad.mit.edu	37	3	167259812	167259812	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:167259812delA	uc003fev.1	-						WDR49_uc003feu.1_Intron|WDR49_uc011bpd.1_Intron|WDR49_uc003few.1_Intron	NM_178824	NP_849146			WD repeat domain 49											large_intestine(1)|ovary(1)|skin(1)	3																		---	---	---	---
WDR49	151790	broad.mit.edu	37	3	167304379	167304379	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:167304379delT	uc003fev.1	-						WDR49_uc011bpd.1_Intron|WDR49_uc003few.1_Intron	NM_178824	NP_849146			WD repeat domain 49											large_intestine(1)|ovary(1)|skin(1)	3																		---	---	---	---
SERPINI1	5274	broad.mit.edu	37	3	167524277	167524277	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:167524277delA	uc003ffa.3	+						SERPINI1_uc003ffb.3_Intron	NM_001122752	NP_001116224			neuroserpin precursor						central nervous system development|peripheral nervous system development|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(1)	1																		---	---	---	---
SERPINI1	5274	broad.mit.edu	37	3	167531436	167531436	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:167531436delG	uc003ffa.3	+						SERPINI1_uc003ffb.3_Intron	NM_001122752	NP_001116224			neuroserpin precursor						central nervous system development|peripheral nervous system development|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	167659216	167659217	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:167659216_167659217insT								SERPINI1 (115860 upstream) : GOLIM4 (68437 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	167878252	167878252	+	IGR	DEL	A	-	-	rs79629946		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:167878252delA								GOLIM4 (64835 upstream) : MIR551B (391390 downstream)																																			---	---	---	---
MECOM	2122	broad.mit.edu	37	3	169004517	169004517	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169004517delA	uc011bpj.1	-						MECOM_uc003ffl.2_Intron|MECOM_uc011bpk.1_Intron|MECOM_uc010hwn.2_Intron|MECOM_uc011bpl.1_Intron	NM_004991	NP_004982			MDS1 and EVI1 complex locus isoform c						apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14																		---	---	---	---
MECOM	2122	broad.mit.edu	37	3	169194640	169194640	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169194640delT	uc011bpj.1	-						MECOM_uc011bpk.1_Intron|MECOM_uc010hwn.2_Intron|MECOM_uc011bpl.1_Intron	NM_004991	NP_004982			MDS1 and EVI1 complex locus isoform c						apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14																		---	---	---	---
MECOM	2122	broad.mit.edu	37	3	169374641	169374641	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169374641delT	uc011bpj.1	-						MECOM_uc011bpk.1_Intron|MECOM_uc010hwn.2_Intron|MECOM_uc011bpl.1_Intron	NM_004991	NP_004982			MDS1 and EVI1 complex locus isoform c						apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14																		---	---	---	---
LRRC34	151827	broad.mit.edu	37	3	169514342	169514342	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169514342delA	uc003ffx.2	-						LRRC34_uc003ffy.2_Intron|LRRC34_uc011bpn.1_Intron|LRRC34_uc003ffz.2_Intron|LRRC34_uc003fga.3_Intron	NM_153353	NP_699184			leucine rich repeat containing 34												0	all_cancers(22;4.12e-22)|all_epithelial(15;7.54e-27)|all_lung(20;1.63e-16)|Lung NSC(18;6.92e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)															---	---	---	---
GPR160	26996	broad.mit.edu	37	3	169758324	169758324	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169758324delT	uc003fgi.2	+						GPR160_uc010hwq.2_Intron	NM_014373	NP_055188			G protein-coupled receptor 160							integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_cancers(22;3.26e-22)|all_epithelial(15;5.71e-27)|all_lung(20;8.41e-17)|Lung NSC(18;3.49e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)															---	---	---	---
GPR160	26996	broad.mit.edu	37	3	169776819	169776822	+	Intron	DEL	ACAC	-	-	rs10542909		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169776819_169776822delACAC	uc003fgi.2	+						GPR160_uc010hwq.2_Intron	NM_014373	NP_055188			G protein-coupled receptor 160							integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_cancers(22;3.26e-22)|all_epithelial(15;5.71e-27)|all_lung(20;8.41e-17)|Lung NSC(18;3.49e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)															---	---	---	---
GPR160	26996	broad.mit.edu	37	3	169796604	169796604	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169796604delA	uc003fgi.2	+						GPR160_uc010hwq.2_Intron	NM_014373	NP_055188			G protein-coupled receptor 160							integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_cancers(22;3.26e-22)|all_epithelial(15;5.71e-27)|all_lung(20;8.41e-17)|Lung NSC(18;3.49e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)															---	---	---	---
PHC3	80012	broad.mit.edu	37	3	169847493	169847496	+	Intron	DEL	ATTT	-	-	rs79158343		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169847493_169847496delATTT	uc010hws.1	-						PHC3_uc003fgl.2_Intron|PHC3_uc011bpq.1_Intron|PHC3_uc011bpr.1_Intron	NM_024947	NP_079223			polyhomeotic like 3						multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)															---	---	---	---
PRKCI	5584	broad.mit.edu	37	3	169988050	169988050	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169988050delA	uc003fgs.2	+							NM_002740	NP_002731			protein kinase C, iota						anti-apoptosis|cellular membrane organization|cellular response to insulin stimulus|establishment or maintenance of epithelial cell apical/basal polarity|intracellular signal transduction|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|protein targeting to membrane|secretion|tight junction assembly|vesicle-mediated transport	cytosol|endosome|nucleus|polarisome	ATP binding|phospholipid binding|protein binding|protein kinase C activity|zinc ion binding			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(22;6.45e-23)|all_epithelial(15;8.52e-28)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)															---	---	---	---
PRKCI	5584	broad.mit.edu	37	3	169991618	169991618	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169991618delA	uc003fgs.2	+							NM_002740	NP_002731			protein kinase C, iota						anti-apoptosis|cellular membrane organization|cellular response to insulin stimulus|establishment or maintenance of epithelial cell apical/basal polarity|intracellular signal transduction|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|protein targeting to membrane|secretion|tight junction assembly|vesicle-mediated transport	cytosol|endosome|nucleus|polarisome	ATP binding|phospholipid binding|protein binding|protein kinase C activity|zinc ion binding			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(22;6.45e-23)|all_epithelial(15;8.52e-28)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)															---	---	---	---
SKIL	6498	broad.mit.edu	37	3	170079223	170079223	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170079223delT	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)															---	---	---	---
SKIL	6498	broad.mit.edu	37	3	170082521	170082521	+	Intron	DEL	A	-	-	rs146572597		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170082521delA	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)															---	---	---	---
RPL22L1	200916	broad.mit.edu	37	3	170588475	170588475	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170588475delA	uc003fhc.3	-						RPL22L1_uc003fhb.3_5'Flank	NM_001099645	NP_001093115			ribosomal protein L22-like 1						translation	ribosome	structural constituent of ribosome				0	all_cancers(22;1.96e-19)|all_lung(20;1.59e-15)|Lung NSC(18;7.08e-15)|Ovarian(172;0.00197)|Breast(254;0.137)		LUSC - Lung squamous cell carcinoma(14;1.1e-14)|Lung(28;2.99e-14)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	170708243	170708243	+	IGR	DEL	A	-	-	rs150306988		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170708243delA								EIF5A2 (81817 upstream) : SLC2A2 (5894 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	170773469	170773470	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170773469_170773470delTT								SLC2A2 (28701 upstream) : TNIK (6822 downstream)																																			---	---	---	---
TNIK	23043	broad.mit.edu	37	3	170851813	170851813	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170851813delT	uc003fhh.2	-						TNIK_uc003fhi.2_Intron|TNIK_uc003fhj.2_Intron|TNIK_uc003fhk.2_Intron|TNIK_uc003fhl.2_Intron|TNIK_uc003fhm.2_Intron|TNIK_uc003fhn.2_Intron|TNIK_uc003fho.2_Intron	NM_015028	NP_055843			TRAF2 and NCK interacting kinase isoform 1						actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)															---	---	---	---
TNIK	23043	broad.mit.edu	37	3	170983933	170983933	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170983933delA	uc003fhh.2	-						TNIK_uc003fhi.2_Intron|TNIK_uc003fhj.2_Intron|TNIK_uc003fhk.2_Intron|TNIK_uc003fhl.2_Intron|TNIK_uc003fhm.2_Intron|TNIK_uc003fhn.2_Intron|TNIK_uc003fho.2_Intron	NM_015028	NP_055843			TRAF2 and NCK interacting kinase isoform 1						actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)															---	---	---	---
PLD1	5337	broad.mit.edu	37	3	171406840	171406840	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:171406840delA	uc003fhs.2	-						PLD1_uc003fht.2_Intron	NM_002662	NP_002653			phospholipase D1 isoform a						cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)													---	---	---	---
TMEM212	389177	broad.mit.edu	37	3	171559253	171559253	+	5'Flank	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:171559253delC	uc003fhw.1	+											RecName: Full=Transmembrane protein 212;							integral to membrane					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	171699661	171699662	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:171699661_171699662insA								TMEM212 (122553 upstream) : FNDC3B (57756 downstream)																																			---	---	---	---
SPATA16	83893	broad.mit.edu	37	3	172718507	172718507	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:172718507delT	uc003fin.3	-							NM_031955	NP_114161			spermatogenesis associated 16						cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	173072500	173072500	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:173072500delA								SPATA16 (213468 upstream) : NLGN1 (43744 downstream)																																			---	---	---	---
NLGN1	22871	broad.mit.edu	37	3	173119159	173119160	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:173119159_173119160delTT	uc003fio.1	+							NM_014932	NP_055747			neuroligin 1						calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)															---	---	---	---
NLGN1	22871	broad.mit.edu	37	3	173236074	173236074	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:173236074delT	uc003fio.1	+							NM_014932	NP_055747			neuroligin 1						calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)															---	---	---	---
NLGN1	22871	broad.mit.edu	37	3	173340377	173340377	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:173340377delA	uc003fio.1	+						NLGN1_uc010hww.1_Intron|NLGN1_uc003fip.1_Intron	NM_014932	NP_055747			neuroligin 1						calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)															---	---	---	---
NLGN1	22871	broad.mit.edu	37	3	173479628	173479628	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:173479628delA	uc003fio.1	+						NLGN1_uc010hww.1_Intron|NLGN1_uc003fip.1_Intron	NM_014932	NP_055747			neuroligin 1						calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	174352286	174352286	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:174352286delA	uc003fir.2	+						uc003fis.2_Intron|uc010hwx.1_Intron					Homo sapiens NAALADL2 gene, partial 5'UTR, variant 1.																														---	---	---	---
NAALADL2	254827	broad.mit.edu	37	3	175296988	175296991	+	Intron	DEL	TATC	-	-	rs72248582		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:175296988_175296991delTATC	uc003fit.2	+						NAALADL2_uc003fiu.1_Intron|NAALADL2_uc010hwy.1_Intron	NM_207015	NP_996898			N-acetylated alpha-linked acidic dipeptidase 2						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	176094795	176094795	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176094795delA								NAALADL2 (571369 upstream) : TBL1XR1 (643748 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	176203754	176203754	+	IGR	DEL	A	-	-	rs63118160		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176203754delA								NAALADL2 (680328 upstream) : TBL1XR1 (534789 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	176283926	176283926	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176283926delA								NAALADL2 (760500 upstream) : TBL1XR1 (454617 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	176345055	176345055	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176345055delT								NAALADL2 (821629 upstream) : TBL1XR1 (393488 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	176485516	176485517	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176485516_176485517delAG								NAALADL2 (962090 upstream) : TBL1XR1 (253026 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	176627568	176627569	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176627568_176627569delTG								None (None upstream) : TBL1XR1 (110974 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	176637084	176637084	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176637084delG								None (None upstream) : TBL1XR1 (101459 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	176716735	176716736	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176716735_176716736insA								None (None upstream) : TBL1XR1 (21807 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	176724364	176724366	+	IGR	DEL	TTT	-	-	rs77222487		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176724364_176724366delTTT								None (None upstream) : TBL1XR1 (14177 downstream)																																			---	---	---	---
TBL1XR1	79718	broad.mit.edu	37	3	176789391	176789391	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176789391delA	uc003fiw.3	-						TBL1XR1_uc003fix.3_Intron|TBL1XR1_uc011bpz.1_Intron|TBL1XR1_uc003fiy.2_Intron	NM_024665	NP_078941			transducin (beta)-like 1 X-linked receptor 1						canonical Wnt receptor signaling pathway|cellular lipid metabolic process|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein N-terminus binding|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(143;1.44e-17)|Ovarian(172;0.00163)|Breast(254;0.214)	Acute lymphoblastic leukemia(1;0.00599)|all_hematologic(1;0.0632)|Prostate(884;0.215)	OV - Ovarian serous cystadenocarcinoma(80;9.83e-31)															---	---	---	---
TBL1XR1	79718	broad.mit.edu	37	3	176883876	176883877	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176883876_176883877insA	uc003fiw.3	-						TBL1XR1_uc003fix.3_Intron|TBL1XR1_uc011bpz.1_Intron|TBL1XR1_uc003fiy.2_Intron	NM_024665	NP_078941			transducin (beta)-like 1 X-linked receptor 1						canonical Wnt receptor signaling pathway|cellular lipid metabolic process|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein N-terminus binding|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(143;1.44e-17)|Ovarian(172;0.00163)|Breast(254;0.214)	Acute lymphoblastic leukemia(1;0.00599)|all_hematologic(1;0.0632)|Prostate(884;0.215)	OV - Ovarian serous cystadenocarcinoma(80;9.83e-31)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	177320405	177320405	+	IGR	DEL	G	-	-	rs111694819	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:177320405delG								TBL1XR1 (405357 upstream) : KCNMB2 (933819 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	177354791	177354791	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:177354791delT								TBL1XR1 (439743 upstream) : KCNMB2 (899433 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	177359608	177359608	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:177359608delA								TBL1XR1 (444560 upstream) : KCNMB2 (894616 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	177429820	177429820	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:177429820delT								TBL1XR1 (514772 upstream) : KCNMB2 (824404 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	177814852	177814853	+	IGR	INS	-	AAGG	AAGG	rs140469095	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:177814852_177814853insAAGG								TBL1XR1 (899804 upstream) : KCNMB2 (439371 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	178074835	178074835	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:178074835delA	uc003fja.1	-											Homo sapiens cDNA FLJ34436 fis, clone HLUNG2001013.																														---	---	---	---
Unknown	0	broad.mit.edu	37	3	178675512	178675512	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:178675512delA								KCNMB2 (113296 upstream) : ZMAT3 (66015 downstream)																																			---	---	---	---
ZMAT3	64393	broad.mit.edu	37	3	178774110	178774110	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:178774110delA	uc003fjg.2	-						ZMAT3_uc010hxa.2_Intron|ZMAT3_uc003fji.2_Intron	NM_022470	NP_071915			p53 target zinc finger protein isoform 1						apoptosis|protein transport|regulation of growth|response to DNA damage stimulus|transmembrane transport	nucleolus	RNA binding|zinc ion binding			ovary(2)	2	all_cancers(143;3.31e-18)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;6.74e-27)|GBM - Glioblastoma multiforme(14;0.00448)|BRCA - Breast invasive adenocarcinoma(182;0.0527)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	178797188	178797188	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:178797188delT								ZMAT3 (7604 upstream) : PIK3CA (69123 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	178832237	178832237	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:178832237delA	uc003fjj.2	-											Homo sapiens cDNA clone IMAGE:4821793.																														---	---	---	---
PIK3CA	5290	broad.mit.edu	37	3	178941854	178941854	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:178941854delT	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)			---	---	---	---
Unknown	0	broad.mit.edu	37	3	179356615	179356615	+	IGR	DEL	T	-	-	rs115655706	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179356615delT								NDUFB5 (14328 upstream) : USP13 (14318 downstream)																																			---	---	---	---
USP13	8975	broad.mit.edu	37	3	179436560	179436560	+	Intron	DEL	T	-	-	rs139916834		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179436560delT	uc003fkh.2	+						USP13_uc003fkf.2_Intron	NM_003940	NP_003931			ubiquitin thiolesterase 13						ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)															---	---	---	---
USP13	8975	broad.mit.edu	37	3	179479203	179479203	+	Intron	DEL	T	-	-	rs74695249		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179479203delT	uc003fkh.2	+							NM_003940	NP_003931			ubiquitin thiolesterase 13						ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	179857681	179857682	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179857681_179857682delTT								PEX5L (103164 upstream) : TTC14 (462236 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	179860499	179860499	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179860499delT								PEX5L (105982 upstream) : TTC14 (459419 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	180040455	180040455	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:180040455delT								PEX5L (285938 upstream) : TTC14 (279463 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	180162086	180162086	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:180162086delT								PEX5L (407569 upstream) : TTC14 (157832 downstream)																																			---	---	---	---
CCDC39	339829	broad.mit.edu	37	3	180368191	180368191	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:180368191delA	uc010hxe.2	-						CCDC39_uc003fkn.2_Intron	NM_181426	NP_852091			coiled-coil domain containing 39						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)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	180534464	180534464	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:180534464delT	uc003fko.2	-											Homo sapiens mRNA; cDNA DKFZp434A128 (from clone DKFZp434A128).																														---	---	---	---
FXR1	8087	broad.mit.edu	37	3	180666091	180666091	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:180666091delT	uc003fkq.2	+						FXR1_uc003fkp.2_Intron|FXR1_uc003fkr.2_Intron|FXR1_uc011bqj.1_Intron|FXR1_uc003fks.2_Intron|FXR1_uc011bqk.1_Intron|FXR1_uc011bql.1_Intron	NM_005087	NP_005078			fragile X mental retardation-related protein 1						apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	181277249	181277250	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:181277249_181277250insT								DNAJC19 (569719 upstream) : SOX2OT (4259 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	181641361	181641361	+	IGR	DEL	T	-	-	rs34267855	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:181641361delT								SOX2OT (182358 upstream) : ATP11B (869930 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	181729407	181729407	+	IGR	DEL	T	-	-	rs79600096		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:181729407delT								SOX2OT (270404 upstream) : ATP11B (781884 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	181914582	181914582	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:181914582delA								SOX2OT (455579 upstream) : ATP11B (596709 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	181969506	181969506	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:181969506delA								SOX2OT (510503 upstream) : ATP11B (541785 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	182037854	182037854	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:182037854delT								SOX2OT (578851 upstream) : ATP11B (473437 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	182441332	182441332	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:182441332delT								SOX2OT (982329 upstream) : ATP11B (69959 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	182443495	182443496	+	IGR	INS	-	AA	AA	rs142529542	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:182443495_182443496insAA								SOX2OT (984492 upstream) : ATP11B (67795 downstream)																																			---	---	---	---
MCCC1	56922	broad.mit.edu	37	3	182754868	182754868	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:182754868delA	uc003fle.2	-						MCCC1_uc010hxi.2_Intron|MCCC1_uc011bqo.1_Intron|MCCC1_uc003flf.2_Intron|MCCC1_uc003flg.2_Intron|MCCC1_uc011bqp.1_Intron	NM_020166	NP_064551			methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)						biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)													---	---	---	---
MCCC1	56922	broad.mit.edu	37	3	182765452	182765453	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:182765452_182765453delAA	uc003fle.2	-						MCCC1_uc010hxi.2_Intron|MCCC1_uc011bqo.1_Intron|MCCC1_uc003flf.2_Intron|MCCC1_uc003flg.2_Intron|MCCC1_uc011bqp.1_Intron|MCCC1_uc011bqq.1_Intron	NM_020166	NP_064551			methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)						biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)													---	---	---	---
MCF2L2	23101	broad.mit.edu	37	3	183073240	183073242	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183073240_183073242delTTT	uc003fli.1	-						MCF2L2_uc003flj.1_Intron|MCF2L2_uc003flp.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)															---	---	---	---
PARL	55486	broad.mit.edu	37	3	183564280	183564281	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183564280_183564281delAA	uc003fmd.2	-						PARL_uc003fme.2_Intron	NM_018622	NP_061092			presenilin associated, rhomboid-like isoform 1						proteolysis	integral to membrane|mitochondrial inner membrane|nucleus	serine-type endopeptidase activity				0	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.21e-41)|Epithelial(37;1.34e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)															---	---	---	---
DVL3	1857	broad.mit.edu	37	3	183888381	183888381	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183888381delC	uc003fms.2	+	15	2129	c.1989delC	c.(1987-1989)GGCfs	p.G663fs	DVL3_uc011bqw.1_Frame_Shift_Del_p.G646fs|DVL3_uc003fmt.2_Frame_Shift_Del_p.G334fs|DVL3_uc003fmu.2_Frame_Shift_Del_p.G495fs	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	663					canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)															---	---	---	---
THPO	7066	broad.mit.edu	37	3	184094477	184094477	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184094477delA	uc003fol.1	-						THPO_uc003fom.1_Intron|THPO_uc003fon.2_5'Flank|THPO_uc011bro.1_5'Flank|THPO_uc003fop.2_5'Flank|THPO_uc011brp.1_5'Flank|THPO_uc011brq.1_5'Flank|THPO_uc003fot.1_5'Flank|THPO_uc003fou.1_5'Flank	NM_000460	NP_000451			thrombopoietin precursor						cell proliferation|platelet activation	extracellular space	cytokine activity|growth factor activity|hormone activity			ovary(1)	1	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)															---	---	---	---
CHRD	8646	broad.mit.edu	37	3	184106176	184106179	+	Intron	DEL	CATC	-	-	rs111934608		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184106176_184106179delCATC	uc003fov.2	+						CHRD_uc003fow.2_Intron|CHRD_uc003fox.2_Intron|CHRD_uc003foy.2_Intron|CHRD_uc010hyc.2_Intron|CHRD_uc011brr.1_Intron	NM_003741	NP_003732			chordin precursor						BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	184437980	184437980	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184437980delT								MAGEF1 (8144 upstream) : VPS8 (91951 downstream)																																			---	---	---	---
VPS8	23355	broad.mit.edu	37	3	184550093	184550093	+	Intron	DEL	T	-	-	rs112120253		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184550093delT	uc003fpb.1	+						VPS8_uc010hyd.1_Intron|VPS8_uc003fpc.1_Intron	NM_015303	NP_056118			vacuolar protein sorting 8 homolog isoform b								zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)															---	---	---	---
VPS8	23355	broad.mit.edu	37	3	184639370	184639370	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184639370delT	uc003fpb.1	+						VPS8_uc010hyd.1_Intron|VPS8_uc010hye.1_Intron	NM_015303	NP_056118			vacuolar protein sorting 8 homolog isoform b								zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	184906792	184906793	+	Intron	INS	-	TAAA	TAAA	rs148653276	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184906792_184906793insTAAA	uc003fpe.2	+											Homo sapiens hypothetical LOC339926, mRNA (cDNA clone IMAGE:4838153).																														---	---	---	---
IGF2BP2	10644	broad.mit.edu	37	3	185362104	185362104	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:185362104delT	uc003fpo.2	-	16					IGF2BP2_uc010hyi.2_3'UTR|IGF2BP2_uc010hyj.2_3'UTR|IGF2BP2_uc010hyk.2_3'UTR|IGF2BP2_uc010hyl.2_3'UTR|IGF2BP2_uc003fpp.2_3'UTR|IGF2BP2_uc003fpq.2_3'UTR	NM_006548	NP_006539			insulin-like growth factor 2 mRNA binding						anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)															---	---	---	---
IGF2BP2	10644	broad.mit.edu	37	3	185403128	185403130	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:185403128_185403130delAAA	uc003fpo.2	-						IGF2BP2_uc010hyi.2_Intron|IGF2BP2_uc010hyj.2_Intron|IGF2BP2_uc010hyk.2_Intron|IGF2BP2_uc010hyl.2_Intron|IGF2BP2_uc003fpp.2_Intron|IGF2BP2_uc003fpq.2_Intron	NM_006548	NP_006539			insulin-like growth factor 2 mRNA binding						anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	185603471	185603471	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:185603471delA								IGF2BP2 (60644 upstream) : TRA2B (28889 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	185605142	185605142	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:185605142delT								IGF2BP2 (62315 upstream) : TRA2B (27218 downstream)																																			---	---	---	---
DGKG	1608	broad.mit.edu	37	3	185884416	185884417	+	Intron	INS	-	TG	TG	rs143248964	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:185884416_185884417insTG	uc003fqa.2	-						DGKG_uc003fqb.2_Intron|DGKG_uc003fqc.2_Intron|DGKG_uc011brx.1_Intron	NM_001346	NP_001337			diacylglycerol kinase gamma isoform 1						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	all_cancers(143;3.26e-12)|Ovarian(172;0.0315)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)	GBM - Glioblastoma multiforme(93;0.0657)	Phosphatidylserine(DB00144)													---	---	---	---
DGKG	1608	broad.mit.edu	37	3	185907386	185907386	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:185907386delA	uc003fqa.2	-						DGKG_uc003fqb.2_Intron|DGKG_uc003fqc.2_Intron|DGKG_uc011brx.1_Intron	NM_001346	NP_001337			diacylglycerol kinase gamma isoform 1						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	all_cancers(143;3.26e-12)|Ovarian(172;0.0315)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)	GBM - Glioblastoma multiforme(93;0.0657)	Phosphatidylserine(DB00144)													---	---	---	---
TBCCD1	55171	broad.mit.edu	37	3	186276537	186276537	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186276537delT	uc003fqg.2	-						TBCCD1_uc011bry.1_Intron|TBCCD1_uc003fqh.2_Intron	NM_018138	NP_060608			TBCC domain containing 1						cell morphogenesis|maintenance of centrosome location|maintenance of Golgi location|regulation of cell migration|regulation of cell shape	spindle pole centrosome	binding			large_intestine(1)|ovary(1)	2	all_cancers(143;3.75e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.3e-21)	GBM - Glioblastoma multiforme(93;0.0474)														---	---	---	---
FETUB	26998	broad.mit.edu	37	3	186367795	186367796	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186367795_186367796delGT	uc010hyq.2	+						FETUB_uc011brz.1_Intron|FETUB_uc003fqn.2_Intron|FETUB_uc003fqo.2_Intron|FETUB_uc010hyr.2_Intron|FETUB_uc010hys.2_Intron|FETUB_uc003fqp.3_Intron	NM_014375	NP_055190			fetuin B precursor							extracellular space	cysteine-type endopeptidase inhibitor activity			ovary(1)|lung(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0479)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	186427995	186427995	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186427995delA								HRG (31973 upstream) : KNG1 (7125 downstream)																																			---	---	---	---
ADIPOQ	9370	broad.mit.edu	37	3	186558000	186558000	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186558000delT	uc003fra.2	+						ADIPOQ_uc010hyy.2_5'Flank	NM_004797	NP_004788			adiponectin precursor						brown fat cell differentiation|cellular response to drug|cellular response to insulin stimulus|detection of oxidative stress|fatty acid beta-oxidation|generation of precursor metabolites and energy|glucose homeostasis|glucose metabolic process|low-density lipoprotein particle clearance|negative regulation of blood pressure|negative regulation of DNA biosynthetic process|negative regulation of ERK1 and ERK2 cascade|negative regulation of eukaryotic cell surface binding|negative regulation of fat cell differentiation|negative regulation of gluconeogenesis|negative regulation of granulocyte differentiation|negative regulation of heterotypic cell-cell adhesion|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of intracellular protein transport|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|negative regulation of macrophage differentiation|negative regulation of MAP kinase activity|negative regulation of phagocytosis|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein autophosphorylation|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|negative regulation of synaptic transmission|negative regulation of transcription, DNA-dependent|negative regulation of tumor necrosis factor production|negative regulation of tumor necrosis factor-mediated signaling pathway|positive regulation of cAMP-dependent protein kinase activity|positive regulation of cholesterol efflux|positive regulation of fatty acid metabolic process|positive regulation of glucose import|positive regulation of glycogen (starch) synthase activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of metanephric glomerular visceral epithelial cell development|positive regulation of monocyte chemotactic protein-1 production|positive regulation of myeloid cell apoptosis|positive regulation of protein kinase A signaling cascade|positive regulation of renal albumin absorption|protein homooligomerization|protein localization in plasma membrane|response to glucose stimulus|response to tumor necrosis factor	collagen|endoplasmic reticulum|extracellular space	cytokine activity|eukaryotic cell surface binding|hormone activity|protein homodimerization activity			ovary(1)	1	all_cancers(143;1.2e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.47e-19)	GBM - Glioblastoma multiforme(93;0.0776)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	187141216	187141216	+	IGR	DEL	A	-	-	rs80024997		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:187141216delA								RTP4 (51849 upstream) : SST (245480 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	187376333	187376333	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:187376333delT								RTP4 (286966 upstream) : SST (10363 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	187397491	187397493	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:187397491_187397493delTTT								SST (9290 upstream) : RTP2 (18554 downstream)																																	OREG0015975	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
BCL6	604	broad.mit.edu	37	3	187444186	187444186	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:187444186delT	uc003frp.3	-						BCL6_uc011bsf.1_Intron|BCL6_uc010hza.2_Intron|BCL6_uc003frq.1_Intron	NM_001130845	NP_001124317			B-cell lymphoma 6 protein isoform 1						negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)				T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								---	---	---	---
Unknown	0	broad.mit.edu	37	3	187563778	187563778	+	IGR	DEL	C	-	-	rs71851948		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:187563778delC								BCL6 (100303 upstream) : LPP (307941 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	187724293	187724293	+	IGR	DEL	A	-	-	rs113322568		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:187724293delA								BCL6 (260818 upstream) : LPP (147426 downstream)																																			---	---	---	---
LPP	4026	broad.mit.edu	37	3	187960172	187960173	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:187960172_187960173delAG	uc003frs.1	+						LPP_uc011bsg.1_Intron|LPP_uc011bsi.1_Intron	NM_005578	NP_005569			LIM domain containing preferred translocation						cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)				T	HMGA2|MLL|C12orf9	lipoma|leukemia								---	---	---	---
LPP	4026	broad.mit.edu	37	3	188341047	188341049	+	Intron	DEL	TTT	-	-	rs112468971		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:188341047_188341049delTTT	uc003frs.1	+						LPP_uc011bsg.1_Intron|LPP_uc011bsi.1_Intron|LPP_uc003frt.2_Intron|LPP_uc011bsj.1_Intron	NM_005578	NP_005569			LIM domain containing preferred translocation						cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)				T	HMGA2|MLL|C12orf9	lipoma|leukemia								---	---	---	---
LPP	4026	broad.mit.edu	37	3	188345331	188345331	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:188345331delA	uc003frs.1	+						LPP_uc011bsg.1_Intron|LPP_uc011bsi.1_Intron|LPP_uc003frt.2_Intron|LPP_uc011bsj.1_Intron	NM_005578	NP_005569			LIM domain containing preferred translocation						cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)				T	HMGA2|MLL|C12orf9	lipoma|leukemia								---	---	---	---
LPP	4026	broad.mit.edu	37	3	188372321	188372322	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:188372321_188372322delTG	uc003frs.1	+						LPP_uc011bsg.1_Intron|LPP_uc011bsi.1_Intron|LPP_uc003frt.2_Intron|LPP_uc011bsj.1_Intron	NM_005578	NP_005569			LIM domain containing preferred translocation						cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)				T	HMGA2|MLL|C12orf9	lipoma|leukemia								---	---	---	---
LPP	4026	broad.mit.edu	37	3	188385564	188385564	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:188385564delT	uc003frs.1	+						LPP_uc011bsg.1_Intron|LPP_uc011bsi.1_Intron|LPP_uc003frt.2_Intron|LPP_uc011bsj.1_Intron	NM_005578	NP_005569			LIM domain containing preferred translocation						cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)				T	HMGA2|MLL|C12orf9	lipoma|leukemia								---	---	---	---
LPP	4026	broad.mit.edu	37	3	188506887	188506888	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:188506887_188506888delTT	uc003frs.1	+						LPP_uc011bsg.1_Intron|LPP_uc011bsi.1_Intron|LPP_uc011bsj.1_Intron	NM_005578	NP_005569			LIM domain containing preferred translocation						cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)				T	HMGA2|MLL|C12orf9	lipoma|leukemia								---	---	---	---
TPRG1	285386	broad.mit.edu	37	3	188961335	188961335	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:188961335delT	uc003frv.1	+						TPRG1_uc003frw.1_Intron	NM_198485	NP_940887			tumor protein p63 regulated 1												0	all_cancers(143;6.12e-12)|all_hematologic(3;0.0359)|Ovarian(172;0.0925)	all_lung(153;8.23e-09)|Lung NSC(153;3.55e-06)|all_neural(597;0.0019)|Myeloproliferative disorder(1037;0.0255)	Lung(62;6.93e-06)	GBM - Glioblastoma multiforme(93;4.77e-14)														---	---	---	---
TPRG1	285386	broad.mit.edu	37	3	188984673	188984673	+	Intron	DEL	T	-	-	rs113474973		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:188984673delT	uc003frv.1	+						TPRG1_uc003frw.1_Intron	NM_198485	NP_940887			tumor protein p63 regulated 1												0	all_cancers(143;6.12e-12)|all_hematologic(3;0.0359)|Ovarian(172;0.0925)	all_lung(153;8.23e-09)|Lung NSC(153;3.55e-06)|all_neural(597;0.0019)|Myeloproliferative disorder(1037;0.0255)	Lung(62;6.93e-06)	GBM - Glioblastoma multiforme(93;4.77e-14)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	189042598	189042598	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:189042598delA								TPRG1 (1328 upstream) : TP63 (306618 downstream)																																			---	---	---	---
TP63	8626	broad.mit.edu	37	3	189497956	189497959	+	Intron	DEL	AAAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:189497956_189497959delAAAG	uc003fry.2	+						TP63_uc003frx.2_Intron|TP63_uc003frz.2_Intron|TP63_uc010hzc.1_Intron	NM_003722	NP_003713			tumor protein p63 isoform 1						anti-apoptosis|cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)										Hay-Wells_syndrome	HNSCC(45;0.13)			---	---	---	---
Unknown	0	broad.mit.edu	37	3	189879226	189879226	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:189879226delT								LEPREL1 (39000 upstream) : CLDN1 (144277 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	190016244	190016245	+	IGR	DEL	TT	-	-	rs72455054		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:190016244_190016245delTT								LEPREL1 (176018 upstream) : CLDN1 (7258 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	190046915	190046915	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:190046915delG								CLDN1 (6700 upstream) : CLDN16 (58926 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	190190686	190190686	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:190190686delT								TMEM207 (23021 upstream) : IL1RAP (41205 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	190381553	190381555	+	IGR	DEL	AAG	-	-	rs34441115		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:190381553_190381555delAAG								IL1RAP (5710 upstream) : LOC647309 (188971 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	190625605	190625606	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:190625605_190625606insT								SNAR-I (29766 upstream) : OSTN (304716 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	190646460	190646460	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:190646460delA								SNAR-I (50621 upstream) : OSTN (283862 downstream)																																			---	---	---	---
UTS2D	257313	broad.mit.edu	37	3	190993491	190993491	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:190993491delA	uc003fsu.2	-							NM_198152	NP_937795			urotensin 2 domain containing precursor							extracellular region	hormone activity				0	all_cancers(143;1.77e-09)|Ovarian(172;0.103)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000214)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	191412466	191412466	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:191412466delT								PYDC2 (233223 upstream) : FGF12 (447218 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	191647444	191647444	+	IGR	DEL	A	-	-	rs80315835		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:191647444delA								PYDC2 (468201 upstream) : FGF12 (212240 downstream)																																			---	---	---	---
FGF12	2257	broad.mit.edu	37	3	192075276	192075276	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:192075276delA	uc003fsx.2	-						FGF12_uc003fsy.2_Intron	NM_021032	NP_066360			fibroblast growth factor 12 isoform 1						cell-cell signaling|heart development|JNK cascade|nervous system development|signal transduction	extracellular space|nucleus	growth factor activity|heparin binding			ovary(1)|skin(1)|lung(1)|pancreas(1)	4	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	192470714	192470715	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:192470714_192470715delAA								FGF12 (25326 upstream) : C3orf59 (43892 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	192641207	192641208	+	IGR	DEL	CT	-	-	rs139095324		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:192641207_192641208delCT								C3orf59 (5257 upstream) : HRASLS (317710 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	192654675	192654675	+	IGR	DEL	T	-	-	rs150142765		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:192654675delT								C3orf59 (18725 upstream) : HRASLS (304243 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	192732384	192732384	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:192732384delA								C3orf59 (96434 upstream) : HRASLS (226534 downstream)																																			---	---	---	---
HRASLS	57110	broad.mit.edu	37	3	192971291	192971291	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:192971291delT	uc003fta.2	+							NM_020386	NP_065119			HRAS-like suppressor												0	all_cancers(143;9.1e-09)|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;0.000159)														---	---	---	---
OPA1	4976	broad.mit.edu	37	3	193331352	193331352	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:193331352delT	uc003ftm.2	+						OPA1_uc003ftg.2_Intron|OPA1_uc003fth.2_Intron|OPA1_uc003fti.2_Intron|OPA1_uc003ftj.2_Intron|OPA1_uc003ftk.2_Intron|OPA1_uc003ftl.2_Intron|OPA1_uc003ftn.2_Intron	NM_015560	NP_056375			optic atrophy 1 isoform 1						apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)														---	---	---	---
OPA1	4976	broad.mit.edu	37	3	193366428	193366428	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:193366428delA	uc003ftm.2	+						OPA1_uc003ftg.2_Intron|OPA1_uc003fth.2_Intron|OPA1_uc003fti.2_Intron|OPA1_uc003ftj.2_Intron|OPA1_uc003ftk.2_Intron|OPA1_uc003ftl.2_Intron|OPA1_uc003ftn.2_Intron	NM_015560	NP_056375			optic atrophy 1 isoform 1						apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)														---	---	---	---
CPN2	1370	broad.mit.edu	37	3	194072768	194072769	+	5'Flank	INS	-	TGTG	TGTG	rs67252035		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194072768_194072769insTGTG	uc003fts.2	-							NM_001080513	NP_001073982			carboxypeptidase N, polypeptide 2						protein stabilization	extracellular region	enzyme regulator activity			ovary(5)	5	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.65e-05)														---	---	---	---
LRRC15	131578	broad.mit.edu	37	3	194092593	194092596	+	5'Flank	DEL	ACAT	-	-	rs112884343	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194092593_194092596delACAT	uc003ftu.2	-						LRRC15_uc003ftt.2_5'Flank	NM_130830	NP_570843			leucine rich repeat containing 15 isoform b							integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)														---	---	---	---
ATP13A3	79572	broad.mit.edu	37	3	194157630	194157630	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194157630delA	uc003fty.3	-						ATP13A3_uc003ftz.1_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)														---	---	---	---
ATP13A3	79572	broad.mit.edu	37	3	194162877	194162877	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194162877delG	uc003fty.3	-						ATP13A3_uc003ftz.1_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)														---	---	---	---
C3orf21	152002	broad.mit.edu	37	3	194869175	194869175	+	Intron	DEL	T	-	-	rs147594528		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194869175delT	uc003fum.3	-						C3orf21_uc003ful.2_Intron	NM_152531	NP_689744			hypothetical protein LOC152002							integral to membrane	transferase activity, transferring glycosyl groups				0	all_cancers(143;9.33e-09)|Ovarian(172;0.0634)		Epithelial(36;1.73e-20)|all cancers(36;1.42e-18)|OV - Ovarian serous cystadenocarcinoma(49;1.56e-17)|Lung(62;0.000117)|LUSC - Lung squamous cell carcinoma(58;0.000146)	GBM - Glioblastoma multiforme(46;1.36e-05)														---	---	---	---
SDHAP2	727956	broad.mit.edu	37	3	195396723	195396723	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195396723delT	uc003fuw.2	+						SDHAP2_uc003fuu.3_Intron|SDHAP2_uc011btb.1_Intron|SDHAP2_uc011btc.1_Intron|SDHAP2_uc003fuv.2_Intron					SubName: Full=cDNA FLJ16373 fis, clone THYMU3000269, highly similar to Succinate dehydrogenase (ubiquinone) flavoprotein subunit, mitochondrial (EC 1.3.5.1);												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	195647284	195647285	+	IGR	DEL	TA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195647284_195647285delTA								TNK2 (8468 upstream) : SDHAP1 (39507 downstream)																																			---	---	---	---
PCYT1A	5130	broad.mit.edu	37	3	195993460	195993460	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195993460delA	uc003fwg.2	-						PCYT1A_uc003fwh.2_Intron	NM_005017	NP_005008			choline phosphate cytidylyltransferase 1 alpha							cytosol|soluble fraction	choline-phosphate cytidylyltransferase activity				0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.28e-24)|all cancers(36;1.01e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00259)	Choline(DB00122)													---	---	---	---
PCYT1A	5130	broad.mit.edu	37	3	195994588	195994588	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195994588delA	uc003fwg.2	-						PCYT1A_uc003fwh.2_Intron	NM_005017	NP_005008			choline phosphate cytidylyltransferase 1 alpha							cytosol|soluble fraction	choline-phosphate cytidylyltransferase activity				0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.28e-24)|all cancers(36;1.01e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00259)	Choline(DB00122)													---	---	---	---
TCTEX1D2	255758	broad.mit.edu	37	3	196019734	196019734	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196019734delT	uc003fwi.2	-							NM_152773	NP_689986			Tctex1 domain containing 2								protein binding			ovary(1)|breast(1)	2	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;3.94e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.53e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)														---	---	---	---
UBXN7	26043	broad.mit.edu	37	3	196118944	196118944	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196118944delA	uc003fwm.3	-						UBXN7_uc003fwn.3_Intron|UBXN7_uc010iae.2_Intron	NM_015562	NP_056377			UBX domain containing 7								protein binding			ovary(2)|pancreas(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	196179580	196179580	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196179580delA								UBXN7 (20235 upstream) : RNF168 (19049 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	196357971	196357971	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196357971delT								FBXO45 (42043 upstream) : LRRC33 (8685 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	196391893	196391893	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196391893delA								LRRC33 (3021 upstream) : C3orf34 (41256 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	196406472	196406472	+	IGR	DEL	A	-	-	rs74754010		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196406472delA								LRRC33 (17600 upstream) : C3orf34 (26677 downstream)																																			---	---	---	---
PIGX	54965	broad.mit.edu	37	3	196454584	196454585	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196454584_196454585insT	uc010iaj.2	+						PIGX_uc003fwx.3_Intron|PIGX_uc011btx.1_Intron	NM_017861	NP_060331			phosphatidylinositol glycan anchor biosynthesis,						C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane					0	all_cancers(143;1.41e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;1.08e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00322)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	196564488	196564488	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196564488delT								PAK2 (4972 upstream) : SENP5 (30239 downstream)																																	OREG0016011	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
DLG1	1739	broad.mit.edu	37	3	196820041	196820042	+	Intron	DEL	TG	-	-	rs7609714	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196820041_196820042delTG	uc003fxo.3	-						DLG1_uc011bub.1_Intron|DLG1_uc011buc.1_Intron|DLG1_uc011bud.1_Intron|DLG1_uc003fxn.3_Intron|DLG1_uc011bue.1_Intron|DLG1_uc010ial.2_Intron|DLG1_uc011buf.1_Intron|DLG1_uc003fxp.2_Intron|DLG1_uc010iam.1_Intron	NM_001098424	NP_001091894			discs, large homolog 1 isoform 1						actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)														---	---	---	---
DLG1	1739	broad.mit.edu	37	3	196828262	196828263	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196828262_196828263delTT	uc003fxo.3	-						DLG1_uc011bub.1_Intron|DLG1_uc011buc.1_Intron|DLG1_uc011bud.1_Intron|DLG1_uc003fxn.3_Intron|DLG1_uc011bue.1_Intron|DLG1_uc010ial.2_Intron|DLG1_uc011buf.1_Intron|DLG1_uc003fxp.2_Intron|DLG1_uc010iam.1_Intron	NM_001098424	NP_001091894			discs, large homolog 1 isoform 1						actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)														---	---	---	---
Unknown	0	broad.mit.edu	37	3	197186478	197186479	+	IGR	INS	-	G	G	rs145766194	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197186478_197186479insG								DLG1 (160335 upstream) : BDH1 (50176 downstream)																																			---	---	---	---
LOC220729	220729	broad.mit.edu	37	3	197346771	197346771	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197346771delA	uc011bug.1	-						LOC220729_uc003fxw.2_Intron|LOC220729_uc003fxy.2_Intron|LOC220729_uc010iao.1_Intron					Homo sapiens cDNA FLJ60865 complete cds, highly similar to Succinate dehydrogenase (ubiquinone) flavoprotein subunit, mitochondrial precursor (EC 1.3.5.1).												0																		---	---	---	---
FYTTD1	84248	broad.mit.edu	37	3	197505076	197505077	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197505076_197505077insT	uc003fyi.2	+						FYTTD1_uc011bui.1_Intron|FYTTD1_uc011buj.1_Intron|FYTTD1_uc011buk.1_Intron	NM_032288	NP_115664			forty-two-three domain containing 1 isoform 1						mRNA export from nucleus	nuclear speck	mRNA binding|protein binding				0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	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;0.175)														---	---	---	---
LRCH3	84859	broad.mit.edu	37	3	197564931	197564932	+	Intron	INS	-	A	A	rs35208899		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197564931_197564932insA	uc011bul.1	+						LRCH3_uc003fyj.1_Intron|LRCH3_uc011bum.1_Intron|LRCH3_uc011bun.1_Intron|LRCH3_uc003fyk.2_Intron	NM_032773	NP_116162			leucine-rich repeats and calponin homology (CH)							extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)														---	---	---	---
LRCH3	84859	broad.mit.edu	37	3	197588075	197588075	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197588075delT	uc011bul.1	+						LRCH3_uc003fyj.1_Intron|LRCH3_uc011bum.1_Intron|LRCH3_uc011bun.1_Intron|LRCH3_uc003fyk.2_Intron	NM_032773	NP_116162			leucine-rich repeats and calponin homology (CH)							extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)														---	---	---	---
IQCG	84223	broad.mit.edu	37	3	197671126	197671128	+	Intron	DEL	TTT	-	-	rs74574846		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197671126_197671128delTTT	uc003fyo.2	-						IQCG_uc003fyp.2_Intron|IQCG_uc003fyq.3_Intron	NM_001134435	NP_001127907			IQ motif containing G												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)														---	---	---	---
LOC348840	348840	broad.mit.edu	37	3	197801839	197801839	+	Intron	DEL	A	-	-	rs35028251		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197801839delA	uc003fyx.3	-						LOC348840_uc010iat.2_Intron	NR_003291				Homo sapiens hypothetical protein LOC348840, mRNA (cDNA clone IMAGE:5167648), partial cds.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	31359	31359	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:31359delC								None (None upstream) : ZNF595 (21868 downstream)																																			---	---	---	---
ZNF595	152687	broad.mit.edu	37	4	63746	63746	+	Intron	DEL	T	-	-	rs3902383		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:63746delT	uc003fzv.1	+						ZNF595_uc003fzu.1_Intron|ZNF718_uc003fzt.3_Intron|ZNF595_uc010iay.1_Intron|ZNF595_uc011bus.1_Intron|ZNF595_uc011but.1_Intron	NM_182524	NP_872330			zinc finger protein 595						regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)														---	---	---	---
ZNF876P	642280	broad.mit.edu	37	4	224697	224697	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:224697delT	uc010iba.2	+							NR_027481				Homo sapiens cDNA clone IMAGE:4828836.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	536953	536953	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:536953delT								PIGG (3634 upstream) : PDE6B (82410 downstream)																																			---	---	---	---
GAK	2580	broad.mit.edu	37	4	862119	862119	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:862119delT	uc003gbm.3	-						GAK_uc003gbn.3_Intron|GAK_uc010ibk.1_Intron|GAK_uc010ibi.2_5'Flank|GAK_uc010ibj.2_Intron|GAK_uc003gbl.3_Intron	NM_005255	NP_005246			cyclin G associated kinase						cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	999256	999256	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:999256delA								IDUA (940 upstream) : FGFRL1 (5684 downstream)																																			---	---	---	---
RNF212	285498	broad.mit.edu	37	4	1081312	1081312	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:1081312delG	uc003gcj.2	-						RNF212_uc003gci.2_Intron|RNF212_uc010ibp.2_Intron|RNF212_uc010ibq.2_Intron	NM_001131034	NP_001124506			ring finger protein 212 isoform a								zinc ion binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0179)	UCEC - Uterine corpus endometrioid carcinoma (64;0.151)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	1538916	1538917	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:1538916_1538917delCA								CRIPAK (149134 upstream) : FAM53A (102692 downstream)																																			---	---	---	---
FAM53A	152877	broad.mit.edu	37	4	1657455	1657455	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:1657455delA	uc011bve.1	-						FAM53A_uc010ibw.2_Intron	NM_001013622	NP_001013644			dorsal neural-tube nuclear protein							nucleus					0		all_epithelial(65;0.206)|Breast(71;0.212)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)															---	---	---	---
SLBP	7884	broad.mit.edu	37	4	1706654	1706654	+	Intron	DEL	T	-	-	rs111864211		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:1706654delT	uc003gdi.1	-						SLBP_uc010ibx.1_Intron|SLBP_uc003gdj.1_Intron|SLBP_uc003gdk.1_Intron|SLBP_uc011bvf.1_Intron|SLBP_uc003gdl.1_Intron	NM_006527	NP_006518			stem-loop (histone) binding protein						DNA replication involved in S phase|histone mRNA 3'-end processing|mRNA export from nucleus|regulation of S phase|termination of RNA polymerase II transcription	cytosol|histone pre-mRNA 3'end processing complex|nucleoplasm	histone pre-mRNA DCP binding|histone pre-mRNA stem-loop binding|protein binding				0		Breast(71;0.212)|all_epithelial(65;0.241)	OV - Ovarian serous cystadenocarcinoma(23;0.0055)															---	---	---	---
Unknown	0	broad.mit.edu	37	4	2015050	2015050	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2015050delA								WHSC2 (4091 upstream) : C4orf48 (28639 downstream)																																			---	---	---	---
ZFYVE28	57732	broad.mit.edu	37	4	2280605	2280606	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2280605_2280606insA	uc003gex.1	-						ZFYVE28_uc011bvk.1_Intron|ZFYVE28_uc011bvl.1_Intron|ZFYVE28_uc003gew.1_Intron	NM_020972	NP_066023			zinc finger, FYVE domain containing 28						negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3																		---	---	---	---
ZFYVE28	57732	broad.mit.edu	37	4	2329295	2329295	+	Intron	DEL	C	-	-	rs2097298	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2329295delC	uc003gex.1	-						ZFYVE28_uc011bvk.1_Intron|ZFYVE28_uc011bvl.1_Intron|ZFYVE28_uc003gew.1_Intron	NM_020972	NP_066023			zinc finger, FYVE domain containing 28						negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	2590070	2590070	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2590070delT								RNF4 (72489 upstream) : FAM193A (7758 downstream)																																			---	---	---	---
FAM193A	8603	broad.mit.edu	37	4	2601467	2601469	+	Intron	DEL	TTT	-	-	rs139232754		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2601467_2601469delTTT	uc010ick.2	+							NM_003704	NP_003695			hypothetical protein LOC8603											ovary(3)	3																		---	---	---	---
HTT	3064	broad.mit.edu	37	4	3088650	3088650	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3088650delT	uc011bvq.1	+							NM_002111	NP_002102			huntingtin						establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	3600936	3600937	+	IGR	DEL	AT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3600936_3600937delAT								LRPAP1 (66712 upstream) : ADRA2C (167138 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	3624110	3624111	+	IGR	INS	-	A	A	rs150135720		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3624110_3624111insA								LRPAP1 (89886 upstream) : ADRA2C (143964 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	3676803	3676806	+	Intron	DEL	CTCC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3676803_3676806delCTCC	uc003ghl.2	-											Homo sapiens cDNA clone IMAGE:5302720.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	3697160	3697160	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3697160delT								LRPAP1 (162936 upstream) : ADRA2C (70915 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	4656159	4656159	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:4656159delA	uc003gid.2	+											Homo sapiens, clone IMAGE:5204729, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	4657296	4657296	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:4657296delA	uc003gid.2	+											Homo sapiens, clone IMAGE:5204729, mRNA.																														---	---	---	---
STK32B	55351	broad.mit.edu	37	4	5427184	5427187	+	Intron	DEL	CATT	-	-	rs35251788		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5427184_5427187delCATT	uc003gih.1	+						STK32B_uc010ida.1_Intron	NM_018401	NP_060871			serine/threonine kinase 32B								ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	5550718	5550721	+	IGR	DEL	TCCC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5550718_5550721delTCCC								C4orf6 (21193 upstream) : EVC2 (13433 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	6006115	6006117	+	IGR	DEL	TGG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6006115_6006117delTGG								C4orf50 (15949 upstream) : JAKMIP1 (21809 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	6239339	6239339	+	RNA	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6239339delA	uc003giw.1	+	5		c.1842delA								Homo sapiens cDNA FLJ33698 fis, clone BRAWH2004779.																														---	---	---	---
WFS1	7466	broad.mit.edu	37	4	6284312	6284312	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6284312delT	uc003giy.2	+						WFS1_uc003gix.2_Intron	NM_001145853	NP_001139325			wolframin						endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)														---	---	---	---
MAN2B2	23324	broad.mit.edu	37	4	6602634	6602634	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6602634delT	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																		---	---	---	---
TADA2B	93624	broad.mit.edu	37	4	7056895	7056895	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:7056895delT	uc003gjw.3	+	2					TADA2B_uc010idi.2_3'UTR	NM_152293	NP_689506			transcriptional adaptor 2 (ADA2 homolog,						regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	7189921	7189921	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:7189921delG								FLJ36777 (84818 upstream) : SORCS2 (4453 downstream)																																			---	---	---	---
SORCS2	57537	broad.mit.edu	37	4	7726580	7726581	+	Intron	INS	-	TTA	TTA	rs147507704	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:7726580_7726581insTTA	uc003gkb.3	+						SORCS2_uc011bwi.1_Intron	NM_020777	NP_065828			VPS10 domain receptor protein SORCS 2 precursor							integral to membrane	neuropeptide receptor activity			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
ABLIM2	84448	broad.mit.edu	37	4	8042338	8042338	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:8042338delA	uc003gko.2	-						ABLIM2_uc003gkl.2_Intron|ABLIM2_uc003gkj.3_Intron|ABLIM2_uc003gkm.3_Intron|ABLIM2_uc003gkp.2_Intron|ABLIM2_uc003gkq.2_Intron|ABLIM2_uc003gkr.2_Intron|ABLIM2_uc003gks.3_Intron|ABLIM2_uc011bwl.1_Intron	NM_001130084	NP_001123556			actin binding LIM protein family, member 2						axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			pancreas(3)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	8329582	8329582	+	IGR	DEL	T	-	-	rs113834975		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:8329582delT								HTRA3 (20752 upstream) : ACOX3 (38428 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	8366763	8366764	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:8366763_8366764delCA								HTRA3 (57933 upstream) : ACOX3 (1246 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	8722360	8722360	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:8722360delA								CPZ (100874 upstream) : HMX1 (146413 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	9399433	9399434	+	IGR	DEL	AA	-	-	rs34288771		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:9399433_9399434delAA								USP17L6P (28639 upstream) : DEFB131 (46826 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	10146372	10146373	+	5'Flank	INS	-	T	T	rs142672985	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:10146372_10146373insT	uc011bwy.1	+											DQ594761																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	10439747	10439747	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:10439747delT								WDR1 (321174 upstream) : ZNF518B (1758 downstream)																																			---	---	---	---
CLNK	116449	broad.mit.edu	37	4	10513858	10513859	+	Intron	DEL	TT	-	-	rs67349274		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:10513858_10513859delTT	uc003gmo.3	-							NM_052964	NP_443196			mast cell immunoreceptor signal transducer						immune response|intracellular signal transduction	intracellular	SH3/SH2 adaptor activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	11013468	11013468	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:11013468delA								CLNK (327082 upstream) : MIR572 (356983 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	11170863	11170864	+	IGR	INS	-	T	T	rs148391936		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:11170863_11170864insT								CLNK (484477 upstream) : MIR572 (199587 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	11263897	11263898	+	IGR	INS	-	AC	AC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:11263897_11263898insAC								CLNK (577511 upstream) : MIR572 (106553 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	11831970	11831971	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:11831970_11831971delTC								HS3ST1 (401433 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	11982717	11982717	+	IGR	DEL	T	-	-	rs35552066		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:11982717delT								HS3ST1 (552180 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	12251631	12251631	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:12251631delT	uc003gmr.2	+											Homo sapiens cDNA clone IMAGE:4830086.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	12273913	12273913	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:12273913delA								HS3ST1 (843376 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	12391695	12391695	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:12391695delA								HS3ST1 (961158 upstream) : HSP90AB2P (943342 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	12478652	12478652	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:12478652delA								None (None upstream) : HSP90AB2P (856385 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	12537596	12537597	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:12537596_12537597delAA								None (None upstream) : HSP90AB2P (797440 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	12855867	12855867	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:12855867delA								None (None upstream) : HSP90AB2P (479170 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	13980289	13980289	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:13980289delA								BOD1L (350961 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	14081909	14081909	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:14081909delT								BOD1L (452581 upstream) : CPEB2 (923613 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	14102986	14102986	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:14102986delT								BOD1L (473658 upstream) : CPEB2 (902536 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	14141579	14141579	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:14141579delT								BOD1L (512251 upstream) : CPEB2 (863943 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	14386748	14386749	+	IGR	INS	-	T	T	rs34022883		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:14386748_14386749insT								BOD1L (757420 upstream) : CPEB2 (618773 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	14873600	14873601	+	Intron	INS	-	AC	AC	rs149485577	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:14873600_14873601insAC	uc003gne.2	-						uc003gnf.2_Intron					Homo sapiens cDNA clone IMAGE:3604199, **** WARNING: chimeric clone ****.																														---	---	---	---
FBXL5	26234	broad.mit.edu	37	4	15632545	15632545	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:15632545delT	uc003goc.1	-						FBXL5_uc010idw.1_Intron|FBXL5_uc003gob.1_Intron|FBXL5_uc010idx.1_Intron|FBXL5_uc003god.1_Intron|FBXL5_uc010idy.1_Intron	NM_012161	NP_036293			F-box and leucine-rich repeat protein 5 isoform						iron ion homeostasis|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|SCF ubiquitin ligase complex	iron ion binding|protein binding|ubiquitin-protein ligase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	15663256	15663256	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:15663256delT								FBXL5 (6243 upstream) : FAM200B (20096 downstream)																																			---	---	---	---
PROM1	8842	broad.mit.edu	37	4	16034810	16034810	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:16034810delT	uc003goo.2	-						PROM1_uc003gor.2_Intron|PROM1_uc003gos.2_Intron|PROM1_uc003got.2_Intron|PROM1_uc003gou.2_Intron|PROM1_uc003gop.2_Intron|PROM1_uc003goq.3_Intron|PROM1_uc010iec.1_Intron	NM_006017	NP_006008			prominin 1 isoform 1						camera-type eye photoreceptor cell differentiation|photoreceptor cell maintenance|retina layer formation	apical plasma membrane|cell surface|integral to plasma membrane|microvillus membrane|photoreceptor outer segment membrane|plasma membrane	beta-actinin binding|cadherin binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	7																		---	---	---	---
LDB2	9079	broad.mit.edu	37	4	16822092	16822092	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:16822092delA	uc003goz.2	-						LDB2_uc003gpa.2_Intron|LDB2_uc003gpb.2_Intron|LDB2_uc011bxh.1_Intron|LDB2_uc010iee.2_Intron	NM_001290	NP_001281			LIM domain binding 2 isoform a								LIM domain binding|transcription cofactor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	16974889	16974889	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:16974889delT								LDB2 (74465 upstream) : QDPR (513131 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	16988686	16988687	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:16988686_16988687delAC								LDB2 (88262 upstream) : QDPR (499333 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	17530688	17530688	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:17530688delT								CLRN2 (1961 upstream) : LAP3 (48239 downstream)																																			---	---	---	---
LCORL	254251	broad.mit.edu	37	4	17984143	17984144	+	Intron	INS	-	A	A	rs146870657	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:17984143_17984144insA	uc003gpq.2	-						LCORL_uc011bxk.1_Intron	NM_153686	NP_710153			ligand dependent nuclear receptor						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	18071828	18071828	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:18071828delA								LCORL (48443 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	18300618	18300619	+	IGR	INS	-	TC	TC	rs79901613		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:18300618_18300619insTC								LCORL (277233 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	18624353	18624354	+	IGR	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:18624353_18624354insC								LCORL (600968 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	19073199	19073199	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:19073199delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	19307788	19307788	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:19307788delT								None (None upstream) : SLIT2 (947447 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	19426041	19426042	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:19426041_19426042insA								None (None upstream) : SLIT2 (829193 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	20045075	20045075	+	IGR	DEL	A	-	-	rs34635820		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:20045075delA								None (None upstream) : SLIT2 (210160 downstream)																																			---	---	---	---
SLIT2	9353	broad.mit.edu	37	4	20531898	20531899	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:20531898_20531899delTT	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																		---	---	---	---
KCNIP4	80333	broad.mit.edu	37	4	21257677	21257677	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:21257677delA	uc003gqf.1	-						KCNIP4_uc003gqg.1_Intron|KCNIP4_uc003gqh.1_Intron|KCNIP4_uc003gqi.1_Intron	NM_147183	NP_671712			Kv channel interacting protein 4 isoform 4							plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity				0		Breast(46;0.134)																---	---	---	---
KCNIP4	80333	broad.mit.edu	37	4	21524658	21524658	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:21524658delA	uc003gqh.1	-						KCNIP4_uc003gqg.1_Intron|KCNIP4_uc003gqi.1_Intron	NM_001035003	NP_001030175			Kv channel interacting protein 4 isoform 5							plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity				0		Breast(46;0.134)																---	---	---	---
KCNIP4	80333	broad.mit.edu	37	4	21535264	21535264	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:21535264delA	uc003gqh.1	-						KCNIP4_uc003gqg.1_Intron|KCNIP4_uc003gqi.1_Intron	NM_001035003	NP_001030175			Kv channel interacting protein 4 isoform 5							plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity				0		Breast(46;0.134)																---	---	---	---
KCNIP4	80333	broad.mit.edu	37	4	21866937	21866937	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:21866937delA	uc003gqi.1	-							NM_147182	NP_671711			Kv channel interacting protein 4 isoform 3							plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity				0		Breast(46;0.134)																---	---	---	---
Unknown	0	broad.mit.edu	37	4	22213659	22213659	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:22213659delA								KCNIP4 (263285 upstream) : GPR125 (175340 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	22629433	22629434	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:22629433_22629434delTT								GPR125 (111761 upstream) : GBA3 (65114 downstream)																																			---	---	---	---
GBA3	57733	broad.mit.edu	37	4	22766253	22766253	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:22766253delT	uc003gqp.3	+						GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Intron	NM_020973	NP_066024			cytosolic beta-glucosidase isoform a						glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0																		---	---	---	---
PPARGC1A	10891	broad.mit.edu	37	4	23825732	23825732	+	Intron	DEL	T	-	-	rs56881226	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:23825732delT	uc003gqs.2	-						PPARGC1A_uc003gqt.2_Intron|PPARGC1A_uc011bxp.1_Intron|PPARGC1A_uc010ier.1_Intron	NM_013261	NP_037393			peroxisome proliferator-activated receptor						androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)																---	---	---	---
Unknown	0	broad.mit.edu	37	4	23925101	23925101	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:23925101delA								PPARGC1A (33401 upstream) : MIR573 (596714 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	24110480	24110480	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:24110480delA								PPARGC1A (218780 upstream) : MIR573 (411335 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	24228706	24228706	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:24228706delT								PPARGC1A (337006 upstream) : MIR573 (293109 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	24337665	24337665	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:24337665delT								PPARGC1A (445965 upstream) : MIR573 (184150 downstream)																																			---	---	---	---
DHX15	1665	broad.mit.edu	37	4	24544451	24544451	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:24544451delA	uc003gqx.2	-							NM_001358	NP_001349			DEAH (Asp-Glu-Ala-His) box polypeptide 15						mRNA processing	U12-type spliceosomal complex	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(1)	1		Breast(46;0.0503)																---	---	---	---
Unknown	0	broad.mit.edu	37	4	24772728	24772728	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:24772728delA								DHX15 (186544 upstream) : SOD3 (24357 downstream)																																			---	---	---	---
ANAPC4	29945	broad.mit.edu	37	4	25418917	25418917	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:25418917delT	uc003gro.2	+						ANAPC4_uc003grp.2_Intron|ANAPC4_uc003grq.2_Intron	NM_013367	NP_037499			anaphase-promoting complex subunit 4						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|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	protein phosphatase binding|ubiquitin-protein ligase activity			ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5		Breast(46;0.0503)																---	---	---	---
Unknown	0	broad.mit.edu	37	4	25557506	25557519	+	IGR	DEL	TGTGTGTGTGTGTT	-	-	rs10616283	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:25557506_25557519delTGTGTGTGTGTGTT								ANAPC4 (137387 upstream) : SLC34A2 (99916 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	25646189	25646189	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:25646189delT								ANAPC4 (226070 upstream) : SLC34A2 (11246 downstream)																																			---	---	---	---
SEL1L3	23231	broad.mit.edu	37	4	25755310	25755310	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:25755310delA	uc003gru.3	-						SEL1L3_uc003grt.2_Intron	NM_015187	NP_056002			sel-1 suppressor of lin-12-like 3							integral to membrane	binding				0																		---	---	---	---
SEL1L3	23231	broad.mit.edu	37	4	25797547	25797549	+	Intron	DEL	AAA	-	-	rs140941005		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:25797547_25797549delAAA	uc003gru.3	-						SEL1L3_uc003grv.2_Intron	NM_015187	NP_056002			sel-1 suppressor of lin-12-like 3							integral to membrane	binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	25939782	25939782	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:25939782delT								C4orf52 (8282 upstream) : RBPJ (381550 downstream)																																			---	---	---	---
RBPJ	3516	broad.mit.edu	37	4	26319752	26319753	+	5'Flank	DEL	CA	-	-	rs111241505		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:26319752_26319753delCA	uc003grx.1	+						RBPJ_uc003gry.1_5'Flank|RBPJ_uc003grz.1_5'Flank|RBPJ_uc011bxt.1_5'Flank|RBPJ_uc003gsa.1_5'Flank|RBPJ_uc003gsb.1_5'Flank	NM_005349	NP_005340			recombining binding protein suppressor of						DNA recombination|negative regulation of transcription, DNA-dependent|positive regulation of transcription of Notch receptor target	cytoplasm|nucleolus|nucleoplasm	DNA binding|protein binding|recombinase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)	3		Breast(46;0.0503)																---	---	---	---
RBPJ	3516	broad.mit.edu	37	4	26393011	26393011	+	Intron	DEL	T	-	-	rs79093813		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:26393011delT	uc003grx.1	+						RBPJ_uc003gry.1_Intron|RBPJ_uc003grz.1_Intron|RBPJ_uc011bxt.1_Intron|RBPJ_uc003gsa.1_Intron|RBPJ_uc003gsb.1_Intron|RBPJ_uc003gsc.1_Intron	NM_005349	NP_005340			recombining binding protein suppressor of						DNA recombination|negative regulation of transcription, DNA-dependent|positive regulation of transcription of Notch receptor target	cytoplasm|nucleolus|nucleoplasm	DNA binding|protein binding|recombinase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)	3		Breast(46;0.0503)																---	---	---	---
Unknown	0	broad.mit.edu	37	4	26520869	26520871	+	IGR	DEL	TTT	-	-	rs113046969		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:26520869_26520871delTTT								CCKAR (28827 upstream) : TBC1D19 (64675 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	26562934	26562935	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:26562934_26562935delAC								CCKAR (70892 upstream) : TBC1D19 (22611 downstream)																																			---	---	---	---
STIM2	57620	broad.mit.edu	37	4	27016097	27016098	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:27016097_27016098delTT	uc003gsh.3	+						STIM2_uc003gsg.3_Intron|STIM2_uc010iex.2_Intron|STIM2_uc010iey.2_Intron	NM_020860	NP_065911			stromal interaction molecule 2						activation of store-operated calcium channel activity|calcium ion transport|cellular calcium ion homeostasis|negative regulation of calcium ion transport via store-operated calcium channel activity	endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel regulator activity|calcium ion binding|protein binding			central_nervous_system(1)|skin(1)	2		Breast(46;0.0503)																---	---	---	---
Unknown	0	broad.mit.edu	37	4	27274255	27274255	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:27274255delT								STIM2 (248447 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	27290945	27290945	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:27290945delT								STIM2 (265137 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	27327979	27327980	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:27327979_27327980delGA								STIM2 (302171 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	27431188	27431189	+	IGR	DEL	TT	-	-	rs112600160		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:27431188_27431189delTT								STIM2 (405380 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	27930754	27930754	+	IGR	DEL	A	-	-	rs34951114		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:27930754delA								STIM2 (904946 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	28157363	28157363	+	IGR	DEL	T	-	-	rs144471294	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:28157363delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	28242519	28242519	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:28242519delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	28245160	28245160	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:28245160delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	28279947	28279948	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:28279947_28279948delAA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	28386300	28386300	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:28386300delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	28697660	28697660	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:28697660delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	28702502	28702503	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:28702502_28702503delAA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	28847835	28847835	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:28847835delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	29137832	29137832	+	IGR	DEL	T	-	-	rs33937847		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:29137832delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	29451569	29451569	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:29451569delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	29537560	29537560	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:29537560delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	29751861	29751861	+	IGR	DEL	A	-	-	rs113375137		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:29751861delA								None (None upstream) : PCDH7 (970176 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	29912719	29912720	+	IGR	INS	-	AC	AC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:29912719_29912720insAC								None (None upstream) : PCDH7 (809317 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	30353384	30353384	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:30353384delT								None (None upstream) : PCDH7 (368653 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	30613745	30613745	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:30613745delA								None (None upstream) : PCDH7 (108292 downstream)																																			---	---	---	---
PCDH7	5099	broad.mit.edu	37	4	30721604	30721605	+	5'Flank	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:30721604_30721605delTT	uc003gsk.1	+						PCDH7_uc011bxw.1_5'Flank|PCDH7_uc011bxx.1_5'Flank	NM_002589	NP_002580			protocadherin 7 isoform a precursor						homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4																		---	---	---	---
PCDH7	5099	broad.mit.edu	37	4	31144760	31144760	+	3'UTR	DEL	A	-	-	rs66571985		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:31144760delA	uc011bxx.1	+	3					PCDH7_uc011bxw.1_3'UTR	NM_002589	NP_002580			protocadherin 7 isoform a precursor						homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	31326080	31326080	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:31326080delT								PCDH7 (177659 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	32056970	32056971	+	IGR	INS	-	GA	GA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:32056970_32056971insGA								PCDH7 (908549 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	32074208	32074210	+	IGR	DEL	TTT	-	-	rs112641131		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:32074208_32074210delTTT								PCDH7 (925787 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	32392412	32392413	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:32392412_32392413delAC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	32554671	32554672	+	IGR	DEL	TT	-	-	rs34294785		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:32554671_32554672delTT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	32724440	32724440	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:32724440delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	32879827	32879827	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:32879827delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	33234065	33234065	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:33234065delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	33341346	33341347	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:33341346_33341347insT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	33502135	33502137	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:33502135_33502137delTTT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	33860353	33860353	+	IGR	DEL	A	-	-	rs79573340		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:33860353delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	34039231	34039232	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:34039231_34039232insT	uc003gsn.2	-											Homo sapiens, clone IMAGE:5172449, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	34109217	34109218	+	IGR	INS	-	ATG	ATG	rs138959090	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:34109217_34109218insATG								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	34488688	34488688	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:34488688delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	35469774	35469774	+	IGR	DEL	A	-	-	rs34942246		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:35469774delA								None (None upstream) : ARAP2 (480070 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	35893218	35893219	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:35893218_35893219delAC								None (None upstream) : ARAP2 (56625 downstream)																																			---	---	---	---
ARAP2	116984	broad.mit.edu	37	4	36131664	36131665	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:36131664_36131665insA	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																		---	---	---	---
ARAP2	116984	broad.mit.edu	37	4	36196629	36196629	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:36196629delA	uc003gsq.1	-						ARAP2_uc003gsr.1_Intron	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	37062245	37062245	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:37062245delT								MIR1255B-1 (634195 upstream) : KIAA1239 (184445 downstream)																																			---	---	---	---
C4orf19	55286	broad.mit.edu	37	4	37550967	37550967	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:37550967delA	uc003gsw.3	+							NM_001104629	NP_001098099			hypothetical protein LOC55286												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	37741367	37741367	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:37741367delA								RELL1 (53368 upstream) : PGM2 (86915 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	37780184	37780185	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:37780184_37780185delGT								RELL1 (92185 upstream) : PGM2 (48097 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	38443445	38443445	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:38443445delA								TBC1D1 (302652 upstream) : FLJ13197 (170877 downstream)																																			---	---	---	---
FAM114A1	92689	broad.mit.edu	37	4	38879586	38879587	+	Intron	DEL	AA	-	-	rs34992443		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:38879586_38879587delAA	uc003gtn.2	+						FAM114A1_uc011byh.1_Intron|FAM114A1_uc011byg.1_Intron	NM_138389	NP_612398			hypothetical protein LOC92689							cytoplasm				ovary(1)	1																		---	---	---	---
WDR19	57728	broad.mit.edu	37	4	39181871	39181871	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39181871delT	uc003gtv.2	+						WDR19_uc010ifl.1_5'Flank|WDR19_uc003gtu.1_5'Flank|WDR19_uc011byi.1_5'Flank	NM_025132	NP_079408			WD repeat domain 19						cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1																		---	---	---	---
WDR19	57728	broad.mit.edu	37	4	39224022	39224022	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39224022delT	uc003gtv.2	+						WDR19_uc003gtu.1_Intron|WDR19_uc011byi.1_Intron|WDR19_uc003gtw.1_Intron	NM_025132	NP_079408			WD repeat domain 19						cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1																		---	---	---	---
WDR19	57728	broad.mit.edu	37	4	39230425	39230426	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39230425_39230426delTT	uc003gtv.2	+						WDR19_uc011byi.1_Intron|WDR19_uc003gtw.1_Intron	NM_025132	NP_079408			WD repeat domain 19						cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1																		---	---	---	---
WDR19	57728	broad.mit.edu	37	4	39286674	39286676	+	Intron	DEL	CAT	-	-	rs146610870		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39286674_39286676delCAT	uc003gtv.2	+						WDR19_uc011byi.1_Intron	NM_025132	NP_079408			WD repeat domain 19						cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1																		---	---	---	---
RFC1	5981	broad.mit.edu	37	4	39313232	39313233	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39313232_39313233insA	uc003gty.1	-						RFC1_uc003gtx.1_Intron	NM_002913	NP_002904			replication factor C large subunit						DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|telomere maintenance via telomerase|transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	39485891	39485894	+	IGR	DEL	ACAC	-	-	rs66555819		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39485891_39485894delACAC								LOC401127 (2370 upstream) : UGDH (14481 downstream)																																			---	---	---	---
C4orf34	201895	broad.mit.edu	37	4	39557783	39557786	+	Intron	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39557783_39557786delAAAA	uc003guo.2	-						uc003gum.1_Intron|C4orf34_uc010ifm.2_Intron	NM_174921	NP_777581			hypothetical protein LOC201895							integral to membrane	protein binding				0																		---	---	---	---
C4orf34	201895	broad.mit.edu	37	4	39574279	39574279	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39574279delA	uc003guo.2	-						uc003gum.1_Intron|C4orf34_uc010ifm.2_Intron	NM_174921	NP_777581			hypothetical protein LOC201895							integral to membrane	protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	39659270	39659270	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39659270delA								C4orf34 (18789 upstream) : UBE2K (40394 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	39814806	39814807	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39814806_39814807delTG								UBE2K (30398 upstream) : PDS5A (9677 downstream)																																			---	---	---	---
PDS5A	23244	broad.mit.edu	37	4	39900184	39900185	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39900184_39900185delAA	uc003guv.3	-						PDS5A_uc010ifo.2_Intron|PDS5A_uc003guw.3_Intron	NM_001100399	NP_001093869			PDS5, regulator of cohesion maintenance, homolog						cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0																		---	---	---	---
PDS5A	23244	broad.mit.edu	37	4	39918636	39918637	+	Intron	DEL	AA	-	-	rs10001599	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39918636_39918637delAA	uc003guv.3	-						PDS5A_uc010ifo.2_Intron|PDS5A_uc003guw.3_Intron	NM_001100399	NP_001093869			PDS5, regulator of cohesion maintenance, homolog						cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	40005111	40005111	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40005111delA								PDS5A (25535 upstream) : LOC344967 (39426 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	40023231	40023231	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40023231delT								PDS5A (43655 upstream) : LOC344967 (21306 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	40034049	40034049	+	IGR	DEL	T	-	-	rs35287434		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40034049delT								PDS5A (54473 upstream) : LOC344967 (10488 downstream)																																			---	---	---	---
N4BP2	55728	broad.mit.edu	37	4	40110251	40110251	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40110251delG	uc003guy.3	+						N4BP2_uc010ifq.2_Intron|N4BP2_uc010ifr.2_Intron	NM_018177	NP_060647			Nedd4 binding protein 2							cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	40399387	40399390	+	IGR	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40399387_40399390delTTTT								CHRNA9 (42414 upstream) : RBM47 (25882 downstream)																																			---	---	---	---
RBM47	54502	broad.mit.edu	37	4	40574046	40574046	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40574046delA	uc003gvc.2	-						RBM47_uc003gve.2_Intron|RBM47_uc011bys.1_Intron	NM_001098634	NP_001092104			RNA binding motif protein 47 isoform a							nucleus	nucleotide binding|RNA binding			breast(3)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	40654984	40654984	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40654984delA								RBM47 (22344 upstream) : NSUN7 (96930 downstream)																																			---	---	---	---
APBB2	323	broad.mit.edu	37	4	40848956	40848956	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40848956delA	uc003gvl.2	-						APBB2_uc010ifu.2_Intron|APBB2_uc003gvm.2_Intron|APBB2_uc003gvn.2_Intron|APBB2_uc003gvk.2_Intron	NM_173075	NP_775098			amyloid beta A4 precursor protein-binding,						cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3																		---	---	---	---
APBB2	323	broad.mit.edu	37	4	41002879	41002879	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:41002879delA	uc003gvl.2	-						APBB2_uc003gvm.2_Intron|APBB2_uc003gvn.2_Intron|APBB2_uc011byt.1_Intron	NM_173075	NP_775098			amyloid beta A4 precursor protein-binding,						cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3																		---	---	---	---
APBB2	323	broad.mit.edu	37	4	41129192	41129192	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:41129192delA	uc003gvl.2	-						APBB2_uc003gvm.2_Intron|APBB2_uc003gvn.2_Intron	NM_173075	NP_775098			amyloid beta A4 precursor protein-binding,						cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3																		---	---	---	---
LIMCH1	22998	broad.mit.edu	37	4	41400482	41400482	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:41400482delT	uc003gvu.3	+						LIMCH1_uc003gvt.1_Intron|LIMCH1_uc003gvv.3_Intron|LIMCH1_uc003gvw.3_Intron|LIMCH1_uc003gvx.3_Intron|LIMCH1_uc003gwe.3_Intron|LIMCH1_uc003gvy.3_Intron	NM_014988	NP_055803			LIM and calponin homology domains 1 isoform a						actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
LIMCH1	22998	broad.mit.edu	37	4	41401312	41401312	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:41401312delA	uc003gvu.3	+						LIMCH1_uc003gvt.1_Intron|LIMCH1_uc003gvv.3_Intron|LIMCH1_uc003gvw.3_Intron|LIMCH1_uc003gvx.3_Intron|LIMCH1_uc003gwe.3_Intron|LIMCH1_uc003gvy.3_Intron	NM_014988	NP_055803			LIM and calponin homology domains 1 isoform a						actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
LIMCH1	22998	broad.mit.edu	37	4	41689792	41689792	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:41689792delT	uc003gvu.3	+						LIMCH1_uc003gvv.3_Intron|LIMCH1_uc003gvw.3_Intron|LIMCH1_uc003gvx.3_Intron|LIMCH1_uc003gwe.3_Intron|LIMCH1_uc003gvy.3_Intron|LIMCH1_uc003gwa.3_Intron|LIMCH1_uc003gvz.3_Intron|LIMCH1_uc011byu.1_Intron|LIMCH1_uc003gwc.3_Intron|LIMCH1_uc003gwd.3_Intron|LIMCH1_uc011byv.1_Intron|LIMCH1_uc011byw.1_Intron	NM_014988	NP_055803			LIM and calponin homology domains 1 isoform a						actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	41725444	41725444	+	IGR	DEL	A	-	-	rs35078948		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:41725444delA								LIMCH1 (23385 upstream) : PHOX2B (20656 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	41762842	41762842	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:41762842delT								PHOX2B (11855 upstream) : TMEM33 (174295 downstream)																																			---	---	---	---
SLC30A9	10463	broad.mit.edu	37	4	41999454	41999454	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:41999454delT	uc003gwl.2	+						SLC30A9_uc011byx.1_Intron	NM_006345	NP_006336			solute carrier family 30 (zinc transporter),						nucleotide-excision repair|zinc ion transport	cytoskeleton|integral to membrane|nucleus	cation transmembrane transporter activity|nucleotide binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3																		---	---	---	---
SLC30A9	10463	broad.mit.edu	37	4	42077582	42077582	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42077582delA	uc003gwl.2	+						SLC30A9_uc011byx.1_Intron	NM_006345	NP_006336			solute carrier family 30 (zinc transporter),						nucleotide-excision repair|zinc ion transport	cytoskeleton|integral to membrane|nucleus	cation transmembrane transporter activity|nucleotide binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	42175162	42175162	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42175162delT								BEND4 (20267 upstream) : SHISA3 (224694 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	42276332	42276332	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42276332delT								BEND4 (121437 upstream) : SHISA3 (123524 downstream)																																			---	---	---	---
ATP8A1	10396	broad.mit.edu	37	4	42478281	42478282	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42478281_42478282insA	uc003gwr.2	-						ATP8A1_uc003gwq.2_Intron|ATP8A1_uc003gws.2_Intron	NM_006095	NP_006086			ATPase, aminophospholipid transporter (APLT),						ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma 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			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)													---	---	---	---
ATP8A1	10396	broad.mit.edu	37	4	42545585	42545585	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42545585delA	uc003gwr.2	-						ATP8A1_uc003gws.2_Intron	NM_006095	NP_006086			ATPase, aminophospholipid transporter (APLT),						ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma 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			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)													---	---	---	---
ATP8A1	10396	broad.mit.edu	37	4	42553037	42553038	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42553037_42553038insT	uc003gwr.2	-						ATP8A1_uc003gws.2_Intron|ATP8A1_uc011byz.1_Intron	NM_006095	NP_006086			ATPase, aminophospholipid transporter (APLT),						ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma 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			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)													---	---	---	---
ATP8A1	10396	broad.mit.edu	37	4	42589629	42589629	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42589629delT	uc003gwr.2	-						ATP8A1_uc003gws.2_Intron|ATP8A1_uc011byz.1_Intron	NM_006095	NP_006086			ATPase, aminophospholipid transporter (APLT),						ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma 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			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)													---	---	---	---
Unknown	0	broad.mit.edu	37	4	42842602	42842602	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42842602delT								ATP8A1 (183480 upstream) : GRXCR1 (52682 downstream)																																			---	---	---	---
GRXCR1	389207	broad.mit.edu	37	4	42975490	42975490	+	Intron	DEL	T	-	-	rs77377069		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42975490delT	uc003gwt.2	+							NM_001080476	NP_001073945			glutaredoxin, cysteine rich 1						cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	43312706	43312706	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:43312706delT								GRXCR1 (280033 upstream) : KCTD8 (863216 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	43416835	43416835	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:43416835delA								GRXCR1 (384162 upstream) : KCTD8 (759087 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	43588321	43588321	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:43588321delT								GRXCR1 (555648 upstream) : KCTD8 (587601 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	43651921	43651922	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:43651921_43651922delAC								GRXCR1 (619248 upstream) : KCTD8 (524000 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	43901421	43901421	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:43901421delA								GRXCR1 (868748 upstream) : KCTD8 (274501 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	44082895	44082895	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:44082895delA								None (None upstream) : KCTD8 (93027 downstream)																																			---	---	---	---
KCTD8	386617	broad.mit.edu	37	4	44177280	44177280	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:44177280delA	uc003gwu.2	-							NM_198353	NP_938167			potassium channel tetramerisation domain							cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3															HNSCC(17;0.042)			---	---	---	---
KCTD8	386617	broad.mit.edu	37	4	44401390	44401390	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:44401390delA	uc003gwu.2	-							NM_198353	NP_938167			potassium channel tetramerisation domain							cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3															HNSCC(17;0.042)			---	---	---	---
GUF1	60558	broad.mit.edu	37	4	44687880	44687880	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:44687880delT	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	44974768	44974768	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:44974768delT								GNPDA2 (246156 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	45103092	45103093	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:45103092_45103093insA								GNPDA2 (374480 upstream) : GABRG1 (934696 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	45750515	45750515	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:45750515delC								None (None upstream) : GABRG1 (287274 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	46031349	46031349	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:46031349delA								None (None upstream) : GABRG1 (6440 downstream)																																			---	---	---	---
COX7B2	170712	broad.mit.edu	37	4	46787893	46787893	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:46787893delA	uc003gxf.2	-						COX7B2_uc010ige.2_Intron	NM_130902	NP_570972			cytochrome c oxidase subunit VIIb2 precursor							integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity				0																		---	---	---	---
COX7B2	170712	broad.mit.edu	37	4	46866366	46866366	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:46866366delT	uc003gxf.2	-						COX7B2_uc010ige.2_Intron	NM_130902	NP_570972			cytochrome c oxidase subunit VIIb2 precursor							integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity				0																		---	---	---	---
GABRB1	2560	broad.mit.edu	37	4	47034811	47034811	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:47034811delG	uc003gxh.2	+						GABRB1_uc011bze.1_Intron|GABRB1_uc011bzd.1_Frame_Shift_Del_p.G184fs|GABRB1_uc010igg.2_Intron	NM_000812	NP_000803			gamma-aminobutyric acid (GABA) A receptor, beta						synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2					Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)											OREG0016177	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
CORIN	10699	broad.mit.edu	37	4	47644240	47644240	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:47644240delA	uc003gxm.2	-						CORIN_uc011bzf.1_Intron|CORIN_uc011bzg.1_Intron	NM_006587	NP_006578			corin						peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
CORIN	10699	broad.mit.edu	37	4	47709968	47709969	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:47709968_47709969delTT	uc003gxm.2	-						CORIN_uc011bzf.1_Intron|CORIN_uc011bzg.1_Intron|CORIN_uc011bzh.1_Intron|CORIN_uc011bzi.1_Intron|CORIN_uc003gxn.3_Intron	NM_006587	NP_006578			corin						peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
NFXL1	152518	broad.mit.edu	37	4	47885271	47885272	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:47885271_47885272insA	uc010igh.2	-						NFXL1_uc003gxp.2_Intron|NFXL1_uc003gxq.3_Intron|NFXL1_uc010igi.2_Intron	NM_152995	NP_694540			nuclear transcription factor, X-box binding-like							integral to membrane|nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	47917739	47917740	+	Intron	INS	-	T	T	rs144722444	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:47917739_47917740insT	uc003gxr.1	+						NFXL1_uc010igh.2_5'Flank|NFXL1_uc003gxp.2_5'Flank|NFXL1_uc003gxq.3_5'Flank|NFXL1_uc010igi.2_5'Flank					Homo sapiens, clone IMAGE:5000675, mRNA.																														---	---	---	---
FRYL	285527	broad.mit.edu	37	4	48604083	48604083	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:48604083delA	uc003gyh.1	-	13	1594	c.989delT	c.(988-990)TTAfs	p.L330fs	FRYL_uc003gyk.2_Frame_Shift_Del_p.L330fs	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	330					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1																		---	---	---	---
FRYL	285527	broad.mit.edu	37	4	48625114	48625114	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:48625114delA	uc003gyh.1	-						FRYL_uc003gyk.2_Intron|FRYL_uc003gyl.1_Intron|FRYL_uc003gym.1_Intron	NM_015030	NP_055845			furry-like						regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1																		---	---	---	---
FRYL	285527	broad.mit.edu	37	4	48625212	48625213	+	Intron	DEL	AC	-	-	rs776579	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:48625212_48625213delAC	uc003gyh.1	-						FRYL_uc003gyk.2_Intron|FRYL_uc003gyl.1_Intron|FRYL_uc003gym.1_Intron	NM_015030	NP_055845			furry-like						regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	48810506	48810506	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:48810506delA								FRYL (28190 upstream) : OCIAD1 (22509 downstream)																																			---	---	---	---
CWH43	80157	broad.mit.edu	37	4	49017280	49017280	+	Intron	DEL	T	-	-	rs145285553		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:49017280delT	uc003gyv.2	+						CWH43_uc011bzl.1_Intron	NM_025087	NP_079363			cell wall biogenesis 43 C-terminal homolog						GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	49133544	49133548	+	IGR	DEL	GGGTA	-	-	rs142760702		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:49133544_49133548delGGGTA								CWH43 (69451 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	49261389	49261389	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:49261389delA								CWH43 (197296 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	49560711	49560712	+	5'Flank	INS	-	CC	CC	rs145807291		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:49560711_49560712insCC	uc011bzm.1	+						uc003gza.1_5'Flank					DQ582260																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	49606840	49606840	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:49606840delA								CWH43 (542747 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	49645928	49645932	+	IGR	DEL	AGTGG	-	-	rs56380822		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:49645928_49645932delAGTGG								CWH43 (581835 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	52845919	52845920	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:52845919_52845920delAC								DCUN1D4 (62918 upstream) : LRRC66 (13947 downstream)																																			---	---	---	---
LRRC66	339977	broad.mit.edu	37	4	52862346	52862346	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:52862346delA	uc003gzi.2	-							NM_001024611	NP_001019782			leucine rich repeat containing 66							integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
SPATA18	132671	broad.mit.edu	37	4	52926826	52926827	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:52926826_52926827delTT	uc003gzl.2	+						SPATA18_uc010igl.1_Intron|SPATA18_uc011bzq.1_Intron|SPATA18_uc003gzk.1_Intron	NM_145263	NP_660306			spermatogenesis associated 18 homolog						mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)															---	---	---	---
USP46	64854	broad.mit.edu	37	4	53493979	53493980	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:53493979_53493980insA	uc003gzn.2	-						USP46_uc003gzm.3_Intron|USP46_uc011bzr.1_Intron|USP46_uc011bzs.1_Intron	NM_022832	NP_073743			ubiquitin specific peptidase 46 isoform 1						behavior|protein deubiquitination|regulation of synaptic transmission, GABAergic|ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(32;0.0295)															---	---	---	---
Unknown	0	broad.mit.edu	37	4	53606226	53606227	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:53606226_53606227insA								KIAA0114 (25921 upstream) : RASL11B (122268 downstream)																																			---	---	---	---
SCFD2	152579	broad.mit.edu	37	4	53786375	53786375	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:53786375delA	uc003gzu.2	-						SCFD2_uc010igm.2_Intron	NM_152540	NP_689753			sec1 family domain containing 2						protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)															---	---	---	---
PDGFRA	5156	broad.mit.edu	37	4	54256109	54256109	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:54256109delT	uc003haa.2	+						FIP1L1_uc003gzx.3_Intron|FIP1L1_uc011bzt.1_Intron|FIP1L1_uc003gzy.2_Intron|FIP1L1_uc011bzu.1_Intron|FIP1L1_uc003gzz.2_Intron|FIP1L1_uc003hab.2_Intron|FIP1L1_uc003hac.2_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)			---	---	---	---
PDGFRA	5156	broad.mit.edu	37	4	54356061	54356061	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:54356061delA	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)			---	---	---	---
PDGFRA	5156	broad.mit.edu	37	4	54378474	54378475	+	Intron	INS	-	G	G	rs140464929	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:54378474_54378475insG	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)			---	---	---	---
PDGFRA	5156	broad.mit.edu	37	4	54416618	54416618	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:54416618delT	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)			---	---	---	---
PDGFRA	5156	broad.mit.edu	37	4	54423811	54423811	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:54423811delA	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)			---	---	---	---
Unknown	0	broad.mit.edu	37	4	55506146	55506146	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:55506146delG								PDGFRA (341735 upstream) : KIT (17949 downstream)																																			---	---	---	---
KDR	3791	broad.mit.edu	37	4	55972313	55972313	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:55972313delT	uc003has.2	-						KDR_uc003hat.1_Intron|KDR_uc011bzx.1_Intron	NM_002253	NP_002244			kinase insert domain receptor precursor						angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			---	---	---	---
Unknown	0	broad.mit.edu	37	4	56185001	56185002	+	IGR	INS	-	TCTCCT	TCTCCT	rs141075743	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:56185001_56185002insTCTCCT								KDR (193239 upstream) : SRD5A3 (27407 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	56193005	56193005	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:56193005delT								KDR (201243 upstream) : SRD5A3 (19404 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	56240010	56240010	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:56240010delA	uc003hav.1	-						uc003haw.1_Intron					Homo sapiens cDNA clone IMAGE:5295612.																														---	---	---	---
CLOCK	9575	broad.mit.edu	37	4	56393161	56393161	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:56393161delA	uc003haz.1	-						CLOCK_uc003hba.1_Intron	NM_004898	NP_004889			clock						circadian rhythm|photoperiodism|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|transcription factor complex	DNA binding|histone acetyltransferase activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(2)|ovary(1)	3	Lung NSC(11;0.00335)|Glioma(25;0.08)|all_epithelial(27;0.0992)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(4;1.62e-07)|Lung(4;1.34e-06)|Epithelial(7;0.0107)															---	---	---	---
EXOC1	55763	broad.mit.edu	37	4	56728483	56728483	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:56728483delT	uc003hbe.1	+						EXOC1_uc003hbf.1_Intron|EXOC1_uc003hbg.1_Intron	NM_018261	NP_060731			exocyst complex component 1 isoform 1						exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)																	---	---	---	---
CEP135	9662	broad.mit.edu	37	4	56875334	56875334	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:56875334delT	uc003hbi.2	+						CEP135_uc003hbj.2_Intron	NM_025009	NP_079285			centrosome protein 4						centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)																	---	---	---	---
CEP135	9662	broad.mit.edu	37	4	56884135	56884136	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:56884135_56884136delTT	uc003hbi.2	+						CEP135_uc003hbj.2_Intron	NM_025009	NP_079285			centrosome protein 4						centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)																	---	---	---	---
SRP72	6731	broad.mit.edu	37	4	57361503	57361504	+	Intron	INS	-	T	T	rs77746539		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:57361503_57361504insT	uc003hbv.2	+						SRP72_uc010ihe.2_Intron	NM_006947	NP_008878			signal recognition particle 72kDa						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)																	---	---	---	---
ARL9	132946	broad.mit.edu	37	4	57375709	57375709	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:57375709delT	uc003hby.1	+							NM_206919	NP_996802			ADP-ribosylation factor-like 9								GTP binding				0	Glioma(25;0.08)|all_neural(26;0.101)																	---	---	---	---
Unknown	0	broad.mit.edu	37	4	58023655	58023655	+	Intron	DEL	T	-	-	rs35656325		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:58023655delT	uc003hco.2	+											Homo sapiens, clone IMAGE:5722917, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	58518753	58518753	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:58518753delT								IGFBP7 (542214 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	59362907	59362907	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:59362907delC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	59382838	59382839	+	IGR	INS	-	AC	AC	rs72266234		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:59382838_59382839insAC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	59894483	59894483	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:59894483delG								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	59999530	59999531	+	IGR	INS	-	AC	AC	rs145290409	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:59999530_59999531insAC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	60509872	60509872	+	IGR	DEL	A	-	-	rs11333032		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:60509872delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	60550087	60550088	+	IGR	INS	-	A	A	rs34635204		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:60550087_60550088insA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	60596218	60596218	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:60596218delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	60663179	60663184	+	IGR	DEL	TTTTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:60663179_60663184delTTTTTT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	60704600	60704600	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:60704600delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	61008181	61008181	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:61008181delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	61129707	61129707	+	IGR	DEL	T	-	-	rs75017369		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:61129707delT								None (None upstream) : LPHN3 (937267 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	61159426	61159426	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:61159426delA								None (None upstream) : LPHN3 (907548 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	61525835	61525836	+	IGR	DEL	AG	-	-	rs79816557		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:61525835_61525836delAG								None (None upstream) : LPHN3 (541138 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	61824277	61824279	+	IGR	DEL	AAT	-	-	rs1906072	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:61824277_61824279delAAT								None (None upstream) : LPHN3 (242695 downstream)																																			---	---	---	---
LPHN3	23284	broad.mit.edu	37	4	62766020	62766020	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:62766020delT	uc010ihh.2	+						LPHN3_uc003hcq.3_Intron|LPHN3_uc003hcs.1_Intron	NM_015236	NP_056051			latrophilin 3 precursor						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	63019487	63019487	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:63019487delA								LPHN3 (81320 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	63428471	63428471	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:63428471delT								LPHN3 (490304 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	63541870	63541870	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:63541870delT								LPHN3 (603703 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	63911818	63911819	+	IGR	DEL	TT	-	-	rs140530742		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:63911818_63911819delTT								LPHN3 (973651 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	63947281	63947281	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:63947281delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	64945189	64945190	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:64945189_64945190delTT								None (None upstream) : TECRL (198995 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	64998390	64998390	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:64998390delT								None (None upstream) : TECRL (145795 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	65019195	65019196	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:65019195_65019196insA								None (None upstream) : TECRL (124989 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	65394872	65394872	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:65394872delA								TECRL (119694 upstream) : EPHA5 (790410 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	65852170	65852170	+	IGR	DEL	T	-	-	rs67073449		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:65852170delT								TECRL (576992 upstream) : EPHA5 (333112 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	65978368	65978368	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:65978368delA								TECRL (703190 upstream) : EPHA5 (206914 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	66050563	66050563	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:66050563delA								TECRL (775385 upstream) : EPHA5 (134719 downstream)																																			---	---	---	---
EPHA5	2044	broad.mit.edu	37	4	66286385	66286386	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:66286385_66286386insA	uc003hcy.2	-						EPHA5_uc003hcx.2_Intron|EPHA5_uc003hcz.2_Intron|EPHA5_uc011cah.1_Intron|EPHA5_uc011cai.1_Intron|EPHA5_uc003hda.2_Intron	NM_004439	NP_004430			ephrin receptor EphA5 isoform a precursor						cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24															TSP Lung(17;0.13)			---	---	---	---
EPHA5	2044	broad.mit.edu	37	4	66382259	66382260	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:66382259_66382260delTG	uc003hcy.2	-						EPHA5_uc003hcx.2_Intron|EPHA5_uc003hcz.2_Intron|EPHA5_uc011cah.1_Intron|EPHA5_uc011cai.1_Intron|EPHA5_uc003hda.2_Intron	NM_004439	NP_004430			ephrin receptor EphA5 isoform a precursor						cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24															TSP Lung(17;0.13)			---	---	---	---
EPHA5	2044	broad.mit.edu	37	4	66431636	66431636	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:66431636delT	uc003hcy.2	-						EPHA5_uc003hcx.2_Intron|EPHA5_uc003hcz.2_Intron|EPHA5_uc011cah.1_Intron|EPHA5_uc011cai.1_Intron|EPHA5_uc003hda.2_Intron	NM_004439	NP_004430			ephrin receptor EphA5 isoform a precursor						cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24															TSP Lung(17;0.13)			---	---	---	---
Unknown	0	broad.mit.edu	37	4	66791099	66791100	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:66791099_66791100delAC								EPHA5 (255446 upstream) : MIR1269 (351442 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	66881561	66881562	+	IGR	DEL	TT	-	-	rs71673870		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:66881561_66881562delTT								EPHA5 (345908 upstream) : MIR1269 (260980 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	67561880	67561880	+	IGR	DEL	A	-	-	rs78995111		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:67561880delA								MIR1269 (419234 upstream) : CENPC1 (776109 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	67568015	67568015	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:67568015delA								MIR1269 (425369 upstream) : CENPC1 (769974 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	67610245	67610248	+	IGR	DEL	CACA	-	-	rs146914297		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:67610245_67610248delCACA								MIR1269 (467599 upstream) : CENPC1 (727741 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	67843226	67843227	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:67843226_67843227delAC								MIR1269 (700580 upstream) : CENPC1 (494762 downstream)																																			---	---	---	---
LOC550112	550112	broad.mit.edu	37	4	68591692	68591692	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:68591692delA	uc003hdl.3	+											Homo sapiens chromosome 4 cDNA.												0																		---	---	---	---
TMPRSS11BNL	401136	broad.mit.edu	37	4	69072120	69072120	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69072120delA	uc003hdv.1	-						FTLP10_uc010iho.1_Intron	NM_001129907	NP_001123379			hypothetical protein LOC401136							integral to membrane					0																		---	---	---	---
YTHDC1	91746	broad.mit.edu	37	4	69199132	69199132	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69199132delT	uc003hdx.2	-						YTHDC1_uc003hdy.2_Intron	NM_001031732	NP_001026902			splicing factor YT521-B isoform 1											upper_aerodigestive_tract(1)|ovary(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	69370030	69370030	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69370030delT								YTHDC1 (154206 upstream) : UGT2B15 (142286 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	70414355	70414355	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70414355delC								UGT2B4 (22623 upstream) : UGT2A1 (39781 downstream)																																			---	---	---	---
UGT2A1	10941	broad.mit.edu	37	4	70486555	70486558	+	Intron	DEL	ACAC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70486555_70486558delACAC	uc003hem.3	-						UGT2A1_uc011caq.1_Intron|UGT2A1_uc010ihu.2_Intron|UGT2A1_uc010iht.2_Intron|UGT2A1_uc010ihs.2_Intron	NM_006798	NP_006789			UDP glucuronosyltransferase 2 family,						detection of chemical stimulus|sensory perception of smell	integral to membrane	glucuronosyltransferase activity|glucuronosyltransferase activity			ovary(1)	1																		---	---	---	---
RUFY3	22902	broad.mit.edu	37	4	71628889	71628889	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:71628889delT	uc003hfq.2	+						RUFY3_uc003hfp.3_Intron|RUFY3_uc011cax.1_Intron|RUFY3_uc003hfr.2_Intron|RUFY3_uc011cay.1_Intron	NM_014961	NP_055776			RUN and FYVE domain containing 3 isoform 2						negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)															---	---	---	---
MOBKL1A	92597	broad.mit.edu	37	4	71783012	71783012	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:71783012delA	uc003hfw.2	+						MOBKL1A_uc003hfv.1_Intron|MOBKL1A_uc011cba.1_Intron	NM_173468	NP_775739			MOB1, Mps One Binder kinase activator-like 1A						hippo signaling cascade|protein autophosphorylation	cytoplasm|nucleus	kinase activator activity|kinase binding|metal ion binding				0		all_hematologic(202;0.21)	Lung(101;0.235)															---	---	---	---
SLC4A4	8671	broad.mit.edu	37	4	72316323	72316323	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:72316323delA	uc003hfy.2	+						SLC4A4_uc010iic.2_Intron|SLC4A4_uc010iib.2_Intron|SLC4A4_uc003hfz.2_Intron|SLC4A4_uc003hgc.3_Intron|SLC4A4_uc010iid.2_Intron|SLC4A4_uc003hga.2_Intron|SLC4A4_uc003hgb.3_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)															---	---	---	---
GC	2638	broad.mit.edu	37	4	72629051	72629051	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:72629051delA	uc003hge.2	-						GC_uc003hgd.2_Intron|GC_uc010iie.2_Intron|GC_uc010iif.2_Intron	NM_000583	NP_000574			vitamin D-binding protein precursor						hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)													---	---	---	---
Unknown	0	broad.mit.edu	37	4	72689105	72689105	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:72689105delA								GC (19347 upstream) : NPFFR2 (208416 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	72888038	72888038	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:72888038delT								GC (218280 upstream) : NPFFR2 (9483 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	73841390	73841390	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:73841390delT								ADAMTS3 (406874 upstream) : COX18 (79026 downstream)																																			---	---	---	---
ANKRD17	26057	broad.mit.edu	37	4	74038575	74038576	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74038575_74038576insA	uc003hgp.2	-						ANKRD17_uc003hgo.2_Intron|ANKRD17_uc003hgq.2_Intron|ANKRD17_uc003hgr.2_Intron	NM_032217	NP_115593			ankyrin repeat domain protein 17 isoform a						interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)															---	---	---	---
AFP	174	broad.mit.edu	37	4	74313372	74313372	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74313372delA	uc003hgz.1	+	8	1084	c.1037delA	c.(1036-1038)GAAfs	p.E346fs	AFP_uc003hha.1_Frame_Shift_Del_p.E346fs|AFP_uc011cbg.1_Frame_Shift_Del_p.E120fs	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor	346	Albumin 2.				transport		metal ion binding			ovary(1)	1	Breast(15;0.00102)		Epithelial(6;2.42e-05)|all cancers(17;0.000268)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)											Alpha-Fetoprotein_Hereditary_Persistence_of				---	---	---	---
Unknown	0	broad.mit.edu	37	4	74387792	74387792	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74387792delT								AFM (18075 upstream) : RASSF6 (51070 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	75584041	75584041	+	IGR	DEL	T	-	-	rs76586560		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:75584041delT								AREG (103410 upstream) : BTC (87407 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	75739367	75739367	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:75739367delT								BTC (19485 upstream) : PARM1 (118931 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	75813944	75813944	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:75813944delA								BTC (94062 upstream) : PARM1 (44354 downstream)																																			---	---	---	---
PARM1	25849	broad.mit.edu	37	4	75898890	75898890	+	Intron	DEL	T	-	-	rs78892508		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:75898890delT	uc003hih.1	+							NM_015393	NP_056208			prostatic androgen-repressed message-1						positive regulation of telomerase activity	early endosome|endosome membrane|Golgi membrane|integral to membrane|late endosome|plasma membrane				ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	76014818	76014818	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:76014818delT								PARM1 (39495 upstream) : RCHY1 (389537 downstream)																																			---	---	---	---
RCHY1	25898	broad.mit.edu	37	4	76409717	76409717	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:76409717delT	uc003hik.2	-						RCHY1_uc010iio.2_Intron|RCHY1_uc003hij.2_Intron|RCHY1_uc003hil.2_Intron|RCHY1_uc010iip.2_Intron|RCHY1_uc010iiq.2_Intron|RCHY1_uc010iir.2_Intron	NM_015436	NP_056251			ring finger and CHY zinc finger domain						positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein autoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nuclear speck|ubiquitin ligase complex	electron carrier activity|p53 binding|protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			pancreas(1)	1			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)															---	---	---	---
Unknown	0	broad.mit.edu	37	4	76608751	76608751	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:76608751delA								G3BP2 (10084 upstream) : USO1 (41078 downstream)																																			---	---	---	---
NAAA	27163	broad.mit.edu	37	4	76848948	76848949	+	Intron	INS	-	A	A	rs71594936		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:76848948_76848949insA	uc003hjb.2	-						NAAA_uc003hja.2_Intron|NAAA_uc003hjc.3_Intron|NAAA_uc003hjd.3_Intron|NAAA_uc011cbq.1_Intron	NM_014435	NP_055250			N-acylethanolamine acid amidase isoform 1						lipid metabolic process	lysosome	hydrolase activity			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	76916256	76916257	+	IGR	INS	-	TCT	TCT	rs79530491		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:76916256_76916257insTCT								SDAD1 (4143 upstream) : CXCL9 (6366 downstream)																																			---	---	---	---
ART3	419	broad.mit.edu	37	4	77022907	77022907	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:77022907delA	uc003hjo.2	+						ART3_uc003hjk.2_Intron|ART3_uc003hjn.2_Intron|ART3_uc003hjp.2_Intron|ART3_uc010ijb.2_Intron|ART3_uc003hjq.2_Intron|ART3_uc003hjr.2_Intron|ART3_uc010ijc.2_Intron|ART3_uc010ijd.2_Intron	NM_001130016	NP_001123488			ADP-ribosyltransferase 3 isoform a						protein ADP-ribosylation	anchored to membrane|integral to plasma membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity			ovary(2)	2			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)															---	---	---	---
SHROOM3	57619	broad.mit.edu	37	4	77383525	77383525	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:77383525delA	uc011cbx.1	+							NM_020859	NP_065910			shroom family member 3 protein						apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)															---	---	---	---
SHROOM3	57619	broad.mit.edu	37	4	77542302	77542302	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:77542302delA	uc011cbx.1	+						uc011cby.1_Intron	NM_020859	NP_065910			shroom family member 3 protein						apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)															---	---	---	---
Unknown	0	broad.mit.edu	37	4	78019979	78019979	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:78019979delT								CCNI (22854 upstream) : CCNG2 (58378 downstream)																																			---	---	---	---
CXCL13	10563	broad.mit.edu	37	4	78463111	78463111	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:78463111delT	uc003hkr.2	+							NM_006419	NP_006410			chemokine (C-X-C motif) ligand 13 (B-cell						activation of Rap GTPase activity|B cell chemotaxis|cell-cell signaling|chronic inflammatory response|defense response to bacterium|elevation of cytosolic calcium ion concentration|endothelial cell chemotaxis to fibroblast growth factor|germinal center formation|lymphocyte chemotaxis across high endothelial venule|negative regulation of apoptosis|positive regulation of cell-cell adhesion mediated by integrin|positive regulation of integrin activation|positive regulation of T cell chemotaxis|regulation of angiogenesis|regulation of humoral immune response	extracellular space|soluble fraction	CCR10 chemokine receptor binding|chemokine activity|CXCR3 chemokine receptor binding|CXCR5 chemokine receptor binding|fibroblast growth factor 2 binding|heparin binding|protein heterodimerization activity|receptor agonist activity				0																		---	---	---	---
MRPL1	65008	broad.mit.edu	37	4	78804341	78804341	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:78804341delA	uc003hku.2	+						MRPL1_uc010iji.1_5'Flank	NM_020236	NP_064621			mitochondrial ribosomal protein L1 precursor								RNA binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	78906118	78906119	+	IGR	INS	-	T	T	rs146223525	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:78906118_78906119insT								MRPL1 (32174 upstream) : FRAS1 (72605 downstream)																																			---	---	---	---
FRAS1	80144	broad.mit.edu	37	4	79111603	79111603	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:79111603delT	uc003hlb.2	+						FRAS1_uc003hkw.2_Intron	NM_025074	NP_079350			Fraser syndrome 1						cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5																		---	---	---	---
FRAS1	80144	broad.mit.edu	37	4	79366578	79366579	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:79366578_79366579insT	uc003hlb.2	+						FRAS1_uc003hkw.2_Intron|FRAS1_uc010ijj.1_Intron	NM_025074	NP_079350			Fraser syndrome 1						cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5																		---	---	---	---
BMP2K	55589	broad.mit.edu	37	4	79800706	79800706	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:79800706delT	uc003hlk.2	+							NM_198892	NP_942595			BMP-2 inducible kinase isoform a							nucleus	ATP binding|protein serine/threonine kinase activity			lung(1)	1																		---	---	---	---
PAQR3	152559	broad.mit.edu	37	4	79847260	79847260	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:79847260delA	uc003hlp.1	-						PAQR3_uc003hlm.2_Intron|PAQR3_uc003hln.2_Intron|PAQR3_uc003hlq.1_Intron	NM_001040202	NP_001035292			progestin and adipoQ receptor family member III							Golgi membrane|integral to membrane	receptor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	80250963	80250963	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:80250963delA								NAA11 (3792 upstream) : GK2 (76545 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	80565533	80565533	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:80565533delT								GK2 (236161 upstream) : GDEP (183092 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	80570836	80570836	+	IGR	DEL	A	-	-	rs72129039		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:80570836delA								GK2 (241464 upstream) : GDEP (177789 downstream)																																			---	---	---	---
ANTXR2	118429	broad.mit.edu	37	4	80979395	80979395	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:80979395delT	uc003hlz.3	-						ANTXR2_uc003hly.3_Intron|ANTXR2_uc003hlx.1_Intron|ANTXR2_uc010ijn.2_Intron	NM_001145794	NP_001139266			anthrax toxin receptor 2 isoform 2							endoplasmic reticulum membrane|extracellular region|integral to membrane|plasma membrane	metal ion binding|protein binding|receptor activity			ovary(1)	1														Juvenile_Hyaline_Fibromatosis				---	---	---	---
C4orf22	255119	broad.mit.edu	37	4	81801521	81801521	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:81801521delA	uc003hmf.2	+						C4orf22_uc010ijp.2_Intron	NM_152770	NP_689983			hypothetical protein LOC255119											skin(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	81925268	81925270	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:81925268_81925270delAAA								C4orf22 (40372 upstream) : BMP3 (26849 downstream)																																			---	---	---	---
PRKG2	5593	broad.mit.edu	37	4	82056986	82056986	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:82056986delT	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	82247802	82247803	+	IGR	INS	-	TG	TG	rs148790766	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:82247802_82247803insTG								PRKG2 (111584 upstream) : RASGEF1B (100416 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	82542007	82542007	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:82542007delT								RASGEF1B (148946 upstream) : HNRNPD (732460 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	82734030	82734030	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:82734030delA								RASGEF1B (340969 upstream) : HNRNPD (540437 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	83020731	83020731	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83020731delA								RASGEF1B (627670 upstream) : HNRNPD (253736 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	83087243	83087243	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83087243delA								RASGEF1B (694182 upstream) : HNRNPD (187224 downstream)																																			---	---	---	---
SCD5	79966	broad.mit.edu	37	4	83586531	83586532	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83586531_83586532insA	uc003hna.2	-						SCD5_uc003hnb.3_Intron	NM_001037582	NP_001032671			stearoyl-CoA desaturase 5 isoform a						fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity			ovary(1)	1		Colorectal(4;0.0323)|Hepatocellular(203;0.115)																---	---	---	---
SEC31A	22872	broad.mit.edu	37	4	83787784	83787784	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83787784delA	uc003hnf.2	-						SEC31A_uc003hne.2_Intron|SEC31A_uc011ccl.1_Intron|SEC31A_uc003hnl.2_Intron|SEC31A_uc003hng.2_Intron|SEC31A_uc003hnh.2_Intron|SEC31A_uc003hni.2_Intron|SEC31A_uc003hnj.2_Intron|SEC31A_uc011ccm.1_Intron|SEC31A_uc011ccn.1_Intron|SEC31A_uc003hnk.2_Intron|SEC31A_uc003hnm.2_Intron|SEC31A_uc003hnn.1_Intron|SEC31A_uc003hno.2_Intron	NM_001077207	NP_001070675			SEC31 homolog A isoform 1						COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)																---	---	---	---
LIN54	132660	broad.mit.edu	37	4	83917272	83917272	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83917272delA	uc003hnx.3	-						LIN54_uc003hnz.3_Intron|LIN54_uc003hny.3_Intron|LIN54_uc010ijt.2_Intron|LIN54_uc010iju.2_Intron|LIN54_uc010ijv.2_Intron	NM_194282	NP_919258			lin-54 homolog isoform a						cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Hepatocellular(203;0.114)																---	---	---	---
HELQ	113510	broad.mit.edu	37	4	84339020	84339020	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:84339020delT	uc003hom.2	-						HELQ_uc010ikb.2_Intron|HELQ_uc003hol.3_Intron|HELQ_uc010ikc.2_Intron	NM_133636	NP_598375			DNA helicase HEL308								ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3													Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					---	---	---	---
Unknown	0	broad.mit.edu	37	4	85280367	85280367	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:85280367delC								AGPAT9 (753342 upstream) : NKX6-1 (134069 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	85294310	85294310	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:85294310delA								AGPAT9 (767285 upstream) : NKX6-1 (120126 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	85494495	85494495	+	IGR	DEL	C	-	-	rs113925104		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:85494495delC								NKX6-1 (75108 upstream) : CDS1 (9562 downstream)																																			---	---	---	---
WDFY3	23001	broad.mit.edu	37	4	85620198	85620198	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:85620198delT	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)														---	---	---	---
WDFY3	23001	broad.mit.edu	37	4	85724310	85724310	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:85724310delT	uc003hpd.2	-							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)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	86036502	86036502	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:86036502delT								C4orf12 (108334 upstream) : ARHGAP24 (359782 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	86216793	86216794	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:86216793_86216794delCT								C4orf12 (288625 upstream) : ARHGAP24 (179490 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	86371012	86371012	+	IGR	DEL	T	-	-	rs113571046		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:86371012delT								C4orf12 (442844 upstream) : ARHGAP24 (25272 downstream)																																			---	---	---	---
ARHGAP24	83478	broad.mit.edu	37	4	86838901	86838904	+	Intron	DEL	TGTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:86838901_86838904delTGTT	uc003hpk.2	+						ARHGAP24_uc003hpj.2_Intron|ARHGAP24_uc003hpl.2_Intron|ARHGAP24_uc010ikf.2_Intron	NM_001025616	NP_001020787			Rho GTPase activating protein 24 isoform 1						angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell projection|cytoskeleton|cytosol|focal adhesion	GTPase activator activity|protein binding				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)														---	---	---	---
MAPK10	5602	broad.mit.edu	37	4	87008768	87008771	+	Intron	DEL	CAAA	-	-	rs146055472		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:87008768_87008771delCAAA	uc003hpq.2	-						MAPK10_uc010ikg.2_Intron|MAPK10_uc003hpr.2_Intron|MAPK10_uc003hps.2_Intron|MAPK10_uc003hpt.2_Intron|MAPK10_uc003hpu.2_Intron|MAPK10_uc003hpv.2_Intron|MAPK10_uc003hpn.2_Intron|MAPK10_uc003hpo.2_Intron|MAPK10_uc011ccw.1_Intron|MAPK10_uc003hpp.2_Intron	NM_138982	NP_620448			mitogen-activated protein kinase 10 isoform 2						innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)														---	---	---	---
MAPK10	5602	broad.mit.edu	37	4	87215687	87215688	+	Intron	DEL	AA	-	-	rs78638116		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:87215687_87215688delAA	uc003hpq.2	-						MAPK10_uc010ikg.2_Intron|MAPK10_uc003hpr.2_Intron|MAPK10_uc003hps.2_Intron|MAPK10_uc003hpt.2_Intron|MAPK10_uc003hpu.2_Intron|MAPK10_uc003hpv.2_Intron|MAPK10_uc010ikh.1_Intron	NM_138982	NP_620448			mitogen-activated protein kinase 10 isoform 2						innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)														---	---	---	---
MAPK10	5602	broad.mit.edu	37	4	87232188	87232189	+	Intron	INS	-	AC	AC	rs143712904	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:87232188_87232189insAC	uc003hpq.2	-						MAPK10_uc010ikg.2_Intron|MAPK10_uc003hpr.2_Intron|MAPK10_uc003hps.2_Intron|MAPK10_uc003hpt.2_Intron|MAPK10_uc003hpu.2_Intron|MAPK10_uc003hpv.2_Intron|MAPK10_uc010ikh.1_Intron	NM_138982	NP_620448			mitogen-activated protein kinase 10 isoform 2						innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)														---	---	---	---
MAPK10	5602	broad.mit.edu	37	4	87253038	87253038	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:87253038delA	uc003hpq.2	-						MAPK10_uc010ikg.2_Intron|MAPK10_uc003hpr.2_Intron|MAPK10_uc003hps.2_Intron|MAPK10_uc003hpt.2_Intron|MAPK10_uc003hpu.2_Intron|MAPK10_uc003hpv.2_Intron|MAPK10_uc010ikh.1_Intron	NM_138982	NP_620448			mitogen-activated protein kinase 10 isoform 2						innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)														---	---	---	---
MAPK10	5602	broad.mit.edu	37	4	87289933	87289933	+	Intron	DEL	T	-	-	rs112462504		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:87289933delT	uc003hpu.2	-						MAPK10_uc003hpt.2_Intron|MAPK10_uc003hpv.2_Intron|MAPK10_uc010ikh.1_Intron	NM_138982	NP_620448			mitogen-activated protein kinase 10 isoform 2						innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)														---	---	---	---
PTPN13	5783	broad.mit.edu	37	4	87593721	87593721	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:87593721delT	uc003hpz.2	+						PTPN13_uc003hpy.2_Intron|PTPN13_uc003hqa.2_Intron|PTPN13_uc003hqb.2_Intron	NM_080683	NP_542414			protein tyrosine phosphatase, non-receptor type							cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)														---	---	---	---
PTPN13	5783	broad.mit.edu	37	4	87723299	87723300	+	Intron	DEL	AG	-	-	rs1894958	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:87723299_87723300delAG	uc003hpz.2	+						PTPN13_uc003hpy.2_Intron|PTPN13_uc003hqa.2_Intron|PTPN13_uc003hqb.2_Intron|PTPN13_uc003hqc.1_Intron	NM_080683	NP_542414			protein tyrosine phosphatase, non-receptor type							cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)														---	---	---	---
AFF1	4299	broad.mit.edu	37	4	87998450	87998450	+	Intron	DEL	T	-	-	rs35570172		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:87998450delT	uc003hqj.3	+						AFF1_uc003hqh.1_Intron|AFF1_uc011ccy.1_Intron|AFF1_uc011ccz.1_Intron|AFF1_uc003hqk.3_Intron|AFF1_uc011cda.1_Intron	NM_005935	NP_005926			myeloid/lymphoid or mixed-lineage leukemia							nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	88075983	88075983	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88075983delA								AFF1 (13793 upstream) : KLHL8 (6231 downstream)																																			---	---	---	---
HSD17B11	51170	broad.mit.edu	37	4	88276677	88276677	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88276677delA	uc003hqp.2	-							NM_016245	NP_057329			estradiol 17-beta-dehydrogenase 11						androgen catabolic process|steroid biosynthetic process	cytoplasm|extracellular region	binding|estradiol 17-beta-dehydrogenase activity			ovary(2)	2		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000339)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	88333459	88333460	+	IGR	DEL	CC	-	-	rs72149852		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88333459_88333460delCC								HSD17B11 (21004 upstream) : NUDT9 (10275 downstream)																																			---	---	---	---
NUDT9	53343	broad.mit.edu	37	4	88347568	88347568	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88347568delT	uc003hqq.2	+						NUDT9_uc003hqr.2_Intron|NUDT9_uc010ikl.2_Intron	NM_024047	NP_076952			nudix-type motif 9 isoform a							mitochondrion	ADP-ribose diphosphatase activity				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000937)														---	---	---	---
DSPP	1834	broad.mit.edu	37	4	88532855	88532855	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88532855delC	uc003hqu.2	+							NM_014208	NP_055023			dentin sialophosphoprotein preproprotein						biomineral tissue development|ossification|skeletal system development	proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent			central_nervous_system(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	88747564	88747564	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88747564delT								IBSP (13965 upstream) : MEPE (6576 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	88776260	88776260	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88776260delA								MEPE (8318 upstream) : SPP1 (120542 downstream)																																			---	---	---	---
ABCG2	9429	broad.mit.edu	37	4	89022580	89022580	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89022580delA	uc003hrg.2	-						ABCG2_uc003hrh.2_Intron|ABCG2_uc003hrf.2_Intron	NM_004827	NP_004818			ATP-binding cassette, sub-family G, member 2						cellular iron ion homeostasis|urate metabolic process	integral to membrane|plasma membrane	ATP binding|heme transporter activity|protein homodimerization activity|xenobiotic-transporting ATPase activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.02e-05)	Imatinib(DB00619)|Mitoxantrone(DB01204)|Nicardipine(DB00622)|Nitrendipine(DB01054)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Topotecan(DB01030)													---	---	---	---
Unknown	0	broad.mit.edu	37	4	89245494	89245494	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89245494delT	uc003hro.2	+											Homo sapiens, clone IMAGE:5199401, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	89274739	89274739	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89274739delA								PPM1K (68851 upstream) : HERC6 (25152 downstream)																																			---	---	---	---
HERC6	55008	broad.mit.edu	37	4	89358213	89358213	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)														---	---	---	---
PIGY	84992	broad.mit.edu	37	4	89445995	89445995	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89445995delT	uc003hru.1	-							NM_032906	NP_116295			phosphatidylinositol glycan anchor biosynthesis,						GPI anchor biosynthetic process	endoplasmic reticulum membrane|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|integral to membrane|plasma membrane					0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)														---	---	---	---
HERC3	8916	broad.mit.edu	37	4	89528624	89528624	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89528624delT	uc003hrw.1	+						HERC3_uc003hrv.2_Intron|HERC3_uc011cdn.1_Intron	NM_014606	NP_055421			hect domain and RLD 3						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)														---	---	---	---
FAM13AOS	285512	broad.mit.edu	37	4	89640909	89640909	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89640909delC	uc003hry.1	+						FAM13AOS_uc003hrz.1_5'Flank	NR_002806				Homo sapiens cDNA FLJ36331 fis, clone THYMU2006048.												0																		---	---	---	---
FAM13A	10144	broad.mit.edu	37	4	89670709	89670709	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89670709delT	uc003hse.1	-						FAM13A_uc003hsa.1_Intron|FAM13A_uc003hsb.1_Intron|FAM13A_uc003hsd.1_Intron|FAM13A_uc003hsc.1_Intron|FAM13A_uc011cdq.1_Intron|FAM13A_uc003hsf.1_Intron|FAM13A_uc003hsg.1_Intron|FAM13A_uc010ikr.1_Intron	NM_014883	NP_055698			family with sequence similarity 13, member A1						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2																		---	---	---	---
FAM13A	10144	broad.mit.edu	37	4	89709412	89709412	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89709412delT	uc003hse.1	-						FAM13A_uc003hsb.1_Intron|FAM13A_uc003hsd.1_Intron|FAM13A_uc003hsc.1_Intron|FAM13A_uc011cdq.1_Intron|FAM13A_uc003hsf.1_Intron|FAM13A_uc003hsg.1_Intron|FAM13A_uc003hsh.1_Intron|FAM13A_uc010ikr.1_Intron	NM_014883	NP_055698			family with sequence similarity 13, member A1						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2																		---	---	---	---
FAM13A	10144	broad.mit.edu	37	4	89801662	89801662	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89801662delA	uc003hse.1	-						FAM13A_uc003hsf.1_Intron|FAM13A_uc003hsh.1_Intron	NM_014883	NP_055698			family with sequence similarity 13, member A1						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	90267154	90267154	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:90267154delA								GPRIN3 (37993 upstream) : SNCA (378097 downstream)																																			---	---	---	---
FAM190A	401145	broad.mit.edu	37	4	91213863	91213863	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:91213863delT	uc003hsv.3	+						FAM190A_uc003hsu.3_Intron|FAM190A_uc010ikv.2_Intron|FAM190A_uc003hsw.2_Intron	NM_001145065	NP_001138537			KIAA1680 protein isoform 1											large_intestine(1)|ovary(1)	2																		---	---	---	---
FAM190A	401145	broad.mit.edu	37	4	91519125	91519125	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:91519125delT	uc003hsv.3	+						FAM190A_uc010ikv.2_Intron|FAM190A_uc003hsw.2_Intron	NM_001145065	NP_001138537			KIAA1680 protein isoform 1											large_intestine(1)|ovary(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	92525162	92525162	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:92525162delG								FAM190A (1793 upstream) : GRID2 (700388 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	92601487	92601488	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:92601487_92601488insT								FAM190A (78118 upstream) : GRID2 (624062 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	92874124	92874124	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:92874124delT								FAM190A (350755 upstream) : GRID2 (351426 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	92996851	92996852	+	IGR	DEL	AC	-	-	rs28576031	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:92996851_92996852delAC								FAM190A (473482 upstream) : GRID2 (228698 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	93086271	93086271	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:93086271delA								FAM190A (562902 upstream) : GRID2 (139279 downstream)																																			---	---	---	---
GRID2	2895	broad.mit.edu	37	4	93644205	93644205	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:93644205delT	uc011cdt.1	+						GRID2_uc010ikx.2_Intron|GRID2_uc011cdu.1_Intron	NM_001510	NP_001501			glutamate receptor, ionotropic, delta 2						glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)													---	---	---	---
GRID2	2895	broad.mit.edu	37	4	93819469	93819469	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:93819469delT	uc011cdt.1	+						GRID2_uc010ikx.2_Intron|GRID2_uc011cdu.1_Intron|GRID2_uc011cdv.1_Intron	NM_001510	NP_001501			glutamate receptor, ionotropic, delta 2						glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)													---	---	---	---
GRID2	2895	broad.mit.edu	37	4	93979550	93979550	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:93979550delT	uc011cdt.1	+						GRID2_uc010ikx.2_Intron|GRID2_uc011cdu.1_Intron|GRID2_uc011cdv.1_Intron	NM_001510	NP_001501			glutamate receptor, ionotropic, delta 2						glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)													---	---	---	---
GRID2	2895	broad.mit.edu	37	4	94018503	94018503	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:94018503delA	uc011cdt.1	+						GRID2_uc010ikx.2_Intron|GRID2_uc011cdu.1_Intron|GRID2_uc011cdv.1_Intron	NM_001510	NP_001501			glutamate receptor, ionotropic, delta 2						glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)													---	---	---	---
GRID2	2895	broad.mit.edu	37	4	94583285	94583285	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:94583285delT	uc011cdt.1	+						GRID2_uc011cdu.1_Intron	NM_001510	NP_001501			glutamate receptor, ionotropic, delta 2						glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)													---	---	---	---
Unknown	0	broad.mit.edu	37	4	94913579	94913579	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:94913579delA								ATOH1 (162437 upstream) : SMARCAD1 (215180 downstream)																																			---	---	---	---
SMARCAD1	56916	broad.mit.edu	37	4	95206100	95206100	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:95206100delT	uc003htc.3	+						SMARCAD1_uc003htb.3_Intron|SMARCAD1_uc003htd.3_Intron|SMARCAD1_uc010ila.2_Intron|SMARCAD1_uc011cdw.1_Intron	NM_020159	NP_064544			SWI/SNF-related, matrix-associated						chromatin modification|nucleotide metabolic process|positive regulation of transcription, DNA-dependent|protein homooligomerization|regulation of DNA recombination	nuclear matrix	ATP binding|DNA binding|helicase activity			skin(2)|ovary(1)|breast(1)	4				OV - Ovarian serous cystadenocarcinoma(123;4.33e-08)														---	---	---	---
HPGDS	27306	broad.mit.edu	37	4	95221877	95221877	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:95221877delA	uc003hte.1	-							NM_014485	NP_055300			prostaglandin D2 synthase, hematopoietic						locomotory behavior|prostaglandin biosynthetic process|signal transduction	cytoplasm|nucleus	calcium ion binding|glutathione transferase activity|magnesium ion binding|prostaglandin-D synthase activity|protein homodimerization activity			ovary(1)	1					Glutathione(DB00143)													---	---	---	---
PDLIM5	10611	broad.mit.edu	37	4	95414470	95414470	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:95414470delT	uc003hti.2	+						PDLIM5_uc003htf.2_Intron|PDLIM5_uc003htg.2_Intron|PDLIM5_uc011cdx.1_Intron|PDLIM5_uc003hth.2_Intron|PDLIM5_uc003htj.2_Intron|PDLIM5_uc003htk.2_Intron|PDLIM5_uc011cdy.1_Intron	NM_006457	NP_006448			PDZ and LIM domain 5 isoform a						regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)														---	---	---	---
PDLIM5	10611	broad.mit.edu	37	4	95430066	95430066	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:95430066delG	uc003hti.2	+						PDLIM5_uc003htf.2_Intron|PDLIM5_uc003htg.2_Intron|PDLIM5_uc011cdx.1_Intron|PDLIM5_uc003hth.2_Intron|PDLIM5_uc003htj.2_Intron|PDLIM5_uc003htk.2_Intron|PDLIM5_uc011cdy.1_Intron	NM_006457	NP_006448			PDZ and LIM domain 5 isoform a						regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)														---	---	---	---
BMPR1B	658	broad.mit.edu	37	4	95930214	95930214	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:95930214delA	uc003htm.3	+							NM_001203	NP_001194			bone morphogenetic protein receptor, type IB						BMP signaling pathway|cartilage condensation|eye development|limb morphogenesis|ovarian cumulus expansion|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	receptor complex	ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta receptor activity			lung(4)|skin(2)|stomach(1)|breast(1)	8		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.51e-07)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	96495032	96495032	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:96495032delT								UNC5C (24870 upstream) : PDHA2 (266207 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	96530284	96530284	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:96530284delT								UNC5C (60122 upstream) : PDHA2 (230955 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	97033203	97033204	+	IGR	INS	-	A	A	rs138326597	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:97033203_97033204insA								PDHA2 (270579 upstream) : None (None downstream)																																			---	---	---	---
RAP1GDS1	5910	broad.mit.edu	37	4	99326976	99326977	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:99326976_99326977insA	uc003htx.3	+						RAP1GDS1_uc003htw.3_Intron|RAP1GDS1_uc003htv.3_Intron|RAP1GDS1_uc003htz.3_Intron|RAP1GDS1_uc003hty.3_Intron|RAP1GDS1_uc003hua.3_Intron	NM_001100427	NP_001093897			RAP1, GTP-GDP dissociation stimulator 1 isoform								binding|GTPase activator activity			ovary(1)|lung(1)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;2.9e-07)|LUSC - Lung squamous cell carcinoma(1;0.0253)|Lung(1;0.0576)				T	NUP98	T-ALL								---	---	---	---
TSPAN5	10098	broad.mit.edu	37	4	99506471	99506471	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:99506471delT	uc003hub.2	-						TSPAN5_uc011cdz.1_Intron	NM_005723	NP_005714			transmembrane 4 superfamily member 9							integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;1.89e-07)														---	---	---	---
C4orf17	84103	broad.mit.edu	37	4	100461438	100461438	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:100461438delA	uc003huw.2	+						C4orf17_uc003hux.2_Intron	NM_032149	NP_115525			hypothetical protein LOC84103												0				OV - Ovarian serous cystadenocarcinoma(123;2.08e-08)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	100581323	100581325	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:100581323_100581325delAAA								MTTP (36170 upstream) : DAPP1 (156656 downstream)																																			---	---	---	---
PPP3CA	5530	broad.mit.edu	37	4	102139630	102139630	+	Intron	DEL	T	-	-	rs35434780		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:102139630delT	uc011cen.1	-						PPP3CA_uc003hvu.2_Intron|PPP3CA_uc010ilj.2_Intron|PPP3CA_uc003hvt.2_Intron|PPP3CA_uc003hvs.2_Intron|PPP3CA_uc010ilk.2_Intron	NM_000944	NP_000935			protein phosphatase 3, catalytic subunit, alpha						protein dephosphorylation	calcineurin complex|cytosol|nucleus	calcium ion binding|calmodulin binding			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(123;6.79e-08)														---	---	---	---
BANK1	55024	broad.mit.edu	37	4	102338843	102338844	+	5'Flank	INS	-	T	T	rs140417029	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:102338843_102338844insT	uc003hvx.3	+							NM_001083907	NP_001077376			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)														---	---	---	---
BANK1	55024	broad.mit.edu	37	4	102721440	102721440	+	Intron	DEL	A	-	-	rs79361700		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:102721440delA	uc003hvy.3	+						BANK1_uc003hvx.3_Intron|BANK1_uc010ill.2_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)														---	---	---	---
BANK1	55024	broad.mit.edu	37	4	102899849	102899849	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:102899849delA	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)														---	---	---	---
BANK1	55024	broad.mit.edu	37	4	102965187	102965187	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:102965187delT	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	103123064	103123064	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:103123064delT								BANK1 (127097 upstream) : SLC39A8 (49134 downstream)																																			---	---	---	---
NFKB1	4790	broad.mit.edu	37	4	103518050	103518051	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:103518050_103518051delGT	uc011ceq.1	+						NFKB1_uc011cep.1_Intron|NFKB1_uc011cer.1_Intron	NM_003998	NP_003989			nuclear factor kappa-B, subunit 1 isoform 1						anti-apoptosis|apoptosis|cellular response to mechanical stimulus|inflammatory response|innate immune response|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of calcidiol 1-monooxygenase activity|nerve growth factor receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter	cytosol|I-kappaB/NF-kappaB complex|mitochondrion|nucleoplasm	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|breast(2)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.59e-08)	Dexamethasone(DB01234)|Pranlukast(DB01411)|Thalidomide(DB01041)													---	---	---	---
NHEDC2	133308	broad.mit.edu	37	4	103965804	103965807	+	Intron	DEL	TTAT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:103965804_103965807delTTAT	uc003hwx.3	-						NHEDC2_uc010iln.1_Intron|NHEDC2_uc003hwy.2_Intron|NHEDC2_uc011cew.1_Intron|NHEDC2_uc011cex.1_Intron	NM_178833	NP_849155			Na+/H+ exchanger domain containing 2						sodium ion transport	integral to membrane|mitochondrial membrane	solute:hydrogen antiporter activity				0				OV - Ovarian serous cystadenocarcinoma(123;2.3e-08)														---	---	---	---
CENPE	1062	broad.mit.edu	37	4	104046857	104046857	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:104046857delA	uc003hxb.1	-						CENPE_uc003hxc.1_Intron	NM_001813	NP_001804			centromere protein E						blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	104158727	104158728	+	IGR	DEL	CA	-	-	rs57234853		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:104158727_104158728delCA								CENPE (39161 upstream) : TACR3 (351897 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	104202685	104202685	+	IGR	DEL	A	-	-	rs112683980		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:104202685delA								CENPE (83119 upstream) : TACR3 (307940 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	105198932	105198932	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:105198932delA								TACR3 (557959 upstream) : CXXC4 (194413 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	105482821	105482821	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:105482821delT	uc003hxh.1	+											Homo sapiens cDNA FLJ37242 fis, clone BRAMY2004335.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	105630356	105630356	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:105630356delA								CXXC4 (214298 upstream) : TET2 (437587 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	106012797	106012797	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:106012797delA								CXXC4 (596739 upstream) : TET2 (55146 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	106026330	106026330	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:106026330delC								CXXC4 (610272 upstream) : TET2 (41613 downstream)																																			---	---	---	---
TET2	54790	broad.mit.edu	37	4	106068732	106068732	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:106068732delT	uc003hxk.2	+						TET2_uc011cez.1_Intron|TET2_uc010ilp.1_Intron|TET2_uc003hxi.1_Intron	NM_001127208	NP_001120680			tet oncogene family member 2 isoform a						cell cycle|myeloid cell differentiation		metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			haematopoietic_and_lymphoid_tissue(732)|pancreas(1)	733		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)				Mis N|F		MDS								---	---	---	---
PPA2	27068	broad.mit.edu	37	4	106317512	106317512	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:106317512delA	uc003hxl.2	-						PPA2_uc003hxm.2_Intron|PPA2_uc003hxn.2_Intron|PPA2_uc003hxo.2_Intron|PPA2_uc003hxp.2_Intron|PPA2_uc003hxq.2_Intron|PPA2_uc003hxr.2_Intron	NM_176869	NP_789845			inorganic pyrophosphatase 2 isoform 1 precursor						diphosphate metabolic process|tRNA aminoacylation for protein translation	mitochondrial matrix	inorganic diphosphatase activity|magnesium ion binding			pancreas(1)	1		Myeloproliferative disorder(5;0.0255)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.03e-07)														---	---	---	---
PPA2	27068	broad.mit.edu	37	4	106381845	106381845	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:106381845delA	uc003hxl.2	-						PPA2_uc003hxm.2_Intron|PPA2_uc003hxn.2_Intron|PPA2_uc003hxo.2_Intron|PPA2_uc003hxp.2_Intron|PPA2_uc003hxq.2_Intron|PPA2_uc003hxr.2_Intron|PPA2_uc011cfa.1_Intron	NM_176869	NP_789845			inorganic pyrophosphatase 2 isoform 1 precursor						diphosphate metabolic process|tRNA aminoacylation for protein translation	mitochondrial matrix	inorganic diphosphatase activity|magnesium ion binding			pancreas(1)	1		Myeloproliferative disorder(5;0.0255)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.03e-07)														---	---	---	---
ARHGEF38	54848	broad.mit.edu	37	4	106479974	106479974	+	Intron	DEL	T	-	-	rs34981388		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:106479974delT	uc003hxu.2	+							NM_017700	NP_060170			hypothetical protein LOC54848						regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|breast(1)	3																		---	---	---	---
GSTCD	79807	broad.mit.edu	37	4	106718672	106718673	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:106718672_106718673delAA	uc003hxz.3	+						GSTCD_uc003hxx.2_Intron|GSTCD_uc003hxy.3_Intron|GSTCD_uc011cfb.1_Intron	NM_001031720	NP_001026890			glutathione S-transferase, C-terminal domain							cytoplasm	rRNA methyltransferase activity			breast(1)|central_nervous_system(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.15e-07)|READ - Rectum adenocarcinoma(30;0.139)														---	---	---	---
GSTCD	79807	broad.mit.edu	37	4	106752046	106752046	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:106752046delA	uc003hxz.3	+						GSTCD_uc003hxy.3_Intron|GSTCD_uc011cfb.1_Intron	NM_001031720	NP_001026890			glutathione S-transferase, C-terminal domain							cytoplasm	rRNA methyltransferase activity			breast(1)|central_nervous_system(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.15e-07)|READ - Rectum adenocarcinoma(30;0.139)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	106773607	106773607	+	IGR	DEL	T	-	-	rs13106564		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:106773607delT								GSTCD (4726 upstream) : NPNT (42998 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	107395402	107395402	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:107395402delA								AIMP1 (125023 upstream) : DKK2 (447558 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	107829950	107829950	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:107829950delT								AIMP1 (559571 upstream) : DKK2 (13010 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	108383075	108383076	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:108383075_108383076delAC								DKK2 (178229 upstream) : PAPSS1 (151747 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	108893028	108893028	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:108893028delA								CYP2U1 (18417 upstream) : HADH (17912 downstream)																																			---	---	---	---
LEF1	51176	broad.mit.edu	37	4	109034570	109034570	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:109034570delA	uc003hyt.1	-						LEF1_uc011cfj.1_Intron|LEF1_uc011cfk.1_Intron|LEF1_uc003hyu.1_Intron|LEF1_uc003hyv.1_Intron|LEF1_uc010imb.1_Intron	NM_016269	NP_057353			lymphoid enhancer-binding factor 1 isoform 1						canonical Wnt receptor signaling pathway|cell chemotaxis|cellular response to interleukin-4|epithelial to mesenchymal transition|histone H3 acetylation|histone H4 acetylation|negative regulation of apoptosis in bone marrow|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell-cell adhesion|negative regulation of DNA binding|negative regulation of estrogen receptor binding|negative regulation of interleukin-13 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of transcription, DNA-dependent|neutrophil differentiation|osteoblast differentiation|palate development|positive regulation by host of viral transcription|positive regulation of cell cycle process|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cell proliferation in bone marrow|positive regulation of cell-cell adhesion|positive regulation of epithelial to mesenchymal transition|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|T-helper 1 cell differentiation	cytoplasm|protein-DNA complex|transcription factor complex	armadillo repeat domain binding|beta-catenin binding|C2H2 zinc finger domain binding|caspase inhibitor activity|DNA bending activity|enhancer binding|estrogen receptor activity|estrogen receptor binding|gamma-catenin binding|histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding			large_intestine(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000224)														---	---	---	---
LOC285456	285456	broad.mit.edu	37	4	109503666	109503666	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:109503666delA	uc011cfl.1	-						LOC285456_uc003hyy.2_Intron					SubName: Full=cDNA FLJ57077;												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	109608781	109608781	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:109608781delT								OSTC (19801 upstream) : AGXT2L1 (54423 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	109699817	109699817	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:109699817delA								AGXT2L1 (15582 upstream) : COL25A1 (32061 downstream)																																			---	---	---	---
COL25A1	84570	broad.mit.edu	37	4	109779348	109779348	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:109779348delG	uc003hze.1	-						COL25A1_uc003hzg.2_Intron|COL25A1_uc003hzd.2_Intron|COL25A1_uc003hzf.2_Intron	NM_198721	NP_942014			collagen, type XXV, alpha 1 isoform 1							collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)														---	---	---	---
CCDC109B	55013	broad.mit.edu	37	4	110500412	110500412	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:110500412delT	uc011cfs.1	+						CCDC109B_uc010imf.2_Intron	NM_017918	NP_060388			coiled-coil domain containing 109B							integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;6.65e-06)														---	---	---	---
CFI	3426	broad.mit.edu	37	4	110667668	110667668	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:110667668delA	uc003hzr.3	-						CFI_uc003hzq.2_Intron|CFI_uc011cft.1_Intron|CFI_uc003hzs.3_Intron	NM_000204	NP_000195			complement factor I preproprotein						complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)														---	---	---	---
ELOVL6	79071	broad.mit.edu	37	4	110979011	110979017	+	Intron	DEL	AAAAAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:110979011_110979017delAAAAAAA	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	111232063	111232063	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:111232063delA								ELOVL6 (112243 upstream) : ENPEP (165166 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	111581573	111581573	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:111581573delT								PITX2 (18456 upstream) : MIR297 (200165 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	111970831	111970832	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:111970831_111970832delAC								MIR297 (189028 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	112668276	112668279	+	IGR	DEL	TGTG	-	-	rs35895848		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:112668276_112668279delTGTG								MIR297 (886473 upstream) : C4orf32 (398274 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	112767465	112767465	+	IGR	DEL	G	-	-	rs141951858	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:112767465delG								MIR297 (985662 upstream) : C4orf32 (299088 downstream)																																			---	---	---	---
AP1AR	55435	broad.mit.edu	37	4	113186056	113186056	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:113186056delT	uc003iaj.3	+						AP1AR_uc010imm.1_Intron|AP1AR_uc003iak.3_Intron	NM_018569	NP_061039			adaptor-related protein complex 1 associated						protein transport	early endosome|Golgi apparatus|late endosome|transport vesicle					0																		---	---	---	---
ALPK1	80216	broad.mit.edu	37	4	113355196	113355196	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:113355196delA	uc003iap.3	+						ALPK1_uc003ian.3_Intron|ALPK1_uc011cfx.1_Intron|ALPK1_uc003iao.3_Intron|ALPK1_uc010imo.2_Intron	NM_025144	NP_079420			alpha-kinase 1								ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)														---	---	---	---
C4orf21	55345	broad.mit.edu	37	4	113460849	113460849	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:113460849delA	uc003iau.2	-						C4orf21_uc003iav.2_Intron|C4orf21_uc003iat.2_Intron	NM_018392	NP_060862			prematurely terminated mRNA decay factor-like							integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)														---	---	---	---
ANK2	287	broad.mit.edu	37	4	114198880	114198880	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114198880delT	uc003ibe.3	+						ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc003ibc.2_Intron|ANK2_uc011cgb.1_Intron	NM_001148	NP_001139			ankyrin 2 isoform 1						axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)														---	---	---	---
ANK2	287	broad.mit.edu	37	4	114252857	114252857	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114252857delT	uc003ibe.3	+						ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibc.2_Intron|ANK2_uc011cgb.1_Intron	NM_001148	NP_001139			ankyrin 2 isoform 1						axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)														---	---	---	---
ANK2	287	broad.mit.edu	37	4	114289147	114289148	+	Intron	DEL	AA	-	-	rs55966162	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114289147_114289148delAA	uc003ibe.3	+						ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Intron	NM_001148	NP_001139			ankyrin 2 isoform 1						axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	114341332	114341333	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114341332_114341333insA								ANK2 (36438 upstream) : CAMK2D (30857 downstream)																																			---	---	---	---
CAMK2D	817	broad.mit.edu	37	4	114436129	114436129	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114436129delT	uc003ibi.2	-						CAMK2D_uc003ibj.2_Intron|CAMK2D_uc003ibk.2_Intron|CAMK2D_uc003ibo.3_Intron|CAMK2D_uc003ibm.2_Intron|CAMK2D_uc003ibn.2_Intron|CAMK2D_uc003ibl.2_Intron	NM_001221	NP_001212			calcium/calmodulin-dependent protein kinase II						interferon-gamma-mediated signaling pathway|regulation of cell growth|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1		Ovarian(17;0.00369)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000271)														---	---	---	---
CAMK2D	817	broad.mit.edu	37	4	114473292	114473292	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114473292delA	uc003ibi.2	-						CAMK2D_uc003ibj.2_Intron|CAMK2D_uc003ibk.2_Intron|CAMK2D_uc003ibo.3_Intron|CAMK2D_uc003ibm.2_Intron|CAMK2D_uc003ibn.2_Intron|CAMK2D_uc003ibl.2_Intron	NM_001221	NP_001212			calcium/calmodulin-dependent protein kinase II						interferon-gamma-mediated signaling pathway|regulation of cell growth|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1		Ovarian(17;0.00369)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000271)														---	---	---	---
CAMK2D	817	broad.mit.edu	37	4	114622875	114622875	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114622875delT	uc003ibi.2	-						CAMK2D_uc003ibj.2_Intron|CAMK2D_uc003ibk.2_Intron|CAMK2D_uc003ibo.3_Intron|CAMK2D_uc003ibm.2_Intron|CAMK2D_uc003ibn.2_Intron|CAMK2D_uc003ibl.2_Intron	NM_001221	NP_001212			calcium/calmodulin-dependent protein kinase II						interferon-gamma-mediated signaling pathway|regulation of cell growth|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1		Ovarian(17;0.00369)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000271)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	114704651	114704651	+	IGR	DEL	A	-	-	rs79856368		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114704651delA								CAMK2D (21568 upstream) : ARSJ (116789 downstream)																																			---	---	---	---
ARSJ	79642	broad.mit.edu	37	4	114841106	114841106	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114841106delT	uc003ibq.1	-						ARSJ_uc010imu.1_Intron|ARSJ_uc010imv.1_Intron	NM_024590	NP_078866			arylsulfatase J precursor							extracellular region	arylsulfatase activity|metal ion binding			ovary(1)	1		Ovarian(17;0.0035)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00194)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	115645041	115645041	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:115645041delT								UGT8 (46839 upstream) : NDST4 (103890 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	115691675	115691675	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:115691675delA								UGT8 (93473 upstream) : NDST4 (57256 downstream)																																			---	---	---	---
NDST4	64579	broad.mit.edu	37	4	115775633	115775633	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:115775633delT	uc003ibu.2	-						NDST4_uc010imw.2_Intron	NM_022569	NP_072091			heparan sulfate N-deacetylase/N-sulfotransferase							Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	116191721	116191722	+	IGR	DEL	GA	-	-	rs71932359		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:116191721_116191722delGA								NDST4 (156689 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	116233326	116233327	+	IGR	DEL	AA	-	-	rs143055242		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:116233326_116233327delAA								NDST4 (198294 upstream) : MIR1973 (987554 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	116295144	116295144	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:116295144delT								NDST4 (260112 upstream) : MIR1973 (925737 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	116998789	116998789	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:116998789delT								NDST4 (963757 upstream) : MIR1973 (222092 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	117133280	117133280	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:117133280delT								None (None upstream) : MIR1973 (87601 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	117204251	117204251	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:117204251delT								None (None upstream) : MIR1973 (16630 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	117472226	117472226	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:117472226delT								MIR1973 (251302 upstream) : TRAM1L1 (532490 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	118046762	118046763	+	IGR	DEL	CT	-	-	rs145689653		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:118046762_118046763delCT								TRAM1L1 (40026 upstream) : NDST3 (908010 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	118123005	118123007	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:118123005_118123007delAAA								TRAM1L1 (116269 upstream) : NDST3 (831766 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	118151835	118151835	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:118151835delA								TRAM1L1 (145099 upstream) : NDST3 (802938 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	118420305	118420305	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:118420305delA								TRAM1L1 (413569 upstream) : NDST3 (534468 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	118751027	118751028	+	IGR	INS	-	TC	TC	rs143468874	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:118751027_118751028insTC								TRAM1L1 (744291 upstream) : NDST3 (203745 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	119183689	119183689	+	IGR	DEL	A	-	-	rs75431783		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:119183689delA								NDST3 (3903 upstream) : SNHG8 (16225 downstream)																																			---	---	---	---
PRSS12	8492	broad.mit.edu	37	4	119255715	119255715	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:119255715delA	uc003ica.1	-							NM_003619	NP_003610			neurotrypsin precursor							membrane	scavenger receptor activity			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	119321541	119321541	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:119321541delT								PRSS12 (47619 upstream) : CEP170L (115954 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	120249384	120249384	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:120249384delT								FABP2 (6068 upstream) : PDE5A (166168 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	120311106	120311106	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:120311106delA	uc003icx.1	+											Homo sapiens cDNA FLJ40382 fis, clone TESTI2035775.																														---	---	---	---
PDE5A	8654	broad.mit.edu	37	4	120460501	120460502	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:120460501_120460502delTT	uc003idh.2	-						uc003ide.3_Intron|PDE5A_uc003idf.2_Intron|PDE5A_uc003idg.2_Intron|uc003idi.3_Intron	NM_001083	NP_001074			phosphodiesterase 5A isoform 1						platelet activation|signal transduction	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|zinc ion binding				0					Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Vardenafil(DB00862)													---	---	---	---
Unknown	0	broad.mit.edu	37	4	121079629	121079630	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:121079629_121079630delAG								MAD2L1 (91616 upstream) : PRDM5 (536300 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	121877114	121877114	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:121877114delA								PRDM5 (33101 upstream) : C4orf31 (79668 downstream)																																			---	---	---	---
TNIP3	79931	broad.mit.edu	37	4	122075764	122075764	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122075764delT	uc010ing.2	-	5	630	c.434delA	c.(433-435)AATfs	p.N145fs	TNIP3_uc010inh.2_Frame_Shift_Del_p.N145fs|TNIP3_uc011cgj.1_Frame_Shift_Del_p.N203fs|TNIP3_uc010ini.2_Frame_Shift_Del_p.N145fs	NM_024873	NP_079149	Q96KP6	TNIP3_HUMAN	TNFAIP3 interacting protein 3	145	Potential.									ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	122342464	122342464	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122342464delT								QRFPR (40283 upstream) : ANXA5 (246689 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	122381919	122381920	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122381919_122381920delTC								QRFPR (79738 upstream) : ANXA5 (207233 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	122569570	122569570	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122569570delT								QRFPR (267389 upstream) : ANXA5 (19583 downstream)																																			---	---	---	---
ANXA5	308	broad.mit.edu	37	4	122598798	122598798	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122598798delA	uc003idu.3	-						ANXA5_uc003idv.3_Intron|ANXA5_uc003idw.3_Intron|ANXA5_uc010inm.2_Intron|ANXA5_uc010inn.2_Intron|ANXA5_uc010ino.2_Intron	NM_001154	NP_001145			annexin 5						anti-apoptosis|blood coagulation|negative regulation of coagulation|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	122639289	122639289	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122639289delA								ANXA5 (21142 upstream) : TMEM155 (40796 downstream)																																			---	---	---	---
BBS7	55212	broad.mit.edu	37	4	122752618	122752619	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122752618_122752619delAA	uc003ied.2	-						BBS7_uc003iee.1_Intron	NM_176824	NP_789794			Bardet-Biedl syndrome 7 protein isoform a						cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1														Bardet-Biedl_syndrome				---	---	---	---
TRPC3	7222	broad.mit.edu	37	4	122844256	122844257	+	Intron	DEL	AG	-	-	rs71736349		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122844256_122844257delAG	uc003ieg.2	-						TRPC3_uc010inr.2_Intron|TRPC3_uc003ief.2_Intron|TRPC3_uc011cgl.1_Intron	NM_001130698	NP_001124170			transient receptor potential cation channel,						axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2																		---	---	---	---
TRPC3	7222	broad.mit.edu	37	4	122860003	122860004	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122860003_122860004delAA	uc003ieg.2	-							NM_001130698	NP_001124170			transient receptor potential cation channel,						axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	122956715	122956715	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122956715delA								TRPC3 (83806 upstream) : KIAA1109 (135043 downstream)																																			---	---	---	---
KIAA1109	84162	broad.mit.edu	37	4	123111049	123111049	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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	123164876	123164876	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123164876delA	uc003ieh.2	+						KIAA1109_uc003iek.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																		---	---	---	---
KIAA1109	84162	broad.mit.edu	37	4	123170044	123170044	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123170044delT	uc003ieh.2	+						KIAA1109_uc003iek.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																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	123629172	123629173	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123629172_123629173delTT								IL21 (86961 upstream) : CETN4P (22171 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	123683841	123683841	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123683841delA								BBS12 (17744 upstream) : FGF2 (64022 downstream)																																			---	---	---	---
SPATA5	166378	broad.mit.edu	37	4	123946831	123946831	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123946831delT	uc003iez.3	+						SPATA5_uc003iey.2_Intron	NM_145207	NP_660208			spermatogenesis associated 5						cell differentiation|multicellular organismal development|spermatogenesis	mitochondrion	ATP binding|nucleoside-triphosphatase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	124290195	124290195	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:124290195delT								SPATA5 (49593 upstream) : SPRY1 (27761 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	124374539	124374540	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:124374539_124374540insA								SPRY1 (49632 upstream) : LOC285419 (196882 downstream)																																			---	---	---	---
LOC285419	285419	broad.mit.edu	37	4	124585419	124585419	+	RNA	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:124585419delT	uc003ifc.2	+	3		c.2694delT			LOC285419_uc011cgn.1_Intron					Homo sapiens mRNA; cDNA DKFZp686P12109 (from clone DKFZp686P12109).												0																		---	---	---	---
LOC285419	285419	broad.mit.edu	37	4	124626280	124626280	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:124626280delA	uc011cgn.1	+							NR_027105				Homo sapiens mRNA; cDNA DKFZp686P12109 (from clone DKFZp686P12109).												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	124909993	124909994	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:124909993_124909994delTT								LOC285419 (58475 upstream) : ANKRD50 (675474 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	124996497	124996497	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:124996497delA								LOC285419 (144979 upstream) : ANKRD50 (588971 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	125372124	125372124	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:125372124delA								LOC285419 (520606 upstream) : ANKRD50 (213344 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	125472694	125472694	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:125472694delT	uc003ife.1	-											Homo sapiens cDNA FLJ32893 fis, clone TESTI2004993.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	125888819	125888819	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:125888819delT								ANKRD50 (254932 upstream) : FAT4 (348748 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	126225339	126225339	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126225339delT								ANKRD50 (591452 upstream) : FAT4 (12228 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	126858023	126858024	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126858023_126858024insA								MIR2054 (429561 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	127644221	127644221	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:127644221delA								None (None upstream) : INTU (909899 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	128268647	128268647	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:128268647delT								None (None upstream) : INTU (285473 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	128306240	128306240	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:128306240delA								None (None upstream) : INTU (247880 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	128530289	128530289	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:128530289delA								None (None upstream) : INTU (23831 downstream)																																			---	---	---	---
HSPA4L	22824	broad.mit.edu	37	4	128709004	128709004	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:128709004delA	uc003ifm.2	+						HSPA4L_uc010iny.1_Intron|HSPA4L_uc011cgr.1_Intron	NM_014278	NP_055093			heat shock 70kDa protein 4-like						protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
HSPA4L	22824	broad.mit.edu	37	4	128750548	128750548	+	Intron	DEL	T	-	-	rs113670847		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:128750548delT	uc003ifm.2	+						HSPA4L_uc011cgr.1_Intron	NM_014278	NP_055093			heat shock 70kDa protein 4-like						protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	128779398	128779398	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:128779398delA								HSPA4L (24876 upstream) : PLK4 (22647 downstream)																																			---	---	---	---
MFSD8	256471	broad.mit.edu	37	4	128864546	128864548	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:128864546_128864548delTTT	uc003ifp.2	-						MFSD8_uc011cgu.1_Intron|MFSD8_uc011cgv.1_Intron|MFSD8_uc011cgw.1_Intron|MFSD8_uc011cgx.1_Intron	NM_152778	NP_689991			major facilitator superfamily domain containing						cell death|transmembrane transport	integral to membrane|lysosomal membrane				ovary(1)|liver(1)	2																		---	---	---	---
LARP1B	55132	broad.mit.edu	37	4	129018471	129018471	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:129018471delT	uc003iga.2	+						LARP1B_uc003ifw.1_Intron|LARP1B_uc003ifx.2_Intron|LARP1B_uc003ify.2_Intron|LARP1B_uc003ifz.1_Intron	NM_018078	NP_060548			La ribonucleoprotein domain family member 2								RNA binding				0																		---	---	---	---
LARP1B	55132	broad.mit.edu	37	4	129036098	129036098	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:129036098delT	uc003iga.2	+						LARP1B_uc003ifz.1_Intron|LARP1B_uc003igb.1_Intron	NM_018078	NP_060548			La ribonucleoprotein domain family member 2								RNA binding				0																		---	---	---	---
LARP1B	55132	broad.mit.edu	37	4	129066621	129066621	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:129066621delG	uc003iga.2	+						LARP1B_uc003igc.2_Intron|LARP1B_uc003igb.1_Intron	NM_018078	NP_060548			La ribonucleoprotein domain family member 2								RNA binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	129360674	129360674	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:129360674delT	uc003igh.1	+											Homo sapiens cDNA FLJ36097 fis, clone TESTI2020956.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	129407083	129407083	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:129407083delA	uc003igh.1	+											Homo sapiens cDNA FLJ36097 fis, clone TESTI2020956.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	129517736	129517736	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:129517736delA								PGRMC2 (308788 upstream) : PHF17 (213043 downstream)																																			---	---	---	---
PHF17	79960	broad.mit.edu	37	4	129765648	129765648	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:129765648delT	uc003igk.2	+						PHF17_uc003igj.2_Intron|PHF17_uc003igl.2_Intron|PHF17_uc011cgy.1_Intron|PHF17_uc003igm.2_Intron	NM_199320	NP_955352			PHD finger protein 17 long isoform						apoptosis|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|negative regulation of cell growth|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	histone acetyltransferase complex|mitochondrion	protein binding|zinc ion binding				0																		---	---	---	---
PHF17	79960	broad.mit.edu	37	4	129776087	129776088	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:129776087_129776088insT	uc003igk.2	+						PHF17_uc003igj.2_Intron|PHF17_uc003igl.2_Intron|PHF17_uc011cgy.1_Intron|PHF17_uc003igm.2_Intron	NM_199320	NP_955352			PHD finger protein 17 long isoform						apoptosis|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|negative regulation of cell growth|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	histone acetyltransferase complex|mitochondrion	protein binding|zinc ion binding				0																		---	---	---	---
SCLT1	132320	broad.mit.edu	37	4	129959669	129959669	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:129959669delA	uc003igp.2	-						SCLT1_uc003igq.2_Intron|SCLT1_uc010iob.1_Intron|SCLT1_uc003igr.2_Intron	NM_144643	NP_653244			sodium channel associated protein 1							centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	130543374	130543375	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:130543374_130543375insT								C4orf33 (509532 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	130647002	130647002	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:130647002delA	uc003igv.2	-											Homo sapiens cDNA clone IMAGE:5265890.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	131249024	131249024	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:131249024delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	131352620	131352620	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:131352620delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	131600564	131600564	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:131600564delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	132099978	132099978	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:132099978delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	132213975	132213976	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:132213975_132213976delAA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	132340000	132340002	+	IGR	DEL	AAC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:132340000_132340002delAAC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	132625372	132625372	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:132625372delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	132940869	132940870	+	IGR	INS	-	T	T	rs142068342	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:132940869_132940870insT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	133298171	133298171	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:133298171delT								None (None upstream) : PCDH10 (772299 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	133587732	133587732	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:133587732delT								None (None upstream) : PCDH10 (482738 downstream)																																			---	---	---	---
PCDH10	57575	broad.mit.edu	37	4	134075238	134075238	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:134075238delT	uc003iha.2	+							NM_032961	NP_116586			protocadherin 10 isoform 1 precursor						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)														---	---	---	---
PCDH10	57575	broad.mit.edu	37	4	134100176	134100177	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:134100176_134100177insT	uc003iha.2	+							NM_032961	NP_116586			protocadherin 10 isoform 1 precursor						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	134572467	134572467	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:134572467delT								PCDH10 (459736 upstream) : PABPC4L (545024 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	134629332	134629332	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:134629332delT								PCDH10 (516601 upstream) : PABPC4L (488159 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	135154657	135154657	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:135154657delT								PABPC4L (31754 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	135281790	135281791	+	IGR	DEL	TT	-	-	rs33936013		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:135281790_135281791delTT								PABPC4L (158887 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	135369179	135369179	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:135369179delA								PABPC4L (246276 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	135597302	135597302	+	IGR	DEL	A	-	-	rs34891512		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:135597302delA								PABPC4L (474399 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	136150951	136150952	+	IGR	DEL	TT	-	-	rs149627121		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:136150951_136150952delTT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	136559976	136559976	+	IGR	DEL	T	-	-	rs35497905		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:136559976delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	136641829	136641829	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:136641829delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	136931099	136931100	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:136931099_136931100delTT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	137071877	137071877	+	IGR	DEL	T	-	-	rs148739559	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:137071877delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	138620534	138620534	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:138620534delT								PCDH18 (166886 upstream) : SLC7A11 (464714 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	138643928	138643928	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:138643928delA								PCDH18 (190280 upstream) : SLC7A11 (441320 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	138816615	138816615	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:138816615delA								PCDH18 (362967 upstream) : SLC7A11 (268633 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	139006330	139006330	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:139006330delA	uc003ihh.2	-											Homo sapiens hypothetical protein LOC641365, mRNA (cDNA clone IMAGE:5273182).																														---	---	---	---
SLC7A11	23657	broad.mit.edu	37	4	139129009	139129009	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:139129009delT	uc011chb.1	-							NM_014331	NP_055146			solute carrier family 7, (cationic amino acid						blood coagulation|cellular nitrogen compound metabolic process|leukocyte migration|response to toxin	integral to membrane|plasma membrane	cystine:glutamate antiporter activity|protein binding			skin(1)	1	all_hematologic(180;0.166)				L-Cystine(DB00138)|L-Glutamic Acid(DB00142)|Sulfasalazine(DB00795)													---	---	---	---
Unknown	0	broad.mit.edu	37	4	139699241	139699241	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:139699241delA								SLC7A11 (535738 upstream) : CCRN4L (237702 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	139973115	139973115	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:139973115delA								CCRN4L (6024 upstream) : ELF2 (5756 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	140207692	140207692	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:140207692delT								C4orf49 (6200 upstream) : NDUFC1 (3400 downstream)																																			---	---	---	---
NAA15	80155	broad.mit.edu	37	4	140270590	140270590	+	Intron	DEL	T	-	-	rs112955393		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:140270590delT	uc003ihu.1	+							NM_057175	NP_476516			NMDA receptor regulated 1						angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	140528730	140528730	+	IGR	DEL	T	-	-	rs34665500		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:140528730delT								SETD7 (51153 upstream) : MGST2 (58192 downstream)																																			---	---	---	---
MAML3	55534	broad.mit.edu	37	4	140803476	140803476	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:140803476delT	uc003ihz.1	-						MAML3_uc011chd.1_Intron	NM_018717	NP_061187			mastermind-like 3						Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)																	---	---	---	---
MAML3	55534	broad.mit.edu	37	4	140837389	140837389	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:140837389delA	uc003ihz.1	-						MAML3_uc011chd.1_Intron	NM_018717	NP_061187			mastermind-like 3						Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)																	---	---	---	---
MAML3	55534	broad.mit.edu	37	4	140892969	140892969	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:140892969delA	uc003ihz.1	-						MAML3_uc011chd.1_Intron	NM_018717	NP_061187			mastermind-like 3						Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)																	---	---	---	---
Unknown	0	broad.mit.edu	37	4	141388405	141388405	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:141388405delA	uc003iij.1	-											Homo sapiens similar to RIKEN cDNA 4933434I20, mRNA (cDNA clone IMAGE:5267198).																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	141508277	141508277	+	IGR	DEL	A	-	-	rs10032715	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:141508277delA								UCP1 (18318 upstream) : TBC1D9 (33660 downstream)																																			---	---	---	---
TBC1D9	23158	broad.mit.edu	37	4	141621685	141621685	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:141621685delT	uc010ioj.2	-							NM_015130	NP_055945			TBC1 domain family, member 9 (with GRAM domain)							intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)																---	---	---	---
TBC1D9	23158	broad.mit.edu	37	4	141678451	141678451	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:141678451delT	uc010ioj.2	-							NM_015130	NP_055945			TBC1 domain family, member 9 (with GRAM domain)							intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)																---	---	---	---
RNF150	57484	broad.mit.edu	37	4	141872706	141872706	+	Intron	DEL	T	-	-	rs35787999		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:141872706delT	uc003iio.1	-						RNF150_uc010iok.1_Intron|RNF150_uc003iip.1_Intron	NM_020724	NP_065775			ring finger protein 150 precursor							integral to membrane	zinc ion binding			ovary(1)	1	all_hematologic(180;0.162)																	---	---	---	---
ZNF330	27309	broad.mit.edu	37	4	142142542	142142542	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:142142542delA	uc003iiq.3	+						ZNF330_uc011chl.1_Intron	NM_014487	NP_055302			zinc finger protein 330							chromosome, centromeric region|midbody|nucleolus	protein binding|zinc ion binding				0	all_hematologic(180;0.162)																	---	---	---	---
Unknown	0	broad.mit.edu	37	4	142315638	142315638	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:142315638delA								ZNF330 (159790 upstream) : IL15 (242116 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	142429949	142429949	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:142429949delT								ZNF330 (274101 upstream) : IL15 (127805 downstream)																																			---	---	---	---
INPP4B	8821	broad.mit.edu	37	4	143033196	143033196	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:143033196delA	uc003iix.3	-						INPP4B_uc003iiw.3_Intron|INPP4B_uc011chm.1_Intron|INPP4B_uc011chn.1_Intron|INPP4B_uc011cho.1_Intron	NM_003866	NP_003857			inositol polyphosphate-4-phosphatase, type II,						signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)																	---	---	---	---
INPP4B	8821	broad.mit.edu	37	4	143623539	143623539	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:143623539delA	uc003iix.3	-						INPP4B_uc003iiw.3_Intron	NM_003866	NP_003857			inositol polyphosphate-4-phosphatase, type II,						signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)																	---	---	---	---
INPP4B	8821	broad.mit.edu	37	4	143754210	143754210	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:143754210delT	uc003iix.3	-						INPP4B_uc003iiw.3_Intron	NM_003866	NP_003857			inositol polyphosphate-4-phosphatase, type II,						signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)																	---	---	---	---
USP38	84640	broad.mit.edu	37	4	144115667	144115667	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:144115667delT	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)																	---	---	---	---
GAB1	2549	broad.mit.edu	37	4	144386487	144386487	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:144386487delT	uc003ije.2	+						GAB1_uc003ijd.2_Intron|GAB1_uc011chq.1_Intron	NM_002039	NP_002030			GRB2-associated binding protein 1 isoform b						cell proliferation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			breast(2)|lung(1)|skin(1)	4	all_hematologic(180;0.158)																	---	---	---	---
Unknown	0	broad.mit.edu	37	4	144403569	144403569	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:144403569delA								GAB1 (7852 upstream) : SMARCA5 (31047 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	144476723	144476724	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:144476723_144476724delTT								SMARCA5 (2157 upstream) : LOC441046 (3901 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	145391954	145391955	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:145391954_145391955insT								GYPA (330050 upstream) : HHIP (175218 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	145672627	145672628	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:145672627_145672628insT								HHIP (12746 upstream) : ANAPC10 (243686 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	146050799	146050799	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:146050799delG								ABCE1 (124 upstream) : OTUD4 (4004 downstream)																																			---	---	---	---
OTUD4	54726	broad.mit.edu	37	4	146073871	146073872	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:146073871_146073872delTT	uc003ika.3	-						OTUD4_uc003ijz.3_Intron	NM_001102653	NP_001096123			OTU domain containing 4 protein isoform 3								protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)																	---	---	---	---
OTUD4	54726	broad.mit.edu	37	4	146077077	146077077	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:146077077delA	uc003ika.3	-						OTUD4_uc003ijz.3_Intron	NM_001102653	NP_001096123			OTU domain containing 4 protein isoform 3								protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)																	---	---	---	---
Unknown	0	broad.mit.edu	37	4	146312751	146312751	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:146312751delA								OTUD4 (211919 upstream) : SMAD1 (90200 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	146377564	146377564	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:146377564delA								OTUD4 (276732 upstream) : SMAD1 (25387 downstream)																																			---	---	---	---
SMAD1	4086	broad.mit.edu	37	4	146406946	146406946	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:146406946delT	uc003ikc.2	+						SMAD1_uc003ikd.2_Intron|SMAD1_uc010iov.2_Intron	NM_005900	NP_005891			Sma- and Mad-related protein 1						BMP signaling pathway|embryonic pattern specification|primary miRNA processing|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|nuclear inner membrane	co-SMAD binding|I-SMAD binding|identical protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity			ovary(1)	1	all_hematologic(180;0.151)																	---	---	---	---
ZNF827	152485	broad.mit.edu	37	4	146773739	146773739	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:146773739delT	uc003ikn.2	-						ZNF827_uc003ikm.2_Intron|ZNF827_uc010iox.2_Intron	NM_178835	NP_849157			zinc finger protein 827						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)																	---	---	---	---
ZNF827	152485	broad.mit.edu	37	4	146779040	146779040	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:146779040delA	uc003ikn.2	-						ZNF827_uc003ikm.2_Intron|ZNF827_uc010iox.2_Intron	NM_178835	NP_849157			zinc finger protein 827						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)																	---	---	---	---
Unknown	0	broad.mit.edu	37	4	147035640	147035640	+	Intron	DEL	A	-	-	rs113944792		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:147035640delA	uc003iko.1	-						uc010ioy.1_Intron					Homo sapiens cDNA FLJ32671 fis, clone TESTI1000128.																														---	---	---	---
SLC10A7	84068	broad.mit.edu	37	4	147380768	147380768	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:147380768delA	uc010ioz.2	-						SLC10A7_uc003ikr.2_Intron|SLC10A7_uc010ipa.2_Intron|SLC10A7_uc003iks.2_Intron|SLC10A7_uc003ikt.2_Intron	NM_001029998	NP_001025169			solute carrier family 10 (sodium/bile acid							integral to membrane	bile acid:sodium symporter activity				0	all_hematologic(180;0.151)																	---	---	---	---
Unknown	0	broad.mit.edu	37	4	147568540	147568543	+	IGR	DEL	TGTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:147568540_147568543delTGTG								POU4F2 (4918 upstream) : TTC29 (59637 downstream)																																			---	---	---	---
TTC29	83894	broad.mit.edu	37	4	147742178	147742178	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:147742178delA	uc003ikw.3	-						TTC29_uc010ipc.2_Intron|TTC29_uc003ikx.3_Intron|TTC29_uc010ipd.1_Intron	NM_031956	NP_114162			tetratricopeptide repeat domain 29								binding				0	all_hematologic(180;0.151)																	---	---	---	---
TTC29	83894	broad.mit.edu	37	4	147762618	147762618	+	Intron	DEL	A	-	-	rs146256447	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:147762618delA	uc003ikw.3	-						TTC29_uc010ipc.2_Intron|TTC29_uc003ikx.3_Intron|TTC29_uc010ipd.1_Intron	NM_031956	NP_114162			tetratricopeptide repeat domain 29								binding				0	all_hematologic(180;0.151)																	---	---	---	---
Unknown	0	broad.mit.edu	37	4	148017273	148017274	+	IGR	DEL	AC	-	-	rs12644218	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:148017273_148017274delAC								TTC29 (150239 upstream) : MIR548G (248507 downstream)																																			---	---	---	---
TMEM184C	55751	broad.mit.edu	37	4	148542323	148542323	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:148542323delT	uc003ila.3	+							NM_018241	NP_060711			transmembrane protein 184C							integral to membrane					0																		---	---	---	---
ARHGAP10	79658	broad.mit.edu	37	4	148774892	148774892	+	Intron	DEL	T	-	-	rs79884693		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:148774892delT	uc003ilf.2	+						ARHGAP10_uc003ile.1_Intron	NM_024605	NP_078881			Rho GTPase activating protein 10						apoptosis|filopodium assembly|regulation of apoptosis|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm|plasma membrane	cytoskeletal adaptor activity|SH3 domain binding			skin(2)|pancreas(1)|lung(1)	4	all_hematologic(180;0.151)	Renal(17;0.0166)		GBM - Glioblastoma multiforme(119;0.0423)														---	---	---	---
ARHGAP10	79658	broad.mit.edu	37	4	148787809	148787809	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:148787809delT	uc003ilf.2	+							NM_024605	NP_078881			Rho GTPase activating protein 10						apoptosis|filopodium assembly|regulation of apoptosis|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm|plasma membrane	cytoskeletal adaptor activity|SH3 domain binding			skin(2)|pancreas(1)|lung(1)	4	all_hematologic(180;0.151)	Renal(17;0.0166)		GBM - Glioblastoma multiforme(119;0.0423)												OREG0016355	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	4	149749859	149749859	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:149749859delT								NR3C2 (386216 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	150719106	150719107	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:150719106_150719107delAA	uc003ill.2	-											Homo sapiens cDNA clone IMAGE:5295442.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	150864562	150864562	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:150864562delT								None (None upstream) : DCLK2 (135518 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	150877314	150877315	+	IGR	DEL	GG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:150877314_150877315delGG								None (None upstream) : DCLK2 (122765 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	150879775	150879776	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:150879775_150879776delTG								None (None upstream) : DCLK2 (120304 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	150916295	150916296	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:150916295_150916296delAG								None (None upstream) : DCLK2 (83784 downstream)																																			---	---	---	---
DCLK2	166614	broad.mit.edu	37	4	151098325	151098325	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:151098325delT	uc003ilm.3	+						DCLK2_uc003iln.3_Intron|DCLK2_uc003ilo.3_Intron|DCLK2_uc003ilp.3_Intron	NM_001040260	NP_001035350			doublecortin-like kinase 2 isoform a						intracellular signal transduction	cytoplasm|cytoskeleton	ATP binding|protein serine/threonine kinase activity			ovary(3)	3	all_hematologic(180;0.151)																	---	---	---	---
Unknown	0	broad.mit.edu	37	4	151977556	151977556	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:151977556delA								LRBA (40677 upstream) : RPS3A (43198 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	152221480	152221480	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:152221480delT								PRSS48 (8877 upstream) : FAM160A1 (108918 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	152318111	152318111	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:152318111delA								PRSS48 (105508 upstream) : FAM160A1 (12287 downstream)																																			---	---	---	---
FAM160A1	729830	broad.mit.edu	37	4	152333743	152333744	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:152333743_152333744insT	uc003imj.2	+							NM_001109977	NP_001103447			hypothetical protein LOC729830												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	152752484	152752484	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:152752484delT								PET112L (70338 upstream) : FBXW7 (489927 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	152758129	152758129	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:152758129delT								PET112L (75983 upstream) : FBXW7 (484282 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	153139437	153139438	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:153139437_153139438delTT								PET112L (457291 upstream) : FBXW7 (102973 downstream)																																			---	---	---	---
FBXW7	55294	broad.mit.edu	37	4	153259298	153259298	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:153259298delA	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								---	---	---	---
TMEM154	201799	broad.mit.edu	37	4	153579970	153579971	+	Intron	DEL	AA	-	-	rs71598206		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:153579970_153579971delAA	uc003imw.1	-							NM_152680	NP_689893			transmembrane protein 154 precursor							integral to membrane					0	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)																---	---	---	---
TMEM154	201799	broad.mit.edu	37	4	153599508	153599508	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:153599508delA	uc003imw.1	-							NM_152680	NP_689893			transmembrane protein 154 precursor							integral to membrane					0	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)																---	---	---	---
ARFIP1	27236	broad.mit.edu	37	4	153769806	153769808	+	Intron	DEL	TGT	-	-	rs10579978		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:153769806_153769808delTGT	uc003imz.2	+						ARFIP1_uc003inb.2_Intron|ARFIP1_uc003ina.2_Intron|ARFIP1_uc003inc.2_Intron|ARFIP1_uc011cij.1_Intron	NM_001025595	NP_001020766			ADP-ribosylation factor interacting protein 1						intracellular protein transport|regulation of protein secretion	cytosol|Golgi membrane				ovary(1)	1	all_hematologic(180;0.093)																	---	---	---	---
Unknown	0	broad.mit.edu	37	4	153860222	153860222	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:153860222delT	uc003ine.2	-											Homo sapiens, clone IMAGE:5762932, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	154000038	154000038	+	IGR	DEL	A	-	-	rs72015319		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:154000038delA								FHDC1 (99190 upstream) : TRIM2 (74232 downstream)																																			---	---	---	---
TRIM2	23321	broad.mit.edu	37	4	154245662	154245662	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:154245662delA	uc003ing.2	+						TRIM2_uc003inh.2_Intron	NM_001130067	NP_001123539			tripartite motif-containing 2 isoform 2							cytoplasm	zinc ion binding			central_nervous_system(1)	1	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	154591345	154591345	+	IGR	DEL	T	-	-	rs76681902		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:154591345delT								KIAA0922 (33485 upstream) : TLR2 (14096 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	154896863	154896864	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:154896863_154896864delCT								SFRP2 (186635 upstream) : DCHS2 (258663 downstream)																																			---	---	---	---
DCHS2	54798	broad.mit.edu	37	4	155329955	155329955	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155329955delT	uc003inx.2	-							NM_001142552	NP_001136024			dachsous 2 isoform 2						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)														---	---	---	---
DCHS2	54798	broad.mit.edu	37	4	155370534	155370534	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155370534delT	uc003inx.2	-							NM_001142552	NP_001136024			dachsous 2 isoform 2						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	155657309	155657310	+	Intron	INS	-	T	T	rs146078818	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155657309_155657310insT	uc003iol.2	+											Homo sapiens cDNA FLJ31672 fis, clone NT2RI2005048.																														---	---	---	---
GUCY1A3	2982	broad.mit.edu	37	4	156595604	156595604	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:156595604delA	uc003iov.2	+						GUCY1A3_uc003iou.2_Intron|GUCY1A3_uc010iqc.2_Intron|GUCY1A3_uc003iow.2_Intron|GUCY1A3_uc010iqd.2_Intron|GUCY1A3_uc003iox.2_Intron|GUCY1A3_uc003ioz.2_Intron|GUCY1A3_uc003ioy.2_Intron|GUCY1A3_uc010iqe.2_Intron|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Intron	NM_000856	NP_000847			guanylate cyclase 1, soluble, alpha 3 isoform A						blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	157201444	157201444	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:157201444delA								CTSO (326396 upstream) : PDGFC (481320 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	157346884	157346884	+	IGR	DEL	T	-	-	rs77572190		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:157346884delT								CTSO (471836 upstream) : PDGFC (335880 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	157439005	157439005	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:157439005delC								CTSO (563957 upstream) : PDGFC (243759 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	157512227	157512228	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:157512227_157512228delAG								CTSO (637179 upstream) : PDGFC (170536 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	157905558	157905558	+	IGR	DEL	A	-	-	rs73856799	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:157905558delA								PDGFC (13012 upstream) : GLRB (91719 downstream)																																			---	---	---	---
GRIA2	2891	broad.mit.edu	37	4	158175176	158175177	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:158175176_158175177delTT	uc003ipm.3	+						GRIA2_uc011cit.1_Intron|GRIA2_uc003ipl.3_Intron|GRIA2_uc003ipk.3_Intron|GRIA2_uc010iqh.1_Intron	NM_001083619	NP_001077088			glutamate receptor, ionotropic, AMPA 2 isoform 2						synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)													---	---	---	---
GRIA2	2891	broad.mit.edu	37	4	158230160	158230161	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:158230160_158230161insA	uc003ipm.3	+						GRIA2_uc011cit.1_Intron|GRIA2_uc003ipl.3_Intron|GRIA2_uc003ipk.3_Intron|GRIA2_uc010iqh.1_Intron	NM_001083619	NP_001077088			glutamate receptor, ionotropic, AMPA 2 isoform 2						synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)													---	---	---	---
Unknown	0	broad.mit.edu	37	4	158773883	158773883	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:158773883delC								LOC340017 (276588 upstream) : FAM198B (271850 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	159036642	159036642	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159036642delA								LOC340017 (539347 upstream) : FAM198B (9091 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	159103715	159103716	+	Intron	DEL	TA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159103715_159103716delTA	uc003ipu.1	+						uc003ipv.1_Intron					Homo sapiens cDNA FLJ39473 fis, clone PROST2012890.																														---	---	---	---
TMEM144	55314	broad.mit.edu	37	4	159156799	159156799	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159156799delT	uc003ipx.2	+						TMEM144_uc010iqi.2_Intron	NM_018342	NP_060812			transmembrane protein 144							integral to membrane					0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0539)														---	---	---	---
FNIP2	57600	broad.mit.edu	37	4	159793157	159793158	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159793157_159793158delTT	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)														---	---	---	---
C4orf45	152940	broad.mit.edu	37	4	159958597	159958599	+	5'Flank	DEL	TTT	-	-	rs77750298		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159958597_159958599delTTT	uc003iqf.1	-						C4orf45_uc010iqt.1_Intron	NM_152543	NP_689756			hypothetical protein LOC152940												0																		---	---	---	---
C4orf45	152940	broad.mit.edu	37	4	159973167	159973168	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159973167_159973168insA	uc010iqt.1	-											Homo sapiens cDNA FLJ25371 fis, clone TST01885.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	160047753	160047753	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160047753delT								C4orf45 (23648 upstream) : RAPGEF2 (141245 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	160062271	160062271	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160062271delA								C4orf45 (38166 upstream) : RAPGEF2 (126727 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	160085161	160085161	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160085161delT								C4orf45 (61056 upstream) : RAPGEF2 (103837 downstream)																																			---	---	---	---
RAPGEF2	9693	broad.mit.edu	37	4	160259361	160259361	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160259361delA	uc003iqg.3	+							NM_014247	NP_055062			Rap guanine nucleotide exchange factor 2						cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)														---	---	---	---
RAPGEF2	9693	broad.mit.edu	37	4	160263384	160263384	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160263384delT	uc003iqg.3	+							NM_014247	NP_055062			Rap guanine nucleotide exchange factor 2						cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	160356575	160356575	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160356575delT								RAPGEF2 (75276 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	160681307	160681308	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160681307_160681308insT								RAPGEF2 (400008 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	161544633	161544633	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:161544633delA								None (None upstream) : FSTL5 (760418 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	161956920	161956920	+	IGR	DEL	A	-	-	rs72985533	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:161956920delA								None (None upstream) : FSTL5 (348131 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	162034105	162034105	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:162034105delA								None (None upstream) : FSTL5 (270946 downstream)																																			---	---	---	---
FSTL5	56884	broad.mit.edu	37	4	162344213	162344213	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:162344213delT	uc003iqh.2	-						FSTL5_uc003iqi.2_Intron|FSTL5_uc010iqv.2_Intron	NM_020116	NP_064501			follistatin-like 5 isoform a							extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)														---	---	---	---
FSTL5	56884	broad.mit.edu	37	4	162370887	162370888	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:162370887_162370888delTT	uc003iqh.2	-						FSTL5_uc003iqi.2_Intron|FSTL5_uc010iqv.2_Intron	NM_020116	NP_064501			follistatin-like 5 isoform a							extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)														---	---	---	---
FSTL5	56884	broad.mit.edu	37	4	162534093	162534094	+	Intron	DEL	TT	-	-	rs11302016		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:162534093_162534094delTT	uc003iqh.2	-						FSTL5_uc003iqi.2_Intron|FSTL5_uc010iqv.2_Intron	NM_020116	NP_064501			follistatin-like 5 isoform a							extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)														---	---	---	---
FSTL5	56884	broad.mit.edu	37	4	162576442	162576442	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:162576442delT	uc003iqh.2	-						FSTL5_uc003iqi.2_Intron|FSTL5_uc010iqv.2_Intron	NM_020116	NP_064501			follistatin-like 5 isoform a							extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	163686828	163686829	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:163686828_163686829insA								FSTL5 (601642 upstream) : NAF1 (361031 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	163823062	163823062	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:163823062delT								FSTL5 (737876 upstream) : NAF1 (224798 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	164108713	164108713	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164108713delA								NAF1 (20640 upstream) : NPY1R (136404 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	164112155	164112155	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164112155delT								NAF1 (24082 upstream) : NPY1R (132962 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	164374321	164374321	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164374321delT								NPY5R (101237 upstream) : TKTL2 (17927 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	164378141	164378141	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164378141delT								NPY5R (105057 upstream) : TKTL2 (14107 downstream)																																			---	---	---	---
C4orf43	55319	broad.mit.edu	37	4	164436769	164436769	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164436769delT	uc003iqq.3	+							NM_018352	NP_060822			hypothetical protein LOC55319												0																		---	---	---	---
MARCH1	55016	broad.mit.edu	37	4	164946854	164946854	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164946854delA	uc003iqs.1	-							NM_017923	NP_060393			membrane-associated RING-CH protein I						antigen processing and presentation of peptide antigen via MHC class II|immune response	cytoplasmic vesicle membrane|early endosome membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|plasma membrane	MHC protein binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)																---	---	---	---
MARCH1	55016	broad.mit.edu	37	4	165107901	165107901	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:165107901delT	uc003iqs.1	-							NM_017923	NP_060393			membrane-associated RING-CH protein I						antigen processing and presentation of peptide antigen via MHC class II|immune response	cytoplasmic vesicle membrane|early endosome membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|plasma membrane	MHC protein binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)																---	---	---	---
Unknown	0	broad.mit.edu	37	4	165348436	165348436	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:165348436delA								MARCH1 (43234 upstream) : TRIM61 (527164 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	165533129	165533130	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:165533129_165533130delTT								MARCH1 (227927 upstream) : TRIM61 (342470 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	165626847	165626847	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:165626847delT								MARCH1 (321645 upstream) : TRIM61 (248753 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	165741667	165741667	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:165741667delA								MARCH1 (436465 upstream) : TRIM61 (133933 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	165903977	165903977	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:165903977delT								TRIM61 (5159 upstream) : TRIM60 (49174 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	166081264	166081264	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:166081264delT								TMEM192 (47240 upstream) : KLHL2 (47506 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	166419901	166419902	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:166419901_166419902delGT								CPE (420 upstream) : TLL1 (374508 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	166756710	166756711	+	IGR	DEL	TT	-	-	rs76866864		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:166756710_166756711delTT								CPE (337229 upstream) : TLL1 (37699 downstream)																																			---	---	---	---
TLL1	7092	broad.mit.edu	37	4	166957087	166957087	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:166957087delA	uc003irh.1	+						TLL1_uc011cjn.1_Intron|TLL1_uc011cjo.1_Intron	NM_012464	NP_036596			tolloid-like 1 precursor						cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	167129015	167129015	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:167129015delA								TLL1 (104022 upstream) : SPOCK3 (525521 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	167522587	167522588	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:167522587_167522588insT								TLL1 (497594 upstream) : SPOCK3 (131948 downstream)																																			---	---	---	---
SPOCK3	50859	broad.mit.edu	37	4	168098445	168098445	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:168098445delT	uc003iri.1	-						SPOCK3_uc011cjp.1_Intron|SPOCK3_uc011cjq.1_Intron|SPOCK3_uc011cjr.1_Intron|SPOCK3_uc003irj.1_Intron|SPOCK3_uc011cjs.1_Intron|SPOCK3_uc011cjt.1_Intron|SPOCK3_uc011cju.1_Intron|SPOCK3_uc011cjv.1_Intron|SPOCK3_uc003irk.3_Intron|SPOCK3_uc011cjw.1_Intron	NM_016950	NP_058646			testican 3 isoform 2						signal transduction	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase inhibitor activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0181)|Renal(120;0.0184)|Melanoma(52;0.0198)		GBM - Glioblastoma multiforme(119;0.02)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	169123290	169123291	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:169123290_169123291delAC								ANXA10 (14399 upstream) : DDX60 (14152 downstream)																																			---	---	---	---
DDX60	55601	broad.mit.edu	37	4	169142737	169142737	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:169142737delA	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)														---	---	---	---
PALLD	23022	broad.mit.edu	37	4	169651631	169651631	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:169651631delT	uc011cjx.1	+						PALLD_uc003iru.2_Intron|PALLD_uc003irv.2_Intron	NM_016081	NP_057165			palladin isoform 2						cytoskeleton organization	actin filament|focal adhesion|lamellipodium|nucleus|ruffle|sarcomere	actin binding|muscle alpha-actinin binding			ovary(1)	1		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)										Pancreatic_Cancer_Familial_Clustering_of				---	---	---	---
PALLD	23022	broad.mit.edu	37	4	169679812	169679812	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:169679812delT	uc011cjx.1	+						PALLD_uc003iru.2_Intron|PALLD_uc003irv.2_Intron	NM_016081	NP_057165			palladin isoform 2						cytoskeleton organization	actin filament|focal adhesion|lamellipodium|nucleus|ruffle|sarcomere	actin binding|muscle alpha-actinin binding			ovary(1)	1		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)										Pancreatic_Cancer_Familial_Clustering_of				---	---	---	---
SH3RF1	57630	broad.mit.edu	37	4	170023546	170023547	+	Intron	DEL	AT	-	-	rs2706742	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:170023546_170023547delAT	uc003isa.1	-							NM_020870	NP_065921			SH3 domain containing ring finger 1							Golgi apparatus|lamellipodium|perinuclear region of cytoplasm	ligase activity|zinc ion binding			breast(2)|lung(1)	3		Prostate(90;0.00267)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)														---	---	---	---
SH3RF1	57630	broad.mit.edu	37	4	170107503	170107503	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:170107503delA	uc003isa.1	-							NM_020870	NP_065921			SH3 domain containing ring finger 1							Golgi apparatus|lamellipodium|perinuclear region of cytoplasm	ligase activity|zinc ion binding			breast(2)|lung(1)	3		Prostate(90;0.00267)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	170706896	170706897	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:170706896_170706897insT								C4orf27 (27803 upstream) : MFAP3L (200853 downstream)																																			---	---	---	---
AADAT	51166	broad.mit.edu	37	4	171014228	171014228	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:171014228delT	uc003ist.2	-						AADAT_uc003iss.2_5'Flank	NM_182662	NP_872603			kynurenine aminotransferase II						2-oxoglutarate metabolic process|biosynthetic process|glutamate metabolic process|lysine catabolic process	mitochondrial matrix	2-aminoadipate transaminase activity|kynurenine-oxoglutarate transaminase activity|protein homodimerization activity				0		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0355)|LUSC - Lung squamous cell carcinoma(193;0.118)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)													---	---	---	---
Unknown	0	broad.mit.edu	37	4	171027813	171027813	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:171027813delT								AADAT (16441 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	171109672	171109672	+	IGR	DEL	A	-	-	rs33975842		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:171109672delA								AADAT (98300 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	171613551	171613551	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:171613551delT								AADAT (602179 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	171777897	171777897	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:171777897delT								AADAT (766525 upstream) : GALNTL6 (956678 downstream)																																			---	---	---	---
GALNTL6	442117	broad.mit.edu	37	4	172802945	172802945	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:172802945delA	uc003isv.2	+							NM_001034845	NP_001030017			N-acetylgalactosaminyltransferase-like 6							Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4																		---	---	---	---
GALNTL6	442117	broad.mit.edu	37	4	172929611	172929611	+	Intron	DEL	T	-	-	rs76550304		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:172929611delT	uc003isv.2	+							NM_001034845	NP_001030017			N-acetylgalactosaminyltransferase-like 6							Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4																		---	---	---	---
GALNTL6	442117	broad.mit.edu	37	4	173383140	173383140	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:173383140delA	uc003isv.2	+							NM_001034845	NP_001030017			N-acetylgalactosaminyltransferase-like 6							Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4																		---	---	---	---
GALNTL6	442117	broad.mit.edu	37	4	173699678	173699679	+	Intron	DEL	AC	-	-	rs141605527		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:173699678_173699679delAC	uc003isv.2	+							NM_001034845	NP_001030017			N-acetylgalactosaminyltransferase-like 6							Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4																		---	---	---	---
GALNT7	51809	broad.mit.edu	37	4	174112215	174112216	+	Intron	DEL	AA	-	-	rs113249937		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:174112215_174112216delAA	uc003isz.3	+							NM_017423	NP_059119			polypeptide N-acetylgalactosaminyltransferase 7						protein O-linked glycosylation	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			central_nervous_system(1)	1		Prostate(90;0.0132)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_hematologic(60;0.107)|all_neural(102;0.122)		all cancers(43;1.87e-18)|Epithelial(43;3.44e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-09)|STAD - Stomach adenocarcinoma(60;0.0019)|GBM - Glioblastoma multiforme(59;0.0119)|LUSC - Lung squamous cell carcinoma(193;0.0199)														---	---	---	---
GALNT7	51809	broad.mit.edu	37	4	174126649	174126649	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:174126649delT	uc003isz.3	+							NM_017423	NP_059119			polypeptide N-acetylgalactosaminyltransferase 7						protein O-linked glycosylation	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			central_nervous_system(1)	1		Prostate(90;0.0132)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_hematologic(60;0.107)|all_neural(102;0.122)		all cancers(43;1.87e-18)|Epithelial(43;3.44e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-09)|STAD - Stomach adenocarcinoma(60;0.0019)|GBM - Glioblastoma multiforme(59;0.0119)|LUSC - Lung squamous cell carcinoma(193;0.0199)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	174425315	174425316	+	IGR	INS	-	T	T	rs143854134	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:174425315_174425316insT								SCRG1 (97787 upstream) : HAND2 (22336 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	174621800	174621800	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:174621800delA								MORF4 (84006 upstream) : FBXO8 (536012 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	174816146	174816146	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:174816146delA								MORF4 (278352 upstream) : FBXO8 (341666 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	174841415	174841415	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:174841415delT								MORF4 (303621 upstream) : FBXO8 (316397 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	174848541	174848542	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:174848541_174848542insA	uc003itn.2	-											full-length cDNA clone CS0DB006YO06 of Neuroblastoma Cot 10-normalized of Homo sapiens (human).																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	174860095	174860096	+	Intron	DEL	AA	-	-	rs34060923		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:174860095_174860096delAA	uc003itn.2	-											full-length cDNA clone CS0DB006YO06 of Neuroblastoma Cot 10-normalized of Homo sapiens (human).																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	175059199	175059200	+	Intron	DEL	TT	-	-	rs71869065		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:175059199_175059200delTT	uc003ito.1	-											Homo sapiens cDNA FLJ43267 fis, clone IMR322007704.																														---	---	---	---
FBXO8	26269	broad.mit.edu	37	4	175178067	175178067	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:175178067delA	uc003itp.2	-						FBXO8_uc003itq.2_Intron	NM_012180	NP_036312			F-box only protein 8						regulation of ARF protein signal transduction|ubiquitin-dependent protein catabolic process	cytoplasm|ubiquitin ligase complex	ARF guanyl-nucleotide exchange factor activity			breast(2)	2		Prostate(90;0.00201)|Melanoma(52;0.012)|Renal(120;0.0183)|all_neural(102;0.0887)|all_hematologic(60;0.107)		all cancers(43;7.29e-18)|Epithelial(43;1.85e-15)|OV - Ovarian serous cystadenocarcinoma(60;5.62e-09)|GBM - Glioblastoma multiforme(59;0.00115)|STAD - Stomach adenocarcinoma(60;0.00299)|LUSC - Lung squamous cell carcinoma(193;0.1)														---	---	---	---
HPGD	3248	broad.mit.edu	37	4	175419473	175419473	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:175419473delT	uc003itu.2	-						HPGD_uc003itt.2_5'Flank|HPGD_uc003itv.2_Intron|HPGD_uc011ckf.1_Intron|HPGD_uc010irp.2_Intron|HPGD_uc010irq.2_Intron|HPGD_uc011ckg.1_Intron|HPGD_uc011ckh.1_Intron|HPGD_uc003itw.2_Intron	NM_000860	NP_000851			hydroxyprostaglandin dehydrogenase 15-(NAD)						female pregnancy|lipoxygenase pathway|negative regulation of cell cycle|parturition|prostaglandin metabolic process|transforming growth factor beta receptor signaling pathway	cytosol|nucleus	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|NAD+ binding|prostaglandin E receptor activity|protein homodimerization activity				0		Prostate(90;0.00763)|Melanoma(52;0.0179)|Renal(120;0.0376)|Breast(14;0.0991)|all_hematologic(60;0.124)|all_neural(102;0.196)		all cancers(43;2.6e-18)|Epithelial(43;4.19e-16)|OV - Ovarian serous cystadenocarcinoma(60;5.23e-09)|GBM - Glioblastoma multiforme(59;0.00176)|STAD - Stomach adenocarcinoma(60;0.00299)|LUSC - Lung squamous cell carcinoma(193;0.0253)	NADH(DB00157)													---	---	---	---
Unknown	0	broad.mit.edu	37	4	176172121	176172122	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:176172121_176172122delGA								ADAM29 (272791 upstream) : GPM6A (381967 downstream)																																			---	---	---	---
GPM6A	2823	broad.mit.edu	37	4	176607068	176607069	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:176607068_176607069delGT	uc003iuf.2	-						GPM6A_uc011ckj.1_Intron|GPM6A_uc003iug.2_Intron|GPM6A_uc003iuh.2_Intron	NM_201591	NP_963885			glycoprotein M6A isoform 2							cell surface|integral to membrane					0		Breast(14;7.35e-05)|Melanoma(52;0.00909)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;9.21e-19)|Epithelial(43;3.01e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.02e-09)|STAD - Stomach adenocarcinoma(60;0.00083)|GBM - Glioblastoma multiforme(59;0.00168)|LUSC - Lung squamous cell carcinoma(193;0.0388)														---	---	---	---
GPM6A	2823	broad.mit.edu	37	4	176747485	176747486	+	Intron	INS	-	GT	GT	rs142364470	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:176747485_176747486insGT	uc003iug.2	-						GPM6A_uc003iuh.2_Intron	NM_005277	NP_005268			glycoprotein M6A isoform 1							cell surface|integral to membrane					0		Breast(14;7.35e-05)|Melanoma(52;0.00909)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;9.21e-19)|Epithelial(43;3.01e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.02e-09)|STAD - Stomach adenocarcinoma(60;0.00083)|GBM - Glioblastoma multiforme(59;0.00168)|LUSC - Lung squamous cell carcinoma(193;0.0388)														---	---	---	---
GPM6A	2823	broad.mit.edu	37	4	176751962	176751962	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:176751962delT	uc003iug.2	-						GPM6A_uc003iuh.2_Intron	NM_005277	NP_005268			glycoprotein M6A isoform 1							cell surface|integral to membrane					0		Breast(14;7.35e-05)|Melanoma(52;0.00909)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;9.21e-19)|Epithelial(43;3.01e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.02e-09)|STAD - Stomach adenocarcinoma(60;0.00083)|GBM - Glioblastoma multiforme(59;0.00168)|LUSC - Lung squamous cell carcinoma(193;0.0388)														---	---	---	---
GPM6A	2823	broad.mit.edu	37	4	176923316	176923316	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:176923316delG	uc003iug.2	-						GPM6A_uc003iuh.2_Intron	NM_005277	NP_005268			glycoprotein M6A isoform 1							cell surface|integral to membrane					0		Breast(14;7.35e-05)|Melanoma(52;0.00909)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;9.21e-19)|Epithelial(43;3.01e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.02e-09)|STAD - Stomach adenocarcinoma(60;0.00083)|GBM - Glioblastoma multiforme(59;0.00168)|LUSC - Lung squamous cell carcinoma(193;0.0388)														---	---	---	---
WDR17	116966	broad.mit.edu	37	4	177003202	177003202	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177003202delT	uc003iuj.2	+						WDR17_uc003iuk.2_Intron|WDR17_uc003ium.3_Intron|WDR17_uc003iul.1_Intron	NM_170710	NP_733828			WD repeat domain 17 isoform 1											ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	177937534	177937535	+	IGR	DEL	AT	-	-	rs66493457		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177937534_177937535delAT								VEGFC (223639 upstream) : NEIL3 (293456 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	177951816	177951817	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177951816_177951817insT								VEGFC (237921 upstream) : NEIL3 (279174 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	178563891	178563891	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:178563891delA	uc003iux.1	+											Homo sapiens cDNA FLJ37626 fis, clone BRCOC2014748.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	179141662	179141663	+	IGR	INS	-	A	A	rs150668924	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:179141662_179141663insA								LOC285501 (229759 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	179321432	179321433	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:179321432_179321433delAA								LOC285501 (409529 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	180250591	180250593	+	IGR	DEL	AAG	-	-	rs72535443		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:180250591_180250593delAAG								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	180835137	180835138	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:180835137_180835138delTC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	181246228	181246228	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:181246228delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	181394610	181394611	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:181394610_181394611insA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	181572477	181572485	+	IGR	DEL	GAAACCAAC	-	-	rs33940013		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:181572477_181572485delGAAACCAAC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	181677070	181677075	+	IGR	DEL	ACACAC	-	-	rs67170065		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:181677070_181677075delACACAC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	181695784	181695784	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:181695784delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	181769859	181769859	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:181769859delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	181814221	181814221	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:181814221delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	181889412	181889413	+	IGR	DEL	TT	-	-	rs71603149		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:181889412_181889413delTT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	181926523	181926523	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:181926523delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	181939407	181939408	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:181939407_181939408delAA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	181999163	181999163	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:181999163delT	uc003iuz.2	-											Homo sapiens full length insert cDNA clone YY72H05.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	182569589	182569589	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:182569589delA								None (None upstream) : MGC45800 (490570 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	182715776	182715776	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:182715776delT								None (None upstream) : MGC45800 (344383 downstream)																																			---	---	---	---
ODZ3	55714	broad.mit.edu	37	4	183123881	183123882	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:183123881_183123882delAG	uc010irv.1	+											Homo sapiens ODZ3 (ODZ3) mRNA, partial cds.						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)														---	---	---	---
ODZ3	55714	broad.mit.edu	37	4	183135989	183135989	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:183135989delT	uc010irv.1	+											Homo sapiens ODZ3 (ODZ3) mRNA, partial cds.						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)														---	---	---	---
ODZ3	55714	broad.mit.edu	37	4	183641519	183641519	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:183641519delA	uc003ivd.1	+						ODZ3_uc003ive.1_Intron	NM_001080477	NP_001073946			odz, odd Oz/ten-m homolog 3						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	184014895	184014895	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184014895delT								FAM92A3 (53624 upstream) : C4orf38 (3279 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	184016896	184016896	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184016896delT								FAM92A3 (55625 upstream) : C4orf38 (1278 downstream)																																			---	---	---	---
WWC2	80014	broad.mit.edu	37	4	184035822	184035822	+	Intron	DEL	T	-	-	rs72193297		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184035822delT	uc010irx.2	+							NM_024949	NP_079225			WW and C2 domain containing 2											ovary(2)|lung(1)	3		all_lung(41;5.28e-14)|Lung NSC(41;1.35e-13)|Colorectal(36;0.00681)|Hepatocellular(41;0.00886)|Renal(120;0.00992)|Prostate(90;0.0237)|all_hematologic(60;0.0592)|Esophageal squamous(56;0.179)|all_neural(102;0.202)		all cancers(43;3.38e-24)|Epithelial(43;1.4e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.09e-09)|GBM - Glioblastoma multiforme(59;3.33e-05)|Colorectal(24;3.58e-05)|STAD - Stomach adenocarcinoma(60;4.21e-05)|COAD - Colon adenocarcinoma(29;0.000171)|LUSC - Lung squamous cell carcinoma(40;0.0145)|READ - Rectum adenocarcinoma(43;0.242)														---	---	---	---
WWC2	80014	broad.mit.edu	37	4	184104936	184104936	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184104936delA	uc010irx.2	+							NM_024949	NP_079225			WW and C2 domain containing 2											ovary(2)|lung(1)	3		all_lung(41;5.28e-14)|Lung NSC(41;1.35e-13)|Colorectal(36;0.00681)|Hepatocellular(41;0.00886)|Renal(120;0.00992)|Prostate(90;0.0237)|all_hematologic(60;0.0592)|Esophageal squamous(56;0.179)|all_neural(102;0.202)		all cancers(43;3.38e-24)|Epithelial(43;1.4e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.09e-09)|GBM - Glioblastoma multiforme(59;3.33e-05)|Colorectal(24;3.58e-05)|STAD - Stomach adenocarcinoma(60;4.21e-05)|COAD - Colon adenocarcinoma(29;0.000171)|LUSC - Lung squamous cell carcinoma(40;0.0145)|READ - Rectum adenocarcinoma(43;0.242)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	184290074	184290074	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184290074delA								WWC2 (48147 upstream) : CDKN2AIP (75715 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	184546910	184546910	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184546910delA								ING2 (114661 upstream) : RWDD4A (13879 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	184808258	184808258	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184808258delA								C4orf41 (173514 upstream) : STOX2 (18251 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	185220157	185220157	+	IGR	DEL	A	-	-	rs115404122	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:185220157delA								ENPP6 (81043 upstream) : IRF2 (88721 downstream)																																			---	---	---	---
IRF2	3660	broad.mit.edu	37	4	185376910	185376910	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:185376910delA	uc003iwf.3	-							NM_002199	NP_002190			interferon regulatory factor 2						blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	185433763	185433763	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:185433763delT								IRF2 (38037 upstream) : CASP3 (115089 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	185525526	185525526	+	IGR	DEL	A	-	-	rs74635218		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:185525526delA								IRF2 (129800 upstream) : CASP3 (23326 downstream)																																			---	---	---	---
MLF1IP	79682	broad.mit.edu	37	4	185647526	185647526	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:185647526delA	uc003iwq.2	-						MLF1IP_uc003iwp.2_Intron|MLF1IP_uc003iwr.1_Intron	NM_024629	NP_078905			MLF1 interacting protein						CenH3-containing nucleosome assembly at centromere|interspecies interaction between organisms|mitotic prometaphase|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|condensed chromosome kinetochore|cytosol|nucleoplasm					0		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Hepatocellular(41;0.000519)|Colorectal(36;0.00172)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.0299)|all_hematologic(60;0.0592)|Medulloblastoma(177;0.146)		all cancers(43;7.83e-28)|Epithelial(43;2.56e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.5e-11)|Colorectal(24;3.27e-06)|STAD - Stomach adenocarcinoma(60;2.66e-05)|GBM - Glioblastoma multiforme(59;3.16e-05)|BRCA - Breast invasive adenocarcinoma(30;0.000252)|COAD - Colon adenocarcinoma(29;0.000512)|LUSC - Lung squamous cell carcinoma(40;0.01)|READ - Rectum adenocarcinoma(43;0.0419)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	185833240	185833240	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:185833240delA								ACSL1 (86025 upstream) : HELT (106755 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	185899235	185899236	+	IGR	DEL	TA	-	-	rs10545309		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:185899235_185899236delTA								ACSL1 (152020 upstream) : HELT (40759 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	186477356	186477356	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186477356delT								PDLIM3 (20644 upstream) : SORBS2 (29243 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	186488208	186488208	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186488208delT								PDLIM3 (31496 upstream) : SORBS2 (18391 downstream)																																			---	---	---	---
SORBS2	8470	broad.mit.edu	37	4	186527623	186527623	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186527623delT	uc003iyl.2	-						SORBS2_uc003iyh.2_Intron|SORBS2_uc011ckw.1_Intron|SORBS2_uc003iyi.2_Intron|SORBS2_uc011ckx.1_Intron|SORBS2_uc003iyk.2_Intron|SORBS2_uc003iym.2_Intron|SORBS2_uc003iyn.1_Intron|SORBS2_uc011cku.1_Intron|SORBS2_uc011ckv.1_Intron|SORBS2_uc003iyd.2_Intron|SORBS2_uc003iye.2_Intron|SORBS2_uc003iya.2_Intron|SORBS2_uc003iyb.2_Intron|SORBS2_uc003iyc.2_Intron|SORBS2_uc003iyg.2_Intron|SORBS2_uc003iyf.2_Intron	NM_021069	NP_066547			sorbin and SH3 domain containing 2 isoform 2							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)														---	---	---	---
SORBS2	8470	broad.mit.edu	37	4	186568039	186568039	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186568039delA	uc003iyl.2	-						SORBS2_uc003iyh.2_Intron|SORBS2_uc011ckw.1_Intron|SORBS2_uc003iyi.2_Intron|SORBS2_uc011ckx.1_Intron|SORBS2_uc003iyk.2_Intron|SORBS2_uc003iym.2_Intron|SORBS2_uc003iyn.1_Intron|SORBS2_uc011cky.1_Intron|SORBS2_uc003iyp.2_Intron|SORBS2_uc011cku.1_Intron|SORBS2_uc011ckv.1_Intron|SORBS2_uc003iyd.2_Intron|SORBS2_uc003iye.2_Intron|SORBS2_uc003iya.2_Intron|SORBS2_uc003iyb.2_Intron|SORBS2_uc003iyc.2_Intron|SORBS2_uc003iyg.2_Intron|SORBS2_uc003iyf.2_Intron|SORBS2_uc003iyo.1_Intron	NM_021069	NP_066547			sorbin and SH3 domain containing 2 isoform 2							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)														---	---	---	---
SORBS2	8470	broad.mit.edu	37	4	186755608	186755608	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186755608delA	uc003iyl.2	-						SORBS2_uc003iym.2_Intron|SORBS2_uc011cky.1_Intron	NM_021069	NP_066547			sorbin and SH3 domain containing 2 isoform 2							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)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	187274519	187274519	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187274519delC	uc003izb.1	-											Homo sapiens coagulation factor XI (plasma thromboplastin antecedent), mRNA (cDNA clone IMAGE:4831055).																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	187405946	187405947	+	Intron	DEL	TT	-	-	rs112118571		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187405946_187405947delTT	uc003izb.1	-						uc003izc.2_Intron					Homo sapiens coagulation factor XI (plasma thromboplastin antecedent), mRNA (cDNA clone IMAGE:4831055).																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	187415977	187415977	+	Intron	DEL	A	-	-	rs142662503		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187415977delA	uc003izb.1	-						uc003izc.2_Intron					Homo sapiens coagulation factor XI (plasma thromboplastin antecedent), mRNA (cDNA clone IMAGE:4831055).																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	188093945	188093946	+	IGR	DEL	TT	-	-	rs143519388		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:188093945_188093946delTT								FAT1 (446095 upstream) : ZFP42 (822979 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	188260763	188260763	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:188260763delA								FAT1 (612913 upstream) : ZFP42 (656162 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	188493065	188493065	+	IGR	DEL	A	-	-	rs76752780		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:188493065delA								FAT1 (845215 upstream) : ZFP42 (423860 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	188563731	188563731	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:188563731delA								FAT1 (915881 upstream) : ZFP42 (353194 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	188845810	188845810	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:188845810delT								None (None upstream) : ZFP42 (71115 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	189056362	189056362	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:189056362delT								TRIML2 (25940 upstream) : TRIML1 (4236 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	189459065	189459065	+	RNA	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:189459065delT	uc003izp.1	+	6		c.1791delT								Homo sapiens cDNA FLJ38649 fis, clone HHDPC2007302.																														---	---	---	---
Unknown	0	broad.mit.edu	37	4	189691375	189691376	+	IGR	INS	-	ACC	ACC	rs148016945	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:189691375_189691376insACC								TRIML1 (622726 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	190430949	190430950	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190430949_190430950delGT								None (None upstream) : FRG1 (431024 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	190596438	190596439	+	IGR	INS	-	TCCTTGG	TCCTTGG	rs140220951		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190596438_190596439insTCCTTGG								None (None upstream) : FRG1 (265535 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	190627455	190627455	+	IGR	DEL	A	-	-	rs68065627		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190627455delA								None (None upstream) : FRG1 (234519 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	190635787	190635788	+	IGR	DEL	AA	-	-	rs62331859		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190635787_190635788delAA								None (None upstream) : FRG1 (226186 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	190910752	190910752	+	IGR	DEL	A	-	-	rs151218259		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190910752delA								TUBB4Q (4728 upstream) : LOC653545 (97814 downstream)																																			---	---	---	---
LPCAT1	79888	broad.mit.edu	37	5	1501536	1501536	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1501536delC	uc003jcm.2	-							NM_024830	NP_079106			lysophosphatidylcholine acyltransferase 1						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	1729703	1729703	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1729703delT								LOC728613 (95583 upstream) : MRPL36 (68797 downstream)																																			---	---	---	---
NDUFS6	4726	broad.mit.edu	37	5	1805475	1805475	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1805475delG	uc003jcy.2	+							NM_004553	NP_004544			NADH dehydrogenase (ubiquinone) Fe-S protein 6,						mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial respiratory chain complex I	electron carrier activity|NADH dehydrogenase (ubiquinone) activity			central_nervous_system(1)	1					NADH(DB00157)													---	---	---	---
Unknown	0	broad.mit.edu	37	5	2015078	2015079	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:2015078_2015079insA								IRX4 (132198 upstream) : IRX2 (731202 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	2391611	2391611	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:2391611delA								IRX4 (508731 upstream) : IRX2 (354670 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	2949333	2949334	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:2949333_2949334delTT								C5orf38 (193821 upstream) : IRX1 (646834 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	2976539	2976539	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:2976539delT								C5orf38 (221027 upstream) : IRX1 (619629 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	3068990	3068990	+	IGR	DEL	A	-	-	rs2447672	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3068990delA								C5orf38 (313478 upstream) : IRX1 (527178 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	3448471	3448471	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3448471delA	uc003jdd.2	-											Homo sapiens cDNA clone IMAGE:4823480.																														---	---	---	---
Unknown	0	broad.mit.edu	37	5	3609671	3609672	+	IGR	INS	-	T	T	rs76683335		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3609671_3609672insT								IRX1 (8155 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	3621012	3621013	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3621012_3621013insT								IRX1 (19496 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	3647293	3647293	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3647293delT								IRX1 (45777 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	3776636	3776636	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3776636delC								IRX1 (175120 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	3796334	3796334	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3796334delT								IRX1 (194818 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	3819333	3819334	+	IGR	DEL	TT	-	-	rs143447482		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3819333_3819334delTT								IRX1 (217817 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	4296590	4296591	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:4296590_4296591insA								IRX1 (695074 upstream) : LOC340094 (737881 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	4363529	4363529	+	IGR	DEL	C	-	-	rs261117	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:4363529delC								IRX1 (762013 upstream) : LOC340094 (670943 downstream)																																			---	---	---	---
ADAMTS16	170690	broad.mit.edu	37	5	5195292	5195292	+	Intron	DEL	A	-	-	rs112136428		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5195292delA	uc003jdl.2	+						ADAMTS16_uc003jdk.1_Intron|ADAMTS16_uc003jdj.1_Intron	NM_139056	NP_620687			ADAM metallopeptidase with thrombospondin type 1						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8																		---	---	---	---
ADAMTS16	170690	broad.mit.edu	37	5	5289317	5289318	+	Intron	INS	-	A	A	rs146205711	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5289317_5289318insA	uc003jdl.2	+						ADAMTS16_uc003jdk.1_Intron	NM_139056	NP_620687			ADAM metallopeptidase with thrombospondin type 1						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	5374697	5374697	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5374697delA								ADAMTS16 (54286 upstream) : KIAA0947 (48110 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	5533415	5533434	+	IGR	DEL	ATGGTGGGCTACAGTGACTG	-	-	rs138132171		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5533415_5533434delATGGTGGGCTACAGTGACTG								KIAA0947 (43078 upstream) : FLJ33360 (777120 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	5575584	5575584	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5575584delG								KIAA0947 (85247 upstream) : FLJ33360 (734970 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	5791292	5791292	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5791292delA								KIAA0947 (300955 upstream) : FLJ33360 (519262 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	5996010	5996010	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5996010delT								KIAA0947 (505673 upstream) : FLJ33360 (314544 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	6518451	6518451	+	IGR	DEL	A	-	-	rs115902725	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:6518451delA								UBE2QL1 (25746 upstream) : LOC255167 (63836 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	7056173	7056174	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:7056173_7056174insT								PAPD7 (299012 upstream) : ADCY2 (340169 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	7376128	7376128	+	IGR	DEL	T	-	-	rs75502163		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:7376128delT								PAPD7 (618967 upstream) : ADCY2 (20215 downstream)																																			---	---	---	---
ADCY2	108	broad.mit.edu	37	5	7489928	7489929	+	Intron	DEL	GT	-	-	rs35228737		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:7489928_7489929delGT	uc003jdz.1	+							NM_020546	NP_065433			adenylate cyclase 2						activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7																		---	---	---	---
ADCY2	108	broad.mit.edu	37	5	7755520	7755521	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:7755520_7755521delAA	uc003jdz.1	+						ADCY2_uc011cmo.1_Intron	NM_020546	NP_065433			adenylate cyclase 2						activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7																		---	---	---	---
ADCY2	108	broad.mit.edu	37	5	7807511	7807511	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:7807511delA	uc003jdz.1	+						ADCY2_uc011cmo.1_Intron|ADCY2_uc010itm.1_Intron	NM_020546	NP_065433			adenylate cyclase 2						activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	8020630	8020637	+	IGR	DEL	TATTCTTT	-	-	rs142072227		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:8020630_8020637delTATTCTTT								MTRR (119397 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	8640123	8640123	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:8640123delT								MTRR (738890 upstream) : SEMA5A (395015 downstream)																																			---	---	---	---
SEMA5A	9037	broad.mit.edu	37	5	9184882	9184882	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:9184882delT	uc003jek.2	-							NM_003966	NP_003957			semaphorin 5A precursor						cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2																		---	---	---	---
SEMA5A	9037	broad.mit.edu	37	5	9237030	9237030	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:9237030delA	uc003jek.2	-							NM_003966	NP_003957			semaphorin 5A precursor						cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2																		---	---	---	---
SEMA5A	9037	broad.mit.edu	37	5	9293303	9293304	+	Intron	DEL	TC	-	-	rs72477914		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:9293303_9293304delTC	uc003jek.2	-							NM_003966	NP_003957			semaphorin 5A precursor						cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2																		---	---	---	---
LOC285692	285692	broad.mit.edu	37	5	9697291	9697291	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:9697291delA	uc010itq.1	-						LOC285692_uc003jen.2_Intron					Homo sapiens clone TEE10 Cri-du-chat region mRNA.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	10062561	10062561	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:10062561delA								LOC285692 (158625 upstream) : FAM173B (163877 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	10142739	10142739	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:10142739delA								LOC285692 (238803 upstream) : FAM173B (83699 downstream)																																			---	---	---	---
CTNND2	1501	broad.mit.edu	37	5	11153382	11153383	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:11153382_11153383delAA	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																		---	---	---	---
CTNND2	1501	broad.mit.edu	37	5	11312112	11312113	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:11312112_11312113delCA	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																		---	---	---	---
CTNND2	1501	broad.mit.edu	37	5	11538842	11538842	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:11538842delT	uc003jfa.1	-						CTNND2_uc010itt.2_Intron|CTNND2_uc011cmy.1_Intron|CTNND2_uc011cmz.1_Intron|CTNND2_uc010itu.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																		---	---	---	---
CTNND2	1501	broad.mit.edu	37	5	11634770	11634770	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:11634770delA	uc003jfa.1	-						CTNND2_uc011cmz.1_Intron|CTNND2_uc010itu.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																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	12846454	12846454	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:12846454delA								CTNND2 (942344 upstream) : DNAH5 (843983 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	12900439	12900439	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:12900439delT								CTNND2 (996329 upstream) : DNAH5 (789998 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	13252990	13252991	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:13252990_13252991delTT								None (None upstream) : DNAH5 (437446 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	13649054	13649054	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:13649054delC								None (None upstream) : DNAH5 (41383 downstream)																																			---	---	---	---
DNAH5	1767	broad.mit.edu	37	5	13756449	13756450	+	Intron	INS	-	T	T	rs140156005	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:13756449_13756450insT	uc003jfd.2	-						DNAH5_uc003jfc.2_Intron	NM_001369	NP_001360			dynein, axonemal, heavy chain 5						microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)													Kartagener_syndrome				---	---	---	---
DNAH5	1767	broad.mit.edu	37	5	13774029	13774032	+	Intron	DEL	GAAA	-	-	rs7737559	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:13774029_13774032delGAAA	uc003jfd.2	-							NM_001369	NP_001360			dynein, axonemal, heavy chain 5						microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)													Kartagener_syndrome				---	---	---	---
DNAH5	1767	broad.mit.edu	37	5	13778588	13778591	+	Intron	DEL	GAAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:13778588_13778591delGAAG	uc003jfd.2	-							NM_001369	NP_001360			dynein, axonemal, heavy chain 5						microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)													Kartagener_syndrome				---	---	---	---
DNAH5	1767	broad.mit.edu	37	5	13847535	13847535	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:13847535delA	uc003jfd.2	-							NM_001369	NP_001360			dynein, axonemal, heavy chain 5						microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)													Kartagener_syndrome				---	---	---	---
DNAH5	1767	broad.mit.edu	37	5	13849168	13849168	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:13849168delT	uc003jfd.2	-							NM_001369	NP_001360			dynein, axonemal, heavy chain 5						microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)													Kartagener_syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	5	14002018	14002019	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14002018_14002019delTT								DNAH5 (57429 upstream) : TRIO (141810 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	14138785	14138786	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14138785_14138786delAC								DNAH5 (194196 upstream) : TRIO (5043 downstream)																																			---	---	---	---
TRIO	7204	broad.mit.edu	37	5	14416405	14416406	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14416405_14416406delTT	uc003jff.2	+						TRIO_uc003jfg.2_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)																	---	---	---	---
Unknown	0	broad.mit.edu	37	5	14560143	14560143	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14560143delA								TRIO (50693 upstream) : FAM105A (21748 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	14632907	14632907	+	IGR	DEL	A	-	-	rs112373525		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14632907delA								FAM105A (16622 upstream) : FAM105B (31876 downstream)																																			---	---	---	---
ANKH	56172	broad.mit.edu	37	5	14850980	14850980	+	Intron	DEL	T	-	-	rs113379384		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14850980delT	uc003jfm.3	-							NM_054027	NP_473368			progressive ankylosis protein						locomotory behavior|regulation of bone mineralization|skeletal system development	integral to plasma membrane|outer membrane	inorganic diphosphate transmembrane transporter activity|inorganic phosphate transmembrane transporter activity			upper_aerodigestive_tract(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	15027647	15027648	+	IGR	INS	-	TTG	TTG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:15027647_15027648insTTG								ANKH (155760 upstream) : FBXL7 (472657 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	15326767	15326767	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:15326767delT								ANKH (454880 upstream) : FBXL7 (173538 downstream)																																			---	---	---	---
FBXL7	23194	broad.mit.edu	37	5	15751147	15751148	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:15751147_15751148insT	uc003jfn.1	+							NM_012304	NP_036436			F-box and leucine-rich repeat protein 7						ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3																		---	---	---	---
FBXL7	23194	broad.mit.edu	37	5	15753290	15753290	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:15753290delT	uc003jfn.1	+							NM_012304	NP_036436			F-box and leucine-rich repeat protein 7						ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3																		---	---	---	---
FBXL7	23194	broad.mit.edu	37	5	15789315	15789316	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:15789315_15789316insT	uc003jfn.1	+							NM_012304	NP_036436			F-box and leucine-rich repeat protein 7						ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3																		---	---	---	---
MARCH11	441061	broad.mit.edu	37	5	16105903	16105903	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:16105903delT	uc003jfo.2	-							NM_001102562	NP_001096032			membrane-associated ring finger (C3HC4) 11							cytoplasmic vesicle membrane|integral to membrane	ligase activity|zinc ion binding				0																		---	---	---	---
FAM134B	54463	broad.mit.edu	37	5	16592404	16592404	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:16592404delA	uc003jfs.2	-							NM_001034850	NP_001030022			hypothetical protein LOC54463 isoform 1						sensory perception of pain	cis-Golgi network|endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	16642927	16642927	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:16642927delT								FAM134B (25809 upstream) : MYO10 (19090 downstream)																																			---	---	---	---
MYO10	4651	broad.mit.edu	37	5	16679926	16679927	+	Intron	INS	-	C	C	rs139264862	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:16679926_16679927insC	uc003jft.3	-						MYO10_uc011cnb.1_Intron|MYO10_uc011cnc.1_Intron|MYO10_uc011cnd.1_Intron|MYO10_uc011cne.1_Intron|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																		---	---	---	---
MYO10	4651	broad.mit.edu	37	5	16792344	16792344	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:16792344delA	uc003jft.3	-						MYO10_uc003jfu.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																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	17339553	17339553	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:17339553delT								BASP1 (62618 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	17346721	17346722	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:17346721_17346722delAA								BASP1 (69786 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	17438594	17438594	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:17438594delT								BASP1 (161659 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	17617926	17617926	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:17617926delT								BASP1 (340991 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	17804488	17804488	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:17804488delT								BASP1 (527553 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	18210026	18210026	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:18210026delA								BASP1 (933091 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	18285031	18285031	+	IGR	DEL	A	-	-	rs2962173	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:18285031delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	18649816	18649816	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:18649816delT								None (None upstream) : CDH18 (823341 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	18721993	18721993	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:18721993delT								None (None upstream) : CDH18 (751164 downstream)																																			---	---	---	---
CDH18	1016	broad.mit.edu	37	5	19573184	19573184	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:19573184delA	uc003jgc.2	-						CDH18_uc003jgd.2_Intron|CDH18_uc011cnm.1_Intron	NM_004934	NP_004925			cadherin 18, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)																	---	---	---	---
Unknown	0	broad.mit.edu	37	5	20237142	20237142	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:20237142delA								CDH18 (248835 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	20300533	20300533	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:20300533delT								CDH18 (312226 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	20463324	20463324	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:20463324delT								CDH18 (475017 upstream) : GUSBP1 (878618 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	21225096	21225096	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:21225096delA								None (None upstream) : GUSBP1 (116846 downstream)																																			---	---	---	---
GUSBP1	728411	broad.mit.edu	37	5	21547416	21547417	+	Intron	INS	-	G	G	rs143671141		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:21547416_21547417insG	uc003jgh.3	+							NR_027026				Homo sapiens cDNA FLJ38337 fis, clone FCBBF3026692, moderately similar to Homo sapiens WD repeat domain 70 (WDR70), mRNA.												0																		---	---	---	---
GUSBP1	728411	broad.mit.edu	37	5	21559451	21559452	+	Intron	DEL	TG	-	-	rs138351813		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:21559451_21559452delTG	uc003jgh.3	+							NR_027026				Homo sapiens cDNA FLJ38337 fis, clone FCBBF3026692, moderately similar to Homo sapiens WD repeat domain 70 (WDR70), mRNA.												0																		---	---	---	---
GUSBP1	728411	broad.mit.edu	37	5	21559505	21559506	+	Intron	INS	-	CA	CA	rs149099655	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:21559505_21559506insCA	uc003jgh.3	+							NR_027026				Homo sapiens cDNA FLJ38337 fis, clone FCBBF3026692, moderately similar to Homo sapiens WD repeat domain 70 (WDR70), mRNA.												0																		---	---	---	---
GUSBP1	728411	broad.mit.edu	37	5	21566580	21566583	+	Intron	DEL	TCTA	-	-	rs144446846		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:21566580_21566583delTCTA	uc003jgh.3	+							NR_027026				Homo sapiens cDNA FLJ38337 fis, clone FCBBF3026692, moderately similar to Homo sapiens WD repeat domain 70 (WDR70), mRNA.												0																		---	---	---	---
CDH12	1010	broad.mit.edu	37	5	22181375	22181375	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:22181375delT	uc010iuc.2	-						CDH12_uc011cno.1_Intron|CDH12_uc003jgk.2_Intron	NM_004061	NP_004052			cadherin 12, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2															HNSCC(59;0.17)			---	---	---	---
CDH12	1010	broad.mit.edu	37	5	22244203	22244203	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:22244203delA	uc003jgk.2	-							NM_004061	NP_004052			cadherin 12, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2															HNSCC(59;0.17)			---	---	---	---
CDH12	1010	broad.mit.edu	37	5	22521101	22521101	+	Intron	DEL	T	-	-	rs35764441		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:22521101delT	uc003jgk.2	-							NM_004061	NP_004052			cadherin 12, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2															HNSCC(59;0.17)			---	---	---	---
CDH12	1010	broad.mit.edu	37	5	22627035	22627035	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:22627035delA	uc003jgk.2	-							NM_004061	NP_004052			cadherin 12, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2															HNSCC(59;0.17)			---	---	---	---
Unknown	0	broad.mit.edu	37	5	23443811	23443813	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:23443811_23443813delTTT								CDH12 (590080 upstream) : PRDM9 (63911 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	23944702	23944702	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:23944702delT								PRDM9 (415998 upstream) : CDH10 (542508 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	24474869	24474870	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:24474869_24474870insA								PRDM9 (946165 upstream) : CDH10 (12340 downstream)																																			---	---	---	---
CDH10	1008	broad.mit.edu	37	5	24596480	24596480	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:24596480delT	uc003jgr.1	-						CDH10_uc011cnu.1_Intron	NM_006727	NP_006718			cadherin 10, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)											HNSCC(23;0.051)			---	---	---	---
Unknown	0	broad.mit.edu	37	5	24816119	24816119	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:24816119delA								CDH10 (171208 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	24866229	24866229	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:24866229delA								CDH10 (221318 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	26156603	26156603	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:26156603delT								None (None upstream) : CDH9 (724106 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	26168916	26168916	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:26168916delT								None (None upstream) : CDH9 (711793 downstream)																																			---	---	---	---
CDH9	1007	broad.mit.edu	37	5	26909101	26909102	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:26909101_26909102insT	uc003jgs.1	-						CDH9_uc010iug.2_Intron	NM_016279	NP_057363			cadherin 9, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9																		---	---	---	---
CDH9	1007	broad.mit.edu	37	5	26988156	26988156	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:26988156delA	uc003jgs.1	-						CDH9_uc010iug.2_Intron	NM_016279	NP_057363			cadherin 9, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	28005264	28005264	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:28005264delA								CDH9 (966575 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	28291511	28291511	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:28291511delC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	28768434	28768435	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:28768434_28768435delTT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	29170520	29170521	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:29170520_29170521insA	uc003jhb.1	+											Homo sapiens cDNA FLJ25704 fis, clone TST04756.																														---	---	---	---
Unknown	0	broad.mit.edu	37	5	29263373	29263374	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:29263373_29263374insT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	29492034	29492035	+	IGR	INS	-	A	A	rs140672338	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:29492034_29492035insA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	29495478	29495478	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:29495478delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	29533635	29533636	+	IGR	INS	-	T	T	rs56041063	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:29533635_29533636insT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	29956387	29956388	+	IGR	DEL	AA	-	-	rs112721466		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:29956387_29956388delAA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	30458805	30458806	+	IGR	INS	-	A	A	rs143161481	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:30458805_30458806insA								None (None upstream) : CDH6 (734990 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	30468409	30468409	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:30468409delT								None (None upstream) : CDH6 (725387 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	30790776	30790776	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:30790776delA								None (None upstream) : CDH6 (403020 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	30805826	30805826	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:30805826delT								None (None upstream) : CDH6 (387970 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	30955741	30955741	+	IGR	DEL	A	-	-	rs111549548		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:30955741delA								None (None upstream) : CDH6 (238055 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	30962636	30962636	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:30962636delT								None (None upstream) : CDH6 (231160 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	30995739	30995740	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:30995739_30995740insT								None (None upstream) : CDH6 (198056 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	31105923	31105923	+	IGR	DEL	T	-	-	rs68150577		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31105923delT								None (None upstream) : CDH6 (87873 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	31135226	31135226	+	IGR	DEL	A	-	-	rs34040655		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31135226delA								None (None upstream) : CDH6 (58570 downstream)																																			---	---	---	---
CDH6	1004	broad.mit.edu	37	5	31206260	31206261	+	Intron	INS	-	GATA	GATA	rs143599649	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31206260_31206261insGATA	uc003jhe.1	+						CDH6_uc003jhc.1_Intron|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																		---	---	---	---
CDH6	1004	broad.mit.edu	37	5	31267935	31267935	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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																		---	---	---	---
CDH6	1004	broad.mit.edu	37	5	31293938	31293939	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31293938_31293939delAA	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																		---	---	---	---
RNASEN	29102	broad.mit.edu	37	5	31508943	31508945	+	Intron	DEL	TTC	-	-	rs72531140	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31508943_31508945delTTC	uc003jhg.2	-						RNASEN_uc003jhh.2_Intron|RNASEN_uc003jhi.2_Intron|RNASEN_uc010iui.1_Intron	NM_013235	NP_037367			ribonuclease III, nuclear isoform 1						gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0																		---	---	---	---
PDZD2	23037	broad.mit.edu	37	5	31780419	31780419	+	Intron	DEL	G	-	-	rs76520891		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31780419delG	uc003jhl.2	+							NM_178140	NP_835260			PDZ domain containing 2						cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9																		---	---	---	---
PDZD2	23037	broad.mit.edu	37	5	31822556	31822556	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31822556delT	uc003jhl.2	+						PDZD2_uc003jhm.2_Intron	NM_178140	NP_835260			PDZ domain containing 2						cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9																		---	---	---	---
PDZD2	23037	broad.mit.edu	37	5	31840576	31840576	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31840576delT	uc003jhl.2	+						PDZD2_uc003jhm.2_Intron	NM_178140	NP_835260			PDZ domain containing 2						cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9																		---	---	---	---
PDZD2	23037	broad.mit.edu	37	5	31841315	31841318	+	Intron	DEL	ACAC	-	-	rs71614288		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31841315_31841318delACAC	uc003jhl.2	+						PDZD2_uc003jhm.2_Intron	NM_178140	NP_835260			PDZ domain containing 2						cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9																		---	---	---	---
NPR3	4883	broad.mit.edu	37	5	32739290	32739290	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:32739290delT	uc003jhv.2	+						NPR3_uc010iuo.2_Intron|NPR3_uc011cnz.1_Intron|NPR3_uc003jhu.2_Intron	NM_000908	NP_000899			natriuretic peptide receptor C/guanylate cyclase						osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)													---	---	---	---
NPR3	4883	broad.mit.edu	37	5	32786466	32786466	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:32786466delT	uc003jhv.2	+	8					NPR3_uc011cnz.1_3'UTR|NPR3_uc003jhu.2_3'UTR|C5orf23_uc003jhw.1_5'Flank	NM_000908	NP_000899			natriuretic peptide receptor C/guanylate cyclase						osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)													---	---	---	---
Unknown	0	broad.mit.edu	37	5	32959449	32959449	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:32959449delT	uc011coa.1	+											Homo sapiens cDNA clone IMAGE:5166153.																														---	---	---	---
Unknown	0	broad.mit.edu	37	5	33074737	33074737	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33074737delA								C5orf23 (282918 upstream) : TARS (366065 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	33154354	33154354	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33154354delA								C5orf23 (362535 upstream) : TARS (286448 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	33321227	33321228	+	IGR	INS	-	A	A	rs144097347	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33321227_33321228insA								C5orf23 (529408 upstream) : TARS (119574 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	33337746	33337748	+	IGR	DEL	AAC	-	-	rs34841187	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33337746_33337748delAAC								C5orf23 (545927 upstream) : TARS (103054 downstream)																																			---	---	---	---
ADAMTS12	81792	broad.mit.edu	37	5	33785406	33785406	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33785406delA	uc003jia.1	-						ADAMTS12_uc010iuq.1_Intron|ADAMTS12_uc003jib.1_Intron	NM_030955	NP_112217			ADAM metallopeptidase with thrombospondin type 1						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9															HNSCC(64;0.19)			---	---	---	---
ADAMTS12	81792	broad.mit.edu	37	5	33891472	33891472	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33891472delA	uc003jia.1	-						ADAMTS12_uc010iuq.1_Intron|ADAMTS12_uc003jib.1_Intron	NM_030955	NP_112217			ADAM metallopeptidase with thrombospondin type 1						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9															HNSCC(64;0.19)			---	---	---	---
RXFP3	51289	broad.mit.edu	37	5	33938339	33938339	+	3'UTR	DEL	G	-	-	rs3832336		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33938339delG	uc003jic.1	+	1						NM_016568	NP_057652			relaxin/insulin-like family peptide receptor 3							integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	33941403	33941404	+	IGR	DEL	TG	-	-	rs36115874		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33941403_33941404delTG								RXFP3 (3061 upstream) : SLC45A2 (3318 downstream)																																			---	---	---	---
RAI14	26064	broad.mit.edu	37	5	34721248	34721248	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:34721248delT	uc003jir.2	+						RAI14_uc010iur.2_Intron|RAI14_uc011coj.1_Intron|RAI14_uc010ius.1_Intron|RAI14_uc003jis.2_Intron|RAI14_uc003jit.2_Intron|RAI14_uc011cok.1_Intron	NM_015577	NP_056392			retinoic acid induced 14 isoform a							cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)																	---	---	---	---
RAI14	26064	broad.mit.edu	37	5	34762640	34762640	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:34762640delA	uc003jir.2	+						RAI14_uc010iur.2_Intron|RAI14_uc011coj.1_Intron|RAI14_uc010ius.1_Intron|RAI14_uc003jis.2_Intron|RAI14_uc003jit.2_Intron|RAI14_uc011cok.1_Intron	NM_015577	NP_056392			retinoic acid induced 14 isoform a							cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)																	---	---	---	---
TTC23L	153657	broad.mit.edu	37	5	34849424	34849424	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:34849424delA	uc003jiu.2	+							NM_144725	NP_653326			tetratricopeptide repeat domain 23-like								binding			central_nervous_system(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	36311740	36311740	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:36311740delT								RANBP3L (9729 upstream) : SLC1A3 (294717 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	36552925	36552925	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:36552925delA								RANBP3L (250914 upstream) : SLC1A3 (53532 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	36568700	36568700	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:36568700delT								RANBP3L (266689 upstream) : SLC1A3 (37757 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	36827830	36827830	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:36827830delT								SLC1A3 (139396 upstream) : NIPBL (49031 downstream)																																			---	---	---	---
NIPBL	25836	broad.mit.edu	37	5	37044327	37044327	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37044327delT	uc003jkl.3	+						NIPBL_uc003jkk.3_Intron	NM_133433	NP_597677			delangin isoform A						brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)															---	---	---	---
NIPBL	25836	broad.mit.edu	37	5	37045454	37045454	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37045454delA	uc003jkl.3	+						NIPBL_uc003jkk.3_Intron	NM_133433	NP_597677			delangin isoform A						brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)															---	---	---	---
NIPBL	25836	broad.mit.edu	37	5	37051862	37051863	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37051862_37051863delTT	uc003jkl.3	+						NIPBL_uc003jkk.3_Intron|NIPBL_uc003jkn.2_Frame_Shift_Del_p.N5fs	NM_133433	NP_597677			delangin isoform A						brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)															---	---	---	---
C5orf42	65250	broad.mit.edu	37	5	37162787	37162789	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37162787_37162789delTTT	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)															---	---	---	---
NUP155	9631	broad.mit.edu	37	5	37295126	37295126	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37295126delA	uc003jku.1	-						NUP155_uc003jkt.1_Intron|NUP155_uc010iuz.1_Intron	NM_153485	NP_705618			nucleoporin 155kDa isoform 1						carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)															---	---	---	---
NUP155	9631	broad.mit.edu	37	5	37333456	37333456	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37333456delA	uc003jku.1	-						NUP155_uc003jkt.1_Intron|NUP155_uc010iuz.1_Intron	NM_153485	NP_705618			nucleoporin 155kDa isoform 1						carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)															---	---	---	---
WDR70	55100	broad.mit.edu	37	5	37582205	37582208	+	Intron	DEL	TTAG	-	-	rs35603461		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37582205_37582208delTTAG	uc003jkv.2	+						WDR70_uc010iva.1_Intron	NM_018034	NP_060504			WD repeat domain 70											ovary(1)|central_nervous_system(1)	2	all_lung(31;0.000285)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	37792263	37792263	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37792263delT								WDR70 (39491 upstream) : GDNF (23491 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	38104607	38104607	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:38104607delC								GDNF (264825 upstream) : EGFLAM (153926 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	38723057	38723058	+	IGR	INS	-	A	A	rs144546053	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:38723057_38723058insA								LIFR (127550 upstream) : OSMR (123070 downstream)																																			---	---	---	---
OSMR	9180	broad.mit.edu	37	5	38855005	38855005	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:38855005delC	uc003jln.1	+						OSMR_uc003jlm.1_Intron	NM_003999	NP_003990			oncostatin M receptor precursor						cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)																	---	---	---	---
FYB	2533	broad.mit.edu	37	5	39265276	39265276	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:39265276delA	uc011cpl.1	-							NM_001465	NP_001456			FYN binding protein (FYB-120/130) isoform 1						cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	39594245	39594245	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:39594245delC								DAB2 (168910 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	39630019	39630019	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:39630019delA								DAB2 (204684 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	39932521	39932521	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:39932521delA								DAB2 (507186 upstream) : PTGER4 (747511 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	39963214	39963215	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:39963214_39963215delTT								DAB2 (537879 upstream) : PTGER4 (716817 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	40067381	40067381	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:40067381delT								DAB2 (642046 upstream) : PTGER4 (612651 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	40086054	40086054	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:40086054delA								DAB2 (660719 upstream) : PTGER4 (593978 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	40508470	40508470	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:40508470delA								None (None upstream) : PTGER4 (171562 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	40630579	40630579	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:40630579delA								None (None upstream) : PTGER4 (49453 downstream)																																			---	---	---	---
PTGER4	5734	broad.mit.edu	37	5	40686049	40686049	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:40686049delA	uc003jlz.2	+							NM_000958	NP_000949			prostaglandin E receptor 4, subtype EP4						G-protein signaling, coupled to cAMP nucleotide second messenger|immune response	integral to membrane|plasma membrane	prostaglandin E receptor activity			lung(2)	2																		---	---	---	---
HEATR7B2	133558	broad.mit.edu	37	5	41000851	41000852	+	Frame_Shift_Ins	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41000851_41000852insA	uc003jmj.3	-	38	4768_4769	c.4278_4279insT	c.(4276-4281)TTTGCTfs	p.F1426fs	HEATR7B2_uc003jmi.3_Frame_Shift_Ins_p.F981fs	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1426_1427							binding			ovary(6)|central_nervous_system(2)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	41082746	41082746	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41082746delA								HEATR7B2 (11302 upstream) : C6 (59590 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	41110324	41110325	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41110324_41110325delTT								HEATR7B2 (38880 upstream) : C6 (32011 downstream)																																			---	---	---	---
C6	729	broad.mit.edu	37	5	41260371	41260372	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41260371_41260372delCA	uc003jml.1	-							NM_001115131	NP_001108603			complement component 6 precursor						complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)																---	---	---	---
PLCXD3	345557	broad.mit.edu	37	5	41315517	41315517	+	Intron	DEL	A	-	-	rs71873562		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41315517delA	uc003jmm.1	-							NM_001005473	NP_001005473			phosphatidylinositol-specific phospholipase C, X						intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6																		---	---	---	---
PLCXD3	345557	broad.mit.edu	37	5	41476745	41476745	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41476745delT	uc003jmm.1	-							NM_001005473	NP_001005473			phosphatidylinositol-specific phospholipase C, X						intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	41719468	41719468	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41719468delA								PLCXD3 (208738 upstream) : OXCT1 (10700 downstream)																																			---	---	---	---
OXCT1	5019	broad.mit.edu	37	5	41853873	41853874	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41853873_41853874insT	uc003jmn.2	-							NM_000436	NP_000427			3-oxoacid CoA transferase 1 precursor						cellular lipid metabolic process|ketone body catabolic process	mitochondrial matrix	3-oxoacid CoA-transferase activity|protein homodimerization activity			ovary(2)|large_intestine(1)	3					Succinic acid(DB00139)													---	---	---	---
C5orf51	285636	broad.mit.edu	37	5	41911944	41911944	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41911944delT	uc003jmo.2	+							NM_175921	NP_787117			hypothetical protein LOC285636												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	42220425	42220426	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:42220425_42220426insA								FBXO4 (278762 upstream) : GHR (203600 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	42240149	42240149	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:42240149delT								FBXO4 (298486 upstream) : GHR (183877 downstream)																																			---	---	---	---
GHR	2690	broad.mit.edu	37	5	42671539	42671539	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:42671539delG	uc003jmt.2	+						GHR_uc011cpq.1_Intron	NM_000163	NP_000154			growth hormone receptor precursor						2-oxoglutarate metabolic process|activation of JAK2 kinase activity|activation of MAPK activity|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|endocytosis|fatty acid metabolic process|growth hormone receptor signaling pathway|insulin-like growth factor receptor signaling pathway|isoleucine metabolic process|JAK-STAT cascade|multicellular organismal metabolic process|oxaloacetate metabolic process|positive regulation of multicellular organism growth|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|receptor internalization|response to cycloheximide|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cell surface|extracellular space|growth hormone receptor complex|integral to plasma membrane	growth factor binding|peptide hormone binding|proline-rich region binding|protein homodimerization activity|protein kinase binding			lung(4)|kidney(1)|skin(1)	6		Myeloproliferative disorder(839;0.00878)			Pegvisomant(DB00082)|Somatropin recombinant(DB00052)													---	---	---	---
Unknown	0	broad.mit.edu	37	5	42887097	42887098	+	IGR	DEL	AA	-	-	rs34891971		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:42887097_42887098delAA								SEPP1 (61099 upstream) : C5orf39 (152085 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	43086631	43086631	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:43086631delG	uc010ivk.2	+											Homo sapiens cDNA, FLJ18440.																														---	---	---	---
Unknown	0	broad.mit.edu	37	5	43960390	43960391	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:43960390_43960391insT								NNT (254723 upstream) : FGF10 (344706 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	44499368	44499368	+	IGR	DEL	A	-	-	rs112747477		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:44499368delA								FGF10 (110584 upstream) : MRPS30 (309659 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	44506012	44506012	+	IGR	DEL	G	-	-	rs2929848	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:44506012delG								FGF10 (117228 upstream) : MRPS30 (303015 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	44711971	44711971	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:44711971delA								FGF10 (323187 upstream) : MRPS30 (97056 downstream)																																			---	---	---	---
MRPS30	10884	broad.mit.edu	37	5	44806181	44806181	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:44806181delA	uc003joh.2	+							NM_016640	NP_057724			mitochondrial ribosomal protein S30						apoptosis|translation	mitochondrion|ribosome	structural constituent of ribosome				0	Lung NSC(6;8.08e-07)																	---	---	---	---
HCN1	348980	broad.mit.edu	37	5	45508647	45508647	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:45508647delA	uc003jok.2	-							NM_021072	NP_066550			hyperpolarization activated cyclic							integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1																		---	---	---	---
HCN1	348980	broad.mit.edu	37	5	45581417	45581417	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:45581417delT	uc003jok.2	-							NM_021072	NP_066550			hyperpolarization activated cyclic							integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1																		---	---	---	---
HCN1	348980	broad.mit.edu	37	5	45678091	45678092	+	Intron	INS	-	AC	AC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:45678091_45678092insAC	uc003jok.2	-							NM_021072	NP_066550			hyperpolarization activated cyclic							integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	45974813	45974813	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:45974813delA								HCN1 (278593 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	46064886	46064886	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:46064886delT								HCN1 (368666 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	46304799	46304799	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:46304799delA								HCN1 (608579 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	46331483	46331483	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:46331483delT								HCN1 (635263 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	46370876	46370876	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:46370876delT								HCN1 (674656 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	49549579	49549579	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:49549579delC								None (None upstream) : EMB (142454 downstream)																																			---	---	---	---
PARP8	79668	broad.mit.edu	37	5	50074216	50074216	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:50074216delT	uc003jon.3	+						PARP8_uc011cpz.1_Intron|PARP8_uc003joo.2_Intron|PARP8_uc003jop.2_Intron	NM_024615	NP_078891			poly (ADP-ribose) polymerase family, member 8							intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)																---	---	---	---
PARP8	79668	broad.mit.edu	37	5	50091306	50091306	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:50091306delT	uc003jon.3	+						PARP8_uc011cpz.1_Intron|PARP8_uc003joo.2_Intron|PARP8_uc003jop.2_Intron	NM_024615	NP_078891			poly (ADP-ribose) polymerase family, member 8							intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)																---	---	---	---
Unknown	0	broad.mit.edu	37	5	50276808	50276808	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:50276808delA								PARP8 (138639 upstream) : ISL1 (402150 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	50290163	50290164	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:50290163_50290164insA								PARP8 (151994 upstream) : ISL1 (388794 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	50336392	50336392	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:50336392delT								PARP8 (198223 upstream) : ISL1 (342566 downstream)																																	OREG0002755	type=REGULATORY REGION|Gene=PARP8-ISL1|Dataset=Vista Enhancers|EvidenceSubtype=In-vivo LacZ Expression Assay	---	---	---	---
Unknown	0	broad.mit.edu	37	5	50363882	50363882	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:50363882delA								PARP8 (225713 upstream) : ISL1 (315076 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	50500460	50500460	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:50500460delA								PARP8 (362291 upstream) : ISL1 (178498 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	50568425	50568425	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:50568425delA								PARP8 (430256 upstream) : ISL1 (110533 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	50774369	50774369	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:50774369delT								ISL1 (83812 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	51079796	51079796	+	IGR	DEL	A	-	-	rs73100161	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:51079796delA								ISL1 (389239 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	51397739	51397739	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:51397739delT								ISL1 (707182 upstream) : ITGA1 (686035 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	51613376	51613376	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:51613376delT								ISL1 (922819 upstream) : ITGA1 (470398 downstream)																																			---	---	---	---
ITGA1	3672	broad.mit.edu	37	5	52145084	52145084	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:52145084delT	uc003jou.2	+						ITGA1_uc003jov.2_Intron	NM_181501	NP_852478			integrin, alpha 1 precursor						axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)																---	---	---	---
Unknown	0	broad.mit.edu	37	5	52270266	52270267	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:52270266_52270267insT								ITGA1 (20782 upstream) : ITGA2 (14889 downstream)																																			---	---	---	---
ITGA2	3673	broad.mit.edu	37	5	52323911	52323911	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:52323911delA	uc003joy.2	+						ITGA2_uc011cqa.1_Intron|ITGA2_uc011cqb.1_Intron|ITGA2_uc011cqc.1_Intron|ITGA2_uc011cqd.1_Intron|ITGA2_uc011cqe.1_Intron	NM_002203	NP_002194			integrin alpha 2 precursor						axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)																---	---	---	---
ITGA2	3673	broad.mit.edu	37	5	52359052	52359053	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:52359052_52359053delCA	uc003joy.2	+						ITGA2_uc011cqa.1_Intron|ITGA2_uc011cqb.1_Intron|ITGA2_uc011cqc.1_Intron|ITGA2_uc011cqd.1_Intron|ITGA2_uc011cqe.1_Intron	NM_002203	NP_002194			integrin alpha 2 precursor						axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)																---	---	---	---
Unknown	0	broad.mit.edu	37	5	52543064	52543064	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:52543064delT								MOCS2 (137466 upstream) : FST (233531 downstream)																																			---	---	---	---
ARL15	54622	broad.mit.edu	37	5	53186155	53186155	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:53186155delA	uc003jpg.1	-						ARL15_uc010ivs.1_Intron	NM_019087	NP_061960			ADP-ribosylation factor-like 15								GTP binding			ovary(1)	1		Lung NSC(810;0.000779)																---	---	---	---
ARL15	54622	broad.mit.edu	37	5	53573582	53573582	+	Intron	DEL	A	-	-	rs76418040		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:53573582delA	uc003jpg.1	-						ARL15_uc010ivs.1_Intron	NM_019087	NP_061960			ADP-ribosylation factor-like 15								GTP binding			ovary(1)	1		Lung NSC(810;0.000779)																---	---	---	---
ARL15	54622	broad.mit.edu	37	5	53594741	53594741	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:53594741delT	uc003jpg.1	-						ARL15_uc010ivs.1_Intron	NM_019087	NP_061960			ADP-ribosylation factor-like 15								GTP binding			ovary(1)	1		Lung NSC(810;0.000779)																---	---	---	---
Unknown	0	broad.mit.edu	37	5	53700976	53700976	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:53700976delT								ARL15 (94573 upstream) : HSPB3 (50469 downstream)																																			---	---	---	---
SNX18	112574	broad.mit.edu	37	5	53830414	53830414	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:53830414delC	uc003jpi.3	+						SNX18_uc011cqg.1_Intron	NM_001102575	NP_001096045			sorting nexin 18 isoform a						cell communication|endocytosis|positive regulation of GTPase activity|protein transport	endomembrane system|endosome membrane|extrinsic to internal side of plasma membrane	phosphatidylinositol binding|protein binding				0		Lung NSC(810;3.46e-05)|Breast(144;0.102)																---	---	---	---
Unknown	0	broad.mit.edu	37	5	53985716	53985717	+	IGR	DEL	TT	-	-	rs113211602		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:53985716_53985717delTT								SNX18 (143301 upstream) : ESM1 (287979 downstream)																																			---	---	---	---
GZMA	3001	broad.mit.edu	37	5	54399833	54399833	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:54399833delA	uc003jpm.2	+							NM_006144	NP_006135			granzyme A precursor						cleavage of lamin|cytolysis|immune response|negative regulation of DNA binding|negative regulation of endodeoxyribonuclease activity|negative regulation of oxidoreductase activity|positive regulation of apoptosis	extracellular region|immunological synapse|nucleus	protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)																---	---	---	---
CDC20B	166979	broad.mit.edu	37	5	54416051	54416051	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:54416051delA	uc003jpo.1	-						CDC20B_uc003jpn.1_Intron|CDC20B_uc010ivu.1_Intron	NM_152623	NP_689836			CDC20 cell division cycle 20 homolog B isoform												0		Lung NSC(810;0.000744)|Breast(144;0.159)|Prostate(74;0.194)	LUSC - Lung squamous cell carcinoma(15;0.225)															---	---	---	---
DHX29	54505	broad.mit.edu	37	5	54592295	54592295	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:54592295delT	uc003jpx.2	-						DHX29_uc010ivw.2_Intron	NM_019030	NP_061903			DEAH (Asp-Glu-Ala-His) box polypeptide 29								ATP binding|ATP-dependent helicase activity|translation initiation factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0544)|Prostate(74;0.183)																---	---	---	---
SLC38A9	153129	broad.mit.edu	37	5	54950678	54950678	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:54950678delT	uc003jqf.2	-						SLC38A9_uc003jqd.2_Intron|SLC38A9_uc010ivx.2_Intron|SLC38A9_uc003jqe.2_Intron|SLC38A9_uc010ivy.2_Intron	NM_173514	NP_775785			solute carrier family 38, member 9						amino acid transport|sodium ion transport	integral to membrane					0		Lung NSC(810;0.00122)|Prostate(74;0.0376)|Breast(144;0.181)																---	---	---	---
IL31RA	133396	broad.mit.edu	37	5	55147283	55147283	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:55147283delA	uc003jql.2	+						IL31RA_uc003jqk.2_5'Flank|IL31RA_uc011cqj.1_5'Flank|IL31RA_uc003jqm.2_5'Flank|IL31RA_uc003jqn.2_5'Flank|IL31RA_uc010iwa.1_5'Flank|IL31RA_uc003jqo.2_5'Flank	NM_139017	NP_620586			gp130-like monocyte receptor						anti-apoptosis|defense response|homeostatic process|JAK-STAT cascade|macrophage differentiation|MAPKKK cascade|monocyte differentiation|negative regulation of macrophage activation|positive regulation of cell proliferation|positive regulation of transcription, DNA-dependent|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|transmembrane receptor protein tyrosine kinase signaling pathway	integral to membrane|plasma membrane	cytokine receptor activity|protein kinase binding|transcription coactivator activity			ovary(1)	1		Lung NSC(810;6.93e-05)|Prostate(74;0.00741)|Breast(144;0.0544)|Ovarian(174;0.223)																---	---	---	---
IL31RA	133396	broad.mit.edu	37	5	55178713	55178713	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:55178713delG	uc003jql.2	+						IL31RA_uc003jqk.2_Intron|IL31RA_uc011cqj.1_Intron|IL31RA_uc003jqm.2_Intron|IL31RA_uc003jqn.2_Intron|IL31RA_uc010iwa.1_Intron|IL31RA_uc003jqo.2_Intron	NM_139017	NP_620586			gp130-like monocyte receptor						anti-apoptosis|defense response|homeostatic process|JAK-STAT cascade|macrophage differentiation|MAPKKK cascade|monocyte differentiation|negative regulation of macrophage activation|positive regulation of cell proliferation|positive regulation of transcription, DNA-dependent|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|transmembrane receptor protein tyrosine kinase signaling pathway	integral to membrane|plasma membrane	cytokine receptor activity|protein kinase binding|transcription coactivator activity			ovary(1)	1		Lung NSC(810;6.93e-05)|Prostate(74;0.00741)|Breast(144;0.0544)|Ovarian(174;0.223)																---	---	---	---
IL6ST	3572	broad.mit.edu	37	5	55240462	55240462	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:55240462delT	uc003jqq.2	-						IL6ST_uc010iwb.2_Intron|IL6ST_uc010iwc.2_Intron|IL6ST_uc010iwd.2_Intron|IL6ST_uc011cqk.1_Intron|IL6ST_uc003jqr.2_Intron	NM_002184	NP_002175			interleukin 6 signal transducer isoform 1						interleukin-6-mediated signaling pathway|leukemia inhibitory factor signaling pathway|negative regulation of interleukin-6-mediated signaling pathway|positive regulation of anti-apoptosis|positive regulation of cardiac muscle hypertrophy|positive regulation of osteoblast differentiation|positive regulation of T cell proliferation|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation vascular endothelial growth factor production	ciliary neurotrophic factor receptor complex|extracellular region|extracellular space|interleukin-6 receptor complex|oncostatin-M receptor complex	ciliary neurotrophic factor receptor activity|ciliary neurotrophic factor receptor binding|growth factor binding|protein homodimerization activity			large_intestine(1)|ovary(1)	2		Lung NSC(810;8.69e-05)|Prostate(74;0.00308)|Breast(144;0.0544)|Ovarian(174;0.223)						O		hepatocellular ca								---	---	---	---
IL6ST	3572	broad.mit.edu	37	5	55253028	55253029	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:55253028_55253029insT	uc003jqq.2	-						IL6ST_uc010iwb.2_Intron|IL6ST_uc010iwc.2_Intron|IL6ST_uc010iwd.2_Intron|IL6ST_uc011cqk.1_Intron|IL6ST_uc003jqr.2_Intron	NM_002184	NP_002175			interleukin 6 signal transducer isoform 1						interleukin-6-mediated signaling pathway|leukemia inhibitory factor signaling pathway|negative regulation of interleukin-6-mediated signaling pathway|positive regulation of anti-apoptosis|positive regulation of cardiac muscle hypertrophy|positive regulation of osteoblast differentiation|positive regulation of T cell proliferation|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation vascular endothelial growth factor production	ciliary neurotrophic factor receptor complex|extracellular region|extracellular space|interleukin-6 receptor complex|oncostatin-M receptor complex	ciliary neurotrophic factor receptor activity|ciliary neurotrophic factor receptor binding|growth factor binding|protein homodimerization activity			large_intestine(1)|ovary(1)	2		Lung NSC(810;8.69e-05)|Prostate(74;0.00308)|Breast(144;0.0544)|Ovarian(174;0.223)						O		hepatocellular ca								---	---	---	---
IL6ST	3572	broad.mit.edu	37	5	55255507	55255507	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:55255507delA	uc003jqq.2	-						IL6ST_uc010iwb.2_Intron|IL6ST_uc010iwc.2_Intron|IL6ST_uc010iwd.2_Intron|IL6ST_uc011cqk.1_Intron|IL6ST_uc003jqr.2_Intron	NM_002184	NP_002175			interleukin 6 signal transducer isoform 1						interleukin-6-mediated signaling pathway|leukemia inhibitory factor signaling pathway|negative regulation of interleukin-6-mediated signaling pathway|positive regulation of anti-apoptosis|positive regulation of cardiac muscle hypertrophy|positive regulation of osteoblast differentiation|positive regulation of T cell proliferation|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation vascular endothelial growth factor production	ciliary neurotrophic factor receptor complex|extracellular region|extracellular space|interleukin-6 receptor complex|oncostatin-M receptor complex	ciliary neurotrophic factor receptor activity|ciliary neurotrophic factor receptor binding|growth factor binding|protein homodimerization activity			large_intestine(1)|ovary(1)	2		Lung NSC(810;8.69e-05)|Prostate(74;0.00308)|Breast(144;0.0544)|Ovarian(174;0.223)						O		hepatocellular ca								---	---	---	---
Unknown	0	broad.mit.edu	37	5	55754787	55754794	+	IGR	DEL	TTCCCTCC	-	-	rs138715660		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:55754787_55754794delTTCCCTCC								ANKRD55 (225601 upstream) : MAP3K1 (356106 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	56057988	56057988	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56057988delA								ANKRD55 (528802 upstream) : MAP3K1 (52912 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	56286870	56286871	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56286870_56286871delAA								MIER3 (19369 upstream) : GPBP1 (182904 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	56413915	56413915	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56413915delA								MIER3 (146414 upstream) : GPBP1 (55860 downstream)																																			---	---	---	---
GPBP1	65056	broad.mit.edu	37	5	56484401	56484402	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56484401_56484402delAA	uc003jrh.3	+						GPBP1_uc010iwg.2_Intron|GPBP1_uc003jri.3_Intron|GPBP1_uc003jrj.3_Intron	NM_022913	NP_075064			GC-rich promoter binding protein 1 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			large_intestine(1)|central_nervous_system(1)	2		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	56621463	56621464	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56621463_56621464delGA								GPBP1 (62053 upstream) : ACTBL2 (154380 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	56878730	56878730	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56878730delA								ACTBL2 (100094 upstream) : PLK2 (871082 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	56905320	56905320	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56905320delA								ACTBL2 (126684 upstream) : PLK2 (844492 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	56917528	56917528	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56917528delA								ACTBL2 (138892 upstream) : PLK2 (832284 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	57438669	57438669	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:57438669delT								ACTBL2 (660033 upstream) : PLK2 (311143 downstream)																																			---	---	---	---
PDE4D	5144	broad.mit.edu	37	5	58287553	58287556	+	Intron	DEL	AAAC	-	-	rs3840337		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:58287553_58287556delAAAC	uc003jsa.2	-						PDE4D_uc003jrx.2_Intron|PDE4D_uc003jry.2_Intron|PDE4D_uc003jrz.2_Intron|PDE4D_uc003jsb.2_Intron|PDE4D_uc003jrt.2_Intron|PDE4D_uc003jru.2_Intron|PDE4D_uc003jrv.2_Intron|PDE4D_uc003jrw.2_Intron|PDE4D_uc003jrs.2_Intron	NM_001104631	NP_001098101			phosphodiesterase 4D isoform 1						signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)													---	---	---	---
PDE4D	5144	broad.mit.edu	37	5	58816492	58816492	+	Intron	DEL	A	-	-	rs73097395	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:58816492delA	uc003jsa.2	-						PDE4D_uc003jrx.2_Intron|PDE4D_uc003jry.2_Intron|PDE4D_uc003jrz.2_Intron|PDE4D_uc003jsb.2_Intron|PDE4D_uc003jsc.2_Intron	NM_001104631	NP_001098101			phosphodiesterase 4D isoform 1						signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)													---	---	---	---
PDE4D	5144	broad.mit.edu	37	5	58913836	58913836	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:58913836delT	uc003jsa.2	-						PDE4D_uc003jry.2_Intron|PDE4D_uc003jrz.2_Intron|PDE4D_uc003jsb.2_Intron|PDE4D_uc003jsc.2_Intron	NM_001104631	NP_001098101			phosphodiesterase 4D isoform 1						signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)													---	---	---	---
PDE4D	5144	broad.mit.edu	37	5	59217303	59217303	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:59217303delA	uc003jsb.2	-							NM_006203	NP_006194			phosphodiesterase 4D isoform 2						signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)													---	---	---	---
PDE4D	5144	broad.mit.edu	37	5	59230730	59230730	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:59230730delA	uc003jsb.2	-							NM_006203	NP_006194			phosphodiesterase 4D isoform 2						signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)													---	---	---	---
PDE4D	5144	broad.mit.edu	37	5	59380325	59380325	+	Intron	DEL	A	-	-	rs111964867		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:59380325delA	uc003jsb.2	-						PDE4D_uc010iwj.1_Intron|PDE4D_uc003jse.1_Intron	NM_006203	NP_006194			phosphodiesterase 4D isoform 2						signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)													---	---	---	---
PDE4D	5144	broad.mit.edu	37	5	59542861	59542861	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:59542861delT	uc003jsb.2	-						PDE4D_uc010iwj.1_Intron|PDE4D_uc003jse.1_Intron	NM_006203	NP_006194			phosphodiesterase 4D isoform 2						signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)													---	---	---	---
PDE4D	5144	broad.mit.edu	37	5	59724232	59724232	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:59724232delA	uc003jsb.2	-						PDE4D_uc010iwj.1_Intron	NM_006203	NP_006194			phosphodiesterase 4D isoform 2						signal transduction	cytosol|insoluble fraction|membrane|microtubule organizing center|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(5;6.5e-58)|all_epithelial(5;1.75e-57)|all_lung(5;6.84e-18)|Lung NSC(5;1.29e-17)|Melanoma(5;0.00168)|Prostate(74;0.00234)|Colorectal(97;0.00629)|Ovarian(174;0.00832)|Breast(144;0.00996)|all_hematologic(6;0.0344)|Hepatocellular(6;0.0742)|Esophageal squamous(6;0.0954)		Epithelial(2;2.6e-55)|all cancers(2;2.66e-49)|OV - Ovarian serous cystadenocarcinoma(10;1.48e-39)|Colorectal(2;8.29e-08)|Lung(2;4.47e-07)|STAD - Stomach adenocarcinoma(2;1.11e-05)|COAD - Colon adenocarcinoma(2;0.00012)|LUSC - Lung squamous cell carcinoma(2;0.000775)|LUAD - Lung adenocarcinoma(3;0.0173)|READ - Rectum adenocarcinoma(2;0.0276)	Adenosine monophosphate(DB00131)|Dyphylline(DB00651)													---	---	---	---
NDUFAF2	91942	broad.mit.edu	37	5	60376866	60376866	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:60376866delT	uc003jsp.3	+						NDUFAF2_uc003jso.3_Intron	NM_174889	NP_777549			NADH dehydrogenase (ubiquinone) 1 alpha							membrane|mitochondrion	electron carrier activity|NADH dehydrogenase (ubiquinone) activity				0		Lung NSC(810;3.36e-05)|Prostate(74;0.0225)|Ovarian(174;0.17)|Breast(144;0.237)																---	---	---	---
Unknown	0	broad.mit.edu	37	5	61143275	61143275	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:61143275delA								FLJ37543 (140913 upstream) : KIF2A (458714 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	61571598	61571605	+	IGR	DEL	GATAGATA	-	-	rs71930782		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:61571598_61571605delGATAGATA								FLJ37543 (569236 upstream) : KIF2A (30384 downstream)																																			---	---	---	---
IPO11	51194	broad.mit.edu	37	5	61758079	61758079	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:61758079delT	uc003jtc.2	+						IPO11_uc011cqr.1_Intron|IPO11_uc003jtb.1_Intron	NM_016338	NP_057422			Ran binding protein 11 isoform 2							cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	62214001	62214001	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:62214001delT								ISCA1P1 (140831 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	62938520	62938521	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:62938520_62938521insT								ISCA1P1 (865350 upstream) : HTR1A (317758 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	63079864	63079864	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:63079864delA								None (None upstream) : HTR1A (176415 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	63163356	63163356	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:63163356delT								None (None upstream) : HTR1A (92923 downstream)																																			---	---	---	---
SFRS12IP1	285672	broad.mit.edu	37	5	64014624	64014624	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:64014624delA	uc003jtk.2	-	5						NM_173829	NP_776190			P18SRP protein						mRNA processing|RNA splicing		nucleic acid binding|zinc ion binding				0		Lung NSC(167;1.66e-05)|Prostate(74;0.0138)|Ovarian(174;0.0545)|Colorectal(97;0.234)		Lung(70;0.119)														---	---	---	---
CWC27	10283	broad.mit.edu	37	5	64097117	64097117	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:64097117delT	uc003jtn.1	+						CWC27_uc003jtl.2_Intron|CWC27_uc003jtm.2_Intron|CWC27_uc010iwt.1_Intron	NM_005869	NP_005860			serologically defined colon cancer antigen 10						protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity				0																		---	---	---	---
ADAMTS6	11174	broad.mit.edu	37	5	64748126	64748126	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:64748126delT	uc003jtp.2	-						ADAMTS6_uc003jto.2_Intron|ADAMTS6_uc003jtq.2_Intron|ADAMTS6_uc003jtr.1_Intron	NM_197941	NP_922932			ADAM metallopeptidase with thrombospondin type 1						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)														---	---	---	---
TRIM23	373	broad.mit.edu	37	5	64886194	64886194	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:64886194delT	uc003jty.2	-	11					TRIM23_uc003jtw.2_Intron|TRIM23_uc003jtx.2_Intron	NM_001656	NP_001647			ADP-ribosylation factor domain protein 1 isoform						interspecies interaction between organisms|small GTPase mediated signal transduction	Golgi membrane|lysosomal membrane	enzyme activator activity|GDP binding|GTP binding|GTPase activity|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Lung NSC(167;3.24e-06)|Prostate(74;0.0138)|Breast(144;0.0433)|Ovarian(174;0.0545)|Colorectal(97;0.234)		Lung(70;0.00473)														---	---	---	---
C5orf44	80006	broad.mit.edu	37	5	64927742	64927743	+	Intron	DEL	AA	-	-	rs66758874		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:64927742_64927743delAA	uc003jtz.3	+						C5orf44_uc003jua.3_Intron|C5orf44_uc003juc.3_Intron|C5orf44_uc010iwv.2_Intron	NM_024941	NP_079217			hypothetical protein LOC80006 isoform 2											ovary(1)	1																		---	---	---	---
C5orf44	80006	broad.mit.edu	37	5	64954408	64954408	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:64954408delT	uc003jtz.3	+						C5orf44_uc003jua.3_Intron|C5orf44_uc003juc.3_Intron|C5orf44_uc010iwv.2_Intron	NM_024941	NP_079217			hypothetical protein LOC80006 isoform 2											ovary(1)	1																		---	---	---	---
SGTB	54557	broad.mit.edu	37	5	64980389	64980389	+	Intron	DEL	T	-	-	rs79080836		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:64980389delT	uc003jud.2	-							NM_019072	NP_061945			small glutamine-rich tetratricopeptide repeat								binding				0		Lung NSC(167;3.24e-06)|Prostate(74;0.0138)|Ovarian(174;0.0545)|Breast(144;0.174)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0657)|Lung(70;0.00487)														---	---	---	---
NLN	57486	broad.mit.edu	37	5	65081433	65081434	+	Intron	DEL	AA	-	-	rs111882029		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:65081433_65081434delAA	uc003juf.2	+						NLN_uc003jue.2_Intron|NLN_uc003jug.2_Intron|NLN_uc010iww.2_5'Flank	NM_020726	NP_065777			neurolysin precursor						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)														---	---	---	---
ERBB2IP	55914	broad.mit.edu	37	5	65279617	65279617	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:65279617delC	uc003juk.1	+						ERBB2IP_uc003juh.1_Intron|ERBB2IP_uc003jui.1_Intron|ERBB2IP_uc003juj.1_Intron|ERBB2IP_uc011cqx.1_Intron|ERBB2IP_uc011cqy.1_Intron|ERBB2IP_uc011cqz.1_Intron	NM_018695	NP_061165			ERBB2 interacting protein isoform 2						basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	65436427	65436427	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:65436427delT								ERBB2IP (59577 upstream) : SFRS12 (3658 downstream)																																			---	---	---	---
MAST4	375449	broad.mit.edu	37	5	65947009	65947009	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:65947009delT	uc003jur.3	+						MAST4_uc010iwz.2_Intron	NM_198828	NP_942123			microtubule associated serine/threonine kinase							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)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	67273922	67273922	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:67273922delT								CD180 (781305 upstream) : PIK3R1 (237682 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	67374116	67374116	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:67374116delT								CD180 (881499 upstream) : PIK3R1 (137488 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	67407690	67407690	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:67407690delT								CD180 (915073 upstream) : PIK3R1 (103914 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	67951279	67951279	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:67951279delT								PIK3R1 (353632 upstream) : SLC30A5 (438539 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	68088586	68088587	+	IGR	INS	-	CTC	CTC	rs139204401	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68088586_68088587insCTC								PIK3R1 (490939 upstream) : SLC30A5 (301231 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	68111666	68111667	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68111666_68111667insT								PIK3R1 (514019 upstream) : SLC30A5 (278151 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	68141916	68141916	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68141916delT								PIK3R1 (544269 upstream) : SLC30A5 (247902 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	68155477	68155478	+	IGR	DEL	AA	-	-	rs66839471		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68155477_68155478delAA								PIK3R1 (557830 upstream) : SLC30A5 (234340 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	68445242	68445243	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68445242_68445243delTC								SLC30A5 (19363 upstream) : CCNB1 (17670 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	68448358	68448358	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68448358delT								SLC30A5 (22479 upstream) : CCNB1 (14555 downstream)																																			---	---	---	---
CENPH	64946	broad.mit.edu	37	5	68487725	68487725	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68487725delT	uc003jvp.2	+						uc003jvn.1_5'Flank|uc003jvo.3_5'Flank|CENPH_uc010ixc.2_Intron	NM_022909	NP_075060			centromere protein H						cell division|CenH3-containing nucleosome assembly at centromere|chromosome segregation|kinetochore organization|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm	kinetochore binding|protein binding			large_intestine(1)	1		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.41e-56)|Epithelial(20;1.29e-52)|all cancers(19;3.15e-48)|Lung(70;0.0178)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	68645732	68645732	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68645732delA								CCDC125 (17112 upstream) : TAF9 (1823 downstream)																																			---	---	---	---
RAD17	5884	broad.mit.edu	37	5	68689884	68689887	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68689884_68689887delTTTT	uc003jwo.2	+						RAD17_uc003jwg.2_Intron|RAD17_uc003jwh.2_Intron|RAD17_uc003jwi.2_Intron|RAD17_uc003jwj.2_Intron|RAD17_uc003jwk.2_Intron|RAD17_uc003jwl.2_Intron|RAD17_uc003jwm.2_Intron|RAD17_uc003jwn.2_Intron|RAD17_uc003jwp.2_Intron	NM_133339	NP_579917			RAD17 homolog isoform 2						cell cycle|DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint|mitotic cell cycle checkpoint|negative regulation of DNA replication|regulation of phosphorylation	nucleoplasm	ATP binding|nucleoside-triphosphatase activity|protein binding				0		Lung NSC(167;5.19e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;9.36e-57)|Epithelial(20;1.21e-52)|all cancers(19;3.34e-48)|Lung(70;0.0183)									Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					---	---	---	---
GUSBP3	653188	broad.mit.edu	37	5	69094980	69094981	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:69094980_69094981delTT	uc003jxm.2	-											Homo sapiens cDNA FLJ36702 fis, clone UTERU2009206.												0																		---	---	---	---
SMN2	6607	broad.mit.edu	37	5	69365976	69365979	+	Intron	DEL	TGTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:69365976_69365979delTGTG	uc003jyd.2	+						GUSBP3_uc003jxm.2_Intron|uc003jxp.3_Intron|uc011crh.1_Intron|uc011crl.1_Intron|SMN2_uc011crm.1_Intron|SMN2_uc003jye.2_Intron|SMN2_uc003jyf.2_Intron|SMN2_uc003jyg.2_Intron|SMN2_uc003jyi.1_5'Flank	NM_017411	NP_059107			survival of motor neuron 2, centromeric isoform						cell death|ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	Cajal body|cytosol|spliceosomal complex	protein binding|protein binding|RNA binding				0		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)														---	---	---	---
NAIP	4671	broad.mit.edu	37	5	70398661	70398661	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:70398661delT	uc003kat.1	-							NM_022892	NP_075043			NLR family, apoptosis inhibitory protein isoform						anti-apoptosis|apoptosis|nervous system development	basolateral plasma membrane|cytoplasm	caspase inhibitor activity|metal ion binding|nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(1)	1		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	71176311	71176311	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71176311delT								CARTPT (159439 upstream) : MAP1B (226807 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	71341790	71341791	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71341790_71341791insT								CARTPT (324918 upstream) : MAP1B (61327 downstream)																																			---	---	---	---
PTCD2	79810	broad.mit.edu	37	5	71617441	71617441	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71617441delC	uc003kcb.2	+						MRPS27_uc003kca.3_5'Flank|MRPS27_uc003kbz.3_5'Flank|MRPS27_uc011cse.1_5'Flank|MRPS27_uc010iza.2_5'Flank|PTCD2_uc011csf.1_Intron|PTCD2_uc003kcc.2_Intron|PTCD2_uc011csg.1_Intron|PTCD2_uc011csh.1_Intron|PTCD2_uc003kcd.2_Intron	NM_024754	NP_079030			pentatricopeptide repeat domain 2												0		Lung NSC(167;0.00237)|Ovarian(174;0.0175)|Prostate(461;0.141)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.73e-53)														---	---	---	---
PTCD2	79810	broad.mit.edu	37	5	71619361	71619361	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71619361delT	uc003kcb.2	+						PTCD2_uc011csf.1_Intron|PTCD2_uc003kcc.2_Intron|PTCD2_uc011csg.1_Intron|PTCD2_uc011csh.1_Intron|PTCD2_uc003kcd.2_Intron	NM_024754	NP_079030			pentatricopeptide repeat domain 2												0		Lung NSC(167;0.00237)|Ovarian(174;0.0175)|Prostate(461;0.141)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.73e-53)														---	---	---	---
ZNF366	167465	broad.mit.edu	37	5	71768180	71768180	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71768180delT	uc003kce.1	-							NM_152625	NP_689838			zinc finger protein 366						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)														---	---	---	---
ZNF366	167465	broad.mit.edu	37	5	71799358	71799359	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71799358_71799359delAC	uc003kce.1	-							NM_152625	NP_689838			zinc finger protein 366						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	71840643	71840643	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71840643delT								ZNF366 (37394 upstream) : TNPO1 (271775 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	71925348	71925348	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71925348delT								ZNF366 (122099 upstream) : TNPO1 (187070 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	72054295	72054296	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:72054295_72054296delAA								ZNF366 (251046 upstream) : TNPO1 (58122 downstream)																																			---	---	---	---
TNPO1	3842	broad.mit.edu	37	5	72161265	72161265	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:72161265delA	uc003kck.3	+						TNPO1_uc011csi.1_Intron|TNPO1_uc011csj.1_Intron|TNPO1_uc003kch.2_Intron|TNPO1_uc003kci.3_Intron|TNPO1_uc003kcg.3_Intron	NM_002270	NP_002261			transportin 1 isoform 1						interspecies interaction between organisms|mRNA metabolic process|protein import into nucleus, translocation	cytosol|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			skin(3)|urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)	7		Lung NSC(167;0.0053)|Ovarian(174;0.0175)		OV - Ovarian serous cystadenocarcinoma(47;6.14e-54)														---	---	---	---
FCHO2	115548	broad.mit.edu	37	5	72257427	72257429	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:72257427_72257429delTTT	uc003kcl.2	+						FCHO2_uc011csl.1_Intron|FCHO2_uc011csk.1_Intron	NM_138782	NP_620137			FCH domain only 2 isoform a											ovary(1)	1		Lung NSC(167;0.0465)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;4.6e-53)														---	---	---	---
FCHO2	115548	broad.mit.edu	37	5	72367147	72367147	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:72367147delA	uc003kcl.2	+						FCHO2_uc011csl.1_Intron|FCHO2_uc010izb.2_Intron|FCHO2_uc011csn.1_Intron	NM_138782	NP_620137			FCH domain only 2 isoform a											ovary(1)	1		Lung NSC(167;0.0465)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;4.6e-53)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	72680317	72680317	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:72680317delA								TMEM174 (209349 upstream) : FOXD1 (61770 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	72712452	72712452	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:72712452delT								TMEM174 (241484 upstream) : FOXD1 (29635 downstream)																																			---	---	---	---
RGNEF	64283	broad.mit.edu	37	5	73002275	73002275	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73002275delA	uc011csq.1	+						RGNEF_uc003kcx.2_Intron|RGNEF_uc003kcy.1_Intron|RGNEF_uc010izf.2_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)														---	---	---	---
RGNEF	64283	broad.mit.edu	37	5	73043513	73043513	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73043513delT	uc011csq.1	+						RGNEF_uc003kcx.2_Intron|RGNEF_uc003kcy.1_Intron|RGNEF_uc010izf.2_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)														---	---	---	---
RGNEF	64283	broad.mit.edu	37	5	73087609	73087610	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73087609_73087610insA	uc011csq.1	+						RGNEF_uc003kcx.2_Intron|RGNEF_uc003kcy.1_Intron|RGNEF_uc010izf.2_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)														---	---	---	---
RGNEF	64283	broad.mit.edu	37	5	73088468	73088468	+	Intron	DEL	T	-	-	rs68131060		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73088468delT	uc011csq.1	+						RGNEF_uc003kcx.2_Intron|RGNEF_uc003kcy.1_Intron|RGNEF_uc010izf.2_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)														---	---	---	---
RGNEF	64283	broad.mit.edu	37	5	73101023	73101023	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73101023delT	uc011csq.1	+						RGNEF_uc003kcx.2_Intron|RGNEF_uc003kcy.1_Intron|RGNEF_uc010izf.2_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)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	73321989	73321990	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73321989_73321990delAA								RGNEF (84576 upstream) : ENC1 (601245 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	73496267	73496267	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73496267delA								RGNEF (258854 upstream) : ENC1 (426968 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	73716850	73716851	+	IGR	DEL	AA	-	-	rs113651546		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73716850_73716851delAA								RGNEF (479437 upstream) : ENC1 (206384 downstream)																																			---	---	---	---
HEXB	3074	broad.mit.edu	37	5	73986313	73986313	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73986313delA	uc003kdf.3	+						HEXB_uc003kdd.2_Intron|HEXB_uc003kde.2_Intron|HEXB_uc010izh.2_Intron	NM_000521	NP_000512			hexosaminidase B preproprotein						cell death	lysosome	cation binding|protein heterodimerization activity|protein homodimerization activity			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Breast(144;0.231)		OV - Ovarian serous cystadenocarcinoma(47;1.72e-57)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	74665339	74665339	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:74665339delA								HMGCR (7415 upstream) : COL4A3BP (1590 downstream)																																			---	---	---	---
COL4A3BP	10087	broad.mit.edu	37	5	74742459	74742459	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:74742459delT	uc011csu.1	-						COL4A3BP_uc003kds.2_Intron|COL4A3BP_uc003kdt.2_Intron|COL4A3BP_uc003kdu.2_Intron	NM_005713	NP_005704			alpha 3 type IV collagen binding protein isoform						ER to Golgi ceramide transport|immune response	cytosol|endoplasmic reticulum membrane|Golgi apparatus	ceramide binding|phosphatidylinositol-4-phosphate binding|protein binding|protein kinase activity			skin(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;1e-53)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	75258859	75258859	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:75258859delA								POC5 (245546 upstream) : SV2C (120446 downstream)																																			---	---	---	---
IQGAP2	10788	broad.mit.edu	37	5	75994894	75994894	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:75994894delA	uc003kek.2	+						IQGAP2_uc011csv.1_Intron|IQGAP2_uc003kel.2_Intron	NM_006633	NP_006624			IQ motif containing GTPase activating protein 2						small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)														---	---	---	---
PDE8B	8622	broad.mit.edu	37	5	76609122	76609123	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:76609122_76609123delAA	uc003kfa.2	+						PDE8B_uc003kfb.2_Intron|PDE8B_uc003kfc.2_Intron|PDE8B_uc003kfd.2_Intron|PDE8B_uc003kfe.2_Intron	NM_003719	NP_003710			phosphodiesterase 8B isoform 1						cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity				0		all_lung(232;0.00043)|Lung NSC(167;0.00114)|Ovarian(174;0.0107)|Prostate(461;0.0605)		OV - Ovarian serous cystadenocarcinoma(54;2.21e-49)|Epithelial(54;5.82e-43)|all cancers(79;4.06e-38)														---	---	---	---
WDR41	55255	broad.mit.edu	37	5	76740803	76740803	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:76740803delA	uc003kff.1	-						WDR41_uc011csy.1_Intron|WDR41_uc011csz.1_Intron|WDR41_uc011cta.1_Intron|WDR41_uc011ctb.1_Intron	NM_018268	NP_060738			WD repeat domain 41												0		all_lung(232;0.000961)|Lung NSC(167;0.0011)|Ovarian(174;0.0105)|Prostate(461;0.059)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-50)|Epithelial(54;2.04e-44)|all cancers(79;6.84e-40)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	76842129	76842129	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:76842129delA								WDR41 (53797 upstream) : OTP (82409 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	76897970	76897971	+	IGR	DEL	TT	-	-	rs77720862		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:76897970_76897971delTT								WDR41 (109638 upstream) : OTP (26567 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	77094299	77094299	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:77094299delA								TBCA (22114 upstream) : AP3B1 (203852 downstream)																																			---	---	---	---
LHFPL2	10184	broad.mit.edu	37	5	77874409	77874412	+	Intron	DEL	CACA	-	-	rs113306386		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:77874409_77874412delCACA	uc003kfo.2	-							NM_005779	NP_005770			lipoma HMGIC fusion partner-like 2							integral to membrane					0		all_lung(232;0.000409)|Lung NSC(167;0.00108)|Ovarian(174;0.0107)|Prostate(461;0.218)		OV - Ovarian serous cystadenocarcinoma(54;6.48e-46)|Epithelial(54;8.43e-42)|all cancers(79;1.42e-36)														---	---	---	---
LHFPL2	10184	broad.mit.edu	37	5	77911166	77911166	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:77911166delA	uc003kfo.2	-							NM_005779	NP_005770			lipoma HMGIC fusion partner-like 2							integral to membrane					0		all_lung(232;0.000409)|Lung NSC(167;0.00108)|Ovarian(174;0.0107)|Prostate(461;0.218)		OV - Ovarian serous cystadenocarcinoma(54;6.48e-46)|Epithelial(54;8.43e-42)|all cancers(79;1.42e-36)														---	---	---	---
LHFPL2	10184	broad.mit.edu	37	5	77943653	77943653	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:77943653delA	uc003kfo.2	-							NM_005779	NP_005770			lipoma HMGIC fusion partner-like 2							integral to membrane					0		all_lung(232;0.000409)|Lung NSC(167;0.00108)|Ovarian(174;0.0107)|Prostate(461;0.218)		OV - Ovarian serous cystadenocarcinoma(54;6.48e-46)|Epithelial(54;8.43e-42)|all cancers(79;1.42e-36)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	78659172	78659172	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:78659172delA								JMY (36136 upstream) : HOMER1 (10615 downstream)																																			---	---	---	---
HOMER1	9456	broad.mit.edu	37	5	78794659	78794661	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:78794659_78794661delTTT	uc003kfy.2	-						HOMER1_uc010jab.2_Intron|HOMER1_uc010jac.2_Intron|HOMER1_uc010jad.2_Intron	NM_004272	NP_004263			homer 1						activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic density|postsynaptic membrane					0		Lung NSC(167;0.00131)|all_lung(232;0.00151)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.87e-44)|Epithelial(54;7.07e-41)|all cancers(79;5.5e-36)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	78822859	78822862	+	IGR	DEL	AACA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:78822859_78822862delAACA								HOMER1 (13159 upstream) : PAPD4 (85381 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	78844166	78844167	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:78844166_78844167delAA								HOMER1 (34466 upstream) : PAPD4 (64076 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	79583197	79583198	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79583197_79583198delAA								SERINC5 (31327 upstream) : LOC644936 (11721 downstream)																																			---	---	---	---
RASGRF2	5924	broad.mit.edu	37	5	80393607	80393607	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:80393607delA	uc003kha.1	+						RASGRF2_uc011ctn.1_Intron	NM_006909	NP_008840			Ras protein-specific guanine						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)														---	---	---	---
RASGRF2	5924	broad.mit.edu	37	5	80474564	80474564	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:80474564delT	uc003kha.1	+						RASGRF2_uc011ctn.1_Intron	NM_006909	NP_008840			Ras protein-specific guanine						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)														---	---	---	---
RNU5E	26829	broad.mit.edu	37	5	80589068	80589069	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:80589068_80589069delAG	uc011cto.1	+						uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NR_002754				Homo sapiens RNA, U5E small nuclear (RNU5E), non-coding RNA.												0																		---	---	---	---
RNU5E	26829	broad.mit.edu	37	5	80589953	80589953	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:80589953delA	uc011cto.1	+						uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NR_002754				Homo sapiens RNA, U5E small nuclear (RNU5E), non-coding RNA.												0																		---	---	---	---
SSBP2	23635	broad.mit.edu	37	5	80744776	80744776	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:80744776delT	uc003kho.2	-						RNU5E_uc011cto.1_Intron|SSBP2_uc010jar.2_Intron|SSBP2_uc003khn.2_Intron|SSBP2_uc003khp.2_Intron|SSBP2_uc011ctp.1_Intron|SSBP2_uc011ctq.1_Intron|SSBP2_uc011ctr.1_Intron	NM_012446	NP_036578			single-stranded DNA binding protein 2						regulation of transcription, DNA-dependent	cytoplasm|nucleus	single-stranded DNA binding		SSBP2/JAK2(4)	haematopoietic_and_lymphoid_tissue(4)|skin(1)	5		Lung NSC(167;0.00154)|all_lung(232;0.00179)|Ovarian(174;0.0338)		OV - Ovarian serous cystadenocarcinoma(54;1.07e-41)|Epithelial(54;2.79e-35)|all cancers(79;1.18e-29)														---	---	---	---
SSBP2	23635	broad.mit.edu	37	5	80838075	80838076	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:80838075_80838076insA	uc003kho.2	-						SSBP2_uc003khn.2_Intron|SSBP2_uc003khp.2_Intron|SSBP2_uc011ctp.1_Intron|SSBP2_uc011ctq.1_Intron|SSBP2_uc011ctr.1_Intron	NM_012446	NP_036578			single-stranded DNA binding protein 2						regulation of transcription, DNA-dependent	cytoplasm|nucleus	single-stranded DNA binding		SSBP2/JAK2(4)	haematopoietic_and_lymphoid_tissue(4)|skin(1)	5		Lung NSC(167;0.00154)|all_lung(232;0.00179)|Ovarian(174;0.0338)		OV - Ovarian serous cystadenocarcinoma(54;1.07e-41)|Epithelial(54;2.79e-35)|all cancers(79;1.18e-29)														---	---	---	---
ATG10	83734	broad.mit.edu	37	5	81284560	81284560	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:81284560delT	uc003khs.2	+						ATG10_uc003khq.2_Intron|ATG10_uc003khr.2_Intron|ATG10_uc010jas.2_Intron	NM_001131028	NP_001124500			APG10 autophagy 10-like						autophagy in response to ER overload|positive regulation of protein modification process|protein lipidation|protein modification by small protein conjugation|protein transport	cytoplasm	Atg12 ligase activity|protein binding				0		Lung NSC(167;0.0258)|all_lung(232;0.0294)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;9.94e-41)|Epithelial(54;6.3e-36)|all cancers(79;2.31e-30)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	81562586	81562587	+	IGR	DEL	GA	-	-	rs146568437		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:81562586_81562587delGA								ATG10 (11375 upstream) : RPS23 (6554 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	81614226	81614226	+	IGR	DEL	A	-	-	rs71756795		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:81614226delA								ATP6AP1L (80 upstream) : TMEM167A (734441 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	82066595	82066596	+	IGR	INS	-	G	G	rs142227523	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:82066595_82066596insG								ATP6AP1L (452449 upstream) : TMEM167A (282071 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	82127943	82127943	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:82127943delA								ATP6AP1L (513797 upstream) : TMEM167A (220724 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	82742344	82742344	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:82742344delA								XRCC4 (92767 upstream) : VCAN (25149 downstream)																																			---	---	---	---
HAPLN1	1404	broad.mit.edu	37	5	82997747	82997748	+	Intron	DEL	AC	-	-	rs112813015		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:82997747_82997748delAC	uc003kin.2	-							NM_001884	NP_001875			hyaluronan and proteoglycan link protein 1						cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			large_intestine(3)|ovary(1)|skin(1)	5		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)														---	---	---	---
HAPLN1	1404	broad.mit.edu	37	5	83000094	83000094	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:83000094delA	uc003kin.2	-							NM_001884	NP_001875			hyaluronan and proteoglycan link protein 1						cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			large_intestine(3)|ovary(1)|skin(1)	5		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)														---	---	---	---
EDIL3	10085	broad.mit.edu	37	5	83317587	83317587	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:83317587delA	uc003kio.1	-						EDIL3_uc003kip.1_Intron	NM_005711	NP_005702			EGF-like repeats and discoidin I-like						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	84159178	84159178	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:84159178delC								EDIL3 (478567 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	84172084	84172085	+	IGR	INS	-	G	G	rs1909818	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:84172084_84172085insG								EDIL3 (491473 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	84917872	84917872	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:84917872delA								None (None upstream) : NBPF22P (660390 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	86030106	86030106	+	IGR	DEL	T	-	-	rs35090887		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:86030106delT								COX7C (113525 upstream) : RASA1 (534045 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	86227712	86227712	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:86227712delT								COX7C (311131 upstream) : RASA1 (336439 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	86228490	86228490	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:86228490delA								COX7C (311909 upstream) : RASA1 (335661 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	86505943	86505943	+	Intron	DEL	A	-	-	rs35146939		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:86505943delA	uc003kit.2	+											Homo sapiens cDNA clone IMAGE:5444809, **** WARNING: chimeric clone ****.																														---	---	---	---
RASA1	5921	broad.mit.edu	37	5	86590815	86590815	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:86590815delT	uc003kiw.2	+						RASA1_uc010jav.2_Intron|RASA1_uc003kix.2_Intron|RASA1_uc011ctv.1_Intron|RASA1_uc011ctw.1_Intron|RASA1_uc010jaw.2_Intron|RASA1_uc011ctu.1_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)														---	---	---	---
RASA1	5921	broad.mit.edu	37	5	86634510	86634510	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:86634510delT	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)														---	---	---	---
RASA1	5921	broad.mit.edu	37	5	86650087	86650087	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:86650087delT	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	86860364	86860367	+	IGR	DEL	TGAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:86860364_86860367delTGAG								CCNH (151528 upstream) : TMEM161B (630657 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	86885727	86885727	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:86885727delT								CCNH (176891 upstream) : TMEM161B (605297 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	87137976	87137979	+	IGR	DEL	GTAA	-	-	rs35035591		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:87137976_87137979delGTAA								CCNH (429140 upstream) : TMEM161B (353045 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	87152763	87152764	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:87152763_87152764delAC								CCNH (443927 upstream) : TMEM161B (338260 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	87180142	87180143	+	IGR	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:87180142_87180143insC								CCNH (471306 upstream) : TMEM161B (310881 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	87340751	87340751	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:87340751delA								CCNH (631915 upstream) : TMEM161B (150273 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	87418372	87418372	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:87418372delA								CCNH (709536 upstream) : TMEM161B (72652 downstream)																																			---	---	---	---
TMEM161B	153396	broad.mit.edu	37	5	87502325	87502328	+	Intron	DEL	GAAA	-	-	rs357515	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:87502325_87502328delGAAA	uc003kjc.2	-						TMEM161B_uc011cty.1_Intron|TMEM161B_uc010jax.2_Intron|TMEM161B_uc011ctz.1_Intron|TMEM161B_uc011ctx.1_Intron	NM_153354	NP_699185			transmembrane protein 161B							integral to membrane				skin(2)	2		all_cancers(142;0.000275)|Lung NSC(167;0.00901)|all_lung(232;0.0111)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;6.24e-36)|Epithelial(54;6.8e-31)|all cancers(79;1.07e-26)														---	---	---	---
LOC645323	645323	broad.mit.edu	37	5	87969743	87969744	+	5'Flank	DEL	TA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:87969743_87969744delTA	uc010jay.1	-						LOC645323_uc011cua.1_Intron|LOC645323_uc003kjg.2_Intron|LOC645323_uc011cub.1_Intron|LOC645323_uc003kjh.3_Intron					Homo sapiens cDNA FLJ30810 fis, clone FEBRA2001440.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	87995475	87995475	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:87995475delT								LOC645323 (14855 upstream) : MEF2C (18583 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	88589509	88589509	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:88589509delA								MEF2C (389640 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	88591601	88591601	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:88591601delA								MEF2C (391732 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	88668547	88668547	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:88668547delT								MEF2C (468678 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	88680496	88680496	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:88680496delA								MEF2C (480627 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	88774235	88774236	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:88774235_88774236insA								MEF2C (574366 upstream) : CETN3 (915295 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	88775982	88775983	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:88775982_88775983delCA								MEF2C (576113 upstream) : CETN3 (913548 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	88881447	88881448	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:88881447_88881448insA								MEF2C (681578 upstream) : CETN3 (808083 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	89052339	89052339	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:89052339delT								MEF2C (852470 upstream) : CETN3 (637192 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	89116598	89116598	+	IGR	DEL	A	-	-	rs10718105		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:89116598delA								MEF2C (916729 upstream) : CETN3 (572933 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	89286198	89286198	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:89286198delT								None (None upstream) : CETN3 (403333 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	89497083	89497083	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:89497083delT								None (None upstream) : CETN3 (192448 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	89497704	89497705	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:89497704_89497705delTC								None (None upstream) : CETN3 (191826 downstream)																																			---	---	---	---
GPR98	84059	broad.mit.edu	37	5	90317448	90317449	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:90317448_90317449insT	uc003kju.2	+						GPR98_uc003kjt.2_Intron|GPR98_uc003kjw.2_Intron|GPR98_uc003kjx.2_Intron	NM_032119	NP_115495			G protein-coupled receptor 98 precursor						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	90519686	90519686	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:90519686delT								GPR98 (59654 upstream) : ARRDC3 (144855 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	90923114	90923115	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:90923114_90923115insT								LOC100129716 (206583 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	90956279	90956279	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:90956279delA								LOC100129716 (239748 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	90997963	90997963	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:90997963delC								LOC100129716 (281432 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	91052409	91052409	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:91052409delT								LOC100129716 (335878 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	91496084	91496084	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:91496084delT	uc003kkb.1	+											Homo sapiens cDNA FLJ31923 fis, clone NT2RP7005323.																														---	---	---	---
Unknown	0	broad.mit.edu	37	5	91528489	91528497	+	Intron	DEL	TTTTTTTTT	-	-	rs146511619		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:91528489_91528497delTTTTTTTTT	uc003kkb.1	+											Homo sapiens cDNA FLJ31923 fis, clone NT2RP7005323.																														---	---	---	---
Unknown	0	broad.mit.edu	37	5	91811820	91811820	+	IGR	DEL	A	-	-	rs78227936		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:91811820delA								None (None upstream) : FLJ42709 (933245 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	92466797	92466797	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:92466797delA								None (None upstream) : FLJ42709 (278268 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	92604392	92604393	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:92604392_92604393delAA								None (None upstream) : FLJ42709 (140672 downstream)																																			---	---	---	---
FLJ42709	441094	broad.mit.edu	37	5	92812538	92812538	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:92812538delA	uc003kkc.2	-						FLJ42709_uc003kkd.2_Intron|FLJ42709_uc011cud.1_Intron|FLJ42709_uc003kke.2_Intron|FLJ42709_uc011cue.1_Intron|FLJ42709_uc010jbb.1_Intron|FLJ42709_uc003kkf.2_Intron|FLJ42709_uc003kkg.2_Intron					Homo sapiens cDNA FLJ38400 fis, clone FEBRA2008159.												0																OREG0007892	type=REGULATORY REGION|Gene=ARRDC3-NR2F1|Dataset=Vista Enhancers|EvidenceSubtype=In-vivo LacZ Expression Assay	---	---	---	---
FLJ42709	441094	broad.mit.edu	37	5	92911431	92911431	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:92911431delT	uc011cue.1	-						FLJ42709_uc010jbb.1_Intron|FLJ42709_uc003kkf.2_Intron|FLJ42709_uc003kkg.2_Intron|FLJ42709_uc010jbc.2_Intron|FLJ42709_uc003kki.2_Intron|FLJ42709_uc003kkh.2_Intron					Homo sapiens cDNA FLJ38400 fis, clone FEBRA2008159.												0																		---	---	---	---
NR2F1	7025	broad.mit.edu	37	5	92919233	92919233	+	5'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:92919233delA	uc003kkj.2	+	1					FLJ42709_uc011cue.1_5'Flank|FLJ42709_uc010jbb.1_5'Flank|FLJ42709_uc003kkf.2_5'Flank|FLJ42709_uc003kkg.2_5'Flank|FLJ42709_uc010jbc.2_5'Flank|FLJ42709_uc003kki.2_5'Flank|FLJ42709_uc003kkh.2_5'Flank	NM_005654	NP_005645			nuclear receptor subfamily 2, group F, member 1						negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			urinary_tract(1)|ovary(1)|lung(1)	3		all_cancers(142;1.62e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0416)|all cancers(79;9.57e-18)														---	---	---	---
FAM172A	83989	broad.mit.edu	37	5	93228292	93228292	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:93228292delG	uc010jbd.2	-						FAM172A_uc011cuf.1_Intron|FAM172A_uc011cug.1_Intron|FAM172A_uc011cuh.1_Intron|FAM172A_uc011cui.1_Intron|FAM172A_uc011cuj.1_Intron|FAM172A_uc003kkm.3_Intron	NM_032042	NP_114431			hypothetical protein LOC83989 isoform 1							endoplasmic reticulum|extracellular region					0																OREG0002794	type=REGULATORY REGION|Gene=FLJ25680-DKFZP564D172|Dataset=Vista Enhancers|EvidenceSubtype=In-vivo LacZ Expression Assay	---	---	---	---
C5orf36	285600	broad.mit.edu	37	5	93742391	93742391	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:93742391delA	uc011cuk.1	-							NM_001145678	NP_001139150			hypothetical protein LOC285600 isoform 1												0		all_cancers(142;2.12e-08)|all_epithelial(76;5.95e-11)|all_lung(232;0.000996)|Lung NSC(167;0.0108)|Ovarian(174;0.0218)|Colorectal(57;0.0329)|Breast(839;0.214)|Lung SC(612;0.236)		all cancers(79;3.96e-19)														---	---	---	---
MCTP1	79772	broad.mit.edu	37	5	94080216	94080216	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:94080216delT	uc003kkx.2	-						MCTP1_uc003kkv.2_Intron|MCTP1_uc003kkw.2_Intron|MCTP1_uc003kku.2_Intron	NM_024717	NP_078993			multiple C2 domains, transmembrane 1 isoform L						calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)														---	---	---	---
MCTP1	79772	broad.mit.edu	37	5	94096398	94096398	+	Intron	DEL	T	-	-	rs62775963		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:94096398delT	uc003kkx.2	-						MCTP1_uc003kkv.2_Intron|MCTP1_uc003kkw.2_Intron|MCTP1_uc003kku.2_Intron	NM_024717	NP_078993			multiple C2 domains, transmembrane 1 isoform L						calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)														---	---	---	---
MCTP1	79772	broad.mit.edu	37	5	94229470	94229471	+	Intron	DEL	AA	-	-	rs35543763		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:94229470_94229471delAA	uc003kkx.2	-						MCTP1_uc003kkv.2_Intron|MCTP1_uc003kkw.2_Intron|MCTP1_uc003kkz.2_Intron|MCTP1_uc003kku.2_Intron	NM_024717	NP_078993			multiple C2 domains, transmembrane 1 isoform L						calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)														---	---	---	---
MCTP1	79772	broad.mit.edu	37	5	94278496	94278496	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:94278496delT	uc003kkx.2	-						MCTP1_uc003kkv.2_Intron|MCTP1_uc003kkw.2_Intron|MCTP1_uc003kkz.2_Intron	NM_024717	NP_078993			multiple C2 domains, transmembrane 1 isoform L						calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)														---	---	---	---
FAM81B	153643	broad.mit.edu	37	5	94776556	94776556	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:94776556delA	uc003kla.1	+						FAM81B_uc010jbe.1_Intron	NM_152548	NP_689761			hypothetical protein LOC153643											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)														---	---	---	---
FAM81B	153643	broad.mit.edu	37	5	94781396	94781396	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:94781396delA	uc003kla.1	+						FAM81B_uc010jbe.1_Intron	NM_152548	NP_689761			hypothetical protein LOC153643											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)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	94794036	94794036	+	IGR	DEL	A	-	-	rs3860789		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:94794036delA								FAM81B (7892 upstream) : TTC37 (6087 downstream)																																			---	---	---	---
TTC37	9652	broad.mit.edu	37	5	94813058	94813058	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:94813058delA	uc003klb.2	-							NM_014639	NP_055454			tetratricopeptide repeat domain 37								binding			ovary(3)|pancreas(1)	4																		---	---	---	---
TTC37	9652	broad.mit.edu	37	5	94850012	94850012	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:94850012delA	uc003klb.2	-							NM_014639	NP_055454			tetratricopeptide repeat domain 37								binding			ovary(3)|pancreas(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	95974258	95974258	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:95974258delT								PCSK1 (205306 upstream) : CAST (23519 downstream)																																			---	---	---	---
ERAP1	51752	broad.mit.edu	37	5	96120905	96120906	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:96120905_96120906delAA	uc003kmm.2	-						ERAP1_uc003kml.2_Intron|ERAP1_uc010jbm.1_Intron|ERAP1_uc003kmn.2_Intron	NM_001040458	NP_001035548			type 1 tumor necrosis factor receptor shedding						angiogenesis|antigen processing and presentation of endogenous peptide antigen via MHC class I|fat cell differentiation|membrane protein ectodomain proteolysis|regulation of blood pressure|regulation of innate immune response|response to bacterium	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|integral to membrane	aminopeptidase activity|interleukin-1, Type II receptor binding|interleukin-6 receptor binding|metalloexopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		all_cancers(142;1.75e-06)|all_epithelial(76;3.08e-09)|all_lung(232;0.000435)|Lung NSC(167;0.000601)|Ovarian(225;0.024)|Colorectal(57;0.0432)|Breast(839;0.244)		all cancers(79;7.26e-15)|COAD - Colon adenocarcinoma(37;0.071)														---	---	---	---
ERAP1	51752	broad.mit.edu	37	5	96125189	96125190	+	Intron	INS	-	A	A	rs147022693	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:96125189_96125190insA	uc003kmm.2	-						ERAP1_uc003kml.2_Intron|ERAP1_uc010jbm.1_Intron|ERAP1_uc003kmn.2_Intron	NM_001040458	NP_001035548			type 1 tumor necrosis factor receptor shedding						angiogenesis|antigen processing and presentation of endogenous peptide antigen via MHC class I|fat cell differentiation|membrane protein ectodomain proteolysis|regulation of blood pressure|regulation of innate immune response|response to bacterium	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|integral to membrane	aminopeptidase activity|interleukin-1, Type II receptor binding|interleukin-6 receptor binding|metalloexopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		all_cancers(142;1.75e-06)|all_epithelial(76;3.08e-09)|all_lung(232;0.000435)|Lung NSC(167;0.000601)|Ovarian(225;0.024)|Colorectal(57;0.0432)|Breast(839;0.244)		all cancers(79;7.26e-15)|COAD - Colon adenocarcinoma(37;0.071)														---	---	---	---
ERAP2	64167	broad.mit.edu	37	5	96211909	96211909	+	5'UTR	DEL	A	-	-	rs74420041	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:96211909delA	uc003kmq.2	+	1					uc003kmo.1_Intron|ERAP2_uc003kmt.2_Intron|ERAP2_uc003kmr.2_RNA|ERAP2_uc003kms.2_5'UTR	NM_022350	NP_071745			endoplasmic reticulum aminopeptidase 2						antigen processing and presentation of endogenous peptide antigen via MHC class I|proteolysis|regulation of blood pressure	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding				0		all_cancers(142;0.000311)|all_epithelial(76;1.54e-06)|all_lung(232;0.0131)|Lung NSC(167;0.0161)|Colorectal(57;0.0596)|Ovarian(225;0.105)		COAD - Colon adenocarcinoma(37;0.0703)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	96370118	96370118	+	IGR	DEL	T	-	-	rs12055195		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:96370118delT								LNPEP (5003 upstream) : LIX1 (57457 downstream)																																			---	---	---	---
RIOK2	55781	broad.mit.edu	37	5	96519187	96519187	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:96519187delT	uc003kmz.2	-						RIOK2_uc003kna.3_5'Flank	NM_018343	NP_060813			RIO kinase 2 isoform 1								ATP binding|protein serine/threonine kinase activity			kidney(1)	1		all_cancers(142;0.000125)|all_epithelial(76;8.48e-07)|all_lung(232;0.0131)|Lung NSC(167;0.0161)|Colorectal(57;0.0676)|Ovarian(225;0.105)		COAD - Colon adenocarcinoma(37;0.0657)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	96805416	96805417	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:96805416_96805417delTT								RIOK2 (286411 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	96936179	96936180	+	IGR	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:96936179_96936180insC								RIOK2 (417174 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	97050805	97050806	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:97050805_97050806delTT								RIOK2 (531800 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	97119691	97119692	+	IGR	INS	-	AC	AC	rs143575878	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:97119691_97119692insAC								RIOK2 (600686 upstream) : RGMB (985307 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	97350836	97350836	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:97350836delT								RIOK2 (831831 upstream) : RGMB (754163 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	97626917	97626917	+	IGR	DEL	A	-	-	rs33922579		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:97626917delA								None (None upstream) : RGMB (478082 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	97648676	97648676	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:97648676delG								None (None upstream) : RGMB (456323 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	97721938	97721938	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:97721938delT								None (None upstream) : RGMB (383061 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	97793415	97793415	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:97793415delT								None (None upstream) : RGMB (311584 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	97844912	97844913	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:97844912_97844913insT								None (None upstream) : RGMB (260086 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	97941382	97941383	+	IGR	INS	-	TT	TT	rs146913782	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:97941382_97941383insTT								None (None upstream) : RGMB (163616 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	98184942	98184942	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:98184942delT								RGMB (52746 upstream) : CHD1 (5967 downstream)																																			---	---	---	---
CHD1	1105	broad.mit.edu	37	5	98204484	98204485	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:98204484_98204485delTT	uc003knf.2	-						CHD1_uc010jbn.2_Intron	NM_001270	NP_001261			chromodomain helicase DNA binding protein 1						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)													---	---	---	---
CHD1	1105	broad.mit.edu	37	5	98232157	98232157	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:98232157delA	uc003knf.2	-							NM_001270	NP_001261			chromodomain helicase DNA binding protein 1						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)													---	---	---	---
Unknown	0	broad.mit.edu	37	5	98631520	98631521	+	IGR	DEL	TT	-	-	rs113083432		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:98631520_98631521delTT								CHD1 (369282 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	98833568	98833570	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:98833568_98833570delTTT								CHD1 (571330 upstream) : LOC100133050 (881639 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	99290502	99290502	+	IGR	DEL	A	-	-	rs76873014		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:99290502delA								None (None upstream) : LOC100133050 (424707 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	99711898	99711898	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:99711898delA								None (None upstream) : LOC100133050 (3311 downstream)																																			---	---	---	---
FAM174A	345757	broad.mit.edu	37	5	99920582	99920583	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:99920582_99920583delTT	uc003knj.1	+							NM_198507	NP_940909			family with sequence similarity 174, member A							integral to membrane					0																		---	---	---	---
ST8SIA4	7903	broad.mit.edu	37	5	100143111	100143111	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:100143111delT	uc003knk.2	-	5						NM_005668	NP_005659			ST8 alpha-N-acetyl-neuraminide						axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	100359392	100359392	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:100359392delA								ST8SIA4 (120405 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	100735070	100735071	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:100735070_100735071insT								ST8SIA4 (496083 upstream) : SLCO4C1 (834623 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	100987773	100987773	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:100987773delT								ST8SIA4 (748786 upstream) : SLCO4C1 (581921 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	101699509	101699509	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:101699509delT								SLCO4C1 (67256 upstream) : SLCO6A1 (8141 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	102138828	102138828	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:102138828delA								SLCO6A1 (304108 upstream) : PAM (62699 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	102367774	102367774	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:102367774delA								PAM (2358 upstream) : GIN1 (53930 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	102551181	102551181	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:102551181delT								PPIP5K2 (12274 upstream) : C5orf30 (43261 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	102668162	102668162	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:102668162delT								C5orf30 (53801 upstream) : NUDT12 (216395 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	104415880	104415880	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:104415880delA								None (None upstream) : RAB9BP1 (19295 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	104488106	104488106	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:104488106delT								RAB9BP1 (52308 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	105214489	105214490	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:105214489_105214490insA								RAB9BP1 (778691 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	105476806	105476806	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:105476806delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	105667491	105667491	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:105667491delT								None (None upstream) : None (None downstream)																																			---	---	---	---
EFNA5	1946	broad.mit.edu	37	5	106974529	106974530	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:106974529_106974530delAC	uc003kol.2	-						EFNA5_uc010jbr.1_Intron	NM_001962	NP_001953			ephrin-A5 precursor						cell-cell signaling	anchored to plasma membrane|caveola|extracellular space	ephrin receptor binding				0		all_cancers(142;5.15e-06)|all_epithelial(76;4.39e-07)|Prostate(80;0.00726)|Lung NSC(167;0.0736)|Ovarian(225;0.0797)|all_lung(232;0.0854)|Colorectal(57;0.241)		Epithelial(69;1.25e-12)|OV - Ovarian serous cystadenocarcinoma(64;1.32e-11)|BRCA - Breast invasive adenocarcinoma(61;0.0376)|COAD - Colon adenocarcinoma(37;0.109)														---	---	---	---
FBXL17	64839	broad.mit.edu	37	5	107457028	107457028	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:107457028delA	uc011cvc.1	-						FBXL17_uc003kon.3_Intron	NM_001163315	NP_001156787			F-box and leucine-rich repeat protein 17												0		all_cancers(142;0.00273)|all_epithelial(76;0.000362)|Prostate(80;0.0115)|Myeloproliferative disorder(839;0.0393)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;9.63e-11)|Epithelial(69;4.02e-10)														---	---	---	---
FBXL17	64839	broad.mit.edu	37	5	107657163	107657163	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:107657163delA	uc011cvc.1	-						FBXL17_uc003kon.3_Intron	NM_001163315	NP_001156787			F-box and leucine-rich repeat protein 17												0		all_cancers(142;0.00273)|all_epithelial(76;0.000362)|Prostate(80;0.0115)|Myeloproliferative disorder(839;0.0393)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;9.63e-11)|Epithelial(69;4.02e-10)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	107941244	107941244	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:107941244delT								FBXL17 (223445 upstream) : FER (142279 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	108034911	108034911	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:108034911delA								FBXL17 (317112 upstream) : FER (48612 downstream)																																			---	---	---	---
PJA2	9867	broad.mit.edu	37	5	108704140	108704140	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:108704140delG	uc003kos.3	-							NM_014819	NP_055634			praja 2, RING-H2 motif containing						long-term memory|regulation of protein kinase A signaling cascade	cell junction|endoplasmic reticulum membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	ligase activity|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(142;4.4e-06)|all_epithelial(76;8.17e-08)|Prostate(80;0.00676)|Lung NSC(167;0.0436)|Ovarian(225;0.0443)|all_lung(232;0.053)|Colorectal(57;0.0946)|Breast(839;0.151)		OV - Ovarian serous cystadenocarcinoma(64;3.46e-10)|Epithelial(69;6.02e-09)|COAD - Colon adenocarcinoma(37;0.224)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	108951857	108951858	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:108951857_108951858insA								PJA2 (206182 upstream) : MAN2A1 (73298 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	109500843	109500843	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:109500843delT								MAN2A1 (297414 upstream) : TMEM232 (124091 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	110150876	110150877	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:110150876_110150877insA								SLC25A46 (52394 upstream) : TSLP (254901 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	110160313	110160313	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:110160313delT								SLC25A46 (61831 upstream) : TSLP (245465 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	110266518	110266519	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:110266518_110266519delTT								SLC25A46 (168036 upstream) : TSLP (139259 downstream)																																			---	---	---	---
TSLP	85480	broad.mit.edu	37	5	110407274	110407274	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:110407274delT	uc003kpb.2	+						TSLP_uc003kpa.2_Intron|TSLP_uc010jbt.1_5'Flank	NM_033035	NP_149024			thymic stromal lymphopoietin isoform 1							extracellular space	cytokine activity				0		all_cancers(142;2.72e-05)|all_epithelial(76;4.39e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0417)|Ovarian(225;0.0443)|Colorectal(57;0.0464)|all_lung(232;0.0507)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.24e-08)|Epithelial(69;1.54e-07)|all cancers(49;1.73e-05)|COAD - Colon adenocarcinoma(37;0.109)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	110969737	110969738	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:110969737_110969738delAG								STARD4 (121504 upstream) : C5orf13 (28585 downstream)																																			---	---	---	---
C5orf13	9315	broad.mit.edu	37	5	111164954	111164955	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:111164954_111164955insA	uc011cvr.1	-						C5orf13_uc011cvs.1_Intron	NM_001142475	NP_001135947			neuronal protein 3.1 isoform c							cytoplasm				skin(1)	1		all_cancers(142;0.00597)|all_epithelial(76;0.000144)|Prostate(80;0.0115)|Colorectal(10;0.0446)|Ovarian(225;0.156)		OV - Ovarian serous cystadenocarcinoma(64;5.45e-09)|Epithelial(69;2e-08)|all cancers(49;1.9e-06)|COAD - Colon adenocarcinoma(37;0.0514)|Colorectal(14;0.0629)														---	---	---	---
C5orf13	9315	broad.mit.edu	37	5	111166076	111166076	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:111166076delA	uc011cvr.1	-						C5orf13_uc011cvs.1_Intron	NM_001142475	NP_001135947			neuronal protein 3.1 isoform c							cytoplasm				skin(1)	1		all_cancers(142;0.00597)|all_epithelial(76;0.000144)|Prostate(80;0.0115)|Colorectal(10;0.0446)|Ovarian(225;0.156)		OV - Ovarian serous cystadenocarcinoma(64;5.45e-09)|Epithelial(69;2e-08)|all cancers(49;1.9e-06)|COAD - Colon adenocarcinoma(37;0.0514)|Colorectal(14;0.0629)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	111376408	111376408	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:111376408delG								C5orf13 (63780 upstream) : EPB41L4A (101730 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	111460849	111460849	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:111460849delA								C5orf13 (148221 upstream) : EPB41L4A (17289 downstream)																																			---	---	---	---
EPB41L4A	64097	broad.mit.edu	37	5	111625309	111625309	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:111625309delT	uc003kpv.1	-						EPB41L4A_uc003kpw.1_Intron	NM_022140	NP_071423			erythrocyte protein band 4.1-like 4							cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	111839395	111839395	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:111839395delT								FLJ11235 (82722 upstream) : APC (203823 downstream)																																			---	---	---	---
APC	324	broad.mit.edu	37	5	112113962	112113962	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:112113962delA	uc010jby.2	+						APC_uc011cvt.1_Intron|APC_uc003kpz.3_Intron|APC_uc003kpy.3_Intron|APC_uc010jbz.2_Intron	NM_001127511	NP_001120983			adenomatous polyposis coli						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)			---	---	---	---
DCP2	167227	broad.mit.edu	37	5	112348267	112348267	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:112348267delA	uc003kqh.2	+						DCP2_uc011cwa.1_Intron|DCP2_uc010jcc.2_Intron	NM_152624	NP_689837			DCP2 decapping enzyme						exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasmic mRNA processing body|cytosol|nucleus|RNA-induced silencing complex	exoribonuclease activity, producing 5'-phosphomonoesters|manganese ion binding|protein binding|protein binding|RNA binding				0		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		OV - Ovarian serous cystadenocarcinoma(64;6.98e-08)|Epithelial(69;7.87e-08)|all cancers(49;1.06e-05)|COAD - Colon adenocarcinoma(37;0.0123)|Colorectal(14;0.0171)														---	---	---	---
MCC	4163	broad.mit.edu	37	5	112577191	112577191	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:112577191delA	uc003kqj.3	-						MCC_uc003kqk.3_Intron|MCC_uc003kql.3_Intron|MCC_uc011cwb.1_Intron|MCC_uc010jcd.1_Intron	NM_002387	NP_002378			mutated in colorectal cancers isoform 2						negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)														---	---	---	---
YTHDC2	64848	broad.mit.edu	37	5	112890440	112890444	+	Intron	DEL	AAAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:112890440_112890444delAAAAA	uc003kqn.2	+						YTHDC2_uc010jce.1_Intron|YTHDC2_uc010jcf.1_Intron	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)														---	---	---	---
YTHDC2	64848	broad.mit.edu	37	5	112915100	112915100	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:112915100delT	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)														---	---	---	---
YTHDC2	64848	broad.mit.edu	37	5	112929156	112929156	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:112929156delT	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	113188013	113188014	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:113188013_113188014delAA								YTHDC2 (257034 upstream) : KCNN2 (510002 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	113537461	113537461	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:113537461delC								YTHDC2 (606482 upstream) : KCNN2 (160555 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	114710146	114710150	+	IGR	DEL	AGGTC	-	-	rs146051212		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:114710146_114710150delAGGTC								CCDC112 (77688 upstream) : FEM1C (146458 downstream)																																			---	---	---	---
CDO1	1036	broad.mit.edu	37	5	115148958	115148958	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:115148958delA	uc003krg.2	-							NM_001801	NP_001792			cysteine dioxygenase						inflammatory response|sulfur amino acid biosynthetic process|taurine biosynthetic process	cytosol	cysteine dioxygenase activity			large_intestine(1)|skin(1)	2		all_cancers(142;0.0046)|all_epithelial(76;0.000161)|Prostate(80;0.0132)|Ovarian(225;0.0776)		OV - Ovarian serous cystadenocarcinoma(64;7.8e-08)|Epithelial(69;7.32e-07)|all cancers(49;3.24e-05)	L-Cysteine(DB00151)|NADH(DB00157)													---	---	---	---
AP3S1	1176	broad.mit.edu	37	5	115225508	115225508	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:115225508delA	uc003krl.2	+						AP3S1_uc003krk.2_Intron|AP3S1_uc003krm.2_Intron	NM_001284	NP_001275			adaptor-related protein complex 3, sigma 1						insulin receptor signaling pathway|intracellular protein transport|vesicle-mediated transport	AP-type membrane coat adaptor complex|cytoplasmic vesicle membrane|Golgi apparatus|transport vesicle	protein binding|protein transporter activity				0		all_cancers(142;0.00377)|all_epithelial(76;0.000129)|Prostate(80;0.0132)|Ovarian(225;0.0776)|Lung NSC(810;0.245)		OV - Ovarian serous cystadenocarcinoma(64;1.08e-07)|Epithelial(69;1.11e-06)|all cancers(49;5.2e-05)														---	---	---	---
AQPEP	206338	broad.mit.edu	37	5	115333477	115333477	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:115333477delT	uc003kro.2	+						AQPEP_uc003krp.2_Intron|AQPEP_uc003krq.2_Intron|AQPEP_uc003krr.2_Intron|AQPEP_uc003krs.2_Intron	NM_173800	NP_776161			laeverin						proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0																		---	---	---	---
SEMA6A	57556	broad.mit.edu	37	5	115779538	115779538	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:115779538delA	uc010jck.2	-	19					SEMA6A_uc003krx.3_3'UTR|SEMA6A_uc011cwe.1_3'UTR|SEMA6A_uc003krv.3_3'UTR|SEMA6A_uc003krw.3_3'UTR|SEMA6A_uc010jcj.2_3'UTR	NM_020796	NP_065847			sema domain, transmembrane domain (TM), and						apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)														---	---	---	---
SEMA6A	57556	broad.mit.edu	37	5	115823217	115823217	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:115823217delA	uc010jck.2	-						SEMA6A_uc003krx.3_Intron	NM_020796	NP_065847			sema domain, transmembrane domain (TM), and						apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	116198594	116198595	+	IGR	DEL	CG	-	-	rs78553608		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:116198594_116198595delCG								SEMA6A (288043 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	116591598	116591598	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:116591598delA								SEMA6A (681047 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	117344539	117344540	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:117344539_117344540insA								None (None upstream) : DTWD2 (828031 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	117436441	117436443	+	IGR	DEL	GTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:117436441_117436443delGTG								None (None upstream) : DTWD2 (736128 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	117503432	117503432	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:117503432delA								None (None upstream) : DTWD2 (669139 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	117655410	117655410	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:117655410delA								None (None upstream) : DTWD2 (517161 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	117971533	117971533	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:117971533delA								None (None upstream) : DTWD2 (201038 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	118023767	118023768	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118023767_118023768insA								None (None upstream) : DTWD2 (148803 downstream)																																			---	---	---	---
DTWD2	285605	broad.mit.edu	37	5	118272165	118272165	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118272165delA	uc003ksa.2	-							NM_173666	NP_775937			DTW domain containing 2												0		all_epithelial(76;0.0982)|Prostate(80;0.121)		OV - Ovarian serous cystadenocarcinoma(64;0.000228)|Epithelial(69;0.000941)|all cancers(49;0.00939)														---	---	---	---
DTWD2	285605	broad.mit.edu	37	5	118310505	118310505	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118310505delA	uc003ksa.2	-							NM_173666	NP_775937			DTW domain containing 2												0		all_epithelial(76;0.0982)|Prostate(80;0.121)		OV - Ovarian serous cystadenocarcinoma(64;0.000228)|Epithelial(69;0.000941)|all cancers(49;0.00939)														---	---	---	---
DTWD2	285605	broad.mit.edu	37	5	118319207	118319208	+	Intron	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118319207_118319208delTC	uc003ksa.2	-							NM_173666	NP_775937			DTW domain containing 2												0		all_epithelial(76;0.0982)|Prostate(80;0.121)		OV - Ovarian serous cystadenocarcinoma(64;0.000228)|Epithelial(69;0.000941)|all cancers(49;0.00939)														---	---	---	---
DMXL1	1657	broad.mit.edu	37	5	118512227	118512227	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118512227delT	uc003ksd.2	+						DMXL1_uc010jcl.1_Intron	NM_005509	NP_005500			Dmx-like 1											ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)														---	---	---	---
DMXL1	1657	broad.mit.edu	37	5	118574023	118574023	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118574023delA	uc003ksd.2	+						DMXL1_uc010jcl.1_Intron|DMXL1_uc010jcm.1_Intron|DMXL1_uc003kse.1_Intron	NM_005509	NP_005500			Dmx-like 1											ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)														---	---	---	---
TNFAIP8	25816	broad.mit.edu	37	5	118644088	118644093	+	Intron	DEL	TTTTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118644088_118644093delTTTTTT	uc003ksg.2	+						TNFAIP8_uc003ksf.1_Intron	NM_001077654	NP_001071122			tumor necrosis factor, alpha-induced protein 8						anti-apoptosis|apoptosis|negative regulation of anti-apoptosis	cytoplasm	caspase inhibitor activity|protein binding			ovary(1)	1		all_cancers(142;0.0317)|Prostate(80;0.111)|Breast(839;0.231)		Epithelial(69;4.63e-83)|OV - Ovarian serous cystadenocarcinoma(64;1.39e-82)|all cancers(49;4.88e-75)|GBM - Glioblastoma multiforme(465;0.00338)|BRCA - Breast invasive adenocarcinoma(61;0.0148)|COAD - Colon adenocarcinoma(49;0.0829)														---	---	---	---
TNFAIP8	25816	broad.mit.edu	37	5	118704071	118704072	+	Intron	DEL	AA	-	-	rs35499938		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118704071_118704072delAA	uc003ksh.2	+						TNFAIP8_uc003ksf.1_Intron|TNFAIP8_uc003ksg.2_Intron|TNFAIP8_uc011cwf.1_Intron|TNFAIP8_uc003ksi.2_Intron	NM_014350	NP_055165			tumor necrosis factor, alpha-induced protein 8						anti-apoptosis|apoptosis|negative regulation of anti-apoptosis	cytoplasm	caspase inhibitor activity|protein binding			ovary(1)	1		all_cancers(142;0.0317)|Prostate(80;0.111)|Breast(839;0.231)		Epithelial(69;4.63e-83)|OV - Ovarian serous cystadenocarcinoma(64;1.39e-82)|all cancers(49;4.88e-75)|GBM - Glioblastoma multiforme(465;0.00338)|BRCA - Breast invasive adenocarcinoma(61;0.0148)|COAD - Colon adenocarcinoma(49;0.0829)														---	---	---	---
HSD17B4	3295	broad.mit.edu	37	5	118858723	118858749	+	Intron	DEL	TGGTGTTTATTTTGAGACTTACTGGAA	-	-	rs112831172		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118858723_118858749delTGGTGTTTATTTTGAGACTTACTGGAA	uc003ksj.2	+						HSD17B4_uc011cwg.1_Intron|HSD17B4_uc011cwh.1_Intron|HSD17B4_uc011cwi.1_Intron|HSD17B4_uc003ksk.3_Intron|HSD17B4_uc011cwj.1_Intron|HSD17B4_uc010jcn.1_Intron|HSD17B4_uc010jco.1_5'Flank	NM_000414	NP_000405			hydroxysteroid (17-beta) dehydrogenase 4						bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3-hydroxyacyl-CoA dehydrogenase activity|3alpha,7alpha,12alpha-trihydroxy-5beta-cholest-24-enoyl-CoA hydratase activity|estradiol 17-beta-dehydrogenase activity|isomerase activity|long-chain-enoyl-CoA hydratase activity|protein binding|sterol binding|sterol transporter activity			ovary(1)|pancreas(1)	2		all_cancers(142;0.0206)|Prostate(80;0.0322)		OV - Ovarian serous cystadenocarcinoma(64;0.000247)|Epithelial(69;0.000849)|all cancers(49;0.0122)	NADH(DB00157)													---	---	---	---
Unknown	0	broad.mit.edu	37	5	119314495	119314495	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:119314495delA								FAM170A (342979 upstream) : PRR16 (485524 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	119608772	119608772	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:119608772delT								FAM170A (637256 upstream) : PRR16 (191247 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	119631914	119631914	+	IGR	DEL	A	-	-	rs34016008		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:119631914delA								FAM170A (660398 upstream) : PRR16 (168105 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	120099007	120099007	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:120099007delT								PRR16 (76045 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	120877146	120877146	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:120877146delT								PRR16 (854184 upstream) : FTMT (310504 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	120898567	120898567	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:120898567delA								PRR16 (875605 upstream) : FTMT (289083 downstream)																																			---	---	---	---
SNCAIP	9627	broad.mit.edu	37	5	121729795	121729796	+	Intron	DEL	TG	-	-	rs12654510	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121729795_121729796delTG	uc003ksw.1	+						SNCAIP_uc011cwl.1_Intron|SNCAIP_uc010jct.2_Intron|SNCAIP_uc003ksx.1_Intron|SNCAIP_uc003ksy.1_Intron|SNCAIP_uc003ksz.1_Intron|SNCAIP_uc010jcu.2_Intron|SNCAIP_uc011cwm.1_Intron|SNCAIP_uc003kta.1_Intron|SNCAIP_uc010jcv.1_Intron|SNCAIP_uc010jcw.1_Intron|SNCAIP_uc010jcx.1_Intron	NM_005460	NP_005451			synuclein alpha interacting protein						cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)														---	---	---	---
SNCAIP	9627	broad.mit.edu	37	5	121778288	121778288	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121778288delT	uc003ksw.1	+						SNCAIP_uc011cwl.1_Intron|SNCAIP_uc003ksx.1_Intron|SNCAIP_uc003ksy.1_Intron|SNCAIP_uc003ksz.1_Intron|SNCAIP_uc010jcu.2_Intron|SNCAIP_uc011cwm.1_Intron|SNCAIP_uc003kta.1_Intron|SNCAIP_uc010jcv.1_Intron|SNCAIP_uc010jcw.1_Intron|SNCAIP_uc010jcx.1_Intron|uc003ktb.1_Intron|SNCAIP_uc003ktc.1_5'Flank	NM_005460	NP_005451			synuclein alpha interacting protein						cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	121911132	121911132	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121911132delA								SNCAIP (111338 upstream) : SNX2 (199618 downstream)																																			---	---	---	---
SNX2	6643	broad.mit.edu	37	5	122139009	122139009	+	Intron	DEL	T	-	-	rs67155650		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:122139009delT	uc003kte.2	+						SNX2_uc011cwn.1_Intron	NM_003100	NP_003091			sorting nexin 2						cell communication|endocytosis|intracellular protein transport	early endosome membrane	phosphatidylinositol binding|protein binding|protein transporter activity			kidney(1)	1		all_cancers(142;1.14e-44)|all_lung(232;1.03e-13)|Lung NSC(810;2.5e-13)|Breast(839;0.000812)|Myeloproliferative disorder(839;0.0122)|Prostate(80;0.0235)|all_hematologic(541;0.0592)|all_neural(839;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.0897)|Kidney(363;0.137)	all cancers(49;2.13e-24)|Epithelial(69;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(64;5.6e-11)|BRCA - Breast invasive adenocarcinoma(61;0.00013)|GBM - Glioblastoma multiforme(465;0.000357)|COAD - Colon adenocarcinoma(49;0.000887)|Lung(113;0.0109)														---	---	---	---
SNX2	6643	broad.mit.edu	37	5	122151498	122151498	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:122151498delT	uc003kte.2	+						SNX2_uc011cwn.1_Intron	NM_003100	NP_003091			sorting nexin 2						cell communication|endocytosis|intracellular protein transport	early endosome membrane	phosphatidylinositol binding|protein binding|protein transporter activity			kidney(1)	1		all_cancers(142;1.14e-44)|all_lung(232;1.03e-13)|Lung NSC(810;2.5e-13)|Breast(839;0.000812)|Myeloproliferative disorder(839;0.0122)|Prostate(80;0.0235)|all_hematologic(541;0.0592)|all_neural(839;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.0897)|Kidney(363;0.137)	all cancers(49;2.13e-24)|Epithelial(69;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(64;5.6e-11)|BRCA - Breast invasive adenocarcinoma(61;0.00013)|GBM - Glioblastoma multiforme(465;0.000357)|COAD - Colon adenocarcinoma(49;0.000887)|Lung(113;0.0109)														---	---	---	---
SNX24	28966	broad.mit.edu	37	5	122180588	122180588	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:122180588delT	uc011cwo.1	+						SNX24_uc003ktf.2_5'Flank|SNX24_uc010jcy.2_5'Flank	NM_014035	NP_054754			SBBI31 protein						cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding				0		Prostate(80;0.0387)	KIRC - Kidney renal clear cell carcinoma(527;0.0897)|Kidney(363;0.137)	OV - Ovarian serous cystadenocarcinoma(64;0.000654)|Epithelial(69;0.0016)|all cancers(49;0.0139)														---	---	---	---
SNX24	28966	broad.mit.edu	37	5	122197404	122197404	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:122197404delT	uc011cwo.1	+						SNX24_uc003ktf.2_Intron|SNX24_uc010jcy.2_Intron	NM_014035	NP_054754			SBBI31 protein						cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding				0		Prostate(80;0.0387)	KIRC - Kidney renal clear cell carcinoma(527;0.0897)|Kidney(363;0.137)	OV - Ovarian serous cystadenocarcinoma(64;0.000654)|Epithelial(69;0.0016)|all cancers(49;0.0139)														---	---	---	---
SNX24	28966	broad.mit.edu	37	5	122269525	122269525	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:122269525delT	uc011cwo.1	+						SNX24_uc003ktf.2_Intron|SNX24_uc010jcy.2_Intron	NM_014035	NP_054754			SBBI31 protein						cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding				0		Prostate(80;0.0387)	KIRC - Kidney renal clear cell carcinoma(527;0.0897)|Kidney(363;0.137)	OV - Ovarian serous cystadenocarcinoma(64;0.000654)|Epithelial(69;0.0016)|all cancers(49;0.0139)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	122346905	122346905	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:122346905delA								SNX24 (2004 upstream) : PPIC (12175 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	122586479	122586480	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:122586479_122586480insT								PRDM6 (62735 upstream) : CEP120 (94100 downstream)																																			---	---	---	---
CEP120	153241	broad.mit.edu	37	5	122732121	122732121	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:122732121delT	uc003ktk.2	-						CEP120_uc011cwq.1_Intron|CEP120_uc010jcz.1_Intron	NM_153223	NP_694955			coiled-coil domain containing 100							centrosome				ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	122790388	122790388	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:122790388delT								CEP120 (31136 upstream) : CSNK1G3 (57405 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	123020539	123020539	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:123020539delA								CSNK1G3 (68077 upstream) : ZNF608 (952071 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	123099612	123099612	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:123099612delT								CSNK1G3 (147150 upstream) : ZNF608 (872998 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	123296187	123296187	+	IGR	DEL	T	-	-	rs79022695		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:123296187delT								CSNK1G3 (343725 upstream) : ZNF608 (676423 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	123830498	123830498	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:123830498delA								CSNK1G3 (878036 upstream) : ZNF608 (142112 downstream)																																			---	---	---	---
ZNF608	57507	broad.mit.edu	37	5	123979424	123979424	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:123979424delA	uc003ktq.1	-						ZNF608_uc003ktr.1_Intron|ZNF608_uc003ktp.1_Intron	NM_020747	NP_065798			zinc finger protein 608							intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)														---	---	---	---
ZNF608	57507	broad.mit.edu	37	5	123995250	123995250	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:123995250delG	uc003ktq.1	-						ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Intron|ZNF608_uc003ktt.1_Intron	NM_020747	NP_065798			zinc finger protein 608							intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	124233006	124233006	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:124233006delA								ZNF608 (148506 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	124633706	124633706	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:124633706delT								ZNF608 (549206 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	125248541	125248541	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:125248541delC								None (None upstream) : GRAMD3 (447247 downstream)																																			---	---	---	---
ALDH7A1	501	broad.mit.edu	37	5	125909389	125909389	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:125909389delA	uc003ktx.2	-						ALDH7A1_uc003kty.2_Intron|ALDH7A1_uc011cxa.1_Intron|ALDH7A1_uc003ktz.2_Intron	NM_001182	NP_001173			aldehyde dehydrogenase 7 family, member A1						cellular aldehyde metabolic process|lysine catabolic process|sensory perception of sound	cytosol|mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity|betaine-aldehyde dehydrogenase activity|L-aminoadipate-semialdehyde dehydrogenase activity			kidney(2)|ovary(1)	3		all_cancers(142;0.24)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0417)|OV - Ovarian serous cystadenocarcinoma(64;0.068)|all cancers(49;0.109)	NADH(DB00157)|Pyridoxine(DB00165)													---	---	---	---
PHAX	51808	broad.mit.edu	37	5	125950802	125950802	+	Intron	DEL	T	-	-	rs146301888		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:125950802delT	uc003kua.1	+							NM_032177	NP_115553			RNA U, small nuclear RNA export adaptor						ncRNA metabolic process|protein transport|snRNA export from nucleus|spliceosomal snRNP assembly	Cajal body|cytosol	RNA binding				0																		---	---	---	---
MARCH3	115123	broad.mit.edu	37	5	126254075	126254076	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:126254075_126254076delCA	uc003kuf.2	-						MARCH3_uc011cxc.1_Intron	NM_178450	NP_848545			membrane-associated ring finger (C3HC4) 3						endocytosis	cytoplasmic vesicle membrane|early endosome membrane|integral to membrane|lysosome	ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.074)|OV - Ovarian serous cystadenocarcinoma(64;0.0793)														---	---	---	---
MARCH3	115123	broad.mit.edu	37	5	126269138	126269138	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:126269138delT	uc003kuf.2	-						MARCH3_uc011cxc.1_Intron	NM_178450	NP_848545			membrane-associated ring finger (C3HC4) 3						endocytosis	cytoplasmic vesicle membrane|early endosome membrane|integral to membrane|lysosome	ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.074)|OV - Ovarian serous cystadenocarcinoma(64;0.0793)														---	---	---	---
MEGF10	84466	broad.mit.edu	37	5	126678230	126678230	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:126678230delG	uc003kuh.3	+						MEGF10_uc010jdc.1_Intron|MEGF10_uc010jdd.1_Intron|MEGF10_uc003kui.3_Intron	NM_032446	NP_115822			multiple EGF-like-domains 10 precursor						cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)														---	---	---	---
PRRC1	133619	broad.mit.edu	37	5	126866120	126866121	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:126866120_126866121delTT	uc003kuk.2	+						PRRC1_uc003kuj.3_Intron	NM_130809	NP_570721			proline-rich coiled-coil 1							Golgi apparatus					0		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0851)|Epithelial(69;0.113)														---	---	---	---
PRRC1	133619	broad.mit.edu	37	5	126885620	126885620	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:126885620delT	uc003kuk.2	+						PRRC1_uc003kuj.3_3'UTR	NM_130809	NP_570721			proline-rich coiled-coil 1							Golgi apparatus					0		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0851)|Epithelial(69;0.113)														---	---	---	---
SLC12A2	6558	broad.mit.edu	37	5	127496536	127496537	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:127496536_127496537delTG	uc003kus.2	+						SLC12A2_uc010jdf.2_Intron|SLC12A2_uc010jdg.2_Intron|SLC12A2_uc003kut.1_Intron	NM_001046	NP_001037			solute carrier family 12						potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity			ovary(3)	3		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)													---	---	---	---
SLC12A2	6558	broad.mit.edu	37	5	127499221	127499222	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:127499221_127499222delAA	uc003kus.2	+						SLC12A2_uc010jdf.2_Intron|SLC12A2_uc010jdg.2_Intron|SLC12A2_uc003kut.1_Intron	NM_001046	NP_001037			solute carrier family 12						potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity			ovary(3)	3		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)													---	---	---	---
FBN2	2201	broad.mit.edu	37	5	127669558	127669566	+	Intron	DEL	CACACACAC	-	-	rs139540861	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:127669558_127669566delCACACACAC	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)														---	---	---	---
FBN2	2201	broad.mit.edu	37	5	127816874	127816874	+	Intron	DEL	A	-	-	rs112343364		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:127816874delA	uc003kuu.2	-						FBN2_uc003kuv.2_Intron|FBN2_uc003kuw.3_Intron|FBN2_uc003kux.1_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)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	127920619	127920619	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:127920619delT								FBN2 (46703 upstream) : SLC27A6 (380591 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	128601245	128601245	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:128601245delT								ISOC1 (151528 upstream) : ADAMTS19 (194858 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	128615459	128615459	+	IGR	DEL	T	-	-	rs151119353		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:128615459delT								ISOC1 (165742 upstream) : ADAMTS19 (180644 downstream)																																			---	---	---	---
ADAMTS19	171019	broad.mit.edu	37	5	128899620	128899620	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:128899620delT	uc003kvb.1	+							NM_133638	NP_598377			ADAM metallopeptidase with thrombospondin type 1						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)														---	---	---	---
ADAMTS19	171019	broad.mit.edu	37	5	128918118	128918118	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:128918118delT	uc003kvb.1	+							NM_133638	NP_598377			ADAM metallopeptidase with thrombospondin type 1						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	129111240	129111240	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:129111240delA								ADAMTS19 (36864 upstream) : CHSY3 (129283 downstream)																																			---	---	---	---
CHSY3	337876	broad.mit.edu	37	5	129249812	129249812	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:129249812delT	uc003kvd.2	+							NM_175856	NP_787052			chondroitin sulfate synthase 3							Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)														---	---	---	---
CHSY3	337876	broad.mit.edu	37	5	129470536	129470536	+	Intron	DEL	A	-	-	rs141098113	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:129470536delA	uc003kvd.2	+							NM_175856	NP_787052			chondroitin sulfate synthase 3							Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	129528873	129528873	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:129528873delT								CHSY3 (6547 upstream) : HINT1 (966002 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	129785410	129785410	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:129785410delA								CHSY3 (263084 upstream) : HINT1 (709465 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	130149860	130149860	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:130149860delA								CHSY3 (627534 upstream) : HINT1 (345015 downstream)																																			---	---	---	---
LYRM7	90624	broad.mit.edu	37	5	130515638	130515638	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:130515638delT	uc003kvg.1	+							NM_181705	NP_859056			Lyrm7 homolog												0		all_cancers(142;0.0377)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)															---	---	---	---
RAPGEF6	51735	broad.mit.edu	37	5	130764155	130764156	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:130764155_130764156delTT	uc003kvn.1	-						RAPGEF6_uc003kvp.1_Intron|RAPGEF6_uc003kvo.1_Intron|RAPGEF6_uc010jdi.1_Intron|RAPGEF6_uc010jdj.1_Intron|RAPGEF6_uc003kvm.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)														---	---	---	---
RAPGEF6	51735	broad.mit.edu	37	5	130858711	130858711	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:130858711delA	uc003kvn.1	-						RAPGEF6_uc003kvp.1_Intron|RAPGEF6_uc003kvo.1_Intron|RAPGEF6_uc010jdi.1_Intron|RAPGEF6_uc010jdj.1_Intron|RAPGEF6_uc003kvr.2_Intron|RAPGEF6_uc011cxe.1_Intron|RAPGEF6_uc010jdk.2_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)														---	---	---	---
RAPGEF6	51735	broad.mit.edu	37	5	130970226	130970226	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:130970226delT	uc003kvn.1	-						RAPGEF6_uc003kvp.1_Intron|RAPGEF6_uc003kvo.1_Intron|RAPGEF6_uc010jdi.1_Intron|RAPGEF6_uc010jdj.1_Intron|RAPGEF6_uc003kvr.2_Intron|RAPGEF6_uc011cxe.1_Intron|RAPGEF6_uc010jdk.2_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)														---	---	---	---
RAPGEF6	51735	broad.mit.edu	37	5	130986780	130986782	+	Intron	DEL	AAA	-	-	rs11289256		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:130986780_130986782delAAA	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)														---	---	---	---
RAPGEF6	51735	broad.mit.edu	37	5	131048758	131048759	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:131048758_131048759delTT	uc003kvp.1	-						FNIP1_uc003kvs.1_Intron|FNIP1_uc003kvt.1_Intron|FNIP1_uc010jdm.1_Intron|FNIP1_uc003kvu.2_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)														---	---	---	---
RAPGEF6	51735	broad.mit.edu	37	5	131054951	131054951	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:131054951delA	uc003kvp.1	-						FNIP1_uc003kvs.1_Intron|FNIP1_uc003kvt.1_Intron|FNIP1_uc010jdm.1_Intron|FNIP1_uc003kvu.2_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)														---	---	---	---
ACSL6	23305	broad.mit.edu	37	5	131168013	131168013	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:131168013delT	uc003kvv.1	-							NM_015256				acyl-CoA synthetase long-chain family member 6						fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)															---	---	---	---
ACSL6	23305	broad.mit.edu	37	5	131177701	131177701	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:131177701delT	uc003kvv.1	-							NM_015256				acyl-CoA synthetase long-chain family member 6						fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)															---	---	---	---
P4HA2	8974	broad.mit.edu	37	5	131565962	131565962	+	5'Flank	DEL	T	-	-	rs35388762		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:131565962delT	uc003kwl.2	-						P4HA2_uc003kwk.2_5'Flank|P4HA2_uc003kwj.2_5'Flank	NM_001142599	NP_001136071			prolyl 4-hydroxylase, alpha II subunit isoform 1							endoplasmic reticulum lumen	electron carrier activity|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|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)													---	---	---	---
PDLIM4	8572	broad.mit.edu	37	5	131605671	131605672	+	Intron	INS	-	TG	TG	rs146077748	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:131605671_131605672insTG	uc003kwn.2	+						uc003kwm.3_Intron|PDLIM4_uc003kwp.2_Intron|PDLIM4_uc003kwo.2_Intron	NM_003687	NP_003678			PDZ and LIM domain 4 isoform 1								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)															---	---	---	---
SLC22A4	6583	broad.mit.edu	37	5	131677641	131677642	+	Intron	DEL	AA	-	-	rs10075801		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:131677641_131677642delAA	uc003kwq.2	+						uc003kwr.3_Intron	NM_003059	NP_003050			solute carrier family 22 member 4						body fluid secretion|sodium ion transport	apical plasma membrane|integral to plasma membrane|mitochondrion	ATP binding|carnitine transporter activity|cation:cation antiporter activity|PDZ domain binding|secondary active organic cation transmembrane transporter activity|symporter activity				0		all_cancers(142;0.0752)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Carnitine(DB00583)													---	---	---	---
Unknown	0	broad.mit.edu	37	5	131989855	131989855	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:131989855delT								RAD50 (10262 upstream) : IL13 (4010 downstream)																																			---	---	---	---
KIF3A	11127	broad.mit.edu	37	5	132035887	132035887	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:132035887delT	uc003kxo.2	-						KIF3A_uc003kxm.2_Intron|KIF3A_uc003kxn.2_Intron|KIF3A_uc011cxf.1_Intron|KIF3A_uc003kxp.2_Intron	NM_007054	NP_008985			kinesin family member 3A						blood coagulation|organelle organization|plus-end-directed vesicle transport along microtubule	centrosome|cytosol|kinesin II complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|protein binding			pancreas(1)	1		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)															---	---	---	---
KIF3A	11127	broad.mit.edu	37	5	132056795	132056795	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:132056795delA	uc003kxo.2	-						KIF3A_uc003kxn.2_Intron|KIF3A_uc011cxf.1_Intron|KIF3A_uc003kxp.2_Intron	NM_007054	NP_008985			kinesin family member 3A						blood coagulation|organelle organization|plus-end-directed vesicle transport along microtubule	centrosome|cytosol|kinesin II complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|protein binding			pancreas(1)	1		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	132133017	132133017	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:132133017delA								SEPT8 (19456 upstream) : ANKRD43 (16016 downstream)																																			---	---	---	---
AFF4	27125	broad.mit.edu	37	5	132250293	132250293	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:132250293delA	uc003kyd.2	-						AFF4_uc011cxk.1_Intron|AFF4_uc003kye.1_Intron	NM_014423	NP_055238			ALL1 fused gene from 5q31						transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	133096459	133096459	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:133096459delA								FSTL4 (148236 upstream) : C5orf15 (194740 downstream)																																			---	---	---	---
SKP1	6500	broad.mit.edu	37	5	133499502	133499502	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:133499502delA	uc003kzc.3	-						SKP1_uc003kzd.3_Intron|SKP1_uc010jdv.2_Intron	NM_170679	NP_733779			S-phase kinase-associated protein 1 isoform b						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|G1/S transition of mitotic cell cycle|histone H2A monoubiquitination|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|viral reproduction	cytosol|nucleoplasm|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)															---	---	---	---
CDKL3	51265	broad.mit.edu	37	5	133604758	133604759	+	Intron	DEL	TT	-	-	rs113889318		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:133604758_133604759delTT	uc011cxm.1	-						CDKL3_uc011cxn.1_Intron	NM_001113575	NP_001107047			cyclin-dependent kinase-like 3 isoform 1							cytoplasm	ATP binding|cyclin-dependent protein kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)															---	---	---	---
UBE2B	7320	broad.mit.edu	37	5	133715613	133715613	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:133715613delT	uc003kzh.2	+							NM_003337	NP_003328			ubiquitin-conjugating enzyme E2B						canonical Wnt receptor signaling pathway|histone H2A ubiquitination|negative regulation of cAMP-mediated signaling|postreplication repair|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein stabilization|response to drug|response to UV	cytoplasm|plasma membrane|replication fork	ATP binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity			lung(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)										Direct_reversal_of_damage|Rad6_pathway					---	---	---	---
Unknown	0	broad.mit.edu	37	5	133768681	133768681	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:133768681delT								CDKN2AIPNL (21092 upstream) : PHF15 (91385 downstream)																																			---	---	---	---
CAMLG	819	broad.mit.edu	37	5	134073694	134073694	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:134073694delT	uc003kzt.2	+						CAMLG_uc003kzu.2_5'Flank	NM_001745	NP_001736			calcium modulating ligand						defense response	endoplasmic reticulum|integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Cyclosporine(DB00091)													---	---	---	---
DDX46	9879	broad.mit.edu	37	5	134123927	134123927	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:134123927delT	uc003kzw.2	+						DDX46_uc003kzv.1_Intron	NM_014829	NP_055644			DEAD (Asp-Glu-Ala-Asp) box polypeptide 46						mRNA processing|RNA splicing	Cajal body|nuclear speck	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)															---	---	---	---
TXNDC15	79770	broad.mit.edu	37	5	134233708	134233709	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:134233708_134233709delAG	uc003lac.1	+						TXNDC15_uc010jdy.1_Intron|TXNDC15_uc011cxv.1_Intron	NM_024715	NP_078991			disulfide isomerase precursor						cell redox homeostasis	integral to membrane				ovary(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)															---	---	---	---
H2AFY	9555	broad.mit.edu	37	5	134686965	134686966	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:134686965_134686966delAA	uc003lam.1	-						H2AFY_uc003lal.1_RNA|H2AFY_uc003lao.1_Intron|H2AFY_uc003lan.1_Intron|H2AFY_uc003lap.1_Intron|H2AFY_uc003laq.1_Intron|H2AFY_uc003lar.1_Intron|H2AFY_uc011cxz.1_Intron|H2AFY_uc003las.1_Intron|H2AFY_uc003lat.1_Intron	NM_138610	NP_613258			H2A histone family, member Y isoform 3						chromatin modification|dosage compensation|nucleosome assembly	Barr body|nucleosome	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	134769683	134769684	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:134769683_134769684insG								H2AFY (34106 upstream) : C5orf20 (10221 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	134869260	134869260	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:134869260delC								TIFAB (81171 upstream) : NEUROG1 (720 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	135056407	135056408	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:135056407_135056408delAA								LOC340074 (66783 upstream) : LOC153328 (113957 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	135345871	135345872	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:135345871_135345872delAA								LECT2 (55148 upstream) : TGFBI (18712 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	136240832	136240832	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:136240832delT								TRPC7 (547759 upstream) : SPOCK1 (70156 downstream)																																			---	---	---	---
SPOCK1	6695	broad.mit.edu	37	5	136799258	136799259	+	Intron	INS	-	A	A	rs78418629		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:136799258_136799259insA	uc003lbo.2	-						SPOCK1_uc003lbp.2_Intron	NM_004598	NP_004589			sparc/osteonectin, cwcv and kazal-like domains						cell adhesion|cell proliferation|cellular component movement|nervous system development|signal transduction	proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)															---	---	---	---
MYOT	9499	broad.mit.edu	37	5	137217571	137217571	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137217571delA	uc011cye.1	+						MYOT_uc003lbv.2_Intron|MYOT_uc011cyg.1_Intron|MYOT_uc011cyh.1_Intron	NM_001135940	NP_001129412			myotilin isoform b						muscle contraction	actin cytoskeleton|sarcolemma|sarcomere	actin binding|structural constituent of muscle			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)															---	---	---	---
BRD8	10902	broad.mit.edu	37	5	137509549	137509549	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137509549delT	uc003lcf.1	-						BRD8_uc003lcc.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|BRD8_uc010jes.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)															---	---	---	---
GFRA3	2676	broad.mit.edu	37	5	137592244	137592244	+	Intron	DEL	A	-	-	rs113926435		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137592244delA	uc003lcn.2	-						GFRA3_uc003lco.2_Intron	NM_001496	NP_001487			GDNF family receptor alpha 3 preproprotein						peripheral nervous system development	anchored to membrane|cytoplasm|extrinsic to membrane|intracellular membrane-bounded organelle	receptor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)															---	---	---	---
GFRA3	2676	broad.mit.edu	37	5	137602386	137602386	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137602386delT	uc003lcn.2	-						GFRA3_uc003lco.2_Intron	NM_001496	NP_001487			GDNF family receptor alpha 3 preproprotein						peripheral nervous system development	anchored to membrane|cytoplasm|extrinsic to membrane|intracellular membrane-bounded organelle	receptor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)															---	---	---	---
KDM3B	51780	broad.mit.edu	37	5	137758639	137758639	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137758639delT	uc003lcy.1	+						KDM3B_uc010jew.1_Intron|KDM3B_uc011cys.1_Intron	NM_016604	NP_057688			jumonji domain containing 1B						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11																		---	---	---	---
ETF1	2107	broad.mit.edu	37	5	137863468	137863469	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137863468_137863469delTT	uc003ldc.3	-						ETF1_uc011cyv.1_Intron|ETF1_uc010jex.2_Intron|ETF1_uc003ldd.3_Intron	NM_004730	NP_004721			eukaryotic translation termination factor 1						nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|protein methylation|regulation of translational termination	cytoplasm	protein binding|ribosome binding|translation release factor activity, codon specific			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	137926633	137926633	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137926633delT								HSPA9 (15518 upstream) : CTNNA1 (162474 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	137929893	137929894	+	IGR	INS	-	CGCA	CGCA	rs149079103	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137929893_137929894insCGCA								HSPA9 (18778 upstream) : CTNNA1 (159213 downstream)																																			---	---	---	---
MATR3	9782	broad.mit.edu	37	5	138611212	138611212	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:138611212delT	uc003ldu.2	+						SNHG4_uc010jfa.2_Intron|SNHG4_uc003ldr.2_Intron|MATR3_uc003lds.2_Intron|MATR3_uc010jfb.2_Intron|MATR3_uc003ldt.2_Intron	NM_199189	NP_954659			matrin 3							nuclear inner membrane|nuclear matrix	nucleotide binding|protein binding|RNA binding|structural molecule activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)															---	---	---	---
MATR3	9782	broad.mit.edu	37	5	138659582	138659582	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:138659582delA	uc003ldu.2	+						MATR3_uc003ldt.2_Intron|MATR3_uc003ldw.2_Intron|MATR3_uc003ldx.2_Intron|MATR3_uc010jfc.2_Intron|MATR3_uc011czb.1_Intron|MATR3_uc003ldz.2_Intron|MATR3_uc003lea.2_Intron|MATR3_uc003leb.2_Intron|MATR3_uc003lec.2_Intron	NM_199189	NP_954659			matrin 3							nuclear inner membrane|nuclear matrix	nucleotide binding|protein binding|RNA binding|structural molecule activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)															---	---	---	---
PAIP2	51247	broad.mit.edu	37	5	138702749	138702749	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:138702749delA	uc003led.2	+						PAIP2_uc003lee.2_Intron|PAIP2_uc003lef.2_Intron	NM_016480	NP_057564			poly(A) binding protein interacting protein 2						negative regulation of translational initiation	cytoplasm	protein binding|translation repressor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	138926489	138926489	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:138926489delT								TMEM173 (64197 upstream) : UBE2D2 (14262 downstream)																																			---	---	---	---
NRG2	9542	broad.mit.edu	37	5	139326590	139326590	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:139326590delA	uc003lex.1	-						NRG2_uc003lev.1_Intron|NRG2_uc003lew.1_Intron|NRG2_uc003ley.1_Intron	NM_004883	NP_004874			neuregulin 2 isoform 1						embryo development	extracellular region|integral to membrane|plasma membrane	growth factor activity			pancreas(2)|breast(2)|ovary(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
NRG2	9542	broad.mit.edu	37	5	139354839	139354839	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:139354839delA	uc003lex.1	-						NRG2_uc003lev.1_Intron|NRG2_uc003lew.1_Intron|NRG2_uc003ley.1_Intron	NM_004883	NP_004874			neuregulin 2 isoform 1						embryo development	extracellular region|integral to membrane|plasma membrane	growth factor activity			pancreas(2)|breast(2)|ovary(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	139498232	139498232	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:139498232delA								PURA (1912 upstream) : C5orf53 (7289 downstream)																																			---	---	---	---
C5orf32	84418	broad.mit.edu	37	5	139562325	139562325	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:139562325delT	uc003lfd.2	+						C5orf32_uc010jfi.2_Intron	NM_032412	NP_115788			hypothetical protein LOC84418												0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
C5orf32	84418	broad.mit.edu	37	5	139597814	139597814	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:139597814delT	uc003lfd.2	+						C5orf32_uc010jfi.2_Intron	NM_032412	NP_115788			hypothetical protein LOC84418												0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	139996638	139996639	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:139996638_139996639delAA								SLC35A4 (47955 upstream) : CD14 (14678 downstream)																																			---	---	---	---
HARS	3035	broad.mit.edu	37	5	140059739	140059739	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140059739delT	uc003lgv.2	-						HARS_uc003lgu.2_Intron|HARS_uc011czm.1_Intron|HARS_uc003lgw.2_Intron|HARS_uc011czn.1_Intron|HARS_uc010jfu.2_Intron|HARS_uc011czo.1_Intron|HARS_uc011czp.1_Intron|HARS_uc011czq.1_Intron	NM_002109	NP_002100			histidyl-tRNA synthetase						histidyl-tRNA aminoacylation	cytosol	ATP binding|histidine-tRNA ligase activity			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		L-Histidine(DB00117)													---	---	---	---
Unknown	0	broad.mit.edu	37	5	140402754	140402754	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140402754delA								PCDHA1 (10825 upstream) : PCDHB1 (28225 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	140654901	140654901	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140654901delA								PCDHB15 (27102 upstream) : SLC25A2 (27296 downstream)																																			---	---	---	---
ARAP3	64411	broad.mit.edu	37	5	141058111	141058111	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141058111delT	uc003llm.2	-						ARAP3_uc003lln.2_Intron|ARAP3_uc003llo.1_Intron	NM_022481	NP_071926			ArfGAP with RhoGAP domain, ankyrin repeat and PH						cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	141395963	141395967	+	IGR	DEL	AATAG	-	-	rs113233861		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141395963_141395967delAATAG								GNPDA1 (3343 upstream) : NDFIP1 (92357 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	141750879	141750879	+	IGR	DEL	A	-	-	rs111457231	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141750879delA								SPRY4 (46259 upstream) : FGF1 (220865 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	142139803	142139803	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:142139803delC								FGF1 (62168 upstream) : ARHGAP26 (10489 downstream)																																			---	---	---	---
ARHGAP26	23092	broad.mit.edu	37	5	142481205	142481205	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:142481205delT	uc011dbj.1	+						ARHGAP26_uc003lmt.2_Intron|ARHGAP26_uc003lmw.2_Intron	NM_015071	NP_055886			GTPase regulator associated with the focal						actin cytoskeleton organization|filopodium assembly|nervous system development|small GTPase mediated signal transduction	cytoskeleton|cytosol|focal adhesion	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(1)	1		all_hematologic(541;0.0416)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	143116237	143116237	+	IGR	DEL	A	-	-	rs77928824		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:143116237delA								NR3C1 (301160 upstream) : HMHB1 (75489 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	143123897	143123897	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:143123897delA								NR3C1 (308820 upstream) : HMHB1 (67829 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	143159635	143159636	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:143159635_143159636insA								NR3C1 (344558 upstream) : HMHB1 (32090 downstream)																																			---	---	---	---
KCTD16	57528	broad.mit.edu	37	5	143632433	143632433	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:143632433delT	uc003lnm.1	+						KCTD16_uc003lnn.1_Intron	NM_020768	NP_065819			potassium channel tetramerisation domain							cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	144082145	144082145	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:144082145delA								KCTD16 (225201 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	144523670	144523670	+	IGR	DEL	A	-	-	rs71922332		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:144523670delA								KCTD16 (666726 upstream) : PRELID2 (614912 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	144525719	144525720	+	IGR	INS	-	GA	GA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:144525719_144525720insGA								KCTD16 (668775 upstream) : PRELID2 (612862 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	144884718	144884719	+	IGR	INS	-	TT	TT	rs147965928	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:144884718_144884719insTT								None (None upstream) : PRELID2 (253863 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	145084759	145084760	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:145084759_145084760delTT								None (None upstream) : PRELID2 (53822 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	145227575	145227575	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:145227575delT								PRELID2 (12676 upstream) : GRXCR2 (11721 downstream)																																			---	---	---	---
LARS	51520	broad.mit.edu	37	5	145539036	145539036	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:145539036delA	uc003lnx.1	-						LARS_uc011dbq.1_Intron|LARS_uc011dbr.1_Intron|LARS_uc011dbs.1_Intron	NM_020117	NP_064502			leucyl-tRNA synthetase						leucyl-tRNA aminoacylation	cytosol	ATP binding|leucine-tRNA ligase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Leucine(DB00149)													---	---	---	---
RBM27	54439	broad.mit.edu	37	5	145590071	145590072	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:145590071_145590072delAA	uc003lnz.3	+						RBM27_uc003lny.2_Intron	NM_018989	NP_061862			RNA binding motif protein 27						mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
PPP2R2B	5521	broad.mit.edu	37	5	146180481	146180482	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:146180481_146180482delAC	uc003loe.2	-						PPP2R2B_uc010jgm.2_Intron|PPP2R2B_uc003log.3_Intron|PPP2R2B_uc003lof.3_Intron|PPP2R2B_uc003loi.3_Intron|PPP2R2B_uc003loh.3_Intron|PPP2R2B_uc003loj.3_Intron|PPP2R2B_uc003lok.3_Intron|PPP2R2B_uc011dbu.1_Intron|PPP2R2B_uc011dbv.1_Intron	NM_004576	NP_004567			beta isoform of regulatory subunit B55, protein						apoptosis|signal transduction	cytoskeleton|mitochondrial outer membrane|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)|prostate(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
PPP2R2B	5521	broad.mit.edu	37	5	146357783	146357783	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:146357783delT	uc011dbv.1	-						PPP2R2B_uc003loi.3_Intron|PPP2R2B_uc003loh.3_Intron|PPP2R2B_uc003loj.3_Intron|PPP2R2B_uc003lok.3_Intron|PPP2R2B_uc011dbu.1_Intron	NM_181675	NP_858061			beta isoform of regulatory subunit B55, protein						apoptosis|signal transduction	cytoskeleton|mitochondrial outer membrane|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)|prostate(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
PPP2R2B	5521	broad.mit.edu	37	5	146410950	146410951	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:146410950_146410951insT	uc011dbv.1	-						PPP2R2B_uc003loi.3_Intron|PPP2R2B_uc003loh.3_Intron|PPP2R2B_uc003loj.3_Intron|PPP2R2B_uc003lok.3_Intron|PPP2R2B_uc011dbu.1_Intron	NM_181675	NP_858061			beta isoform of regulatory subunit B55, protein						apoptosis|signal transduction	cytoskeleton|mitochondrial outer membrane|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)|prostate(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
PPP2R2B	5521	broad.mit.edu	37	5	146450652	146450652	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:146450652delA	uc011dbv.1	-						PPP2R2B_uc003loj.3_Intron|PPP2R2B_uc003lok.3_Intron|PPP2R2B_uc011dbu.1_Intron	NM_181675	NP_858061			beta isoform of regulatory subunit B55, protein						apoptosis|signal transduction	cytoskeleton|mitochondrial outer membrane|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)|prostate(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
DPYSL3	1809	broad.mit.edu	37	5	146839676	146839676	+	Intron	DEL	A	-	-	rs78962085		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:146839676delA	uc003loo.2	-							NM_001387	NP_001378			dihydropyrimidinase-like 3						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)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	147408035	147408035	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:147408035delT								C5orf46 (121934 upstream) : SPINK5 (35500 downstream)																																			---	---	---	---
SPINK5	11005	broad.mit.edu	37	5	147493080	147493081	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:147493080_147493081insT	uc003lox.2	+						SPINK5_uc010jgs.1_Intron|SPINK5_uc010jgr.2_Intron|SPINK5_uc003low.2_Intron|SPINK5_uc003loy.2_Intron	NM_006846	NP_006837			serine peptidase inhibitor, Kazal type 5 isoform						anagen|epithelial cell differentiation|extracellular matrix organization|hair cell differentiation|negative regulation of angiogenesis|negative regulation of immune response|regulation of T cell differentiation	cell cortex|cytosol|endoplasmic reticulum membrane|extracellular region|lamellar body|perinuclear region of cytoplasm	serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)|breast(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
FBXO38	81545	broad.mit.edu	37	5	147790494	147790494	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:147790494delT	uc003lpf.1	+						FBXO38_uc003lpg.1_Intron|FBXO38_uc003lph.2_Intron	NM_205836	NP_995308			F-box protein 38 isoform b							cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
HTR4	3360	broad.mit.edu	37	5	147902626	147902626	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:147902626delA	uc003lpn.2	-						HTR4_uc010jgu.1_Intron|HTR4_uc003lpi.1_Intron|HTR4_uc003lpj.1_Intron|HTR4_uc003lpk.2_Intron|HTR4_uc011dby.1_Intron|HTR4_uc003lpl.2_Intron|HTR4_uc003lpm.2_Intron|HTR4_uc010jgv.2_Intron|HTR4_uc003lpo.1_Intron	NM_000870	NP_000861			serotonin 5-HT4 receptor isoform b						G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)													---	---	---	---
SH3TC2	79628	broad.mit.edu	37	5	148425527	148425527	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148425527delA	uc003lpu.2	-						SH3TC2_uc003lpp.1_Intron|SH3TC2_uc003lpt.2_Intron|SH3TC2_uc010jgx.2_Intron|SH3TC2_uc003lpv.1_Intron|SH3TC2_uc011dbz.1_Intron|SH3TC2_uc003lpw.1_3'UTR	NM_024577	NP_078853			SH3 domain and tetratricopeptide repeats 2								binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
AFAP1L1	134265	broad.mit.edu	37	5	148670286	148670286	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148670286delT	uc003lqh.2	+						AFAP1L1_uc003lqg.3_Intron|AFAP1L1_uc010jgy.2_Intron	NM_152406	NP_689619			actin filament associated protein 1-like 1								protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	148816512	148816512	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148816512delA								LOC728264 (4113 upstream) : CSNK1A1 (56437 downstream)																																			---	---	---	---
CSNK1A1	1452	broad.mit.edu	37	5	148884875	148884875	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148884875delT	uc003lqx.1	-						CSNK1A1_uc011dcb.1_Intron|CSNK1A1_uc011dcc.1_Intron|CSNK1A1_uc003lqv.1_Intron|CSNK1A1_uc003lqw.1_Intron|CSNK1A1_uc003lqy.1_Intron|CSNK1A1_uc010jha.1_Intron	NM_001892	NP_001883			casein kinase 1, alpha 1 isoform 2						cell division|mitosis|Wnt receptor signaling pathway	centrosome|condensed chromosome kinetochore|cytosol|nuclear speck	ATP binding|protein binding|protein binding|protein serine/threonine kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.0407)														---	---	---	---
CSNK1A1	1452	broad.mit.edu	37	5	148904917	148904917	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148904917delT	uc003lqx.1	-						CSNK1A1_uc011dcc.1_Intron|CSNK1A1_uc003lqv.1_Intron|CSNK1A1_uc003lqw.1_Intron|CSNK1A1_uc003lqy.1_Intron|CSNK1A1_uc010jha.1_Intron	NM_001892	NP_001883			casein kinase 1, alpha 1 isoform 2						cell division|mitosis|Wnt receptor signaling pathway	centrosome|condensed chromosome kinetochore|cytosol|nuclear speck	ATP binding|protein binding|protein binding|protein serine/threonine kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.0407)														---	---	---	---
CSNK1A1	1452	broad.mit.edu	37	5	148930141	148930142	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148930141_148930142delAA	uc003lqx.1	-						CSNK1A1_uc011dcc.1_5'Flank|CSNK1A1_uc003lqv.1_5'Flank|CSNK1A1_uc003lqw.1_Intron|CSNK1A1_uc003lqy.1_Intron|CSNK1A1_uc010jha.1_Intron	NM_001892	NP_001883			casein kinase 1, alpha 1 isoform 2						cell division|mitosis|Wnt receptor signaling pathway	centrosome|condensed chromosome kinetochore|cytosol|nuclear speck	ATP binding|protein binding|protein binding|protein serine/threonine kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.0407)														---	---	---	---
ARHGEF37	389337	broad.mit.edu	37	5	149010744	149010744	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149010744delT	uc003lra.1	+							NM_001001669	NP_001001669			hypothetical protein LOC389337						regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	149101937	149101937	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149101937delA								ARHGEF37 (87410 upstream) : PPARGC1B (7927 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	149233894	149233895	+	IGR	DEL	GT	-	-	rs79113144		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149233894_149233895delGT								PPARGC1B (6627 upstream) : PDE6A (3625 downstream)																																			---	---	---	---
CSF1R	1436	broad.mit.edu	37	5	149489625	149489626	+	Intron	INS	-	AGT	AGT	rs138225745		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149489625_149489626insAGT	uc003lrm.2	-							NM_005211	NP_005202			colony stimulating factor 1 receptor precursor						cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)													---	---	---	---
NDST1	3340	broad.mit.edu	37	5	149874344	149874344	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149874344delT	uc011dcj.1	+							NM_001543	NP_001534			N-deacetylase/N-sulfotransferase (heparan						heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
SYNPO	11346	broad.mit.edu	37	5	150030833	150030833	+	3'UTR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150030833delG	uc003lsn.2	+	3					SYNPO_uc003lso.3_3'UTR|SYNPO_uc003lsp.2_Intron	NM_001109974	NP_001103444			synaptopodin isoform B						positive regulation of actin filament bundle assembly|regulation of stress fiber assembly	actin cytoskeleton|cytoplasm|dendritic spine|perikaryon|postsynaptic density|postsynaptic membrane|tight junction	actin binding|protein binding			large_intestine(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
DCTN4	51164	broad.mit.edu	37	5	150111159	150111159	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150111159delA	uc003lsv.2	-						DCTN4_uc003lsu.2_Intron|DCTN4_uc010jhi.2_Intron|DCTN4_uc010jhj.2_Intron|DCTN4_uc011dck.1_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)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	150342407	150342407	+	IGR	DEL	T	-	-	rs139977937		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150342407delT								LOC134466 (16261 upstream) : GPX3 (57592 downstream)																																			---	---	---	---
GM2A	2760	broad.mit.edu	37	5	150765266	150765266	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150765266delA	uc011dcs.1	+							NM_000405				GM2 ganglioside activator precursor							lysosome|nucleolus	sphingolipid activator protein activity				0		Medulloblastoma(196;0.091)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
GM2A	2760	broad.mit.edu	37	5	150808067	150808069	+	Intron	DEL	TTC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150808067_150808069delTTC	uc011dcs.1	+							NM_000405				GM2 ganglioside activator precursor							lysosome|nucleolus	sphingolipid activator protein activity				0		Medulloblastoma(196;0.091)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
SLC36A1	206358	broad.mit.edu	37	5	150832431	150832432	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150832431_150832432delAA	uc003luc.2	+						GM2A_uc011dcs.1_Intron|SLC36A1_uc003lub.1_Intron|SLC36A1_uc010jhw.1_Intron	NM_078483	NP_510968			solute carrier family 36 member 1						cellular nitrogen compound metabolic process|ion transport	endoplasmic reticulum|integral to membrane|lysosomal membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			skin(1)	1		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)|all_neural(839;0.138)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Glycine(DB00145)|L-Alanine(DB00160)													---	---	---	---
ATOX1	475	broad.mit.edu	37	5	151126220	151126220	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:151126220delT	uc003luk.2	-							NM_004045	NP_004036			antioxidant protein 1						cellular copper ion homeostasis|copper ion transport|response to oxidative stress	cytosol	copper chaperone activity|copper-dependent protein binding				0		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)															---	---	---	---
G3BP1	10146	broad.mit.edu	37	5	151174853	151174853	+	Intron	DEL	A	-	-	rs35887288		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:151174853delA	uc003lun.2	+						G3BP1_uc003lum.2_Intron|G3BP1_uc011dcu.1_Intron|G3BP1_uc010jhz.2_Intron|G3BP1_uc003luq.2_5'Flank	NM_005754	NP_005745			Ras-GTPase-activating protein SH3-domain-binding						Ras protein signal transduction|transport	cytosol|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|endonuclease activity|protein binding|RNA binding			skin(3)|ovary(1)	4		all_hematologic(541;0.0338)|Medulloblastoma(196;0.091)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)															---	---	---	---
GLRA1	2741	broad.mit.edu	37	5	151220971	151220972	+	Intron	INS	-	TAATC	TAATC	rs139792100	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:151220971_151220972insTAATC	uc003lut.2	-						GLRA1_uc003lur.2_Intron|GLRA1_uc003lus.2_Intron	NM_001146040	NP_001139512			glycine receptor, alpha 1 isoform 1 precursor						muscle contraction|negative regulation of transmission of nerve impulse|neuropeptide signaling pathway|positive regulation of acrosome reaction|regulation of membrane potential|startle response	cell junction|chloride channel complex|integral to plasma membrane|intracellular membrane-bounded organelle|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|protein binding|receptor activity|taurine binding|transmitter-gated ion channel activity			ovary(1)|central_nervous_system(1)	2		all_hematologic(541;0.0341)|Medulloblastoma(196;0.0912)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Ethanol(DB00898)|Glycine(DB00145)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)													---	---	---	---
Unknown	0	broad.mit.edu	37	5	151815480	151815480	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:151815480delT								NMUR2 (30640 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	151847470	151847471	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:151847470_151847471delAG								NMUR2 (62630 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	151965757	151965757	+	IGR	DEL	A	-	-	rs78400210		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:151965757delA								NMUR2 (180917 upstream) : GRIA1 (903418 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	152217574	152217574	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:152217574delG	uc003lux.1	-											Homo sapiens cDNA FLJ35529 fis, clone SPLEN2001912.																														---	---	---	---
Unknown	0	broad.mit.edu	37	5	152482858	152482859	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:152482858_152482859insT								NMUR2 (698018 upstream) : GRIA1 (386316 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	152738982	152738982	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:152738982delA								NMUR2 (954142 upstream) : GRIA1 (130193 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	153454142	153454143	+	IGR	INS	-	G	G	rs149429976	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:153454142_153454143insG								MFAP3 (17128 upstream) : GALNT10 (116152 downstream)																																			---	---	---	---
GALNT10	55568	broad.mit.edu	37	5	153686302	153686302	+	Intron	DEL	C	-	-	rs55906136	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:153686302delC	uc003lvh.2	+						GALNT10_uc003lvg.1_Intron|GALNT10_uc010jic.2_Intron|GALNT10_uc010jid.2_Intron	NM_198321	NP_938080			GalNAc transferase 10 isoform a							Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	153896672	153896672	+	IGR	DEL	A	-	-	rs77563297		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:153896672delA								HAND1 (38848 upstream) : MIR1303 (168664 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	153904390	153904390	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:153904390delA								HAND1 (46566 upstream) : MIR1303 (160946 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	154037976	154037976	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154037976delT								HAND1 (180152 upstream) : MIR1303 (27360 downstream)																																			---	---	---	---
GEMIN5	25929	broad.mit.edu	37	5	154292720	154292720	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154292720delT	uc003lvx.3	-						GEMIN5_uc011ddk.1_Intron	NM_015465	NP_056280			gemin 5						ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding			skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)															---	---	---	---
GEMIN5	25929	broad.mit.edu	37	5	154307551	154307552	+	Intron	DEL	AA	-	-	rs113092116		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154307551_154307552delAA	uc003lvx.3	-						GEMIN5_uc011ddk.1_Intron	NM_015465	NP_056280			gemin 5						ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding			skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	154720671	154720671	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154720671delT								KIF4B (322986 upstream) : SGCD (414392 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	154779387	154779387	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154779387delA								KIF4B (381702 upstream) : SGCD (355676 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	155084131	155084132	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:155084131_155084132delCA								KIF4B (686446 upstream) : SGCD (50931 downstream)																																			---	---	---	---
SGCD	6444	broad.mit.edu	37	5	155598061	155598062	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:155598061_155598062insT	uc003lwa.1	+							NM_172244	NP_758447			delta-sarcoglycan isoform 2						cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)															---	---	---	---
SGCD	6444	broad.mit.edu	37	5	155675527	155675527	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:155675527delA	uc003lwa.1	+							NM_172244	NP_758447			delta-sarcoglycan isoform 2						cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)															---	---	---	---
SGCD	6444	broad.mit.edu	37	5	156182463	156182463	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156182463delA	uc003lwd.3	+						SGCD_uc003lwb.2_Intron|SGCD_uc003lwc.3_Intron	NM_001128209	NP_001121681			delta-sarcoglycan isoform 3						cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0	Renal(175;0.00488)	Medulloblastoma(196;0.0378)|all_neural(177;0.106)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	156421599	156421599	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156421599delT								TIMD4 (31333 upstream) : HAVCR1 (34932 downstream)																																			---	---	---	---
HAVCR2	84868	broad.mit.edu	37	5	156522719	156522721	+	Intron	DEL	AAA	-	-	rs72247255		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156522719_156522721delAAA	uc003lwk.1	-							NM_032782	NP_116171			T cell immunoglobulin mucin 3 precursor							integral to membrane					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)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	156548969	156548970	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156548969_156548970delAA								HAVCR2 (12831 upstream) : MED7 (16483 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	156687823	156687823	+	IGR	DEL	T	-	-	rs112235028		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156687823delT								ITK (5714 upstream) : CYFIP2 (5268 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	157312663	157312664	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:157312663_157312664delAG								CLINT1 (26495 upstream) : EBF1 (810260 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	157410965	157410965	+	IGR	DEL	T	-	-	rs75507613		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:157410965delT								CLINT1 (124797 upstream) : EBF1 (711959 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	157450653	157450654	+	IGR	INS	-	C	C	rs149167616	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:157450653_157450654insC								CLINT1 (164485 upstream) : EBF1 (672270 downstream)																																			---	---	---	---
EBF1	1879	broad.mit.edu	37	5	158217510	158217510	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158217510delA	uc010jip.2	-						EBF1_uc011ddw.1_Intron|EBF1_uc011ddx.1_Intron|EBF1_uc003lxl.3_Intron	NM_024007	NP_076870			early B-cell factor						multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)					T	HMGA2	lipoma								---	---	---	---
EBF1	1879	broad.mit.edu	37	5	158262684	158262684	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158262684delT	uc010jip.2	-						EBF1_uc011ddw.1_Intron|EBF1_uc011ddx.1_Intron|EBF1_uc003lxl.3_Intron	NM_024007	NP_076870			early B-cell factor						multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)					T	HMGA2	lipoma								---	---	---	---
EBF1	1879	broad.mit.edu	37	5	158297079	158297079	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158297079delT	uc010jip.2	-						EBF1_uc011ddw.1_Intron|EBF1_uc011ddx.1_Intron|EBF1_uc003lxl.3_Intron	NM_024007	NP_076870			early B-cell factor						multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)					T	HMGA2	lipoma								---	---	---	---
EBF1	1879	broad.mit.edu	37	5	158472414	158472414	+	Intron	DEL	T	-	-	rs67576907		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158472414delT	uc010jip.2	-						EBF1_uc011ddw.1_Intron|EBF1_uc011ddx.1_Intron|EBF1_uc003lxl.3_Intron	NM_024007	NP_076870			early B-cell factor						multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)					T	HMGA2	lipoma								---	---	---	---
Unknown	0	broad.mit.edu	37	5	158535032	158535033	+	Intron	INS	-	A	A	rs140682772		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158535032_158535033insA	uc003lxm.1	+											Homo sapiens cDNA FLJ41549 fis, clone COLON1000084.																														---	---	---	---
Unknown	0	broad.mit.edu	37	5	158958610	158958612	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158958610_158958612delTTT								LOC285627 (65326 upstream) : ADRA1B (385128 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	159000177	159000178	+	IGR	DEL	TT	-	-	rs151022269		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:159000177_159000178delTT								LOC285627 (106893 upstream) : ADRA1B (343562 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	159171716	159171718	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:159171716_159171718delAAA								LOC285627 (278432 upstream) : ADRA1B (172022 downstream)																																			---	---	---	---
TTC1	7265	broad.mit.edu	37	5	159465019	159465020	+	Intron	DEL	TG	-	-	rs6873751	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:159465019_159465020delTG	uc003lxu.2	+							NM_003314	NP_003305			tetratricopeptide repeat domain 1						protein folding		unfolded protein binding			skin(1)	1	Renal(175;0.00196)	all_hematologic(541;0.00014)|Breast(839;0.0101)|all_neural(177;0.0281)|Medulloblastoma(196;0.0425)|Lung NSC(249;0.119)|all_lung(500;0.163)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	Epithelial(171;8.37e-05)|all cancers(165;0.000694)|OV - Ovarian serous cystadenocarcinoma(192;0.0402)														---	---	---	---
PWWP2A	114825	broad.mit.edu	37	5	159536403	159536403	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:159536403delT	uc011ded.1	-						PWWP2A_uc003lxv.3_Intron|PWWP2A_uc011dec.1_Intron	NM_001130864	NP_001124336			PWWP domain containing 2A isoform b												0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)															---	---	---	---
CCNJL	79616	broad.mit.edu	37	5	159765808	159765808	+	Intron	DEL	T	-	-	rs72480561		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:159765808delT	uc003lyc.1	-											Homo sapiens cDNA FLJ14166 fis, clone NT2RP1000796.							nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)															---	---	---	---
SLU7	10569	broad.mit.edu	37	5	159833770	159833771	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:159833770_159833771delAA	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)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	160297417	160297417	+	IGR	DEL	A	-	-	rs148597092		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:160297417delA								ATP10B (18198 upstream) : LOC285629 (61371 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	160479513	160479513	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:160479513delA								LOC285629 (113880 upstream) : GABRB2 (235923 downstream)																																			---	---	---	---
GABRB2	2561	broad.mit.edu	37	5	160743365	160743365	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:160743365delA	uc003lys.1	-						GABRB2_uc011deh.1_Intron|GABRB2_uc003lyr.1_Intron|GABRB2_uc003lyt.1_Intron|GABRB2_uc010jiu.1_Intron	NM_021911	NP_068711			gamma-aminobutyric acid (GABA) A receptor, beta						gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|GABA-A receptor activity				0	Renal(175;0.00259)	Medulloblastoma(196;0.021)|all_neural(177;0.0463)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)													---	---	---	---
GABRA6	2559	broad.mit.edu	37	5	161116980	161116981	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:161116980_161116981insT	uc003lyu.2	+						GABRA6_uc003lyv.2_5'UTR	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)			---	---	---	---
GABRA1	2554	broad.mit.edu	37	5	161299930	161299931	+	Intron	INS	-	A	A	rs11745341		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:161299930_161299931insA	uc010jiw.2	+						GABRA1_uc010jix.2_Intron|GABRA1_uc010jiy.2_Intron|GABRA1_uc003lyx.3_Intron|GABRA1_uc010jiz.2_Intron|GABRA1_uc010jja.2_Intron|GABRA1_uc010jjb.2_Intron	NM_000806	NP_000797			gamma-aminobutyric acid (GABA) A receptor, alpha						gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	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)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)													---	---	---	---
GABRG2	2566	broad.mit.edu	37	5	161578664	161578664	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:161578664delT	uc003lyz.3	+						GABRG2_uc010jjc.2_Intron|GABRG2_uc003lyy.3_Intron|GABRG2_uc011dej.1_Intron	NM_000816	NP_000807			gamma-aminobutyric acid A receptor, gamma 2						gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	161799251	161799251	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:161799251delA								GABRG2 (216707 upstream) : None (None downstream)																																			---	---	---	---
HMMR	3161	broad.mit.edu	37	5	162894687	162894687	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:162894687delT	uc003lzf.2	+						HMMR_uc003lzh.2_Intron|HMMR_uc003lzg.2_Intron|HMMR_uc011dem.1_Intron	NM_012484	NP_036616			hyaluronan-mediated motility receptor isoform b							cell surface|cytoplasm	hyaluronic acid binding				0	Renal(175;0.000281)	Medulloblastoma(196;0.00853)|all_neural(177;0.0408)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0296)|OV - Ovarian serous cystadenocarcinoma(192;0.0423)|Epithelial(171;0.0848)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	163460011	163460014	+	IGR	DEL	ACAC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:163460011_163460014delACAC								MAT2B (513678 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	163471197	163471197	+	IGR	DEL	T	-	-	rs143726390	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:163471197delT								MAT2B (524864 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	163727122	163727122	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:163727122delA								MAT2B (780789 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	164179546	164179548	+	IGR	DEL	TGA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:164179546_164179548delTGA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	164771844	164771845	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:164771844_164771845delGA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	165091456	165091457	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:165091456_165091457insT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	165290195	165290195	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:165290195delA								None (None upstream) : None (None downstream)																																			---	---	---	---
ODZ2	57451	broad.mit.edu	37	5	166929018	166929018	+	Intron	DEL	A	-	-	rs72355259		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:166929018delA	uc010jjd.2	+							NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)														---	---	---	---
ODZ2	57451	broad.mit.edu	37	5	167185616	167185616	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167185616delT	uc010jjd.2	+						ODZ2_uc003lzq.2_Intron|ODZ2_uc003lzr.3_Intron	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)														---	---	---	---
ODZ2	57451	broad.mit.edu	37	5	167337515	167337515	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167337515delA	uc010jjd.2	+						ODZ2_uc003lzq.2_Intron|ODZ2_uc003lzr.3_Intron	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)														---	---	---	---
ODZ2	57451	broad.mit.edu	37	5	167379581	167379581	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167379581delT	uc010jjd.2	+						ODZ2_uc003lzq.2_Intron|ODZ2_uc003lzr.3_Intron	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)														---	---	---	---
ODZ2	57451	broad.mit.edu	37	5	167576513	167576514	+	Intron	INS	-	G	G	rs143093732	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167576513_167576514insG	uc010jjd.2	+						ODZ2_uc003lzr.3_Intron|ODZ2_uc003lzt.3_Intron|ODZ2_uc010jje.2_Intron|uc003lzs.1_Intron	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)														---	---	---	---
ODZ2	57451	broad.mit.edu	37	5	167586872	167586872	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167586872delA	uc010jjd.2	+						ODZ2_uc003lzr.3_Intron|ODZ2_uc003lzt.3_Intron|ODZ2_uc010jje.2_Intron|uc003lzs.1_Intron	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)														---	---	---	---
ODZ2	57451	broad.mit.edu	37	5	167671782	167671782	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167671782delT	uc010jjd.2	+						ODZ2_uc003lzr.3_Intron|ODZ2_uc003lzt.3_Intron|ODZ2_uc010jje.2_Intron	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)														---	---	---	---
ODZ2	57451	broad.mit.edu	37	5	167672886	167672886	+	Intron	DEL	T	-	-	rs111795565		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167672886delT	uc010jjd.2	+						ODZ2_uc003lzr.3_Intron|ODZ2_uc003lzt.3_Intron|ODZ2_uc010jje.2_Intron	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)														---	---	---	---
WWC1	23286	broad.mit.edu	37	5	167801445	167801445	+	Intron	DEL	G	-	-	rs35201564		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167801445delG	uc003lzu.2	+						WWC1_uc003lzv.2_Intron|WWC1_uc011den.1_Intron	NM_015238	NP_056053			WW and C2 domain containing 1 isoform 3						cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)														---	---	---	---
SLIT3	6586	broad.mit.edu	37	5	168154341	168154341	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:168154341delA	uc003mab.2	-						SLIT3_uc010jjg.2_Intron	NM_003062	NP_003053			slit homolog 3 precursor						apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)															---	---	---	---
SLIT3	6586	broad.mit.edu	37	5	168232498	168232498	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:168232498delA	uc003mab.2	-						SLIT3_uc010jjg.2_Intron|SLIT3_uc010jji.2_Intron|SLIT3_uc003mac.1_Intron	NM_003062	NP_003053			slit homolog 3 precursor						apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)															---	---	---	---
SLIT3	6586	broad.mit.edu	37	5	168281415	168281416	+	Intron	INS	-	AGTT	AGTT	rs147707979	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:168281415_168281416insAGTT	uc003mab.2	-						SLIT3_uc010jjg.2_Intron|SLIT3_uc010jji.2_Intron	NM_003062	NP_003053			slit homolog 3 precursor						apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)															---	---	---	---
SLIT3	6586	broad.mit.edu	37	5	168332182	168332182	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:168332182delA	uc003mab.2	-						SLIT3_uc010jjg.2_Intron|SLIT3_uc010jji.2_Intron	NM_003062	NP_003053			slit homolog 3 precursor						apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)															---	---	---	---
SLIT3	6586	broad.mit.edu	37	5	168431994	168431995	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:168431994_168431995insT	uc003mab.2	-						SLIT3_uc010jjg.2_Intron|SLIT3_uc010jji.2_Intron	NM_003062	NP_003053			slit homolog 3 precursor						apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	168800701	168800701	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:168800701delG								SLIT3 (72568 upstream) : CCDC99 (209937 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	168994879	168994879	+	IGR	DEL	T	-	-	rs79682451		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:168994879delT								SLIT3 (266746 upstream) : CCDC99 (15759 downstream)																																			---	---	---	---
CCDC99	54908	broad.mit.edu	37	5	169029605	169029606	+	Intron	INS	-	CTTC	CTTC	rs141393312	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169029605_169029606insCTTC	uc003mae.3	+						CCDC99_uc011deq.1_Intron|CCDC99_uc010jjk.2_Intron	NM_017785	NP_060255			coiled-coil domain containing 99						cell division|establishment of mitotic spindle orientation|mitotic metaphase plate congression|mitotic prometaphase|protein localization to kinetochore	condensed chromosome outer kinetochore|cytosol|microtubule organizing center|nucleus|spindle pole	kinetochore binding|protein binding			ovary(1)|liver(1)	2	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)															---	---	---	---
DOCK2	1794	broad.mit.edu	37	5	169105280	169105280	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169105280delT	uc003maf.2	+						DOCK2_uc011der.1_Intron	NM_004946	NP_004937			dedicator of cytokinesis 2						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)															---	---	---	---
DOCK2	1794	broad.mit.edu	37	5	169493292	169493292	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169493292delA	uc003maf.2	+						DOCK2_uc011der.1_Intron|DOCK2_uc010jjm.2_Intron|DOCK2_uc003mah.2_Intron	NM_004946	NP_004937			dedicator of cytokinesis 2						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)															---	---	---	---
KCNIP1	30820	broad.mit.edu	37	5	169913081	169913081	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169913081delT	uc003map.2	+							NM_001034838	NP_001030010			Kv channel interacting protein 1 isoform 3						detection of calcium ion|signal transduction|synaptic transmission	plasma membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0191)|all_lung(126;0.0297)	Medulloblastoma(196;0.0109)|all_neural(177;0.0177)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	170264230	170264230	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:170264230delT								GABRP (23182 upstream) : RANBP17 (24792 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	171115250	171115251	+	IGR	INS	-	CTT	CTT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:171115250_171115251insCTT								FGF18 (231088 upstream) : FBXW11 (173305 downstream)																																			---	---	---	---
SH3PXD2B	285590	broad.mit.edu	37	5	171874207	171874207	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:171874207delA	uc003mbr.2	-						SH3PXD2B_uc003mbs.1_Intron	NM_001017995	NP_001017995			SH3 and PX domains 2B						adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	171962240	171962241	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:171962240_171962241delGT								SH3PXD2B (80713 upstream) : NEURL1B (106035 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	172045407	172045407	+	IGR	DEL	A	-	-	rs67615447		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:172045407delA								SH3PXD2B (163880 upstream) : NEURL1B (22869 downstream)																																			---	---	---	---
ERGIC1	57222	broad.mit.edu	37	5	172327713	172327714	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:172327713_172327714delAA	uc003mbw.3	+						ERGIC1_uc003mby.3_Intron	NM_001031711	NP_001026881			endoplasmic reticulum-golgi intermediate						ER to Golgi vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	protein binding			skin(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00344)|all_lung(126;0.00594)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)															---	---	---	---
Unknown	0	broad.mit.edu	37	5	172596080	172596082	+	IGR	DEL	AAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:172596080_172596082delAAG								BNIP1 (4691 upstream) : NKX2-5 (63056 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	172643835	172643835	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:172643835delT								BNIP1 (52446 upstream) : NKX2-5 (15303 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	173248437	173248446	+	IGR	DEL	ACACACACAC	-	-	rs112259902		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:173248437_173248446delACACACACAC								BOD1 (204771 upstream) : CPEB4 (66885 downstream)																																			---	---	---	---
C5orf47	133491	broad.mit.edu	37	5	173418511	173418511	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:173418511delT	uc003mcw.3	+						C5orf47_uc003mcv.2_Intron	NM_001144954	NP_001138426			hypothetical protein LOC133491												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	173545054	173545055	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:173545054_173545055insT								HMP19 (8873 upstream) : MSX2 (606520 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	173838587	173838590	+	IGR	DEL	AGGG	-	-	rs150170750		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:173838587_173838590delAGGG								HMP19 (302406 upstream) : MSX2 (312985 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	174165928	174165930	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:174165928_174165930delAAA								MSX2 (8027 upstream) : DRD1 (701746 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	174213291	174213292	+	IGR	DEL	GT	-	-	rs142647083		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:174213291_174213292delGT								MSX2 (55390 upstream) : DRD1 (654384 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	174292846	174292846	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:174292846delT								MSX2 (134945 upstream) : DRD1 (574830 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	174515998	174515998	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:174515998delA								MSX2 (358097 upstream) : DRD1 (351678 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	174646532	174646532	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:174646532delA								MSX2 (488631 upstream) : DRD1 (221144 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	174696658	174696659	+	IGR	INS	-	A	A	rs146000703	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:174696658_174696659insA								MSX2 (538757 upstream) : DRD1 (171017 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	174864248	174864248	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:174864248delT								MSX2 (706347 upstream) : DRD1 (3428 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	175060255	175060257	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175060255_175060257delAAA								SFXN1 (104634 upstream) : HRH2 (24783 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	175118888	175118889	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175118888_175118889delAA								HRH2 (5645 upstream) : CPLX2 (104721 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	175153806	175153807	+	IGR	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175153806_175153807insC								HRH2 (40563 upstream) : CPLX2 (69803 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	175345760	175345763	+	IGR	DEL	AAAC	-	-	rs147978666		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175345760_175345763delAAAC								CPLX2 (34737 upstream) : THOC3 (40773 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	175404313	175404313	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175404313delA								THOC3 (8768 upstream) : FAM153B (83379 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	175641262	175641262	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175641262delA								FAM153B (97807 upstream) : C5orf25 (24108 downstream)																																			---	---	---	---
KIAA1191	57179	broad.mit.edu	37	5	175781686	175781686	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175781686delT	uc003mdw.2	-						KIAA1191_uc003mdx.2_Intron|KIAA1191_uc003mdy.2_Intron|KIAA1191_uc003mea.2_Intron|KIAA1191_uc003mdz.2_Intron	NM_020444	NP_065177			hypothetical protein LOC57179 isoform a								protein binding			ovary(1)	1	all_cancers(89;0.00575)|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;0.101)														---	---	---	---
ARL10	285598	broad.mit.edu	37	5	175794319	175794319	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175794319delT	uc003mec.1	+						ARL10_uc003meb.2_Intron|MIR1271_hsa-mir-1271|MI0003814_5'Flank	NM_173664	NP_775935			ADP-ribosylation factor-like 10								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)														---	---	---	---
CLTB	1212	broad.mit.edu	37	5	175819526	175819527	+	3'UTR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175819526_175819527insA	uc003meh.2	-	7					CLTB_uc003mei.2_3'UTR|CLTB_uc011dfn.1_RNA	NM_007097	NP_009028			clathrin, light polypeptide isoform b						intracellular protein transport|vesicle-mediated transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle	protein binding|structural molecule activity				0	all_cancers(89;0.00522)|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;0.098)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	175949852	175949852	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175949852delA								FAF2 (12778 upstream) : RNF44 (3848 downstream)																																			---	---	---	---
UNC5A	90249	broad.mit.edu	37	5	176295005	176295005	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176295005delA	uc003mey.2	+						UNC5A_uc003mex.1_Intron|UNC5A_uc010jkg.1_Intron	NM_133369	NP_588610			netrin receptor Unc5h1 precursor						apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)															---	---	---	---
PFN3	345456	broad.mit.edu	37	5	176828442	176828442	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176828442delT	uc003mgl.2	-							NM_001029886	NP_001025057			profilin 3						actin cytoskeleton organization	actin cytoskeleton|cytoplasm	actin binding				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	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)															---	---	---	---
LOC202181	202181	broad.mit.edu	37	5	177057082	177057082	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177057082delA	uc011dgc.1	-						LOC202181_uc011dgb.1_Intron	NM_198567	NP_940969			hypothetical protein LOC375484												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	5	177430207	177430207	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177430207delA								PROP1 (6964 upstream) : FAM153C (3766 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	177623715	177623715	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177623715delT								GMCL1L (9282 upstream) : HNRNPAB (7793 downstream)																																			---	---	---	---
COL23A1	91522	broad.mit.edu	37	5	177687796	177687796	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177687796delA	uc003mje.2	-						COL23A1_uc010jkt.2_Intron	NM_173465	NP_775736			collagen, type XXIII, alpha 1							collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)														---	---	---	---
COL23A1	91522	broad.mit.edu	37	5	177983291	177983291	+	Intron	DEL	A	-	-	rs147342160	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177983291delA	uc003mje.2	-							NM_173465	NP_775736			collagen, type XXIII, alpha 1							collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)														---	---	---	---
AACSL	729522	broad.mit.edu	37	5	178216552	178216552	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178216552delC	uc011dgl.1	-						AACSL_uc003mjk.2_Intron					Homo sapiens acetoacetyl-CoA synthetase-like, mRNA (cDNA clone IMAGE:3945810), partial cds.												0																		---	---	---	---
ZFP2	80108	broad.mit.edu	37	5	178348738	178348739	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178348738_178348739insA	uc003mjn.1	+						ZFP2_uc010jky.2_Intron|ZFP2_uc010jkx.1_Intron	NM_030613	NP_085116			zinc finger protein 2 homolog						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.00655)|GBM - Glioblastoma multiforme(465;0.0302)|OV - Ovarian serous cystadenocarcinoma(192;0.0615)|Epithelial(171;0.111)														---	---	---	---
GRM6	2916	broad.mit.edu	37	5	178419916	178419917	+	Intron	DEL	GA	-	-	rs72437966		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178419916_178419917delGA	uc003mjr.2	-							NM_000843	NP_000834			glutamate receptor, metabotropic 6 precursor						detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|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;0.245)														---	---	---	---
ADAMTS2	9509	broad.mit.edu	37	5	178650538	178650541	+	Intron	DEL	CACT	-	-	rs149712134		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178650538_178650541delCACT	uc003mjw.2	-						ADAMTS2_uc011dgm.1_Intron	NM_014244	NP_055059			ADAM metallopeptidase with thrombospondin type 1						collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	179083546	179083547	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179083546_179083547insT								C5orf60 (11499 upstream) : CANX (41881 downstream)																																			---	---	---	---
MAML1	9794	broad.mit.edu	37	5	179213236	179213236	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179213236delA	uc003mkn.1	+							NM_014757	NP_055572			mastermind-like 1						Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	peptide antigen binding|protein kinase binding|transcription coactivator activity			lung(4)|ovary(2)	6	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)															---	---	---	---
SQSTM1	8878	broad.mit.edu	37	5	179240599	179240599	+	Intron	DEL	A	-	-	rs67789115		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179240599delA	uc011dgr.1	+						SQSTM1_uc011dgs.1_Intron	NM_001142298	NP_001135770			sequestosome 1 isoform 2						anti-apoptosis|apoptosis|cell differentiation|endosome transport|induction of apoptosis by extracellular signals|intracellular signal transduction|macroautophagy|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein localization|regulation of I-kappaB kinase/NF-kappaB cascade|ubiquitin-dependent protein catabolic process	cytosol|late endosome|nucleoplasm	protein kinase C binding|receptor tyrosine kinase binding|SH2 domain binding|ubiquitin binding|zinc ion binding		SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(89;0.000205)|all_epithelial(37;7.15e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0395)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)											Paget_Disease_of_Bone				---	---	---	---
RNF130	55819	broad.mit.edu	37	5	179466247	179466248	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179466247_179466248insT	uc003mll.1	-						RNF130_uc003mlm.1_Intron	NM_018434	NP_060904			ring finger protein 130 precursor						apoptosis	cytoplasm|integral to membrane|nucleus	ubiquitin-protein ligase activity|zinc ion binding			lung(2)|ovary(1)	3	all_cancers(89;5.49e-05)|all_epithelial(37;1.94e-05)|Renal(175;0.000159)|Lung NSC(126;0.00118)|all_lung(126;0.00212)	all_cancers(40;0.0294)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)															---	---	---	---
RNF130	55819	broad.mit.edu	37	5	179483084	179483084	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179483084delA	uc003mll.1	-						RNF130_uc003mlm.1_Intron	NM_018434	NP_060904			ring finger protein 130 precursor						apoptosis	cytoplasm|integral to membrane|nucleus	ubiquitin-protein ligase activity|zinc ion binding			lung(2)|ovary(1)	3	all_cancers(89;5.49e-05)|all_epithelial(37;1.94e-05)|Renal(175;0.000159)|Lung NSC(126;0.00118)|all_lung(126;0.00212)	all_cancers(40;0.0294)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)															---	---	---	---
RASGEF1C	255426	broad.mit.edu	37	5	179535205	179535205	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179535205delT	uc003mlq.2	-						RASGEF1C_uc003mlr.2_Intron|RASGEF1C_uc003mlp.3_Intron	NM_175062	NP_778232			RasGEF domain family, member 1C						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(89;3.44e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0242)|Medulloblastoma(196;0.00498)|all_neural(177;0.0137)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)															---	---	---	---
RASGEF1C	255426	broad.mit.edu	37	5	179545579	179545579	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179545579delC	uc003mlq.2	-						RASGEF1C_uc003mlr.2_Intron|RASGEF1C_uc003mlp.3_Intron	NM_175062	NP_778232			RasGEF domain family, member 1C						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(89;3.44e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0242)|Medulloblastoma(196;0.00498)|all_neural(177;0.0137)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)															---	---	---	---
MAPK9	5601	broad.mit.edu	37	5	179707339	179707339	+	Intron	DEL	T	-	-	rs138341304	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179707339delT	uc003mls.3	-						MAPK9_uc003mlt.3_Intron|MAPK9_uc010jlc.2_Intron|MAPK9_uc003mlv.3_Intron|MAPK9_uc011dgx.1_Intron	NM_002752	NP_002743			mitogen-activated protein kinase 9 isoform JNK2						innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|protein binding|protein binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)	4	all_cancers(89;6.54e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0236)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)															---	---	---	---
GFPT2	9945	broad.mit.edu	37	5	179750536	179750537	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179750536_179750537delCT	uc003mlw.1	-							NM_005110	NP_005101			glutamine-fructose-6-phosphate transaminase 2						dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)													---	---	---	---
Unknown	0	broad.mit.edu	37	5	179881814	179881814	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179881814delA								GFPT2 (101499 upstream) : CNOT6 (39603 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	179912468	179912468	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179912468delA								GFPT2 (132153 upstream) : CNOT6 (8949 downstream)																																			---	---	---	---
FLT4	2324	broad.mit.edu	37	5	180058475	180058475	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:180058475delA	uc003mma.3	-						FLT4_uc003mlz.3_Intron|FLT4_uc003mmb.1_5'Flank|FLT4_uc011dgy.1_Intron|FLT4_uc011dgz.1_Intron|FLT4_uc011dha.1_Intron	NM_002020	NP_002011			fms-related tyrosine kinase 4 isoform 2						positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)									Congenital_Hereditary_Lymphedema				---	---	---	---
Unknown	0	broad.mit.edu	37	5	180082236	180082236	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:180082236delT								FLT4 (5612 upstream) : OR2Y1 (83887 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	180452760	180452760	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:180452760delA								BTNL3 (19034 upstream) : BTNL9 (14465 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	5	180559482	180559482	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:180559482delA								BTNL9 (70960 upstream) : OR2V2 (22461 downstream)																																			---	---	---	---
DUSP22	56940	broad.mit.edu	37	6	321732	321732	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:321732delA	uc003msx.2	+						DUSP22_uc011dhn.1_Intron|DUSP22_uc003msy.1_Intron	NM_020185	NP_064570			dual specificity phosphatase 22						apoptosis|cell proliferation|inactivation of MAPK activity|multicellular organismal development|positive regulation of JNK cascade|regulation of cell proliferation|transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(77;0.228)	Breast(5;0.0249)|all_hematologic(90;0.0489)		OV - Ovarian serous cystadenocarcinoma(45;0.0277)|BRCA - Breast invasive adenocarcinoma(62;0.0669)														---	---	---	---
EXOC2	55770	broad.mit.edu	37	6	677218	677219	+	Intron	DEL	CT	-	-	rs72408848		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:677218_677219delCT	uc003mtd.2	-						EXOC2_uc003mte.2_Intron|EXOC2_uc011dho.1_Intron	NM_018303	NP_060773			Sec5 protein						exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	1463265	1463265	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:1463265delA								FOXF2 (67434 upstream) : FOXC1 (147416 downstream)																																			---	---	---	---
GMDS	2762	broad.mit.edu	37	6	1682228	1682228	+	Intron	DEL	T	-	-	rs78086184		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:1682228delT	uc003mtq.2	-							NM_001500	NP_001491			GDP-mannose 4,6-dehydratase						'de novo' GDP-L-fucose biosynthetic process|GDP-mannose metabolic process|leukocyte cell-cell adhesion		coenzyme binding|GDP-mannose 4,6-dehydratase activity			central_nervous_system(1)	1	Ovarian(93;0.0733)	all_cancers(2;7.64e-19)|all_epithelial(2;3.05e-16)|Colorectal(2;0.00414)|all_hematologic(90;0.00997)|all_lung(73;0.0141)|Lung NSC(90;0.0802)		Epithelial(2;7.61e-06)|all cancers(2;0.000111)|STAD - Stomach adenocarcinoma(2;0.000231)|Colorectal(2;0.00445)|COAD - Colon adenocarcinoma(2;0.0125)|OV - Ovarian serous cystadenocarcinoma(45;0.0563)														---	---	---	---
GMDS	2762	broad.mit.edu	37	6	1811222	1811222	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:1811222delT	uc003mtq.2	-							NM_001500	NP_001491			GDP-mannose 4,6-dehydratase						'de novo' GDP-L-fucose biosynthetic process|GDP-mannose metabolic process|leukocyte cell-cell adhesion		coenzyme binding|GDP-mannose 4,6-dehydratase activity			central_nervous_system(1)	1	Ovarian(93;0.0733)	all_cancers(2;7.64e-19)|all_epithelial(2;3.05e-16)|Colorectal(2;0.00414)|all_hematologic(90;0.00997)|all_lung(73;0.0141)|Lung NSC(90;0.0802)		Epithelial(2;7.61e-06)|all cancers(2;0.000111)|STAD - Stomach adenocarcinoma(2;0.000231)|Colorectal(2;0.00445)|COAD - Colon adenocarcinoma(2;0.0125)|OV - Ovarian serous cystadenocarcinoma(45;0.0563)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	2433044	2433045	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:2433044_2433045insT	uc003mtu.1	+											Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 1572223.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	2622853	2622854	+	IGR	DEL	AA	-	-	rs11316396		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:2622853_2622854delAA								GMDS (377007 upstream) : C6orf195 (118 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	2907716	2907717	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:2907716_2907717delTG								SERPINB9 (4171 upstream) : SERPINB6 (40677 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	3220811	3220811	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:3220811delA								TUBB2A (63028 upstream) : TUBB2B (3685 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	3240436	3240436	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:3240436delA	uc003mvi.1	+											Homo sapiens cDNA FLJ38900 fis, clone NT2NE2001021.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	3682586	3682588	+	IGR	DEL	TCA	-	-	rs151028773		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:3682586_3682588delTCA								SLC22A23 (225793 upstream) : C6orf145 (40248 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	3950082	3950082	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:3950082delT								FAM50B (98532 upstream) : PRPF4B (71487 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	3982562	3982562	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:3982562delA								FAM50B (131012 upstream) : PRPF4B (39007 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	4539541	4539542	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:4539541_4539542delTG								PECI (403710 upstream) : CDYL (166851 downstream)																																			---	---	---	---
CDYL	9425	broad.mit.edu	37	6	4771349	4771349	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:4771349delT	uc003mwi.2	+							NM_001143971	NP_001137443			chromodomain protein, Y chromosome-like isoform						regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)														---	---	---	---
CDYL	9425	broad.mit.edu	37	6	4827892	4827893	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:4827892_4827893insT	uc003mwi.2	+						CDYL_uc003mwj.2_Intron|CDYL_uc003mwk.2_Intron	NM_001143971	NP_001137443			chromodomain protein, Y chromosome-like isoform						regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)														---	---	---	---
CDYL	9425	broad.mit.edu	37	6	4840391	4840391	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:4840391delT	uc003mwi.2	+						CDYL_uc003mwj.2_Intron|CDYL_uc003mwk.2_Intron|CDYL_uc011dhx.1_Intron	NM_001143971	NP_001137443			chromodomain protein, Y chromosome-like isoform						regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)														---	---	---	---
CDYL	9425	broad.mit.edu	37	6	4929462	4929462	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:4929462delT	uc003mwi.2	+						CDYL_uc003mwj.2_Intron|CDYL_uc003mwk.2_Intron|CDYL_uc011dhx.1_Intron|CDYL_uc011dhy.1_Intron	NM_001143971	NP_001137443			chromodomain protein, Y chromosome-like isoform						regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)														---	---	---	---
RPP40	10799	broad.mit.edu	37	6	4997880	4997891	+	Intron	DEL	CATCCATCCATC	-	-	rs72424582		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:4997880_4997891delCATCCATCCATC	uc003mwl.2	-						RPP40_uc003mwm.2_Intron	NM_006638	NP_006629			ribonuclease P 40kDa subunit						tRNA processing	nucleolar ribonuclease P complex	protein binding|ribonuclease P activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0895)																---	---	---	---
LYRM4	57128	broad.mit.edu	37	6	5118120	5118120	+	Intron	DEL	T	-	-	rs113970455		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:5118120delT	uc003mwp.2	-						LYRM4_uc010jnu.2_Intron|LYRM4_uc003mwq.2_Intron|uc003mwn.1_Intron	NM_020408	NP_065141			LYR motif containing 4 isoform 1							mitochondrion|nucleus					0	Ovarian(93;0.11)	all_hematologic(90;0.0901)																---	---	---	---
FARS2	10667	broad.mit.edu	37	6	5422612	5422612	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:5422612delT	uc010jnv.1	+						FARS2_uc003mwr.2_Intron|FARS2_uc003mws.1_Intron	NM_006567	NP_006558			phenylalanyl-tRNA synthetase 2 precursor						phenylalanyl-tRNA aminoacylation|tRNA processing	mitochondrial matrix|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0	Ovarian(93;0.11)	all_hematologic(90;0.0104)			L-Phenylalanine(DB00120)													---	---	---	---
FARS2	10667	broad.mit.edu	37	6	5528436	5528436	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:5528436delA	uc010jnv.1	+						FARS2_uc003mwr.2_Intron	NM_006567	NP_006558			phenylalanyl-tRNA synthetase 2 precursor						phenylalanyl-tRNA aminoacylation|tRNA processing	mitochondrial matrix|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0	Ovarian(93;0.11)	all_hematologic(90;0.0104)			L-Phenylalanine(DB00120)													---	---	---	---
FARS2	10667	broad.mit.edu	37	6	5659629	5659629	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:5659629delA	uc010jnv.1	+						FARS2_uc003mwr.2_Intron	NM_006567	NP_006558			phenylalanyl-tRNA synthetase 2 precursor						phenylalanyl-tRNA aminoacylation|tRNA processing	mitochondrial matrix|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0	Ovarian(93;0.11)	all_hematologic(90;0.0104)			L-Phenylalanine(DB00120)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	5957552	5957552	+	IGR	DEL	A	-	-	rs35772377		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:5957552delA								FARS2 (185736 upstream) : NRN1 (40683 downstream)																																			---	---	---	---
F13A1	2162	broad.mit.edu	37	6	6164419	6164419	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:6164419delA	uc003mwv.2	-						F13A1_uc011dib.1_Intron	NM_000129	NP_000120			coagulation factor XIII A1 subunit precursor						peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)													---	---	---	---
LOC285780	285780	broad.mit.edu	37	6	6396374	6396374	+	Intron	DEL	A	-	-	rs71671755		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:6396374delA	uc003mww.3	-						LOC285780_uc003mwx.2_Intron	NR_026970				Homo sapiens cDNA FLJ33708 fis, clone BRAWH2007862.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	6702638	6702638	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:6702638delA								LY86 (47422 upstream) : RREB1 (405550 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	6708062	6708062	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:6708062delT								LY86 (52846 upstream) : RREB1 (400126 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	6728709	6728709	+	Intron	DEL	A	-	-	rs78580952		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:6728709delA	uc003mxa.2	+											Homo sapiens, clone IMAGE:5189615, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	6895493	6895493	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:6895493delC								LY86 (240277 upstream) : RREB1 (212695 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	6962441	6962441	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:6962441delT								LY86 (307225 upstream) : RREB1 (145747 downstream)																																			---	---	---	---
RREB1	6239	broad.mit.edu	37	6	7162507	7162507	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7162507delA	uc003mxc.2	+						RREB1_uc010jnw.2_Intron|RREB1_uc003mxb.2_Intron|RREB1_uc010jnx.2_Intron|RREB1_uc003mxd.2_Intron	NM_001003698	NP_001003698			ras responsive element binding protein 1 isoform						multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)																---	---	---	---
Unknown	0	broad.mit.edu	37	6	7424836	7424836	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7424836delA								RIOK1 (6568 upstream) : DSP (117034 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	7454770	7454771	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7454770_7454771delAA								RIOK1 (36502 upstream) : DSP (87099 downstream)																																			---	---	---	---
SNRNP48	154007	broad.mit.edu	37	6	7609224	7609224	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7609224delT	uc003mxr.2	+	9					SNRNP48_uc003mxs.2_RNA	NM_152551	NP_689764			U11/U12 snRNP 48K						mRNA processing	cytoplasm|U12-type spliceosomal complex	metal ion binding				0																		---	---	---	---
BMP6	654	broad.mit.edu	37	6	7725324	7725324	+	5'Flank	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7725324delC	uc003mxu.3	+							NM_001718	NP_001709			bone morphogenetic protein 6 preproprotein						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)																	---	---	---	---
BMP6	654	broad.mit.edu	37	6	7746042	7746042	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7746042delA	uc003mxu.3	+							NM_001718	NP_001709			bone morphogenetic protein 6 preproprotein						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)																	---	---	---	---
Unknown	0	broad.mit.edu	37	6	8118477	8118477	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:8118477delA								EEF1E1 (15649 upstream) : SLC35B3 (293256 downstream)																																			---	---	---	---
SLC35B3	51000	broad.mit.edu	37	6	8417605	8417605	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:8417605delT	uc010joe.2	-						SLC35B3_uc003mya.2_Intron|SLC35B3_uc003myc.2_Intron|SLC35B3_uc003myb.2_Intron|SLC35B3_uc011did.1_Intron|SLC35B3_uc003myd.2_Intron	NM_001142541	NP_001136013			solute carrier family 35, member B3						transmembrane transport	Golgi membrane|integral to membrane					0	Ovarian(93;0.0569)																	---	---	---	---
Unknown	0	broad.mit.edu	37	6	8752117	8752118	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:8752117_8752118delCT								HULC (98040 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	8766860	8766861	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:8766860_8766861delTT								HULC (112783 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	9021739	9021739	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:9021739delA								HULC (367662 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	9199294	9199294	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:9199294delT								HULC (545217 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	9419876	9419876	+	IGR	DEL	A	-	-	rs113782303		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:9419876delA								HULC (765799 upstream) : TFAP2A (977041 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	9450101	9450101	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:9450101delA								HULC (796024 upstream) : TFAP2A (946816 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	9933781	9933781	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:9933781delT	uc003myg.1	-						uc010jog.1_5'Flank|uc003myh.1_Intron|uc003myj.1_Intron|uc003myk.1_5'Flank|uc003myn.2_Intron|uc010joi.1_Intron|uc010joh.1_5'Flank|uc011dif.1_Intron|uc011dig.1_Intron					Homo sapiens clone 958LR MRDS1 protein (MRDS1) mRNA, complete cds.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	10115596	10115597	+	5'Flank	INS	-	AC	AC	rs1855362		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10115596_10115597insAC	uc010joj.1	-						uc003myp.1_Intron					Homo sapiens clone 958LR MRDS1 protein (MRDS1) mRNA, complete cds.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	10341749	10341749	+	IGR	DEL	A	-	-	rs76524820		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10341749delA								None (None upstream) : TFAP2A (55168 downstream)																																			---	---	---	---
GCNT2	2651	broad.mit.edu	37	6	10521888	10521888	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10521888delT	uc010joo.2	+						GCNT2_uc010jol.2_Intron|GCNT2_uc010jom.2_Intron|GCNT2_uc010jop.2_Intron|GCNT2_uc003mza.2_Intron|GCNT2_uc010jon.2_Intron	NM_145649	NP_663624			glucosaminyl (N-acetyl) transferase 2,							Golgi membrane|integral to membrane	N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(2)	2	Ovarian(93;0.107)|Breast(50;0.148)	all_hematologic(90;0.107)		KIRC - Kidney renal clear cell carcinoma(1;0.099)|Kidney(1;0.119)														---	---	---	---
PAK1IP1	55003	broad.mit.edu	37	6	10703035	10703035	+	Intron	DEL	T	-	-	rs79574852		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10703035delT	uc003mzg.2	+							NM_017906	NP_060376			PAK1 interacting protein 1						negative regulation of signal transduction	nucleolus|plasma membrane					0	Ovarian(93;0.107)|Breast(50;0.137)	all_hematologic(90;0.117)																---	---	---	---
MAK	4117	broad.mit.edu	37	6	10804977	10804977	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10804977delT	uc003mzl.2	-						SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_Intron|MAK_uc010jou.2_Intron|MAK_uc003mzm.2_Intron|MAK_uc010jov.1_Intron	NM_005906	NP_005897			male germ cell-associated kinase						cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)																---	---	---	---
SYCP2L	221711	broad.mit.edu	37	6	10842352	10842352	+	Intron	DEL	C	-	-	rs144824855	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10842352delC	uc011dim.1	+						TMEM14B_uc010jos.1_Intron					Homo sapiens cDNA FLJ46251 fis, clone TESTI4021713, weakly  similar to Homo sapiens synaptonemal complex protein 2 (SYCP2).							nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)															---	---	---	---
SYCP2L	221711	broad.mit.edu	37	6	10910343	10910343	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10910343delT	uc003mzo.2	+						SYCP2L_uc011din.1_Intron|SYCP2L_uc010jow.2_Intron	NM_001040274	NP_001035364			synaptonemal complex protein 2-like							nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)															---	---	---	---
SYCP2L	221711	broad.mit.edu	37	6	10961312	10961313	+	Intron	DEL	AA	-	-	rs112283703		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10961312_10961313delAA	uc003mzo.2	+						SYCP2L_uc010jow.2_Intron	NM_001040274	NP_001035364			synaptonemal complex protein 2-like							nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)															---	---	---	---
Unknown	0	broad.mit.edu	37	6	11143139	11143139	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:11143139delT								LOC221710 (4175 upstream) : NEDD9 (40392 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	11405080	11405083	+	IGR	DEL	AAAC	-	-	rs144766159	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:11405080_11405083delAAAC								NEDD9 (22499 upstream) : TMEM170B (133428 downstream)																																			---	---	---	---
TMEM170B	100113407	broad.mit.edu	37	6	11570134	11570134	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:11570134delT	uc010jpa.2	+							NM_001100829	NP_001094299			transmembrane protein 170B							integral to membrane					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	11667122	11667122	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:11667122delT								TMEM170B (83366 upstream) : C6orf105 (46768 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	11707754	11707755	+	IGR	INS	-	AC	AC	rs150702698	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:11707754_11707755insAC								TMEM170B (123998 upstream) : C6orf105 (6135 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	11948621	11948621	+	IGR	DEL	C	-	-	rs1205891	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:11948621delC								C6orf105 (169341 upstream) : HIVEP1 (64103 downstream)																																			---	---	---	---
HIVEP1	3096	broad.mit.edu	37	6	12089838	12089838	+	Intron	DEL	T	-	-	rs67061507		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12089838delT	uc003nac.2	+							NM_002114	NP_002105			human immunodeficiency virus type I enhancer						transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)																---	---	---	---
HIVEP1	3096	broad.mit.edu	37	6	12127399	12127399	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12127399delA	uc003nac.2	+						HIVEP1_uc011diq.1_Intron	NM_002114	NP_002105			human immunodeficiency virus type I enhancer						transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)																---	---	---	---
Unknown	0	broad.mit.edu	37	6	12223018	12223018	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12223018delT								HIVEP1 (57787 upstream) : EDN1 (67511 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	12602838	12602839	+	IGR	DEL	AA	-	-	rs77433385	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12602838_12602839delAA								EDN1 (305412 upstream) : PHACTR1 (114049 downstream)																																			---	---	---	---
PHACTR1	221692	broad.mit.edu	37	6	12718911	12718911	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12718911delT	uc010jpc.2	+						PHACTR1_uc011dir.1_Intron|PHACTR1_uc003nag.1_Intron|PHACTR1_uc003nah.1_Intron|PHACTR1_uc003nai.2_Intron	NM_030948	NP_112210			phosphatase and actin regulator 1							cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)															---	---	---	---
PHACTR1	221692	broad.mit.edu	37	6	12963687	12963687	+	Intron	DEL	A	-	-	rs5874396		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12963687delA	uc010jpc.2	+						PHACTR1_uc011dir.1_Intron|PHACTR1_uc003nag.1_Intron|PHACTR1_uc003nah.1_Intron	NM_030948	NP_112210			phosphatase and actin regulator 1							cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)															---	---	---	---
PHACTR1	221692	broad.mit.edu	37	6	13074010	13074010	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:13074010delT	uc010jpc.2	+						PHACTR1_uc011dir.1_Intron|PHACTR1_uc003nag.1_Intron|PHACTR1_uc003nah.1_Intron	NM_030948	NP_112210			phosphatase and actin regulator 1							cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)															---	---	---	---
PHACTR1	221692	broad.mit.edu	37	6	13177808	13177808	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:13177808delA	uc010jpc.2	+						PHACTR1_uc011dir.1_Intron|PHACTR1_uc003nag.1_Intron|PHACTR1_uc003nah.1_Intron	NM_030948	NP_112210			phosphatase and actin regulator 1							cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)															---	---	---	---
GFOD1	54438	broad.mit.edu	37	6	13440421	13440421	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:13440421delT	uc003nat.1	-						GFOD1_uc003nas.1_Intron	NM_018988	NP_061861			glucose-fructose oxidoreductase domain							extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)															---	---	---	---
SIRT5	23408	broad.mit.edu	37	6	13593886	13593886	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:13593886delT	uc003nay.2	+						SIRT5_uc003naw.2_Intron|SIRT5_uc003nax.2_Intron|SIRT5_uc011dit.1_Intron	NM_012241	NP_036373			sirtuin 5 isoform 1						chromatin silencing|protein ADP-ribosylation|protein deacetylation	mitochondrial intermembrane space|mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|zinc ion binding			skin(2)|upper_aerodigestive_tract(1)	3	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.176)		Suramin(DB04786)													---	---	---	---
SIRT5	23408	broad.mit.edu	37	6	13602254	13602254	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:13602254delA	uc003nay.2	+						SIRT5_uc003naw.2_Intron|SIRT5_uc003nax.2_Intron|SIRT5_uc011dit.1_Intron	NM_012241	NP_036373			sirtuin 5 isoform 1						chromatin silencing|protein ADP-ribosylation|protein deacetylation	mitochondrial intermembrane space|mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|zinc ion binding			skin(2)|upper_aerodigestive_tract(1)	3	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.176)		Suramin(DB04786)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	13742076	13742076	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:13742076delT								RANBP9 (30280 upstream) : CCDC90A (48945 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	13782486	13782486	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:13782486delT								RANBP9 (70690 upstream) : CCDC90A (8535 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	14308951	14308952	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:14308951_14308952delAC								CD83 (171805 upstream) : JARID2 (936782 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	14402762	14402763	+	IGR	INS	-	GTT	GTT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:14402762_14402763insGTT								CD83 (265616 upstream) : JARID2 (842971 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	14454519	14454520	+	IGR	DEL	GG	-	-	rs111465166		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:14454519_14454520delGG								CD83 (317373 upstream) : JARID2 (791214 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	14517578	14517578	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:14517578delA								CD83 (380432 upstream) : JARID2 (728156 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	14976218	14976218	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:14976218delT								CD83 (839072 upstream) : JARID2 (269516 downstream)																																			---	---	---	---
JARID2	3720	broad.mit.edu	37	6	15520920	15520921	+	3'UTR	INS	-	CA	CA	rs72837838		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:15520920_15520921insCA	uc003nbj.2	+	18					JARID2_uc011div.1_3'UTR	NM_004973	NP_004964			jumonji, AT rich interactive domain 2 protein						central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)																---	---	---	---
DTNBP1	84062	broad.mit.edu	37	6	15543644	15543644	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:15543644delG	uc003nbm.2	-						DTNBP1_uc003nbl.2_Intron|DTNBP1_uc003nbn.2_Intron|DTNBP1_uc003nbo.2_Intron|DTNBP1_uc003nbp.2_Intron|DTNBP1_uc010jph.2_Intron	NM_032122	NP_115498			dystrobrevin binding protein 1 isoform a						actin cytoskeleton reorganization|cellular membrane organization|neuron projection morphogenesis|post-Golgi vesicle-mediated transport|regulation of dopamine receptor signaling pathway	axon part|BLOC-1 complex|cell junction|dendritic spine|endoplasmic reticulum membrane|endosome membrane|growth cone|melanosome membrane|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|synaptic vesicle membrane|synaptosome	identical protein binding				0	Breast(50;0.0289)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.211)											Hermansky-Pudlak_syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	6	15686482	15686482	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:15686482delA								DTNBP1 (23211 upstream) : MYLIP (442835 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	15904348	15904348	+	IGR	DEL	G	-	-	rs1074130	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:15904348delG								DTNBP1 (241077 upstream) : MYLIP (224969 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	16211073	16211079	+	IGR	DEL	TTTTTTT	-	-	rs35508821		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:16211073_16211079delTTTTTTT								MYLIP (62597 upstream) : GMPR (27732 downstream)																																			---	---	---	---
ATXN1	6310	broad.mit.edu	37	6	16471423	16471424	+	Intron	DEL	AC	-	-	rs35094237		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:16471423_16471424delAC	uc003nbt.2	-						ATXN1_uc010jpi.2_Intron|ATXN1_uc010jpj.1_Intron|ATXN1_uc003nbu.1_Intron	NM_000332	NP_000323			ataxin 1						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)																---	---	---	---
ATXN1	6310	broad.mit.edu	37	6	16602687	16602689	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:16602687_16602689delTTT	uc003nbt.2	-						ATXN1_uc010jpi.2_Intron|ATXN1_uc010jpj.1_Intron|ATXN1_uc003nbu.1_Intron	NM_000332	NP_000323			ataxin 1						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)																---	---	---	---
ATXN1	6310	broad.mit.edu	37	6	16646287	16646287	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:16646287delA	uc003nbt.2	-						ATXN1_uc010jpi.2_Intron|ATXN1_uc010jpj.1_Intron|ATXN1_uc003nbu.1_Intron	NM_000332	NP_000323			ataxin 1						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)																---	---	---	---
ATXN1	6310	broad.mit.edu	37	6	16677100	16677100	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:16677100delT	uc003nbt.2	-						ATXN1_uc010jpi.2_Intron|ATXN1_uc010jpj.1_Intron|ATXN1_uc003nbu.1_Intron	NM_000332	NP_000323			ataxin 1						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)																---	---	---	---
ATXN1	6310	broad.mit.edu	37	6	16742400	16742400	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:16742400delA	uc003nbt.2	-						ATXN1_uc010jpi.2_Intron|ATXN1_uc010jpj.1_Intron|ATXN1_uc003nbu.1_Intron|ATXN1_uc003nbv.1_Intron|ATXN1_uc003nbw.1_Intron	NM_000332	NP_000323			ataxin 1						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)																---	---	---	---
Unknown	0	broad.mit.edu	37	6	17026146	17026146	+	IGR	DEL	T	-	-	rs112745803		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17026146delT								ATXN1 (264425 upstream) : RBM24 (255663 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	17350550	17350550	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17350550delT								RBM24 (56453 upstream) : CAP2 (43186 downstream)																																			---	---	---	---
KIF13A	63971	broad.mit.edu	37	6	17874530	17874530	+	Intron	DEL	G	-	-	rs10714304		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17874530delG	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)															---	---	---	---
KIF13A	63971	broad.mit.edu	37	6	17894736	17894736	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17894736delT	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)															---	---	---	---
KIF13A	63971	broad.mit.edu	37	6	17983726	17983726	+	Intron	DEL	T	-	-	rs60982346		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17983726delT	uc003ncg.3	-						KIF13A_uc003ncf.2_Intron|KIF13A_uc003nch.3_Intron|KIF13A_uc003nci.3_Intron|KIF13A_uc003nck.2_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)															---	---	---	---
KDM1B	221656	broad.mit.edu	37	6	18201544	18201544	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:18201544delT	uc003nco.1	+						KDM1B_uc003ncn.1_Intron	NM_153042	NP_694587			amine oxidase (flavin containing) domain 1						multicellular organismal development|regulation of DNA methylation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-monomethyl-K4 specific)|oxidoreductase activity|zinc ion binding			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	18339317	18339317	+	IGR	DEL	T	-	-	rs67027799		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:18339317delT								DEK (74518 upstream) : RNF144B (48277 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	18486851	18486851	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:18486851delA								RNF144B (18003 upstream) : MIR548A1 (85164 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	18565860	18565860	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:18565860delC	uc003nct.1	+											Homo sapiens cDNA FLJ25799 fis, clone TST07088.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	18566545	18566545	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:18566545delT	uc003nct.1	+											Homo sapiens cDNA FLJ25799 fis, clone TST07088.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	18578738	18578738	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:18578738delG	uc003nct.1	+											Homo sapiens cDNA FLJ25799 fis, clone TST07088.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	18677622	18677623	+	Intron	INS	-	GAAAGATGCTCATGAATCCAA	GAAAGATGCTCATGAATCCAA	rs140725254	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:18677622_18677623insGAAAGATGCTCATGAATCCAA	uc003nct.1	+											Homo sapiens cDNA FLJ25799 fis, clone TST07088.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	18832719	18832719	+	IGR	DEL	A	-	-	rs67444346		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:18832719delA								MIR548A1 (260608 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	18961124	18961125	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:18961124_18961125insT								MIR548A1 (389013 upstream) : ID4 (876492 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	19103138	19103138	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:19103138delA	uc003ncu.1	-											Homo sapiens cDNA FLJ40266 fis, clone TESTI2026461.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	19205148	19205148	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:19205148delG								MIR548A1 (633037 upstream) : ID4 (632469 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	19320294	19320294	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:19320294delA								MIR548A1 (748183 upstream) : ID4 (517323 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	19547975	19547975	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:19547975delT								MIR548A1 (975864 upstream) : ID4 (289642 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	19551140	19551140	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:19551140delA								MIR548A1 (979029 upstream) : ID4 (286477 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	19907596	19907596	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:19907596delT								ID4 (66682 upstream) : MBOAT1 (193339 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	20078183	20078183	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:20078183delA								ID4 (237269 upstream) : MBOAT1 (22752 downstream)																																			---	---	---	---
MBOAT1	154141	broad.mit.edu	37	6	20179164	20179164	+	Intron	DEL	T	-	-	rs113317831		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:20179164delT	uc003ncx.1	-						MBOAT1_uc011dji.1_Intron	NM_001080480	NP_001073949			membrane bound O-acyltransferase domain						phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(95;0.244)|Breast(50;0.0379)|Ovarian(93;0.0473)|all_epithelial(95;0.109)		OV - Ovarian serous cystadenocarcinoma(7;0.00392)|all cancers(50;0.0117)|Epithelial(50;0.0454)															---	---	---	---
MBOAT1	154141	broad.mit.edu	37	6	20195190	20195192	+	Intron	DEL	TTT	-	-	rs112261364		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:20195190_20195192delTTT	uc003ncx.1	-						MBOAT1_uc011dji.1_Intron	NM_001080480	NP_001073949			membrane bound O-acyltransferase domain						phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(95;0.244)|Breast(50;0.0379)|Ovarian(93;0.0473)|all_epithelial(95;0.109)		OV - Ovarian serous cystadenocarcinoma(7;0.00392)|all cancers(50;0.0117)|Epithelial(50;0.0454)															---	---	---	---
Unknown	0	broad.mit.edu	37	6	20317340	20317340	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:20317340delA								MBOAT1 (104670 upstream) : E2F3 (84797 downstream)																																			---	---	---	---
CDKAL1	54901	broad.mit.edu	37	6	20644927	20644927	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:20644927delA	uc003ndc.1	+						CDKAL1_uc003ndd.1_Intron|CDKAL1_uc003nde.1_Intron	NM_017774	NP_060244			CDK5 regulatory subunit associated protein						RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)															---	---	---	---
CDKAL1	54901	broad.mit.edu	37	6	20751472	20751472	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:20751472delT	uc003ndc.1	+						CDKAL1_uc003ndd.1_Intron|CDKAL1_uc003nde.1_Intron	NM_017774	NP_060244			CDK5 regulatory subunit associated protein						RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)															---	---	---	---
CDKAL1	54901	broad.mit.edu	37	6	20839338	20839338	+	Intron	DEL	T	-	-	rs71756649		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:20839338delT	uc003ndc.1	+						CDKAL1_uc003ndd.1_Intron|CDKAL1_uc003nde.1_Intron	NM_017774	NP_060244			CDK5 regulatory subunit associated protein						RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)															---	---	---	---
CDKAL1	54901	broad.mit.edu	37	6	20885201	20885201	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:20885201delA	uc003ndc.1	+						CDKAL1_uc003ndd.1_Intron|CDKAL1_uc003nde.1_Intron	NM_017774	NP_060244			CDK5 regulatory subunit associated protein						RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)															---	---	---	---
Unknown	0	broad.mit.edu	37	6	21310016	21310016	+	IGR	DEL	T	-	-	rs67759650		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:21310016delT								CDKAL1 (77384 upstream) : SOX4 (283956 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	21377693	21377694	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:21377693_21377694insG								CDKAL1 (145061 upstream) : SOX4 (216278 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	21398610	21398611	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:21398610_21398611delAA								CDKAL1 (165978 upstream) : SOX4 (195361 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	21445811	21445811	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:21445811delA								CDKAL1 (213179 upstream) : SOX4 (148161 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	21457729	21457730	+	IGR	DEL	AA	-	-	rs71882643		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:21457729_21457730delAA								CDKAL1 (225097 upstream) : SOX4 (136242 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	21465865	21465865	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:21465865delT								CDKAL1 (233233 upstream) : SOX4 (128107 downstream)																																			---	---	---	---
FLJ22536	401237	broad.mit.edu	37	6	21834934	21834934	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:21834934delA	uc010jpp.1	+						FLJ22536_uc003ndj.2_Intron|FLJ22536_uc011djk.1_Intron|FLJ22536_uc011djj.1_Intron					Homo sapiens cDNA FLJ12803 fis, clone NT2RP2002172.												0																		---	---	---	---
FLJ22536	401237	broad.mit.edu	37	6	21871784	21871784	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:21871784delT	uc010jpp.1	+						FLJ22536_uc003ndj.2_Intron|FLJ22536_uc011djk.1_Intron|FLJ22536_uc011djj.1_Intron|FLJ22536_uc003ndk.1_Intron					Homo sapiens cDNA FLJ12803 fis, clone NT2RP2002172.												0																		---	---	---	---
FLJ22536	401237	broad.mit.edu	37	6	22001449	22001450	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22001449_22001450delAA	uc003ndj.2	+						FLJ22536_uc011djk.1_Intron|FLJ22536_uc003ndl.2_Intron	NR_015410				Homo sapiens cDNA FLJ12803 fis, clone NT2RP2002172.												0																		---	---	---	---
FLJ22536	401237	broad.mit.edu	37	6	22046972	22046973	+	Intron	INS	-	GAA	GAA	rs141559359	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22046972_22046973insGAA	uc003ndj.2	+						FLJ22536_uc011djk.1_Intron|FLJ22536_uc003ndl.2_Intron	NR_015410				Homo sapiens cDNA FLJ12803 fis, clone NT2RP2002172.												0																		---	---	---	---
FLJ22536	401237	broad.mit.edu	37	6	22072351	22072354	+	Intron	DEL	CATC	-	-	rs147020205		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22072351_22072354delCATC	uc003ndj.2	+						FLJ22536_uc011djk.1_Intron|FLJ22536_uc003ndl.2_Intron	NR_015410				Homo sapiens cDNA FLJ12803 fis, clone NT2RP2002172.												0																		---	---	---	---
FLJ22536	401237	broad.mit.edu	37	6	22129001	22129001	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22129001delT	uc003ndj.2	+						FLJ22536_uc011djk.1_Intron|FLJ22536_uc003ndl.2_Intron	NR_015410				Homo sapiens cDNA FLJ12803 fis, clone NT2RP2002172.												0																		---	---	---	---
FLJ22536	401237	broad.mit.edu	37	6	22146732	22146732	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22146732delT	uc003ndj.2	+						FLJ22536_uc011djk.1_Intron|FLJ22536_uc003ndl.2_Intron|FLJ22536_uc003ndn.2_5'Flank|uc003ndm.1_Intron	NR_015410				Homo sapiens cDNA FLJ12803 fis, clone NT2RP2002172.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	22222926	22222926	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22222926delC								FLJ22536 (8194 upstream) : PRL (64553 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	22242202	22242202	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22242202delA								FLJ22536 (27470 upstream) : PRL (45277 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	22257222	22257224	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22257222_22257224delTTT								FLJ22536 (42490 upstream) : PRL (30255 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	22328165	22328165	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22328165delT								PRL (25083 upstream) : HDGFL1 (241513 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	22398021	22398022	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22398021_22398022delTG								PRL (94939 upstream) : HDGFL1 (171656 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	22451035	22451035	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22451035delT								PRL (147953 upstream) : HDGFL1 (118643 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	22558355	22558356	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22558355_22558356delAC								PRL (255273 upstream) : HDGFL1 (11322 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	22621581	22621581	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22621581delA								HDGFL1 (50832 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	22646370	22646373	+	IGR	DEL	TTTG	-	-	rs35439380		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22646370_22646373delTTTG								HDGFL1 (75621 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	22840937	22840937	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22840937delA								HDGFL1 (270188 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	23434061	23434061	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:23434061delT								HDGFL1 (863312 upstream) : NRSN1 (692353 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	24076822	24076822	+	IGR	DEL	T	-	-	rs35809588		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24076822delT								None (None upstream) : NRSN1 (49592 downstream)																																			---	---	---	---
ALDH5A1	7915	broad.mit.edu	37	6	24504939	24504939	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24504939delG	uc003neg.2	+						ALDH5A1_uc003nef.2_Intron	NM_001080	NP_001071			aldehyde dehydrogenase 5A1 isoform 2 precursor						acetate metabolic process|central nervous system development|galactosylceramide metabolic process|gamma-aminobutyric acid catabolic process|glucose metabolic process|glutamate metabolic process|glutamine metabolic process|glutathione metabolic process|glycerophospholipid metabolic process|neurotransmitter catabolic process|neurotransmitter secretion|protein homotetramerization|respiratory electron transport chain|short-chain fatty acid metabolic process|succinate metabolic process	mitochondrial matrix|soluble fraction	succinate-semialdehyde dehydrogenase activity				0					Chlormerodrin(DB00534)|NADH(DB00157)|Succinic acid(DB00139)													---	---	---	---
ALDH5A1	7915	broad.mit.edu	37	6	24522667	24522667	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24522667delA	uc003neg.2	+						ALDH5A1_uc003nef.2_Intron	NM_001080	NP_001071			aldehyde dehydrogenase 5A1 isoform 2 precursor						acetate metabolic process|central nervous system development|galactosylceramide metabolic process|gamma-aminobutyric acid catabolic process|glucose metabolic process|glutamate metabolic process|glutamine metabolic process|glutathione metabolic process|glycerophospholipid metabolic process|neurotransmitter catabolic process|neurotransmitter secretion|protein homotetramerization|respiratory electron transport chain|short-chain fatty acid metabolic process|succinate metabolic process	mitochondrial matrix|soluble fraction	succinate-semialdehyde dehydrogenase activity				0					Chlormerodrin(DB00534)|NADH(DB00157)|Succinic acid(DB00139)													---	---	---	---
KIAA0319	9856	broad.mit.edu	37	6	24589047	24589048	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24589047_24589048delAA	uc011djo.1	-						KIAA0319_uc011djp.1_Intron|KIAA0319_uc003neh.1_Intron|KIAA0319_uc011djq.1_Intron|KIAA0319_uc011djr.1_Intron	NM_014809	NP_055624			KIAA0319 precursor						negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2																		---	---	---	---
KIAA0319	9856	broad.mit.edu	37	6	24599106	24599106	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24599106delA	uc011djo.1	-						KIAA0319_uc011djp.1_Intron|KIAA0319_uc003neh.1_Intron|KIAA0319_uc011djq.1_Intron|KIAA0319_uc011djr.1_Intron	NM_014809	NP_055624			KIAA0319 precursor						negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2																		---	---	---	---
KIAA0319	9856	broad.mit.edu	37	6	24601407	24601407	+	5'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24601407delT	uc011djo.1	-	2					KIAA0319_uc011djp.1_Intron|KIAA0319_uc003neh.1_5'UTR|KIAA0319_uc011djq.1_5'UTR|KIAA0319_uc011djr.1_5'UTR	NM_014809	NP_055624			KIAA0319 precursor						negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2																		---	---	---	---
TDP2	51567	broad.mit.edu	37	6	24654600	24654601	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24654600_24654601insT	uc003nej.2	-						TDP2_uc003nei.2_Intron|TDP2_uc010jpu.1_Intron	NM_016614	NP_057698			TRAF and TNF receptor-associated protein						cell surface receptor linked signaling pathway|double-strand break repair	PML body	5'-tyrosyl-DNA phosphodiesterase activity|magnesium ion binding|nuclease activity|protein binding|transcription corepressor activity			ovary(1)|lung(1)	2													Direct_reversal_of_damage|Editing_and_processing_nucleases					---	---	---	---
LRRC16A	55604	broad.mit.edu	37	6	25434465	25434466	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:25434465_25434466insT	uc011djw.1	+						LRRC16A_uc010jpx.2_Intron|LRRC16A_uc010jpy.2_Intron	NM_017640	NP_060110			leucine rich repeat containing 16A						actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4																		---	---	---	---
LRRC16A	55604	broad.mit.edu	37	6	25435588	25435588	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:25435588delA	uc011djw.1	+						LRRC16A_uc010jpx.2_Intron|LRRC16A_uc010jpy.2_Intron	NM_017640	NP_060110			leucine rich repeat containing 16A						actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4																		---	---	---	---
SLC17A1	6568	broad.mit.edu	37	6	25832936	25832936	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:25832936delA	uc003nfh.3	-						SLC17A1_uc011djy.1_5'Flank|SLC17A1_uc010jqb.1_5'Flank|SLC17A1_uc010jqc.1_5'Flank	NM_005074	NP_005065			solute carrier family 17 (sodium phosphate),						sodium ion transport|urate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(3)|pancreas(1)	4																		---	---	---	---
TRIM38	10475	broad.mit.edu	37	6	25964219	25964220	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:25964219_25964220insG	uc003nfm.2	+						TRIM38_uc003nfn.2_Intron	NM_006355	NP_006346			tripartite motif-containing 38						positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular	signal transducer activity|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	26025980	26025980	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26025980delT								HIST1H4A (3703 upstream) : HIST1H4B (1145 downstream)																																			---	---	---	---
BTN2A3	54718	broad.mit.edu	37	6	26426984	26426985	+	Intron	DEL	TT	-	-	rs76342927		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26426984_26426985delTT	uc011dkl.1	+						BTN2A3_uc011dkm.1_Intron					RecName: Full=Butyrophilin subfamily 2 member A3; Flags: Precursor;												0																		---	---	---	---
BTN2A3	54718	broad.mit.edu	37	6	26427643	26427643	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26427643delA	uc011dkl.1	+						BTN2A3_uc011dkm.1_Intron					RecName: Full=Butyrophilin subfamily 2 member A3; Flags: Precursor;												0																		---	---	---	---
BTN2A1	11120	broad.mit.edu	37	6	26464979	26464979	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26464979delT	uc003nib.1	+						BTN2A1_uc003nic.1_Intron|BTN2A1_uc003nid.1_Intron|BTN2A1_uc011dko.1_Intron|BTN2A1_uc010jqk.1_5'Flank	NM_007049	NP_008980			butyrophilin, subfamily 2, member A1 isoform 1						lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2																		---	---	---	---
BTN2A1	11120	broad.mit.edu	37	6	26465762	26465762	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26465762delA	uc003nib.1	+						BTN2A1_uc003nic.1_Intron|BTN2A1_uc003nid.1_Intron|BTN2A1_uc011dko.1_Intron|BTN2A1_uc010jqk.1_Intron	NM_007049	NP_008980			butyrophilin, subfamily 2, member A1 isoform 1						lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	26481067	26481067	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26481067delT	uc003nie.1	-											Homo sapiens cDNA FLJ40220 fis, clone TESTI2021667.																														---	---	---	---
C6orf41	100133205	broad.mit.edu	37	6	26948524	26948524	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26948524delT	uc003nit.3	+							NR_026775				Homo sapiens cDNA clone IMAGE:4828827.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	27179720	27179720	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27179720delA								HIST1H2AH (64375 upstream) : PRSS16 (35788 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	27402603	27402604	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27402603_27402604insT								ZNF391 (33376 upstream) : ZNF184 (15918 downstream)																																			---	---	---	---
ZNF184	7738	broad.mit.edu	37	6	27427167	27427167	+	Intron	DEL	A	-	-	rs68172379		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27427167delA	uc003njj.2	-						ZNF184_uc010jqv.2_Intron|ZNF184_uc003nji.2_Intron	NM_007149	NP_009080			zinc finger protein 184						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
ZNF184	7738	broad.mit.edu	37	6	27432211	27432211	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27432211delT	uc003njj.2	-						ZNF184_uc010jqv.2_Intron|ZNF184_uc003nji.2_Intron	NM_007149	NP_009080			zinc finger protein 184						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	27571413	27571414	+	IGR	DEL	GC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27571413_27571414delGC								ZNF184 (130516 upstream) : HIST1H2BL (203844 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	27611582	27611582	+	IGR	DEL	A	-	-	rs77540651		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27611582delA								ZNF184 (170685 upstream) : HIST1H2BL (163676 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	27724888	27724888	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27724888delA								ZNF184 (283991 upstream) : HIST1H2BL (50370 downstream)																																			---	---	---	---
HIST1H2AJ	8331	broad.mit.edu	37	6	27783366	27783366	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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																		---	---	---	---
HIST1H2AJ	8331	broad.mit.edu	37	6	27784716	27784716	+	5'Flank	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27784716delC	uc003njn.1	-							NM_021066	NP_066544			histone cluster 1, H2aj						nucleosome assembly	nucleosome|nucleus	DNA binding				0																		---	---	---	---
HIST1H4K	8362	broad.mit.edu	37	6	27799470	27799470	+	5'Flank	DEL	A	-	-	rs71559051		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27799470delA	uc003njr.2	-							NM_003541	NP_003532			histone cluster 1, H4k						CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding				0																		---	---	---	---
PGBD1	84547	broad.mit.edu	37	6	28250656	28250656	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28250656delA	uc003nky.2	+						PGBD1_uc003nkz.2_Intron	NM_032507	NP_115896			piggyBac transposable element derived 1						viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	28418023	28418024	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28418023_28418024delTT								ZSCAN23 (6744 upstream) : GPX6 (53049 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	28587453	28587453	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28587453delT								SCAND3 (32341 upstream) : TRIM27 (283327 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	28609339	28609339	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28609339delA								SCAND3 (54227 upstream) : TRIM27 (261441 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	28619653	28619653	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28619653delA								SCAND3 (64541 upstream) : TRIM27 (251127 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	28671969	28671969	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28671969delT								SCAND3 (116857 upstream) : TRIM27 (198811 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	28780488	28780488	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28780488delT								SCAND3 (225376 upstream) : TRIM27 (90292 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	29355148	29355148	+	IGR	DEL	C	-	-	rs3094549		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29355148delC								OR12D3 (12080 upstream) : OR12D2 (9268 downstream)																																			---	---	---	---
MOG	4340	broad.mit.edu	37	6	29625267	29625267	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29625267delT	uc003nnf.2	+						MOG_uc003qzk.1_Intron|MOG_uc010kle.1_Intron|MOG_uc010klf.1_Intron|MOG_uc003nmy.1_Intron|MOG_uc003nmz.2_Intron|MOG_uc011dlt.1_Intron|MOG_uc003nna.2_Intron|MOG_uc011dlu.1_Intron|MOG_uc011dlv.1_Intron|MOG_uc003nnd.2_Intron|MOG_uc003nne.2_Intron|MOG_uc003nng.2_Intron|MOG_uc003nnh.2_Intron|MOG_uc003nni.2_Intron|MOG_uc003nnj.2_Intron|MOG_uc003nnk.2_Intron	NM_206809	NP_996532			myelin oligodendrocyte glycoprotein isoform						cell adhesion|central nervous system development|positive regulation of MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)	1																		---	---	---	---
HLA-G	3135	broad.mit.edu	37	6	29952448	29952448	+	Intron	DEL	A	-	-	rs66473377		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29952448delA	uc011dmb.1	+							NM_002127	NP_002118			major histocompatibility complex, class I, G						antigen processing and presentation of peptide antigen via MHC class I|cellular defense response|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity			ovary(3)|central_nervous_system(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	30205756	30205756	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30205756delA								TRIM26 (24603 upstream) : HLA-L (21583 downstream)																																			---	---	---	---
ABCF1	23	broad.mit.edu	37	6	30538705	30538705	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30538705delA	uc003nql.2	+						ABCF1_uc003nqk.2_5'Flank|ABCF1_uc003nqm.2_5'Flank|ABCF1_uc010jsb.2_5'Flank	NM_001025091	NP_001020262			ATP-binding cassette, sub-family F, member 1						inflammatory response|translational initiation	nuclear envelope|nuclear envelope|nucleoplasm|nucleoplasm|polysomal ribosome	ATP binding|ATP binding|ATPase activity|protein binding|ribosome binding|translation activator activity|translation factor activity, nucleic acid binding			ovary(2)	2																		---	---	---	---
C6orf134	79969	broad.mit.edu	37	6	30596389	30596389	+	Intron	DEL	T	-	-	rs72140497		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30596389delT	uc003nqu.2	+						C6orf134_uc003nqr.3_Intron|C6orf134_uc003rdc.2_Intron|C6orf134_uc003nqs.3_Intron|C6orf134_uc003rdd.2_Intron|C6orf134_uc003nqt.2_Intron|C6orf134_uc011dmm.1_Intron|C6orf134_uc003nqv.2_Intron	NM_024909	NP_079185			hypothetical protein LOC79969 isoform 2								tubulin N-acetyltransferase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	30644133	30644133	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30644133delT								DHX16 (3303 upstream) : KIAA1949 (35 downstream)																																			---	---	---	---
KIAA1949	170954	broad.mit.edu	37	6	30647249	30647249	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30647249delG	uc003nra.2	-						KIAA1949_uc003nrb.3_Intron	NM_001134870	NP_001128342			phostensin							cytoplasm|cytoskeleton	actin binding				0																		---	---	---	---
KIAA1949	170954	broad.mit.edu	37	6	30648445	30648446	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30648445_30648446insA	uc003nra.2	-						KIAA1949_uc003nrb.3_Intron	NM_001134870	NP_001128342			phostensin							cytoplasm|cytoskeleton	actin binding				0																		---	---	---	---
FLOT1	10211	broad.mit.edu	37	6	30707145	30707146	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30707145_30707146delTT	uc003nrm.2	-						FLOT1_uc011dmr.1_Intron	NM_005803	NP_005794			flotillin 1							centriolar satellite|endosome|integral to membrane|melanosome|membrane fraction					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	30748906	30748906	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30748906delT								IER3 (36579 upstream) : DDR1 (101788 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	31037962	31037962	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31037962delA								HCG22 (10309 upstream) : C6orf15 (41038 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	31449806	31449806	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31449806delT								HCG26 (9622 upstream) : MICB (12852 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	31641044	31641044	+	IGR	DEL	A	-	-	rs34815855		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31641044delA								CSNK2B (817 upstream) : LY6G5C (3417 downstream)																																			---	---	---	---
C6orf27	80737	broad.mit.edu	37	6	31736619	31736620	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31736619_31736620delAA	uc011dog.1	-						C6orf27_uc003nxd.2_Intron	NM_025258	NP_079534			G7c protein precursor							extracellular region				ovary(3)	3																		---	---	---	---
LSM2	57819	broad.mit.edu	37	6	31765402	31765402	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31765402delA	uc003nxg.2	-	5					VARS_uc003nxe.2_5'Flank|VARS_uc011doi.1_5'Flank	NM_021177	NP_067000			LSM2 homolog, U6 small nuclear RNA associated						exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|cytosol|nucleoplasm	U6 snRNA binding				0																		---	---	---	---
C6orf48	50854	broad.mit.edu	37	6	31806485	31806485	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31806485delT	uc003rjx.1	+						C6orf48_uc003rjy.1_Intron|C6orf48_uc003rjz.1_Intron	NM_001040437	NP_001035527			G8 protein												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	31817032	31817032	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31817032delT								C6orf48 (9493 upstream) : NEU1 (9798 downstream)																																			---	---	---	---
C6orf10	10665	broad.mit.edu	37	6	32271092	32271093	+	Intron	DEL	TT	-	-	rs111721563		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32271092_32271093delTT	uc011dpy.1	-							NM_006781	NP_006772			chromosome 6 open reading frame 10							integral to membrane				skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	32586935	32586935	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32586935delT								HLA-DRB1 (29373 upstream) : HLA-DQA1 (18248 downstream)																																			---	---	---	---
HLA-DMB	3109	broad.mit.edu	37	6	32910560	32910560	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32910560delT	uc003ocl.1	-						HLA-DMB_uc003ocj.1_5'Flank|HLA-DMB_uc011dql.1_5'Flank	NM_002118	NP_002109			major histocompatibility complex, class II, DM						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	integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	33099642	33099642	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33099642delA								HLA-DPB1 (2752 upstream) : COL11A2 (30827 downstream)																																			---	---	---	---
RXRB	6257	broad.mit.edu	37	6	33164640	33164640	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33164640delA	uc003odb.2	-						RXRB_uc003odc.2_Intron|RXRB_uc003odd.2_Intron|RXRB_uc011dqr.1_Intron|RXRB_uc011dqs.1_Intron|RXRB_uc003ode.1_Intron|RXRB_uc011dqt.1_Intron|RXRB_uc011dqu.1_Intron	NM_021976	NP_068811			retinoid X receptor, beta						regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	ligand-regulated transcription factor activity|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			ovary(3)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Bexarotene(DB00307)|Etretinate(DB00926)|Tazarotene(DB00799)|Tretinoin(DB00755)													---	---	---	---
RPS18	6222	broad.mit.edu	37	6	33241160	33241160	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33241160delT	uc003odp.1	+						VPS52_uc003odm.1_5'Flank|VPS52_uc003odn.1_5'Flank|VPS52_uc003odo.1_5'Flank|VPS52_uc011dqy.1_5'Flank|VPS52_uc011dqz.1_5'Flank|RPS18_uc010jum.1_Intron|RPS18_uc003odq.1_Intron	NM_022551	NP_072045			ribosomal protein S18						endocrine pancreas development|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	rRNA binding|structural constituent of ribosome				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	33307389	33307389	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33307389delT								DAXX (16596 upstream) : LYPLA2P1 (25126 downstream)																																			---	---	---	---
KIFC1	3833	broad.mit.edu	37	6	33376955	33376955	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33376955delA	uc003oef.3	+						KIFC1_uc011drf.1_Intron|PHF1_uc011drh.1_5'Flank|PHF1_uc003oeh.2_5'Flank|PHF1_uc003oei.2_5'Flank|PHF1_uc010jux.2_5'Flank	NM_002263	NP_002254			kinesin family member C1						blood coagulation|cell division|microtubule-based movement|mitotic sister chromatid segregation	early endosome|microtubule|microtubule associated complex|microtubule organizing center|nucleus|spindle	ATP binding|microtubule motor activity				0																		---	---	---	---
SYNGAP1	8831	broad.mit.edu	37	6	33387730	33387731	+	5'Flank	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33387730_33387731delTC	uc011dri.1	+						CUTA_uc003oej.1_5'Flank|CUTA_uc003oek.1_5'Flank|CUTA_uc003oel.1_5'Flank|CUTA_uc003oem.1_5'Flank|CUTA_uc003oen.1_5'Flank|SYNGAP1_uc003oeo.1_5'Flank|SYNGAP1_uc010juy.2_5'Flank	NM_006772	NP_006763			synaptic Ras GTPase activating protein 1						negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	33458038	33458039	+	IGR	DEL	TT	-	-	rs113375891		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33458038_33458039delTT								ZBTB9 (32720 upstream) : BAK1 (82285 downstream)																																			---	---	---	---
ITPR3	3710	broad.mit.edu	37	6	33607156	33607156	+	Intron	DEL	A	-	-	rs35886253		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33607156delA	uc011drk.1	+							NM_002224	NP_002215			inositol 1,4,5-triphosphate receptor, type 3						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																		---	---	---	---
IP6K3	117283	broad.mit.edu	37	6	33707044	33707044	+	Intron	DEL	A	-	-	rs147078573	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33707044delA	uc010jvf.2	-						IP6K3_uc003ofb.2_Intron	NM_001142883	NP_001136355			inositol hexakisphosphate kinase 3						inositol phosphate biosynthetic process|phosphatidylinositol metabolic process|protein phosphorylation	cytoplasm	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol hexakisphosphate 6-kinase activity|inositol trisphosphate 3-kinase activity				0																		---	---	---	---
GRM4	2914	broad.mit.edu	37	6	34055909	34055909	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:34055909delT	uc003oir.3	-						GRM4_uc011dsn.1_Intron|GRM4_uc010jvh.2_Intron|GRM4_uc010jvi.2_Intron|GRM4_uc011dsl.1_Intron|GRM4_uc003oiq.2_Intron|GRM4_uc011dsm.1_Intron	NM_000841	NP_000832			glutamate receptor, metabotropic 4 precursor						activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	34158925	34158927	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:34158925_34158927delAAA								GRM4 (45056 upstream) : HMGA1 (45650 downstream)																																			---	---	---	---
UHRF1BP1	54887	broad.mit.edu	37	6	34790031	34790032	+	Intron	DEL	TT	-	-	rs72117854		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:34790031_34790032delTT	uc003oju.3	+						UHRF1BP1_uc010jvm.1_Intron|UHRF1BP1_uc010jvn.2_Intron	NM_017754	NP_060224			ICBP90 binding protein 1											ovary(3)	3																		---	---	---	---
ANKS1A	23294	broad.mit.edu	37	6	34955185	34955185	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:34955185delT	uc003ojx.3	+						ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_Intron|ANKS1A_uc010jvp.1_Intron	NM_015245	NP_056060			ankyrin repeat and sterile alpha motif domain							cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4																		---	---	---	---
ANKS1A	23294	broad.mit.edu	37	6	35071882	35071884	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35071882_35071884delAAA	uc010jvp.1	+											SubName: Full=ANKS1A protein;							cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4																		---	---	---	---
TCP11	6954	broad.mit.edu	37	6	35101570	35101570	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35101570delA	uc003okd.2	-						TCP11_uc003ojz.1_Intron|TCP11_uc003oka.2_Intron|TCP11_uc003okb.2_Intron|TCP11_uc003okc.2_Intron|TCP11_uc011dsu.1_Intron|TCP11_uc011dsv.1_Intron|TCP11_uc011dsw.1_Intron	NM_001093728	NP_001087197			t-complex 11 isoform 1						cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(3)|skin(2)	5																		---	---	---	---
TCP11	6954	broad.mit.edu	37	6	35104224	35104224	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35104224delA	uc003okd.2	-						TCP11_uc003ojz.1_Intron|TCP11_uc003oka.2_Intron|TCP11_uc003okb.2_Intron|TCP11_uc003okc.2_Intron|TCP11_uc011dsu.1_Intron|TCP11_uc011dsv.1_Intron|TCP11_uc011dsw.1_Intron	NM_001093728	NP_001087197			t-complex 11 isoform 1						cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(3)|skin(2)	5																		---	---	---	---
TEAD3	7005	broad.mit.edu	37	6	35446960	35446961	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35446960_35446961insT	uc003oku.3	-						TEAD3_uc003okt.2_Intron|TEAD3_uc010jvx.2_Intron	NM_003214	NP_003205			TEA domain family member 3						female pregnancy|hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	35488328	35488329	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35488328_35488329delAA								TULP1 (7681 upstream) : FKBP5 (53033 downstream)																																			---	---	---	---
C6orf81	221481	broad.mit.edu	37	6	35706061	35706063	+	Intron	DEL	GGT	-	-	rs9296162	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35706061_35706063delGGT	uc003ola.2	+						LOC285847_uc010jvy.1_5'Flank|C6orf81_uc003olb.1_Intron	NM_145028	NP_659465			hypothetical protein LOC221481								binding			ovary(1)	1																		---	---	---	---
PNPLA1	285848	broad.mit.edu	37	6	36221264	36221264	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:36221264delT	uc010jwe.1	+						PNPLA1_uc003olw.1_Intron	NM_001145716	NP_001139188			patatin-like phospholipase domain containing 1						lipid catabolic process		hydrolase activity			large_intestine(1)|pancreas(1)|breast(1)|skin(1)	4																		---	---	---	---
STK38	11329	broad.mit.edu	37	6	36482982	36482982	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:36482982delA	uc003omg.2	-						STK38_uc003omh.2_Intron|STK38_uc003omi.2_Intron	NM_007271	NP_009202			serine/threonine kinase 38						intracellular protein kinase cascade|negative regulation of MAP kinase activity	cytoplasm|MLL5-L complex	ATP binding|magnesium ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	6																		---	---	---	---
FGD2	221472	broad.mit.edu	37	6	36984881	36984881	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:36984881delT	uc010jwp.1	+						FGD2_uc003ong.2_Intron|FGD2_uc011dtv.1_Intron	NM_173558	NP_775829			FYVE, RhoGEF and PH domain containing 2						actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			upper_aerodigestive_tract(1)|lung(1)|pancreas(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	37010524	37010524	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:37010524delT								FGD2 (13679 upstream) : PIM1 (127398 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	37073712	37073712	+	IGR	DEL	A	-	-	rs11351583		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:37073712delA								FGD2 (76867 upstream) : PIM1 (64210 downstream)																																			---	---	---	---
TMEM217	221468	broad.mit.edu	37	6	37193150	37193150	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:37193150delA	uc003onl.2	-						TMEM217_uc010jwr.2_Intron|TMEM217_uc010jws.2_Intron|TMEM217_uc003onm.3_Intron	NM_145316	NP_660359			transmembrane protein 217 isoform 1							integral to membrane					0																		---	---	---	---
TBC1D22B	55633	broad.mit.edu	37	6	37279470	37279470	+	Intron	DEL	A	-	-	rs139497764	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:37279470delA	uc003onn.2	+						TBC1D22B_uc010jwt.2_Intron|TBC1D22B_uc003ono.1_Intron|TBC1D22B_uc003onp.2_Intron	NM_017772	NP_060242			TBC1 domain family, member 22B							intracellular	Rab GTPase activator activity				0			OV - Ovarian serous cystadenocarcinoma(102;0.241)															---	---	---	---
Unknown	0	broad.mit.edu	37	6	37493963	37493963	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:37493963delT								C6orf129 (26263 upstream) : MDGA1 (106321 downstream)																																			---	---	---	---
ZFAND3	60685	broad.mit.edu	37	6	38021721	38021721	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38021721delT	uc003onx.2	+							NM_021943	NP_068762			zinc finger, AN1-type domain 3								DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
BTBD9	114781	broad.mit.edu	37	6	38255088	38255088	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38255088delT	uc003ooa.3	-						BTBD9_uc003ony.3_Intron|BTBD9_uc010jwv.2_Intron|BTBD9_uc010jww.2_Intron|BTBD9_uc010jwx.2_Intron	NM_052893	NP_443125			BTB (POZ) domain containing 9 isoform a						cell adhesion						0																		---	---	---	---
BTBD9	114781	broad.mit.edu	37	6	38359410	38359412	+	Intron	DEL	TTT	-	-	rs71740619		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38359410_38359412delTTT	uc003ooa.3	-						BTBD9_uc003ony.3_Intron|BTBD9_uc010jwv.2_Intron|BTBD9_uc010jww.2_Intron|BTBD9_uc010jwx.2_Intron	NM_052893	NP_443125			BTB (POZ) domain containing 9 isoform a						cell adhesion						0																		---	---	---	---
BTBD9	114781	broad.mit.edu	37	6	38360054	38360054	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38360054delA	uc003ooa.3	-						BTBD9_uc003ony.3_Intron|BTBD9_uc010jwv.2_Intron|BTBD9_uc010jww.2_Intron|BTBD9_uc010jwx.2_Intron	NM_052893	NP_443125			BTB (POZ) domain containing 9 isoform a						cell adhesion						0																		---	---	---	---
BTBD9	114781	broad.mit.edu	37	6	38474701	38474701	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38474701delT	uc003ooa.3	-						BTBD9_uc003ony.3_Intron|BTBD9_uc010jwv.2_Intron|BTBD9_uc010jww.2_Intron|BTBD9_uc010jwx.2_Intron	NM_052893	NP_443125			BTB (POZ) domain containing 9 isoform a						cell adhesion						0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	38612183	38612183	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38612183delT								BTBD9 (4259 upstream) : GLO1 (31521 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	38643661	38643661	+	IGR	DEL	T	-	-	rs71885009		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38643661delT								BTBD9 (35737 upstream) : GLO1 (43 downstream)																																			---	---	---	---
DNAH8	1769	broad.mit.edu	37	6	38808685	38808685	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38808685delT	uc003ooe.1	+							NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21																		---	---	---	---
DNAH8	1769	broad.mit.edu	37	6	38919515	38919515	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38919515delT	uc003ooe.1	+						DNAH8_uc003oog.1_Intron|uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	39128399	39128399	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:39128399delT								C6orf64 (45534 upstream) : KCNK5 (28349 downstream)																																			---	---	---	---
KCNK5	8645	broad.mit.edu	37	6	39192664	39192665	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:39192664_39192665delTT	uc003oon.2	-							NM_003740	NP_003731			potassium channel, subfamily K, member 5						excretion	integral to plasma membrane	potassium channel activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2																		---	---	---	---
KIF6	221458	broad.mit.edu	37	6	39356698	39356698	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:39356698delC	uc003oot.2	-						KIF6_uc003oos.2_Intron|KIF6_uc010jwz.1_Intron|KIF6_uc010jxa.1_Intron|KIF6_uc011dua.1_Intron|KIF6_uc010jxb.1_Intron	NM_145027	NP_659464			kinesin family member 6						microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			breast(2)|central_nervous_system(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	40221631	40221632	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:40221631_40221632insT								MOCS1 (319377 upstream) : TDRG1 (124531 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	40258049	40258049	+	IGR	DEL	G	-	-	rs1041126	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:40258049delG								MOCS1 (355795 upstream) : TDRG1 (88114 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	40581217	40581218	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:40581217_40581218insT								LRFN2 (26091 upstream) : UNC5CL (413554 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	40669769	40669769	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:40669769delA								LRFN2 (114643 upstream) : UNC5CL (325003 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	40918616	40918616	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:40918616delT								LRFN2 (363490 upstream) : UNC5CL (76156 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	41432855	41432855	+	IGR	DEL	A	-	-	rs35626529		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41432855delA								NCR2 (114230 upstream) : FOXP4 (81309 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	41455492	41455492	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41455492delA								NCR2 (136867 upstream) : FOXP4 (58672 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	41578671	41578671	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41578671delA								FOXP4 (8550 upstream) : MDFI (26259 downstream)																																			---	---	---	---
PGC	5225	broad.mit.edu	37	6	41713900	41713901	+	Intron	INS	-	A	A	rs112843975		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41713900_41713901insA	uc003ora.1	-							NM_002630	NP_002621			progastricsin (pepsinogen C) precursor						digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)															---	---	---	---
FRS3	10817	broad.mit.edu	37	6	41744373	41744373	+	Intron	DEL	G	-	-	rs35384172		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41744373delG	uc003orc.1	-							NM_006653	NP_006644			fibroblast growth factor receptor substrate 3						fibroblast growth factor receptor signaling pathway	plasma membrane	fibroblast growth factor receptor binding|insulin receptor binding			ovary(2)	2	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;8.38e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)															---	---	---	---
USP49	25862	broad.mit.edu	37	6	41791569	41791569	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41791569delG	uc003ori.2	-							NM_018561	NP_061031			ubiquitin thioesterase 49						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)															---	---	---	---
USP49	25862	broad.mit.edu	37	6	41805368	41805370	+	Intron	DEL	AAC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41805368_41805370delAAC	uc003ori.2	-							NM_018561	NP_061031			ubiquitin thioesterase 49						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)															---	---	---	---
MED20	9477	broad.mit.edu	37	6	41878382	41878383	+	Intron	DEL	AG	-	-	rs70987543		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41878382_41878383delAG	uc003ork.2	-						MED20_uc003orj.2_Intron|MED20_uc011duh.1_Intron|MED20_uc011dui.1_Intron|MED20_uc011duj.1_Intron	NM_004275	NP_004266			Trf (TATA binding protein-related						regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	mediator complex	DNA-directed RNA polymerase activity|protein binding				0	Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000367)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)															---	---	---	---
TRERF1	55809	broad.mit.edu	37	6	42239862	42239862	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:42239862delA	uc003osd.2	-						TRERF1_uc011duq.1_5'Flank|TRERF1_uc003osb.2_Intron|TRERF1_uc003osc.2_Intron|TRERF1_uc003ose.2_Intron|TRERF1_uc010jxu.1_Intron	NM_033502	NP_277037			transcriptional regulating factor 1						cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)															---	---	---	---
TRERF1	55809	broad.mit.edu	37	6	42350436	42350436	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:42350436delT	uc003osd.2	-						TRERF1_uc003osb.2_Intron|TRERF1_uc003osc.2_Intron|TRERF1_uc003ose.2_Intron|TRERF1_uc010jxu.1_Intron	NM_033502	NP_277037			transcriptional regulating factor 1						cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)															---	---	---	---
Unknown	0	broad.mit.edu	37	6	42718074	42718074	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:42718074delT								TBCC (4190 upstream) : KIAA0240 (31716 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	42912398	42912399	+	IGR	DEL	AA	-	-	rs35479441		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:42912398_42912399delAA								CNPY3 (5391 upstream) : GNMT (16101 downstream)																																			---	---	---	---
KLC4	89953	broad.mit.edu	37	6	43036384	43036384	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43036384delA	uc003otv.1	+						KLC4_uc003otr.1_Intron|KLC4_uc011dvd.1_Intron|KLC4_uc003otw.1_Intron|KLC4_uc003otx.1_Intron|KLC4_uc003oty.1_Intron|KLC4_uc003otz.1_Intron	NM_201521	NP_958929			kinesin-like 8 isoform a							cytoplasm|kinesin complex|microtubule	microtubule motor activity|protein binding			skin(3)|ovary(1)	4			all cancers(41;0.00169)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0376)|KIRC - Kidney renal clear cell carcinoma(2;0.0453)															---	---	---	---
ZNF318	24149	broad.mit.edu	37	6	43287633	43287633	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43287633delA	uc003ouw.2	-							NM_014345				zinc finger protein 318						meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)															---	---	---	---
ZNF318	24149	broad.mit.edu	37	6	43320004	43320004	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43320004delA	uc003oux.2	-						ZNF318_uc003ouw.2_Intron	NM_014345	NP_055160			zinc finger protein 318						meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)															---	---	---	---
XPO5	57510	broad.mit.edu	37	6	43499536	43499536	+	Intron	DEL	T	-	-	rs112626043		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43499536delT	uc003ovp.2	-							NM_020750	NP_065801			exportin 5						gene silencing by RNA	cytosol|nucleoplasm	protein binding|tRNA binding			skin(2)|breast(1)|kidney(1)	4	all_cancers(18;2.08e-05)|Lung NSC(15;0.000907)|all_lung(25;0.00243)		all cancers(41;0.000321)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0524)															---	---	---	---
VEGFA	7422	broad.mit.edu	37	6	43747970	43747971	+	Intron	INS	-	GT	GT	rs140869392	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43747970_43747971insGT	uc003owh.2	+						VEGFA_uc003owd.2_Intron|VEGFA_uc003owf.2_Intron|VEGFA_uc003owe.2_Intron|VEGFA_uc003owg.2_Intron|VEGFA_uc003owi.2_Intron|VEGFA_uc003owj.2_Intron|VEGFA_uc010jyx.2_Intron|VEGFA_uc003owk.2_Intron	NM_001025366	NP_001020537			vascular endothelial growth factor A isoform a						basophil chemotaxis|cellular response to hypoxia|induction of positive chemotaxis|induction of positive chemotaxis|platelet activation|platelet degranulation|platelet-derived growth factor receptor signaling pathway|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of cell adhesion|positive regulation of cell division|positive regulation of endothelial cell proliferation|positive regulation of leukocyte migration|positive regulation of mast cell chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|positive regulation of vascular permeability|regulation of cell shape|vascular endothelial growth factor receptor signaling pathway|vasculogenesis	cell surface|extracellular space|membrane|platelet alpha granule lumen	cell surface binding|chemoattractant activity|cytokine activity|fibronectin binding|growth factor activity|heparin binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|vascular endothelial growth factor receptor 1 binding|vascular endothelial growth factor receptor 2 binding|vascular endothelial growth factor receptor binding			ovary(1)|breast(1)	2	all_cancers(18;5.46e-07)|all_epithelial(2;5.96e-08)|Lung NSC(15;0.000157)|all_lung(25;0.000486)|Hepatocellular(11;0.00309)		all cancers(41;0.000413)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0742)|OV - Ovarian serous cystadenocarcinoma(102;0.196)		Atorvastatin(DB01076)|Bevacizumab(DB00112)|Carvedilol(DB01136)|Ginkgo biloba(DB01381)|Gliclazide(DB01120)|Minocycline(DB01017)|Ranibizumab(DB01270)|Simvastatin(DB00641)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	44038687	44038687	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44038687delT	uc003owm.1	-											Homo sapiens cDNA: FLJ21083 fis, clone CAS03150.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	44163200	44163200	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44163200delT								CAPN11 (11061 upstream) : SLC29A1 (24042 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	44170166	44170166	+	IGR	DEL	T	-	-	rs113635580		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44170166delT								CAPN11 (18027 upstream) : SLC29A1 (17076 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	44462677	44462688	+	IGR	DEL	AAAAAAAAAAAA	-	-	rs71781879		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44462677_44462688delAAAAAAAAAAAA								CDC5L (47898 upstream) : SUPT3H (314366 downstream)																																			---	---	---	---
SUPT3H	8464	broad.mit.edu	37	6	44781313	44781314	+	Intron	INS	-	A	A	rs11376898		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44781313_44781314insA	uc003oxn.1	-							NM_003599	NP_003590			suppressor of Ty 3 homolog isoform 1						histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3																		---	---	---	---
SUPT3H	8464	broad.mit.edu	37	6	44828545	44828545	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44828545delA	uc003oxo.2	-						SUPT3H_uc003oxn.1_Intron|SUPT3H_uc011dvv.1_Intron|SUPT3H_uc003oxp.2_Intron|SUPT3H_uc011dvw.1_Intron	NM_181356	NP_852001			suppressor of Ty 3 homolog isoform 2						histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3																		---	---	---	---
SUPT3H	8464	broad.mit.edu	37	6	44837790	44837790	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44837790delT	uc003oxo.2	-						SUPT3H_uc003oxn.1_Intron|SUPT3H_uc011dvv.1_Intron|SUPT3H_uc003oxp.2_Intron|SUPT3H_uc011dvw.1_Intron	NM_181356	NP_852001			suppressor of Ty 3 homolog isoform 2						histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3																		---	---	---	---
SUPT3H	8464	broad.mit.edu	37	6	44851986	44851986	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44851986delA	uc003oxo.2	-						SUPT3H_uc003oxn.1_Intron|SUPT3H_uc011dvv.1_Intron|SUPT3H_uc003oxp.2_Intron|SUPT3H_uc011dvw.1_Intron	NM_181356	NP_852001			suppressor of Ty 3 homolog isoform 2						histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3																		---	---	---	---
SUPT3H	8464	broad.mit.edu	37	6	44983535	44983536	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44983535_44983536delCA	uc003oxo.2	-						SUPT3H_uc003oxn.1_Intron|SUPT3H_uc011dvv.1_Intron|SUPT3H_uc003oxp.2_Intron|SUPT3H_uc011dvw.1_Intron	NM_181356	NP_852001			suppressor of Ty 3 homolog isoform 2						histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3																		---	---	---	---
SUPT3H	8464	broad.mit.edu	37	6	45178798	45178798	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:45178798delT	uc003oxo.2	-						SUPT3H_uc003oxn.1_Intron|SUPT3H_uc011dvv.1_Intron|SUPT3H_uc003oxp.2_Intron	NM_181356	NP_852001			suppressor of Ty 3 homolog isoform 2						histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3																		---	---	---	---
SUPT3H	8464	broad.mit.edu	37	6	45217189	45217190	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:45217189_45217190delAA	uc003oxo.2	-						SUPT3H_uc003oxn.1_Intron|SUPT3H_uc011dvv.1_Intron|SUPT3H_uc003oxp.2_Intron	NM_181356	NP_852001			suppressor of Ty 3 homolog isoform 2						histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3																		---	---	---	---
RUNX2	860	broad.mit.edu	37	6	45373525	45373525	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:45373525delA	uc011dvx.1	+						RUNX2_uc011dvy.1_Intron	NM_001024630	NP_001019801			runt-related transcription factor 2 isoform a						negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3																		---	---	---	---
RUNX2	860	broad.mit.edu	37	6	45411190	45411190	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:45411190delA	uc011dvx.1	+						RUNX2_uc011dvy.1_Intron|RUNX2_uc003oxt.2_Intron	NM_001024630	NP_001019801			runt-related transcription factor 2 isoform a						negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3																		---	---	---	---
RUNX2	860	broad.mit.edu	37	6	45475340	45475340	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:45475340delT	uc011dvx.1	+						RUNX2_uc011dvy.1_Intron|RUNX2_uc003oxt.2_Intron	NM_001024630	NP_001019801			runt-related transcription factor 2 isoform a						negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3																		---	---	---	---
CLIC5	53405	broad.mit.edu	37	6	45919779	45919779	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:45919779delT	uc003oxv.3	-						CLIC5_uc003oxu.3_Intron|CLIC5_uc003oxx.2_Intron	NM_001114086	NP_001107558			chloride intracellular channel 5 isoform a						female pregnancy	actin cytoskeleton|cell cortex|chloride channel complex|Golgi apparatus|Golgi apparatus|insoluble fraction|microtubule organizing center	protein binding|voltage-gated chloride channel activity			ovary(1)|skin(1)	2																		---	---	---	---
ENPP5	59084	broad.mit.edu	37	6	46138128	46138129	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46138128_46138129delTT	uc003oxz.1	-						ENPP5_uc003oya.1_Intron|ENPP5_uc011dvz.1_Intron|ENPP5_uc010jzc.1_Intron	NM_021572	NP_067547			ectonucleotide pyrophosphatase/phosphodiesterase							extracellular region|integral to membrane	hydrolase activity				0																		---	---	---	---
RCAN2	10231	broad.mit.edu	37	6	46296836	46296836	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46296836delA	uc003oyc.1	-						RCAN2_uc003oyd.1_Intron					SubName: Full=cDNA, FLJ92723, highly similar to Homo sapiens Down syndrome critical region gene 1-like 1 (DSCR1L1), mRNA;						calcium-mediated signaling|central nervous system development		nucleotide binding|protein phosphatase 2B binding				0																		---	---	---	---
RCAN2	10231	broad.mit.edu	37	6	46365109	46365110	+	Intron	INS	-	AC	AC	rs147376879	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46365109_46365110insAC	uc003oyc.1	-						RCAN2_uc003oyd.1_Intron					SubName: Full=cDNA, FLJ92723, highly similar to Homo sapiens Down syndrome critical region gene 1-like 1 (DSCR1L1), mRNA;						calcium-mediated signaling|central nervous system development		nucleotide binding|protein phosphatase 2B binding				0																		---	---	---	---
PLA2G7	7941	broad.mit.edu	37	6	46702586	46702587	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46702586_46702587delAG	uc010jzf.2	-						PLA2G7_uc010jzg.1_Intron|PLA2G7_uc011dwd.1_Intron|PLA2G7_uc011dwe.1_Intron	NM_005084	NP_005075			phospholipase A2, group VII						inflammatory response|lipid catabolic process	extracellular space	1-alkyl-2-acetylglycerophosphocholine esterase activity|phospholipid binding				0			Lung(136;0.192)															---	---	---	---
LOC100287718	100287718	broad.mit.edu	37	6	46721696	46721697	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46721696_46721697insT	uc011dwf.1	+							NM_001162435	NP_001155907			hypothetical protein LOC100287718												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	46753103	46753103	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46753103delT								LOC100287718 (26162 upstream) : MEP1A (7991 downstream)																																			---	---	---	---
GPR116	221395	broad.mit.edu	37	6	46880115	46880115	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46880115delA	uc003oyo.3	-						GPR116_uc003oyp.3_Intron|GPR116_uc003oyq.3_Intron|GPR116_uc003oyr.2_Intron	NM_001098518	NP_001091988			G-protein coupled receptor 116 precursor						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)															---	---	---	---
GPR116	221395	broad.mit.edu	37	6	46909387	46909388	+	Intron	DEL	TT	-	-	rs35605004		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46909387_46909388delTT	uc003oyq.3	-							NM_015234	NP_056049			G-protein coupled receptor 116 precursor						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)															---	---	---	---
Unknown	0	broad.mit.edu	37	6	46927551	46927552	+	IGR	INS	-	GAAT	GAAT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46927551_46927552insGAAT								GPR116 (4876 upstream) : GPR110 (40262 downstream)																																			---	---	---	---
GPR111	222611	broad.mit.edu	37	6	47630702	47630703	+	Intron	INS	-	A	A	rs145306277	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:47630702_47630703insA	uc010jzj.1	+						GPR111_uc010jzk.1_Intron|GPR111_uc003oyy.2_Intron	NM_153839	NP_722581			G-protein coupled receptor 111						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	47742113	47742113	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:47742113delT								GPR115 (52356 upstream) : OPN5 (7685 downstream)																																			---	---	---	---
OPN5	221391	broad.mit.edu	37	6	47746798	47746798	+	5'Flank	DEL	A	-	-	rs73469739	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:47746798delA	uc003ozc.2	+							NM_181744	NP_859528			opsin 5 isoform 1						phototransduction|protein-chromophore linkage|visual perception	integral to membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1																		---	---	---	---
C6orf138	442213	broad.mit.edu	37	6	47858452	47858452	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:47858452delG	uc011dwm.1	-						C6orf138_uc011dwn.1_Intron	NM_001013732	NP_001013754			hypothetical protein LOC442213							integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	48252869	48252869	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:48252869delA								C6orf138 (173926 upstream) : None (None downstream)																																			---	---	---	---
CENPQ	55166	broad.mit.edu	37	6	49456585	49456585	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:49456585delT	uc003ozh.1	+							NM_018132	NP_060602			centromere protein Q						CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	chromosome, centromeric region|cytosol|nucleoplasm				ovary(2)	2	Lung NSC(77;0.0128)																	---	---	---	---
Unknown	0	broad.mit.edu	37	6	49641779	49641779	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:49641779delT								RHAG (37192 upstream) : CRISP2 (18293 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	49721978	49721978	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:49721978delA								CRISP3 (9922 upstream) : PGK2 (31388 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	50003671	50003671	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:50003671delA								DEFB110 (13977 upstream) : DEFB112 (7618 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	50147491	50147492	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:50147491_50147492delTT								DEFB112 (131127 upstream) : TFAP2D (533765 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	50276986	50276986	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:50276986delA								DEFB112 (260622 upstream) : TFAP2D (404271 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	50398538	50398539	+	IGR	DEL	TA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:50398538_50398539delTA								DEFB112 (382174 upstream) : TFAP2D (282718 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	50507186	50507186	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:50507186delT								DEFB112 (490822 upstream) : TFAP2D (174071 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	50522270	50522270	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:50522270delA								DEFB112 (505906 upstream) : TFAP2D (158987 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	51058191	51058191	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51058191delT								TFAP2B (242866 upstream) : PKHD1 (421954 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	51143920	51143920	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51143920delG								TFAP2B (328595 upstream) : PKHD1 (336225 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	51397499	51397499	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51397499delT								TFAP2B (582174 upstream) : PKHD1 (82646 downstream)																																			---	---	---	---
PKHD1	5314	broad.mit.edu	37	6	51606194	51606194	+	Intron	DEL	T	-	-	rs71894206		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51606194delT	uc003pah.1	-						PKHD1_uc010jzn.1_Intron|PKHD1_uc003pai.2_Intron	NM_138694	NP_619639			fibrocystin isoform 1						cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)																	---	---	---	---
PKHD1	5314	broad.mit.edu	37	6	51671022	51671023	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51671022_51671023delAA	uc003pah.1	-						PKHD1_uc010jzn.1_Intron|PKHD1_uc003pai.2_Intron	NM_138694	NP_619639			fibrocystin isoform 1						cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)																	---	---	---	---
PKHD1	5314	broad.mit.edu	37	6	51832812	51832812	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51832812delT	uc003pah.1	-						PKHD1_uc003pai.2_Intron	NM_138694	NP_619639			fibrocystin isoform 1						cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)																	---	---	---	---
PKHD1	5314	broad.mit.edu	37	6	51844665	51844665	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51844665delT	uc003pah.1	-						PKHD1_uc003pai.2_Intron	NM_138694	NP_619639			fibrocystin isoform 1						cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)																	---	---	---	---
PKHD1	5314	broad.mit.edu	37	6	51952233	51952233	+	5'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51952233delT	uc003pah.1	-	1					PKHD1_uc003pai.2_5'UTR	NM_138694	NP_619639			fibrocystin isoform 1						cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)																	---	---	---	---
Unknown	0	broad.mit.edu	37	6	52098848	52098848	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52098848delT								IL17A (43412 upstream) : IL17F (2636 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	52161718	52161720	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52161718_52161720delTTT								MCM3 (12136 upstream) : PAQR8 (65206 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	52273224	52273224	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52273224delT								PAQR8 (650 upstream) : EFHC1 (11770 downstream)																																			---	---	---	---
TMEM14A	28978	broad.mit.edu	37	6	52543110	52543117	+	Intron	DEL	TGTGTGTA	-	-	rs72938809		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52543110_52543117delTGTGTGTA	uc003pax.2	+							NM_014051	NP_054770			transmembrane protein 14A							integral to membrane					0	Lung NSC(77;0.118)																	---	---	---	---
Unknown	0	broad.mit.edu	37	6	52554408	52554408	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52554408delA								TMEM14A (3025 upstream) : GSTA2 (60480 downstream)																																			---	---	---	---
FBXO9	26268	broad.mit.edu	37	6	52962507	52962507	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52962507delT	uc003pbo.2	+						FBXO9_uc003pbk.2_Intron|FBXO9_uc003pbl.2_Intron|FBXO9_uc003pbm.2_Intron|FBXO9_uc003pbn.2_Intron	NM_012347	NP_036479			F-box only protein 9 isoform 1							ubiquitin ligase complex	ubiquitin-protein ligase activity			pancreas(1)	1	Lung NSC(77;0.103)																	---	---	---	---
FBXO9	26268	broad.mit.edu	37	6	52964547	52964547	+	3'UTR	DEL	A	-	-	rs76374032		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52964547delA	uc003pbo.2	+	13					FBXO9_uc003pbk.2_3'UTR|FBXO9_uc003pbl.2_3'UTR|FBXO9_uc003pbm.2_3'UTR|FBXO9_uc003pbn.2_3'UTR	NM_012347	NP_036479			F-box only protein 9 isoform 1							ubiquitin ligase complex	ubiquitin-protein ligase activity			pancreas(1)	1	Lung NSC(77;0.103)																	---	---	---	---
Unknown	0	broad.mit.edu	37	6	53032380	53032380	+	IGR	DEL	A	-	-	rs150853744	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:53032380delA								GCM1 (18756 upstream) : ELOVL5 (99816 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	53128280	53128283	+	IGR	DEL	AAAA	-	-	rs148570323		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:53128280_53128283delAAAA								GCM1 (114656 upstream) : ELOVL5 (3913 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	53219905	53219905	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:53219905delA								ELOVL5 (5963 upstream) : GCLC (142235 downstream)																																			---	---	---	---
GCLC	2729	broad.mit.edu	37	6	53385958	53385958	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:53385958delT	uc003pbw.1	-						GCLC_uc003pbx.2_Intron	NM_001498	NP_001489			glutamate-cysteine ligase, catalytic subunit						anti-apoptosis|cell redox homeostasis|cysteine metabolic process|glutamate metabolic process|glutathione biosynthetic process|negative regulation of transcription, DNA-dependent|regulation of blood vessel size|response to heat|response to hormone stimulus|response to oxidative stress|xenobiotic metabolic process	cytosol	ADP binding|ATP binding|coenzyme binding|glutamate binding|glutamate-cysteine ligase activity|magnesium ion binding			ovary(1)|central_nervous_system(1)	2	Lung NSC(77;0.0137)				L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	53647799	53647799	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:53647799delG								KLHL31 (117293 upstream) : LRRC1 (11979 downstream)																																			---	---	---	---
LRRC1	55227	broad.mit.edu	37	6	53768335	53768335	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:53768335delT	uc003pcd.1	+							NM_018214	NP_060684			leucine rich repeat containing 1							cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)														---	---	---	---
C6orf142	90523	broad.mit.edu	37	6	53955494	53955495	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:53955494_53955495delAG	uc003pcg.3	+						C6orf142_uc003pcf.2_Intron|C6orf142_uc003pch.3_Intron	NM_138569	NP_612636			hypothetical protein LOC90523							nuclear envelope|PML body	protein binding				0	Lung NSC(77;0.0317)																	---	---	---	---
Unknown	0	broad.mit.edu	37	6	54166209	54166209	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:54166209delA								C6orf142 (35135 upstream) : TINAG (6994 downstream)																																			---	---	---	---
TINAG	27283	broad.mit.edu	37	6	54176842	54176842	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:54176842delT	uc003pcj.2	+						TINAG_uc003pci.2_Intron|TINAG_uc010jzt.2_Intron	NM_014464	NP_055279			tubulointerstitial nephritis antigen						cell adhesion|immune response|Malpighian tubule morphogenesis|proteolysis	basement membrane	cysteine-type endopeptidase activity|nucleotide binding|polysaccharide binding|scavenger receptor activity			ovary(3)|central_nervous_system(1)	4	Lung NSC(77;0.0518)		LUSC - Lung squamous cell carcinoma(124;0.246)															---	---	---	---
Unknown	0	broad.mit.edu	37	6	54293988	54293988	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:54293988delA								TINAG (39038 upstream) : FAM83B (417581 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	54359822	54359822	+	IGR	DEL	T	-	-	rs76491984	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:54359822delT								TINAG (104872 upstream) : FAM83B (351747 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	54458776	54458776	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:54458776delT								TINAG (203826 upstream) : FAM83B (252793 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	54471654	54471654	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:54471654delA								TINAG (216704 upstream) : FAM83B (239915 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	54625137	54625137	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:54625137delA								TINAG (370187 upstream) : FAM83B (86432 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	54625393	54625396	+	IGR	DEL	TTTT	-	-	rs34004391		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:54625393_54625396delTTTT								TINAG (370443 upstream) : FAM83B (86173 downstream)																																			---	---	---	---
FAM83B	222584	broad.mit.edu	37	6	54708924	54708924	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:54708924delA	uc003pck.2	+							NM_001010872	NP_001010872			hypothetical protein LOC222584											ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)																	---	---	---	---
HCRTR2	3062	broad.mit.edu	37	6	55017357	55017357	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:55017357delA	uc010jzu.1	+											Homo sapiens orexin receptor 2 variant 1A mRNA, 5' UTR and partial cds, alternatively spliced.						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)															---	---	---	---
Unknown	0	broad.mit.edu	37	6	55185320	55185321	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:55185320_55185321delAA								HCRTR2 (37904 upstream) : GFRAL (6946 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	55274697	55274697	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:55274697delT								GFRAL (7406 upstream) : HMGCLL1 (24476 downstream)																																			---	---	---	---
HMGCLL1	54511	broad.mit.edu	37	6	55381523	55381523	+	Intron	DEL	A	-	-	rs71693355		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:55381523delA	uc003pcn.2	-						HMGCLL1_uc003pco.2_Intron|HMGCLL1_uc010jzx.2_Intron|HMGCLL1_uc011dxc.1_Intron|HMGCLL1_uc011dxd.1_Intron|HMGCLL1_uc011dxe.1_Intron|HMGCLL1_uc003pcp.2_Intron	NM_019036	NP_061909			3-hydroxymethyl-3-methylglutaryl-Coenzyme A								hydroxymethylglutaryl-CoA lyase activity|metal ion binding			skin(2)|ovary(1)|pancreas(1)	4	Lung NSC(77;0.0875)		LUSC - Lung squamous cell carcinoma(124;0.23)															---	---	---	---
Unknown	0	broad.mit.edu	37	6	55456355	55456355	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:55456355delT								HMGCLL1 (12343 upstream) : BMP5 (163885 downstream)																																			---	---	---	---
DST	667	broad.mit.edu	37	6	56497994	56497994	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56497994delT	uc003pdf.2	-						DST_uc003pcz.3_Intron|DST_uc011dxj.1_Intron|DST_uc011dxk.1_Intron|DST_uc003pcy.3_Intron|DST_uc003pdb.2_Intron|DST_uc003pdc.3_Intron|DST_uc003pdd.3_Intron	NM_001144769	NP_001138241			dystonin isoform 2						cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)															---	---	---	---
DST	667	broad.mit.edu	37	6	56793812	56793812	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56793812delT	uc003pdf.2	-							NM_001144769	NP_001138241			dystonin isoform 2						cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)															---	---	---	---
BEND6	221336	broad.mit.edu	37	6	56831708	56831708	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56831708delA	uc010kab.2	+						BEND6_uc003pdg.2_Intron	NM_152731	NP_689944			BEN domain containing 6												0																		---	---	---	---
ZNF451	26036	broad.mit.edu	37	6	56961295	56961295	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56961295delT	uc003pdm.1	+						ZNF451_uc003pdl.2_Intron|ZNF451_uc003pdn.1_Intron|ZNF451_uc011dxn.1_Intron|ZNF451_uc003pdk.1_Intron|ZNF451_uc003pdo.2_Intron	NM_001031623	NP_001026794			zinc finger protein 451 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)															---	---	---	---
RAB23	51715	broad.mit.edu	37	6	57064843	57064843	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57064843delA	uc003pds.2	-						RAB23_uc003pdt.2_Intron|RAB23_uc010kac.2_Intron|RAB23_uc010kad.2_Intron	NM_183227	NP_899050			Ras-related protein Rab-23						protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			skin(1)	1	Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)															---	---	---	---
Unknown	0	broad.mit.edu	37	6	57114555	57114555	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57114555delA								RAB23 (27454 upstream) : PRIM2 (67867 downstream)																																			---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57193929	57193929	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57193929delT	uc003pdx.2	+						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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57195817	57195817	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57195817delA	uc003pdx.2	+						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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57227478	57227479	+	Intron	DEL	TT	-	-	rs5876543		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57227478_57227479delTT	uc003pdx.2	+						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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57242865	57242866	+	Intron	DEL	TT	-	-	rs149256317		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57242865_57242866delTT	uc003pdx.2	+						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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57243174	57243174	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57243174delA	uc003pdx.2	+						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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57248413	57248413	+	Intron	DEL	T	-	-	rs140689811		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57248413delT	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57272878	57272878	+	Intron	DEL	T	-	-	rs144142029	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57272878delT	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57303564	57303565	+	Intron	INS	-	T	T	rs112732081		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57303564_57303565insT	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57303803	57303803	+	Intron	DEL	T	-	-	rs74312085		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57303803delT	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57346383	57346384	+	Intron	DEL	TT	-	-	rs76959588		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57346383_57346384delTT	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57358888	57358889	+	Intron	INS	-	C	C	rs141390216		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57358888_57358889insC	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57359867	57359868	+	Intron	INS	-	CTTTT	CTTTT	rs10633181		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57359867_57359868insCTTTT	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57388012	57388012	+	Intron	DEL	A	-	-	rs5876590		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57388012delA	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57390726	57390728	+	Intron	DEL	TTG	-	-	rs34695317		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57390726_57390728delTTG	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57407934	57407935	+	Intron	DEL	AT	-	-	rs143730395		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57407934_57407935delAT	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57415028	57415029	+	Intron	INS	-	T	T	rs145113134		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57415028_57415029insT	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57418137	57418138	+	Intron	INS	-	TAC	TAC	rs142042320		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57418137_57418138insTAC	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57460919	57460919	+	Intron	DEL	A	-	-	rs67751161		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57460919delA	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57497733	57497734	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57497733_57497734insT	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57504340	57504341	+	Intron	INS	-	A	A	rs138511762	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57504340_57504341insA	uc003pdx.2	+							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)														---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57506338	57506339	+	Intron	INS	-	ATTG	ATTG	rs147871061		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57506338_57506339insATTG	uc003pdx.2	+							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)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	57790382	57790382	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57790382delT								PRIM2 (277007 upstream) : GUSBL2 (455777 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	57821637	57821637	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57821637delA								PRIM2 (308262 upstream) : GUSBL2 (424522 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	58568991	58568991	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:58568991delG								GUSBL2 (281267 upstream) : None (None downstream)																																			---	---	---	---
KHDRBS2	202559	broad.mit.edu	37	6	62571566	62571566	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:62571566delT	uc003peg.2	-							NM_152688	NP_689901			KH domain-containing, RNA-binding, signal						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)														---	---	---	---
KHDRBS2	202559	broad.mit.edu	37	6	62880858	62880860	+	Intron	DEL	AAA	-	-	rs147735985		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:62880858_62880860delAAA	uc003peg.2	-							NM_152688	NP_689901			KH domain-containing, RNA-binding, signal						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	63006660	63006660	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:63006660delA								KHDRBS2 (10560 upstream) : LGSN (979197 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	63011027	63011027	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:63011027delT								KHDRBS2 (14927 upstream) : LGSN (974830 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	63170968	63170968	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:63170968delA								KHDRBS2 (174868 upstream) : LGSN (814889 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	63422695	63422695	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:63422695delA								KHDRBS2 (426595 upstream) : LGSN (563162 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	63573313	63573315	+	IGR	DEL	GGG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:63573313_63573315delGGG								KHDRBS2 (577213 upstream) : LGSN (412542 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	63671824	63671824	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:63671824delT								KHDRBS2 (675724 upstream) : LGSN (314033 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	63814325	63814326	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:63814325_63814326delTT								KHDRBS2 (818225 upstream) : LGSN (171531 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	63819025	63819025	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:63819025delT								KHDRBS2 (822925 upstream) : LGSN (166832 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	63884621	63884621	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:63884621delA								KHDRBS2 (888521 upstream) : LGSN (101236 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	64126019	64126019	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64126019delT								LGSN (96137 upstream) : PTP4A1 (105632 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	64191846	64191847	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64191846_64191847insA								LGSN (161964 upstream) : PTP4A1 (39804 downstream)																																			---	---	---	---
PTP4A1	7803	broad.mit.edu	37	6	64259472	64259472	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64259472delT	uc003pek.2	+							NM_003463	NP_003454			protein tyrosine phosphatase type IVA, member 1						cell cycle|multicellular organismal development	early endosome|endoplasmic reticulum|internal side of plasma membrane|spindle	protein binding|protein tyrosine phosphatase activity				0	all_cancers(3;0.071)|all_epithelial(2;0.0146)|Lung NSC(77;0.175)		Epithelial(2;0.0365)|LUSC - Lung squamous cell carcinoma(74;0.0644)|all cancers(2;0.112)|Lung(124;0.13)															---	---	---	---
PHF3	23469	broad.mit.edu	37	6	64413280	64413280	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64413280delA	uc003pep.1	+						PHF3_uc010kah.1_Intron|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)															---	---	---	---
EYS	346007	broad.mit.edu	37	6	64562397	64562397	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64562397delA	uc011dxu.1	-						EYS_uc011dxt.1_Intron	NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	64855917	64855917	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64855917delT	uc011dxu.1	-						EYS_uc011dxt.1_Intron	NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	64890322	64890322	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64890322delT	uc011dxu.1	-						EYS_uc011dxt.1_Intron	NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	65020661	65020661	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:65020661delA	uc011dxu.1	-						EYS_uc011dxt.1_Intron	NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	65294467	65294467	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:65294467delA	uc011dxu.1	-						EYS_uc011dxt.1_Intron	NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	65532529	65532529	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:65532529delA	uc011dxu.1	-						EYS_uc011dxt.1_5'Flank	NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	65537925	65537926	+	Intron	INS	-	T	T	rs138180983	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:65537925_65537926insT	uc011dxu.1	-							NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	65557177	65557178	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:65557177_65557178delTG	uc011dxu.1	-							NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	65626586	65626586	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:65626586delA	uc011dxu.1	-							NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	65678984	65678984	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:65678984delA	uc011dxu.1	-							NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	65767635	65767635	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:65767635delA	uc011dxu.1	-							NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	66009298	66009299	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:66009298_66009299insC	uc011dxu.1	-						uc011dxv.1_5'Flank	NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	66056543	66056544	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:66056543_66056544insA	uc011dxu.1	-						EYS_uc003peq.2_Intron|EYS_uc003per.1_Intron	NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	66096075	66096078	+	Intron	DEL	AAAA	-	-	rs71646067		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:66096075_66096078delAAAA	uc011dxu.1	-						EYS_uc003peq.2_Intron|EYS_uc003per.1_Intron	NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	66105275	66105276	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:66105275_66105276insT	uc011dxu.1	-						EYS_uc003peq.2_Intron|EYS_uc003per.1_Intron	NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
EYS	346007	broad.mit.edu	37	6	66405529	66405529	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:66405529delT	uc011dxu.1	-						EYS_uc003peq.2_Intron	NM_001142800	NP_001136272			eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	66603127	66603127	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:66603127delA								MCART3P (103752 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	66891684	66891684	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:66891684delT								MCART3P (392309 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	66932087	66932087	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:66932087delA								MCART3P (432712 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	67240513	67240513	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:67240513delA								MCART3P (741138 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	67248084	67248085	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:67248084_67248085delAA								MCART3P (748709 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	67348468	67348469	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:67348468_67348469insA								MCART3P (849093 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	67420750	67420750	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:67420750delT								MCART3P (921375 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	67652682	67652682	+	IGR	DEL	T	-	-	rs11331085		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:67652682delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	67677981	67677981	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:67677981delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	67768313	67768313	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:67768313delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	68524239	68524239	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:68524239delT								None (None upstream) : BAI3 (821393 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	68530948	68530948	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:68530948delT								None (None upstream) : BAI3 (814684 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	69260427	69260427	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:69260427delA								None (None upstream) : BAI3 (85205 downstream)																																			---	---	---	---
BAI3	577	broad.mit.edu	37	6	69396379	69396379	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:69396379delT	uc003pev.3	+						BAI3_uc010kak.2_Intron	NM_001704	NP_001695			brain-specific angiogenesis inhibitor 3						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)																---	---	---	---
BAI3	577	broad.mit.edu	37	6	69700106	69700106	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:69700106delA	uc003pev.3	+						BAI3_uc010kak.2_Intron	NM_001704	NP_001695			brain-specific angiogenesis inhibitor 3						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)																---	---	---	---
BAI3	577	broad.mit.edu	37	6	69874127	69874127	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:69874127delT	uc003pev.3	+						BAI3_uc010kak.2_Intron	NM_001704	NP_001695			brain-specific angiogenesis inhibitor 3						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)																---	---	---	---
BAI3	577	broad.mit.edu	37	6	69883543	69883544	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:69883543_69883544delTT	uc003pev.3	+						BAI3_uc010kak.2_Intron	NM_001704	NP_001695			brain-specific angiogenesis inhibitor 3						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)																---	---	---	---
BAI3	577	broad.mit.edu	37	6	70082812	70082812	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70082812delT	uc003pev.3	+						BAI3_uc010kak.2_Intron|BAI3_uc011dxx.1_Intron	NM_001704	NP_001695			brain-specific angiogenesis inhibitor 3						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)																---	---	---	---
LMBRD1	55788	broad.mit.edu	37	6	70432355	70432355	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70432355delA	uc003pfa.2	-						LMBRD1_uc003pey.2_Intron|LMBRD1_uc003pez.2_Intron|LMBRD1_uc010kal.2_Intron|LMBRD1_uc003pfb.2_Intron	NM_018368	NP_060838			liver regeneration p-53 related protein						interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1																		---	---	---	---
LMBRD1	55788	broad.mit.edu	37	6	70473203	70473204	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70473203_70473204insA	uc003pfa.2	-						LMBRD1_uc003pez.2_Intron|LMBRD1_uc010kal.2_Intron|LMBRD1_uc003pfb.2_Intron	NM_018368	NP_060838			liver regeneration p-53 related protein						interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1																		---	---	---	---
COL19A1	1310	broad.mit.edu	37	6	70651583	70651585	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70651583_70651585delTTT	uc003pfc.1	+						COL19A1_uc010kam.1_Intron	NM_001858	NP_001849			alpha 1 type XIX collagen precursor						cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4																		---	---	---	---
COL19A1	1310	broad.mit.edu	37	6	70805574	70805574	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70805574delT	uc003pfc.1	+						COL19A1_uc010kam.1_Intron	NM_001858	NP_001849			alpha 1 type XIX collagen precursor						cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4																		---	---	---	---
FAM135A	57579	broad.mit.edu	37	6	71221280	71221280	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:71221280delA	uc003pfj.2	+						FAM135A_uc003pfi.2_Intron|FAM135A_uc003pfh.2_Intron|FAM135A_uc003pfk.2_Intron|FAM135A_uc003pfl.2_Intron	NM_001162529	NP_001156001			hypothetical protein LOC57579 isoform c											central_nervous_system(1)	1																		---	---	---	---
FAM135A	57579	broad.mit.edu	37	6	71231615	71231615	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:71231615delT	uc003pfj.2	+						FAM135A_uc003pfi.2_Intron|FAM135A_uc003pfh.2_Intron|FAM135A_uc003pfk.2_Intron|FAM135A_uc003pfl.2_Intron|FAM135A_uc003pfn.2_5'Flank	NM_001162529	NP_001156001			hypothetical protein LOC57579 isoform c											central_nervous_system(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	71821988	71821989	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:71821988_71821989delCA								B3GAT2 (155200 upstream) : OGFRL1 (176488 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	71884087	71884087	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:71884087delA								B3GAT2 (217299 upstream) : OGFRL1 (114390 downstream)																																			---	---	---	---
OGFRL1	79627	broad.mit.edu	37	6	71996003	71996004	+	5'Flank	DEL	AA	-	-	rs113828678		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:71996003_71996004delAA	uc003pfx.1	+							NM_024576	NP_078852			opioid growth factor receptor-like 1							membrane	receptor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	72113807	72113809	+	5'Flank	DEL	AAA	-	-	rs145947878		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:72113807_72113809delAAA	uc003pfy.1	-						MIR30A_hsa-mir-30a|MI0000088_5'Flank					DM119476																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	72391485	72391485	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:72391485delT								C6orf155 (261037 upstream) : RIMS1 (205165 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	72565815	72565815	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:72565815delC								C6orf155 (435367 upstream) : RIMS1 (30835 downstream)																																			---	---	---	---
RIMS1	22999	broad.mit.edu	37	6	72712124	72712124	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:72712124delA	uc003pga.2	+							NM_014989	NP_055804			regulating synaptic membrane exocytosis 1						calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)																---	---	---	---
RIMS1	22999	broad.mit.edu	37	6	72759985	72759985	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:72759985delT	uc003pga.2	+							NM_014989	NP_055804			regulating synaptic membrane exocytosis 1						calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)																---	---	---	---
RIMS1	22999	broad.mit.edu	37	6	73069179	73069180	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:73069179_73069180delTT	uc003pga.2	+						RIMS1_uc011dyb.1_Intron|RIMS1_uc003pgc.2_Intron|RIMS1_uc010kaq.2_Intron|RIMS1_uc011dyc.1_Intron|RIMS1_uc010kar.2_Intron|RIMS1_uc011dyd.1_Intron|RIMS1_uc003pgf.2_Intron|RIMS1_uc003pgg.2_Intron|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Intron|RIMS1_uc003pgd.2_Intron|RIMS1_uc003pge.2_Intron|RIMS1_uc011dye.1_Intron|RIMS1_uc011dyf.1_Intron	NM_014989	NP_055804			regulating synaptic membrane exocytosis 1						calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)																---	---	---	---
KCNQ5	56479	broad.mit.edu	37	6	73504071	73504072	+	Intron	DEL	AA	-	-	rs78786594	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:73504071_73504072delAA	uc003pgk.2	+						KCNQ5_uc003pgj.3_Intron|KCNQ5_uc011dyh.1_Intron|KCNQ5_uc011dyi.1_Intron|KCNQ5_uc010kat.2_Intron|KCNQ5_uc011dyj.1_Intron|KCNQ5_uc011dyk.1_Intron	NM_019842	NP_062816			potassium voltage-gated channel, KQT-like						protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)														---	---	---	---
KCNQ5	56479	broad.mit.edu	37	6	73546329	73546329	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:73546329delT	uc003pgk.2	+						KCNQ5_uc003pgj.3_Intron|KCNQ5_uc011dyh.1_Intron|KCNQ5_uc011dyi.1_Intron|KCNQ5_uc010kat.2_Intron|KCNQ5_uc011dyj.1_Intron|KCNQ5_uc011dyk.1_Intron	NM_019842	NP_062816			potassium voltage-gated channel, KQT-like						protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)														---	---	---	---
KCNQ5	56479	broad.mit.edu	37	6	73609574	73609574	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:73609574delT	uc003pgk.2	+						KCNQ5_uc003pgj.3_Intron|KCNQ5_uc011dyh.1_Intron|KCNQ5_uc011dyi.1_Intron|KCNQ5_uc010kat.2_Intron|KCNQ5_uc011dyj.1_Intron|KCNQ5_uc011dyk.1_Intron	NM_019842	NP_062816			potassium voltage-gated channel, KQT-like						protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)														---	---	---	---
KCNQ5	56479	broad.mit.edu	37	6	73743903	73743903	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:73743903delT	uc003pgk.2	+						KCNQ5_uc003pgj.3_Intron|KCNQ5_uc011dyh.1_Intron|KCNQ5_uc011dyi.1_Intron|KCNQ5_uc010kat.2_Intron|KCNQ5_uc011dyj.1_Intron|KCNQ5_uc011dyk.1_Intron	NM_019842	NP_062816			potassium voltage-gated channel, KQT-like						protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)														---	---	---	---
KCNQ5	56479	broad.mit.edu	37	6	73859907	73859908	+	Intron	INS	-	T	T	rs146975668	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:73859907_73859908insT	uc003pgk.2	+						KCNQ5_uc011dyh.1_Intron|KCNQ5_uc011dyi.1_Intron|KCNQ5_uc010kat.2_Intron|KCNQ5_uc011dyj.1_Intron|KCNQ5_uc011dyk.1_Intron	NM_019842	NP_062816			potassium voltage-gated channel, KQT-like						protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)														---	---	---	---
MTO1	25821	broad.mit.edu	37	6	74184186	74184186	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:74184186delT	uc003pgy.3	+						MTO1_uc010kav.2_Intron|MTO1_uc003pgz.3_Intron|MTO1_uc003pha.3_Intron|MTO1_uc003phb.3_Intron	NM_133645	NP_598400			mitochondrial translation optimization 1 homolog						tRNA processing	mitochondrion	flavin adenine dinucleotide binding			ovary(3)|skin(2)|pancreas(1)	6																		---	---	---	---
SLC17A5	26503	broad.mit.edu	37	6	74320415	74320415	+	Intron	DEL	A	-	-	rs10707321		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:74320415delA	uc003phn.3	-						SLC17A5_uc010kax.2_Intron|SLC17A5_uc010kay.2_Intron|SLC17A5_uc011dyo.1_Intron	NM_012434	NP_036566			sialin						anion transport	integral to plasma membrane|lysosomal membrane|membrane fraction	sialic acid:hydrogen symporter activity			skin(5)|central_nervous_system(1)	6																		---	---	---	---
CD109	135228	broad.mit.edu	37	6	74513412	74513413	+	Intron	INS	-	TG	TG	rs139577687	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:74513412_74513413insTG	uc003php.2	+						CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Intron|CD109_uc010kba.2_Intron	NM_133493	NP_598000			CD109 antigen isoform 1 precursor							anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	74733587	74733587	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:74733587delC								CD109 (195547 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	74763974	74763974	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:74763974delA								CD109 (225934 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	74816561	74816561	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:74816561delA	uc003phr.2	+											Homo sapiens full length insert cDNA clone ZD50H02.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	75179672	75179672	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:75179672delA	uc003phr.2	+											Homo sapiens full length insert cDNA clone ZD50H02.																														---	---	---	---
COL12A1	1303	broad.mit.edu	37	6	75884273	75884274	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:75884273_75884274insA	uc003phs.2	-						COL12A1_uc003pht.2_Intron	NM_004370	NP_004361			collagen, type XII, alpha 1 long isoform						cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9																		---	---	---	---
TMEM30A	55754	broad.mit.edu	37	6	75972851	75972851	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:75972851delA	uc003phw.2	-						TMEM30A_uc003phx.2_Intron	NM_018247	NP_060717			transmembrane protein 30A isoform 1							integral to membrane					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	76270510	76270510	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:76270510delA								FILIP1 (67014 upstream) : SENP6 (41112 downstream)																																			---	---	---	---
SENP6	26054	broad.mit.edu	37	6	76333590	76333590	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:76333590delT	uc003pid.3	+						SENP6_uc003pie.3_Intron|SENP6_uc003pic.2_Intron	NM_015571	NP_056386			SUMO1/sentrin specific peptidase 6 isoform 1						proteolysis	cytoplasm|nucleus	cysteine-type peptidase activity			breast(2)|urinary_tract(1)|ovary(1)|lung(1)|skin(1)	6		all_hematologic(105;0.189)																---	---	---	---
SENP6	26054	broad.mit.edu	37	6	76426945	76426945	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:76426945delT	uc003pid.3	+	24					SENP6_uc003pie.3_3'UTR|SENP6_uc010kbf.2_RNA	NM_015571	NP_056386			SUMO1/sentrin specific peptidase 6 isoform 1						proteolysis	cytoplasm|nucleus	cysteine-type peptidase activity			breast(2)|urinary_tract(1)|ovary(1)|lung(1)|skin(1)	6		all_hematologic(105;0.189)																---	---	---	---
Unknown	0	broad.mit.edu	37	6	76432455	76432455	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:76432455delT								SENP6 (4462 upstream) : MYO6 (26454 downstream)																																			---	---	---	---
MYO6	4646	broad.mit.edu	37	6	76551241	76551242	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:76551241_76551242delAA	uc003pih.1	+						MYO6_uc003pig.1_Intron|MYO6_uc003pii.1_Intron	NM_004999	NP_004990			myosin VI						actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)														---	---	---	---
IMPG1	3617	broad.mit.edu	37	6	76717020	76717020	+	Intron	DEL	T	-	-	rs76741306		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:76717020delT	uc003pik.1	-							NM_001563	NP_001554			interphotoreceptor matrix proteoglycan 1						visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)																---	---	---	---
Unknown	0	broad.mit.edu	37	6	76790330	76790330	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:76790330delC								IMPG1 (7995 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	77339076	77339076	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:77339076delT								IMPG1 (556741 upstream) : HTR1B (832872 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	78114594	78114596	+	IGR	DEL	TTT	-	-	rs78233553		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:78114594_78114596delTTT								None (None upstream) : HTR1B (57352 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	78185212	78185212	+	IGR	DEL	T	-	-	rs113985038		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:78185212delT								HTR1B (12092 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	78609649	78609649	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:78609649delA								HTR1B (436529 upstream) : IRAK1BP1 (967540 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	78931066	78931067	+	IGR	INS	-	TG	TG	rs143504831	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:78931066_78931067insTG								HTR1B (757946 upstream) : IRAK1BP1 (646122 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	79132241	79132241	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:79132241delA								HTR1B (959121 upstream) : IRAK1BP1 (444948 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	79217833	79217834	+	IGR	INS	-	T	T	rs146055563	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:79217833_79217834insT								None (None upstream) : IRAK1BP1 (359355 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	79373075	79373075	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:79373075delA								None (None upstream) : IRAK1BP1 (204114 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	79437812	79437812	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:79437812delT								None (None upstream) : IRAK1BP1 (139377 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	80027355	80027355	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80027355delT								HMGN3 (82900 upstream) : LCA5 (167354 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	80268419	80268419	+	IGR	DEL	A	-	-	rs66739775		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80268419delA								LCA5 (21272 upstream) : SH3BGRL2 (72581 downstream)																																			---	---	---	---
SH3BGRL2	83699	broad.mit.edu	37	6	80380603	80380603	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80380603delA	uc003piz.1	+							NM_031469	NP_113657			SH3 domain binding glutamic acid-rich protein							nucleus	SH3 domain binding				0		all_cancers(76;0.00188)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.174)		BRCA - Breast invasive adenocarcinoma(397;0.0278)														---	---	---	---
ELOVL4	6785	broad.mit.edu	37	6	80656112	80656112	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80656112delA	uc003pja.3	-						ELOVL4_uc011dyt.1_Intron	NM_022726	NP_073563			elongation of very long chain fatty acids-like						fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	integral to endoplasmic reticulum membrane	G-protein coupled photoreceptor activity|protein binding|transferase activity, transferring acyl groups other than amino-acyl groups			ovary(1)|skin(1)	2		all_cancers(76;1.83e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.011)		BRCA - Breast invasive adenocarcinoma(397;0.0168)	Alpha-Linolenic Acid(DB00132)											OREG0017545	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
TTK	7272	broad.mit.edu	37	6	80720436	80720436	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80720436delT	uc003pjc.2	+						TTK_uc003pjb.3_Intron	NM_003318	NP_003309			TTK protein kinase						mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)														---	---	---	---
BCKDHB	594	broad.mit.edu	37	6	80838609	80838610	+	Intron	INS	-	TT	TT	rs71672473		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80838609_80838610insTT	uc003pjd.2	+						BCKDHB_uc003pje.2_Intron	NM_000056	NP_000047			branched chain keto acid dehydrogenase E1 beta						branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|carboxy-lyase activity|protein binding				0		all_cancers(76;1.38e-05)|Acute lymphoblastic leukemia(125;1.15e-05)|all_hematologic(105;0.00118)|all_epithelial(107;0.0149)		BRCA - Breast invasive adenocarcinoma(397;0.0291)														---	---	---	---
BCKDHB	594	broad.mit.edu	37	6	80851318	80851318	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80851318delA	uc003pjd.2	+						BCKDHB_uc003pje.2_Intron	NM_000056	NP_000047			branched chain keto acid dehydrogenase E1 beta						branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|carboxy-lyase activity|protein binding				0		all_cancers(76;1.38e-05)|Acute lymphoblastic leukemia(125;1.15e-05)|all_hematologic(105;0.00118)|all_epithelial(107;0.0149)		BRCA - Breast invasive adenocarcinoma(397;0.0291)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	81302197	81302197	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:81302197delT								BCKDHB (246210 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	81488635	81488636	+	IGR	INS	-	A	A	rs140303778	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:81488635_81488636insA								BCKDHB (432648 upstream) : FAM46A (966812 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	81879753	81879753	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:81879753delA								BCKDHB (823766 upstream) : FAM46A (575695 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	82188569	82188569	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:82188569delT								None (None upstream) : FAM46A (266879 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	82506005	82506006	+	IGR	INS	-	CT	CT	rs147725322	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:82506005_82506006insCT								FAM46A (43577 upstream) : IBTK (373950 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	82752452	82752452	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:82752452delT								FAM46A (290024 upstream) : IBTK (127504 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	82778802	82778802	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:82778802delA								FAM46A (316374 upstream) : IBTK (101154 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	82870247	82870247	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:82870247delT								FAM46A (407819 upstream) : IBTK (9709 downstream)																																			---	---	---	---
IBTK	25998	broad.mit.edu	37	6	82918898	82918898	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:82918898delA	uc003pjl.1	-						IBTK_uc011dyv.1_Intron|IBTK_uc011dyw.1_Intron|IBTK_uc010kbi.1_Intron|IBTK_uc003pjm.2_Intron	NM_015525	NP_056340			inhibitor of Bruton's tyrosine kinase						negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	82993158	82993160	+	IGR	DEL	GGA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:82993158_82993160delGGA								IBTK (35710 upstream) : TPBG (79763 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	83081902	83081902	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83081902delA								TPBG (5288 upstream) : UBE2CBP (520284 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	83187493	83187494	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83187493_83187494insT								TPBG (110879 upstream) : UBE2CBP (414692 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	83230791	83230791	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83230791delA								TPBG (154177 upstream) : UBE2CBP (371395 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	83432168	83432168	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83432168delT								TPBG (355554 upstream) : UBE2CBP (170018 downstream)																																			---	---	---	---
UBE2CBP	90025	broad.mit.edu	37	6	83739547	83739547	+	Intron	DEL	T	-	-	rs74442707		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83739547delT	uc003pjp.2	-						UBE2CBP_uc011dyx.1_Intron|UBE2CBP_uc003pjq.2_Intron	NM_198920	NP_944602			ubiquitin-conjugating enzyme E2C binding							cytoplasm	ligase activity			ovary(1)	1		all_cancers(76;0.000374)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0548)		BRCA - Breast invasive adenocarcinoma(397;0.0944)														---	---	---	---
UBE2CBP	90025	broad.mit.edu	37	6	83751638	83751639	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83751638_83751639delTT	uc003pjp.2	-						UBE2CBP_uc011dyx.1_Intron|UBE2CBP_uc003pjr.2_Intron	NM_198920	NP_944602			ubiquitin-conjugating enzyme E2C binding							cytoplasm	ligase activity			ovary(1)	1		all_cancers(76;0.000374)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0548)		BRCA - Breast invasive adenocarcinoma(397;0.0944)														---	---	---	---
ME1	4199	broad.mit.edu	37	6	83930878	83930878	+	Intron	DEL	A	-	-	rs3216577		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83930878delA	uc003pjy.2	-						ME1_uc011dzb.1_Intron|ME1_uc011dzc.1_Intron	NM_002395	NP_002386			cytosolic malic enzyme 1						carbohydrate metabolic process|cellular lipid metabolic process|malate metabolic process|NADP biosynthetic process|response to carbohydrate stimulus|response to hormone stimulus	cytosol	ADP binding|electron carrier activity|malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|manganese ion binding|NAD binding|NADP binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(76;1.28e-06)|Acute lymphoblastic leukemia(125;5.03e-07)|all_hematologic(105;0.000238)|all_epithelial(107;0.00218)		BRCA - Breast invasive adenocarcinoma(397;0.0641)	NADH(DB00157)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	84250493	84250493	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:84250493delT								PRSS35 (15074 upstream) : SNAP91 (12114 downstream)																																			---	---	---	---
SNAP91	9892	broad.mit.edu	37	6	84291888	84291888	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:84291888delT	uc011dze.1	-						SNAP91_uc011dzd.1_Intron|SNAP91_uc003pkb.2_Intron|SNAP91_uc003pkc.2_Intron|SNAP91_uc003pkd.2_Intron|SNAP91_uc003pka.2_Intron	NM_014841	NP_055656			synaptosomal-associated protein, 91kDa homolog						clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)														---	---	---	---
SNAP91	9892	broad.mit.edu	37	6	84302875	84302876	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:84302875_84302876delAA	uc011dze.1	-						SNAP91_uc011dzd.1_Intron|SNAP91_uc003pkb.2_Intron|SNAP91_uc003pkc.2_Intron|SNAP91_uc003pkd.2_Intron|SNAP91_uc003pka.2_Intron	NM_014841	NP_055656			synaptosomal-associated protein, 91kDa homolog						clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)														---	---	---	---
SNAP91	9892	broad.mit.edu	37	6	84374773	84374773	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:84374773delT	uc011dze.1	-						SNAP91_uc003pkb.2_Intron|SNAP91_uc003pkc.2_Intron|SNAP91_uc003pkd.2_Intron|SNAP91_uc003pka.2_Intron|SNAP91_uc011dzf.1_Intron	NM_014841	NP_055656			synaptosomal-associated protein, 91kDa homolog						clathrin coat assembly	clathrin coat|coated pit|plasma membrane	1-phosphatidylinositol binding|clathrin binding			ovary(1)	1		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;2.91e-07)|all_hematologic(105;0.000337)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0967)														---	---	---	---
CYB5R4	51167	broad.mit.edu	37	6	84601186	84601186	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:84601186delA	uc003pkf.2	+							NM_016230	NP_057314			cytochrome b5 reductase 4						cell development|detection of oxygen|generation of precursor metabolites and energy|glucose homeostasis|insulin secretion|response to antibiotic|superoxide metabolic process	endoplasmic reticulum|perinuclear region of cytoplasm	cytochrome-b5 reductase activity|heme binding|NAD(P)H oxidase activity			breast(2)	2		all_cancers(76;7e-07)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00128)		BRCA - Breast invasive adenocarcinoma(397;0.0871)														---	---	---	---
MRAP2	112609	broad.mit.edu	37	6	84742330	84742330	+	5'Flank	DEL	A	-	-	rs141564938	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:84742330delA	uc003pkg.3	+						MRAP2_uc010kbo.2_5'Flank	NM_138409	NP_612418			melanocortin 2 receptor accessory protein 2						positive regulation of cAMP biosynthetic process|protein localization at cell surface	endoplasmic reticulum|plasma membrane	corticotropin hormone receptor binding|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding|type 5 melanocortin receptor binding			skin(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	85091154	85091154	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:85091154delT								KIAA1009 (153819 upstream) : TBX18 (305927 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	85180984	85180984	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:85180984delT								KIAA1009 (243649 upstream) : TBX18 (216097 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	86054655	86054655	+	IGR	DEL	A	-	-	rs144246210	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86054655delA								TBX18 (580756 upstream) : NT5E (104647 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	86145721	86145721	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86145721delA								TBX18 (671822 upstream) : NT5E (13581 downstream)																																			---	---	---	---
NT5E	4907	broad.mit.edu	37	6	86193587	86193587	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86193587delA	uc003pko.3	+						NT5E_uc010kbr.2_Intron	NM_002526	NP_002517			5' nucleotidase, ecto precursor						DNA metabolic process|purine base metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	5'-nucleotidase activity|nucleotide binding			ovary(3)|central_nervous_system(1)	4		all_cancers(76;0.000215)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0427)		BRCA - Breast invasive adenocarcinoma(108;0.0417)	Pentoxifylline(DB00806)													---	---	---	---
SYNCRIP	10492	broad.mit.edu	37	6	86329254	86329254	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86329254delA	uc003pla.2	-						SYNCRIP_uc003pku.2_Intron|SYNCRIP_uc003pkw.2_Intron|SYNCRIP_uc003pky.2_Intron|SYNCRIP_uc003pkv.2_Intron|SYNCRIP_uc003pkx.2_Intron|SYNCRIP_uc003pkz.2_Intron	NM_006372	NP_006363			synaptotagmin binding, cytoplasmic RNA						CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	86428640	86428640	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86428640delA								SNHG5 (40189 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	86659639	86659639	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86659639delT								SNHG5 (271188 upstream) : HTR1E (987385 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	86677264	86677264	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86677264delT								SNHG5 (288813 upstream) : HTR1E (969760 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	87095871	87095871	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:87095871delA								SNHG5 (707420 upstream) : HTR1E (551153 downstream)																																			---	---	---	---
HTR1E	3354	broad.mit.edu	37	6	87649909	87649909	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:87649909delG	uc003pli.2	+							NM_000865	NP_000856			5-hydroxytryptamine (serotonin) receptor 1E						G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)													---	---	---	---
HTR1E	3354	broad.mit.edu	37	6	87667494	87667494	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:87667494delA	uc003pli.2	+							NM_000865	NP_000856			5-hydroxytryptamine (serotonin) receptor 1E						G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	87732638	87732645	+	IGR	DEL	AAGGAAGG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:87732638_87732645delAAGGAAGG								HTR1E (6248 upstream) : CGA (62577 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	87772635	87772636	+	IGR	INS	-	AGGG	AGGG	rs58874119	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:87772635_87772636insAGGG								HTR1E (46245 upstream) : CGA (22586 downstream)																																			---	---	---	---
GJB7	375519	broad.mit.edu	37	6	88022230	88022230	+	Intron	DEL	A	-	-	rs72423544		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88022230delA	uc003plo.2	-							NM_198568	NP_940970			gap junction protein, beta 7, 25kDa						cell communication	connexon complex|integral to membrane					0		all_cancers(76;1.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;7.38e-10)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00323)		BRCA - Breast invasive adenocarcinoma(108;0.0167)														---	---	---	---
RARS2	57038	broad.mit.edu	37	6	88236234	88236235	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88236234_88236235delAA	uc003pme.2	-						RARS2_uc003pmb.2_Intron|RARS2_uc003pmc.2_Intron|RARS2_uc003pmd.2_Intron|RARS2_uc003pmf.2_Intron	NM_020320	NP_064716			arginyl-tRNA synthetase 2, mitochondrial						arginyl-tRNA aminoacylation	mitochondrial matrix	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|central_nervous_system(1)	3		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0456)														---	---	---	---
RARS2	57038	broad.mit.edu	37	6	88255725	88255726	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88255725_88255726delAA	uc003pme.2	-						RARS2_uc003pmb.2_Intron|RARS2_uc003pmc.2_Intron|RARS2_uc003pmd.2_Intron|RARS2_uc003pmf.2_Intron	NM_020320	NP_064716			arginyl-tRNA synthetase 2, mitochondrial						arginyl-tRNA aminoacylation	mitochondrial matrix	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|central_nervous_system(1)	3		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0456)														---	---	---	---
ORC3L	23595	broad.mit.edu	37	6	88308377	88308378	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88308377_88308378delTT	uc003pmh.2	+						ORC3L_uc011dzl.1_Intron|ORC3L_uc011dzm.1_Intron|ORC3L_uc011dzn.1_Intron|ORC3L_uc003pmg.2_Intron|ORC3L_uc003pmi.2_Intron|ORC3L_uc011dzo.1_Intron|ORC3L_uc011dzp.1_Intron	NM_012381	NP_036513			origin recognition complex, subunit 3 isoform 2						cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)														---	---	---	---
ORC3L	23595	broad.mit.edu	37	6	88326524	88326524	+	Intron	DEL	T	-	-	rs112902935		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88326524delT	uc003pmh.2	+						ORC3L_uc011dzl.1_Intron|ORC3L_uc011dzm.1_Intron|ORC3L_uc011dzn.1_Intron|ORC3L_uc003pmg.2_Intron|ORC3L_uc003pmi.2_Intron|ORC3L_uc011dzo.1_Intron|ORC3L_uc011dzp.1_Intron	NM_012381	NP_036513			origin recognition complex, subunit 3 isoform 2						cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	88453785	88453788	+	IGR	DEL	CTTT	-	-	rs10544587		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88453785_88453788delCTTT								AKIRIN2 (41800 upstream) : SPACA1 (303719 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	88538487	88538487	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88538487delT	uc003pmm.2	+											Homo sapiens mRNA sequence.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	88615443	88615443	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88615443delT	uc003pmm.2	+											Homo sapiens mRNA sequence.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	88693182	88693182	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88693182delA								AKIRIN2 (281197 upstream) : SPACA1 (64325 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	88740443	88740443	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88740443delA								AKIRIN2 (328458 upstream) : SPACA1 (17064 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	88839066	88839066	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88839066delA								SPACA1 (62517 upstream) : CNR1 (10521 downstream)																																			---	---	---	---
CNR1	1268	broad.mit.edu	37	6	88853531	88853531	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88853531delA	uc011dzq.1	-	2					CNR1_uc010kbz.2_3'UTR|CNR1_uc011dzr.1_3'UTR|CNR1_uc011dzs.1_3'UTR|CNR1_uc003pmq.3_3'UTR|CNR1_uc011dzt.1_3'UTR|CNR1_uc010kca.2_3'UTR	NM_001160260	NP_001153732			cannabinoid receptor 1 isoform a						G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	89265634	89265634	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89265634delA								CNR1 (389867 upstream) : RNGTT (54355 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	89301306	89301306	+	IGR	DEL	A	-	-	rs75344664		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89301306delA								CNR1 (425539 upstream) : RNGTT (18683 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	89310896	89310896	+	IGR	DEL	A	-	-	rs34292237		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89310896delA								CNR1 (435129 upstream) : RNGTT (9093 downstream)																																			---	---	---	---
RNGTT	8732	broad.mit.edu	37	6	89484482	89484482	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89484482delA	uc003pmr.2	-						RNGTT_uc003pms.2_Intron|RNGTT_uc011dzu.1_Intron|RNGTT_uc003pmt.2_Intron	NM_003800	NP_003791			RNA guanylyltransferase and 5'-phosphatase						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)														---	---	---	---
RNGTT	8732	broad.mit.edu	37	6	89582146	89582146	+	Intron	DEL	A	-	-	rs76344654		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89582146delA	uc003pmr.2	-						RNGTT_uc003pms.2_Intron|RNGTT_uc011dzu.1_Intron|RNGTT_uc003pmt.2_Intron	NM_003800	NP_003791			RNA guanylyltransferase and 5'-phosphatase						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)														---	---	---	---
RNGTT	8732	broad.mit.edu	37	6	89596023	89596023	+	Intron	DEL	A	-	-	rs35570814		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89596023delA	uc003pmr.2	-						RNGTT_uc003pms.2_Intron|RNGTT_uc011dzu.1_Intron|RNGTT_uc003pmt.2_Intron	NM_003800	NP_003791			RNA guanylyltransferase and 5'-phosphatase						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)														---	---	---	---
RNGTT	8732	broad.mit.edu	37	6	89614294	89614294	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89614294delT	uc003pmr.2	-						RNGTT_uc003pms.2_Intron|RNGTT_uc011dzu.1_Intron|RNGTT_uc003pmt.2_Intron	NM_003800	NP_003791			RNA guanylyltransferase and 5'-phosphatase						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)														---	---	---	---
RNGTT	8732	broad.mit.edu	37	6	89642813	89642813	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89642813delA	uc003pmr.2	-						RNGTT_uc003pms.2_Intron|RNGTT_uc011dzu.1_Intron|RNGTT_uc003pmt.2_Intron	NM_003800	NP_003791			RNA guanylyltransferase and 5'-phosphatase						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	89701052	89701053	+	IGR	DEL	TT	-	-	rs34542695		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89701052_89701053delTT								RNGTT (27704 upstream) : PNRC1 (89376 downstream)																																			---	---	---	---
UBE2J1	51465	broad.mit.edu	37	6	90049740	90049741	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90049740_90049741delAA	uc010kcb.2	-						UBE2J1_uc003pnc.2_Intron	NM_016021	NP_057105			ubiquitin-conjugating enzyme E2, J1							endoplasmic reticulum membrane|integral to membrane	ATP binding|ubiquitin-protein ligase activity				0		all_cancers(76;1.65e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;2.5e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0139)														---	---	---	---
LYRM2	57226	broad.mit.edu	37	6	90350919	90350919	+	5'Flank	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90350919delC	uc003pnm.2	-						LYRM2_uc010kce.1_5'Flank|LYRM2_uc003png.2_5'Flank|LYRM2_uc010kcf.1_5'Flank|LYRM2_uc010kcg.2_5'Flank|LYRM2_uc003pnl.3_5'Flank	NM_020466	NP_065199			LYR motif containing 2												0		all_cancers(76;2.76e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;3.72e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0131)														---	---	---	---
CASP8AP2	9994	broad.mit.edu	37	6	90556398	90556400	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90556398_90556400delTTT	uc003pnr.2	+						CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Intron|CASP8AP2_uc011dzz.1_Intron	NM_001137667	NP_001131139			caspase 8 associated protein 2						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	90628897	90628898	+	IGR	DEL	GT	-	-	rs9362702	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90628897_90628898delGT								GJA10 (23080 upstream) : BACH2 (7350 downstream)																																			---	---	---	---
BACH2	60468	broad.mit.edu	37	6	90664237	90664239	+	Intron	DEL	TTT	-	-	rs112921098		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90664237_90664239delTTT	uc011eab.1	-						BACH2_uc003pnw.2_Intron|BACH2_uc010kch.2_Intron	NM_021813	NP_068585			BTB and CNC homology 1, basic leucine zipper							nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	91066764	91066764	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91066764delA	uc003pnx.1	+											full-length cDNA clone CS0DL001YH04 of B cells (Ramos cell line) Cot 25-normalized of Homo sapiens (human).																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	91103325	91103326	+	IGR	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91103325_91103326insC								BACH2 (96763 upstream) : MAP3K7 (122027 downstream)																																	OREG0017569	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
MAP3K7	6885	broad.mit.edu	37	6	91226170	91226170	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91226170delA	uc003pnz.1	-	17					MAP3K7_uc003pny.1_3'UTR|MAP3K7_uc003poa.1_3'UTR|MAP3K7_uc003pob.1_3'UTR|MAP3K7_uc003poc.1_3'UTR	NM_145331	NP_663304			mitogen-activated protein kinase kinase kinase 7						activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)														---	---	---	---
MAP3K7	6885	broad.mit.edu	37	6	91246243	91246243	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91246243delA	uc003pnz.1	-						MAP3K7_uc003pny.1_5'UTR|MAP3K7_uc003poa.1_Intron|MAP3K7_uc003pob.1_Intron|MAP3K7_uc003poc.1_Intron	NM_145331	NP_663304			mitogen-activated protein kinase kinase kinase 7						activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)														---	---	---	---
MAP3K7	6885	broad.mit.edu	37	6	91253351	91253351	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91253351delA	uc003pnz.1	-						MAP3K7_uc003poa.1_Intron|MAP3K7_uc003pob.1_Intron|MAP3K7_uc003poc.1_Intron	NM_145331	NP_663304			mitogen-activated protein kinase kinase kinase 7						activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)														---	---	---	---
MAP3K7	6885	broad.mit.edu	37	6	91274968	91274968	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91274968delA	uc003pnz.1	-						MAP3K7_uc003poa.1_Intron|MAP3K7_uc003pob.1_Intron|MAP3K7_uc003poc.1_Intron	NM_145331	NP_663304			mitogen-activated protein kinase kinase kinase 7						activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	91447286	91447286	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91447286delT								MAP3K7 (150379 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	91652949	91652949	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91652949delA								MAP3K7 (356042 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	91654889	91654889	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91654889delT								MAP3K7 (357982 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	91680246	91680246	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91680246delA								MAP3K7 (383339 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	91743454	91743455	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91743454_91743455delCT								MAP3K7 (446547 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	91795952	91795952	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91795952delA								MAP3K7 (499045 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	91902867	91902867	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91902867delA								MAP3K7 (605960 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	91967386	91967388	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:91967386_91967388delTTT								MAP3K7 (670479 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	92061090	92061090	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:92061090delT								MAP3K7 (764183 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	92102301	92102302	+	IGR	DEL	TT	-	-	rs34285185		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:92102301_92102302delTT								MAP3K7 (805394 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	93044303	93044303	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:93044303delA								None (None upstream) : EPHA7 (905439 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	93220641	93220643	+	IGR	DEL	GAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:93220641_93220643delGAA								None (None upstream) : EPHA7 (729099 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	93296350	93296350	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:93296350delA								None (None upstream) : EPHA7 (653392 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	93441677	93441678	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:93441677_93441678insG								None (None upstream) : EPHA7 (508064 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	93715411	93715412	+	IGR	INS	-	A	A	rs138817422	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:93715411_93715412insA								None (None upstream) : EPHA7 (234330 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	93728022	93728023	+	IGR	DEL	AA	-	-	rs76943777		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:93728022_93728023delAA								None (None upstream) : EPHA7 (221719 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	93730438	93730438	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:93730438delA								None (None upstream) : EPHA7 (219304 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	93754240	93754240	+	IGR	DEL	T	-	-	rs113566632		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:93754240delT								None (None upstream) : EPHA7 (195502 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	93810184	93810184	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:93810184delT								None (None upstream) : EPHA7 (139558 downstream)																																			---	---	---	---
EPHA7	2045	broad.mit.edu	37	6	93954897	93954897	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:93954897delT	uc003poe.2	-						EPHA7_uc003pof.2_Intron|EPHA7_uc011eac.1_Intron	NM_004440	NP_004431			ephrin receptor EphA7 precursor							integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)														---	---	---	---
EPHA7	2045	broad.mit.edu	37	6	94108308	94108308	+	Intron	DEL	A	-	-	rs3839555		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:94108308delA	uc003poe.2	-						EPHA7_uc003pof.2_Intron|EPHA7_uc011eac.1_Intron	NM_004440	NP_004431			ephrin receptor EphA7 precursor							integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	94253775	94253775	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:94253775delT								EPHA7 (124475 upstream) : TSG1 (163026 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	94329904	94329904	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:94329904delT								EPHA7 (200604 upstream) : TSG1 (86897 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	94899407	94899408	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:94899407_94899408insA								TSG1 (413208 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	95070986	95070986	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:95070986delC								TSG1 (584787 upstream) : MANEA (954427 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	95371166	95371166	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:95371166delA								TSG1 (884967 upstream) : MANEA (654247 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	95385623	95385624	+	IGR	DEL	AA	-	-	rs71543714		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:95385623_95385624delAA								TSG1 (899424 upstream) : MANEA (639789 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	96018457	96018458	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:96018457_96018458delAC								None (None upstream) : MANEA (6955 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	96131984	96131985	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:96131984_96131985insA								MANEA (74658 upstream) : FUT9 (331860 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	96790678	96790678	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:96790678delT								FUT9 (127191 upstream) : KIAA0776 (179024 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	97225759	97225759	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:97225759delA								FHL5 (161247 upstream) : GPR63 (20130 downstream)																																			---	---	---	---
C6orf167	253714	broad.mit.edu	37	6	97621624	97621624	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:97621624delA	uc003ppb.2	-						C6orf167_uc011eaf.1_Intron	NM_198468	NP_940870			hypothetical protein LOC253714						double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	97990018	97990019	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:97990018_97990019delTT	uc003ppd.1	+											Homo sapiens cDNA FLJ34046 fis, clone FCBBF2007610.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	98196734	98196734	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:98196734delT								C6orf167 (465673 upstream) : MIR2113 (275673 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	98311658	98311658	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:98311658delA								C6orf167 (580597 upstream) : MIR2113 (160749 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	98435936	98435936	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:98435936delT								C6orf167 (704875 upstream) : MIR2113 (36471 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	98501541	98501541	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:98501541delT								MIR2113 (29044 upstream) : POU3F2 (781039 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	98558982	98558985	+	IGR	DEL	GTGT	-	-	rs112833811		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:98558982_98558985delGTGT								MIR2113 (86485 upstream) : POU3F2 (723595 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	98740217	98740218	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:98740217_98740218insT								MIR2113 (267720 upstream) : POU3F2 (542362 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	98789129	98789129	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:98789129delT								MIR2113 (316632 upstream) : POU3F2 (493451 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	98921057	98921058	+	IGR	DEL	AA	-	-	rs75487895		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:98921057_98921058delAA								MIR2113 (448560 upstream) : POU3F2 (361522 downstream)																																			---	---	---	---
POU3F2	5454	broad.mit.edu	37	6	99284220	99284221	+	3'UTR	INS	-	A	A	rs71545770		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:99284220_99284221insA	uc003ppe.2	+	1						NM_005604	NP_005595			POU domain, class 3, transcription factor 2						positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)														---	---	---	---
FBXL4	26235	broad.mit.edu	37	6	99364803	99364803	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:99364803delA	uc003ppf.1	-						FBXL4_uc003ppg.1_Intron|FBXL4_uc003pph.1_Intron	NM_012160	NP_036292			F-box and leucine-rich repeat protein 4						ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex				skin(2)	2		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0413)														---	---	---	---
C6orf168	84553	broad.mit.edu	37	6	99761867	99761867	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:99761867delT	uc003ppj.3	-						C6orf168_uc003ppi.3_Intron	NM_032511	NP_115900			hypothetical protein LOC84553											ovary(2)|central_nervous_system(1)	3		all_cancers(76;1.63e-06)|Acute lymphoblastic leukemia(125;5.12e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00898)|Colorectal(196;0.0699)|Lung NSC(302;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.073)														---	---	---	---
SFRS18	25957	broad.mit.edu	37	6	99859969	99859971	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:99859969_99859971delAAA	uc003ppo.3	-						SFRS18_uc003ppp.3_Intron|SFRS18_uc011eag.1_Intron|SFRS18_uc003ppr.2_Intron|SFRS18_uc003ppt.2_3'UTR|SFRS18_uc003pps.2_3'UTR	NM_032870	NP_116259			splicing factor, arginine/serine-rich 130							nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)														---	---	---	---
USP45	85015	broad.mit.edu	37	6	99912365	99912365	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:99912365delA	uc003ppx.2	-						USP45_uc003ppv.2_Intron|USP45_uc003ppw.2_Intron|USP45_uc003ppy.2_Intron	NM_001080481	NP_001073950			ubiquitin specific peptidase 45						ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|breast(1)	2		all_cancers(76;0.000208)|Acute lymphoblastic leukemia(125;8.41e-11)|all_hematologic(75;2.56e-07)|all_epithelial(107;0.122)|Colorectal(196;0.133)		BRCA - Breast invasive adenocarcinoma(108;0.0718)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	100288178	100288178	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100288178delT								PRDM13 (224724 upstream) : MCHR2 (79608 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	100300189	100300189	+	IGR	DEL	C	-	-	rs11322587		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100300189delC								PRDM13 (236735 upstream) : MCHR2 (67597 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	100608087	100608088	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100608087_100608088delAG								MCHR2 (165973 upstream) : SIM1 (228663 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	100642382	100642383	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100642382_100642383delAA								MCHR2 (200268 upstream) : SIM1 (194368 downstream)																																			---	---	---	---
SIM1	6492	broad.mit.edu	37	6	100856343	100856343	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100856343delT	uc003pqj.3	-						SIM1_uc010kcu.2_Intron	NM_005068	NP_005059			single-minded homolog 1						cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)														---	---	---	---
ASCC3	10973	broad.mit.edu	37	6	100968311	100968311	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100968311delT	uc003pqk.2	-							NM_006828	NP_006819			activating signal cointegrator 1 complex subunit						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)														---	---	---	---
ASCC3	10973	broad.mit.edu	37	6	101080337	101080337	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:101080337delA	uc003pqk.2	-							NM_006828	NP_006819			activating signal cointegrator 1 complex subunit						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)														---	---	---	---
ASCC3	10973	broad.mit.edu	37	6	101172025	101172025	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:101172025delA	uc003pqk.2	-						ASCC3_uc011eai.1_Intron|ASCC3_uc003pql.2_Intron	NM_006828	NP_006819			activating signal cointegrator 1 complex subunit						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)														---	---	---	---
ASCC3	10973	broad.mit.edu	37	6	101242878	101242879	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:101242878_101242879insC	uc003pqk.2	-						ASCC3_uc011eai.1_Intron|ASCC3_uc003pql.2_Intron	NM_006828	NP_006819			activating signal cointegrator 1 complex subunit						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)														---	---	---	---
ASCC3	10973	broad.mit.edu	37	6	101283644	101283644	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:101283644delT	uc003pqk.2	-						ASCC3_uc011eai.1_Intron|ASCC3_uc003pql.2_Intron	NM_006828	NP_006819			activating signal cointegrator 1 complex subunit						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	101406754	101406754	+	IGR	DEL	T	-	-	rs11313628		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:101406754delT								ASCC3 (77530 upstream) : GRIK2 (440151 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	101438954	101438954	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:101438954delT								ASCC3 (109730 upstream) : GRIK2 (407951 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	101686856	101686857	+	IGR	INS	-	GT	GT	rs3058353		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:101686856_101686857insGT								ASCC3 (357632 upstream) : GRIK2 (160048 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	101800262	101800262	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:101800262delA								ASCC3 (471038 upstream) : GRIK2 (46643 downstream)																																			---	---	---	---
GRIK2	2898	broad.mit.edu	37	6	102010095	102010095	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:102010095delA	uc003pqp.3	+						GRIK2_uc003pqn.2_Intron|GRIK2_uc003pqo.3_Intron|GRIK2_uc010kcw.2_Intron	NM_021956	NP_068775			glutamate receptor, ionotropic, kainate 2						glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)													---	---	---	---
GRIK2	2898	broad.mit.edu	37	6	102026994	102026995	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:102026994_102026995delCA	uc003pqp.3	+						GRIK2_uc003pqn.2_Intron|GRIK2_uc003pqo.3_Intron|GRIK2_uc010kcw.2_Intron	NM_021956	NP_068775			glutamate receptor, ionotropic, kainate 2						glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)													---	---	---	---
GRIK2	2898	broad.mit.edu	37	6	102133965	102133965	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:102133965delA	uc003pqp.3	+						GRIK2_uc003pqn.2_Intron|GRIK2_uc003pqo.3_Intron|GRIK2_uc010kcw.2_Intron	NM_021956	NP_068775			glutamate receptor, ionotropic, kainate 2						glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)													---	---	---	---
GRIK2	2898	broad.mit.edu	37	6	102295209	102295209	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:102295209delT	uc003pqp.3	+						GRIK2_uc003pqn.2_Intron|GRIK2_uc003pqo.3_Intron|GRIK2_uc010kcw.2_Intron	NM_021956	NP_068775			glutamate receptor, ionotropic, kainate 2						glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)													---	---	---	---
GRIK2	2898	broad.mit.edu	37	6	102500968	102500969	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:102500968_102500969insA	uc003pqp.3	+						GRIK2_uc003pqo.3_Intron|GRIK2_uc010kcw.2_Intron	NM_021956	NP_068775			glutamate receptor, ionotropic, kainate 2						glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	103391888	103391888	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:103391888delA								GRIK2 (873931 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	103410474	103410474	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:103410474delA								GRIK2 (892517 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	103723885	103723885	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:103723885delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	103730530	103730530	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:103730530delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	104017931	104017931	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:104017931delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	104027347	104027347	+	IGR	DEL	A	-	-	rs6934192	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:104027347delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	104296034	104296034	+	IGR	DEL	T	-	-	rs11302208		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:104296034delT								None (None upstream) : HACE1 (879934 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	104473613	104473613	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:104473613delT								None (None upstream) : HACE1 (702355 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	104583385	104583385	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:104583385delT								None (None upstream) : HACE1 (592583 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	104587362	104587362	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:104587362delC								None (None upstream) : HACE1 (588606 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	104690008	104690010	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:104690008_104690010delAAA								None (None upstream) : HACE1 (485958 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	104783845	104783845	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:104783845delA								None (None upstream) : HACE1 (392123 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	105074967	105074967	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105074967delT								None (None upstream) : HACE1 (101001 downstream)																																			---	---	---	---
LIN28B	389421	broad.mit.edu	37	6	105490513	105490513	+	Intron	DEL	T	-	-	rs75966859	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105490513delT	uc003pqv.1	+						LIN28B_uc010kda.1_Intron	NM_001004317	NP_001004317			lin-28 homolog B						miRNA catabolic process|pre-miRNA processing|regulation of transcription, DNA-dependent|RNA 3'-end processing	cytoplasm|nucleus	DNA binding|protein binding|RNA binding|zinc ion binding				0		all_cancers(87;0.00346)|Acute lymphoblastic leukemia(125;2.26e-08)|all_hematologic(75;2.79e-06)|all_epithelial(87;0.204)																---	---	---	---
BVES	11149	broad.mit.edu	37	6	105564916	105564917	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105564916_105564917insT	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)																---	---	---	---
Unknown	0	broad.mit.edu	37	6	105677122	105677137	+	IGR	DEL	ATGAGATGGTATCTCA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105677122_105677137delATGAGATGGTATCTCA								POPDC3 (49264 upstream) : PREP (48370 downstream)																																			---	---	---	---
PREP	5550	broad.mit.edu	37	6	105725779	105725779	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105725779delA	uc003prc.2	-	15						NM_002726	NP_002717			prolyl endopeptidase						proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	105861505	105861505	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105861505delA								PREP (10536 upstream) : PRDM1 (672690 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	105922125	105922126	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105922125_105922126delTG								PREP (71156 upstream) : PRDM1 (612069 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	105968801	105968801	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105968801delT								PREP (117832 upstream) : PRDM1 (565394 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	106428813	106428814	+	IGR	DEL	TT	-	-	rs67749551		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:106428813_106428814delTT								PREP (577844 upstream) : PRDM1 (105381 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	106911115	106911116	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:106911115_106911116delAA								ATG5 (137420 upstream) : AIM1 (48614 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	107180558	107180561	+	Intron	DEL	ACAC	-	-	rs67905954		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:107180558_107180561delACAC	uc003pro.1	-						uc003prn.1_Intron					Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 1534000.																														---	---	---	---
PDSS2	57107	broad.mit.edu	37	6	107560103	107560104	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:107560103_107560104delTT	uc003prt.2	-						PDSS2_uc011eak.1_Intron|PDSS2_uc011eal.1_Intron|PDSS2_uc003pru.2_Intron	NM_020381	NP_065114			prenyl diphosphate synthase, subunit 2						isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrion	protein heterodimerization activity			ovary(2)	2	Breast(9;0.0127)	all_cancers(87;3.63e-05)|Acute lymphoblastic leukemia(125;2.86e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.0108)|Colorectal(196;0.156)|Lung NSC(302;0.211)	BRCA - Breast invasive adenocarcinoma(8;0.0101)|all cancers(7;0.243)	BRCA - Breast invasive adenocarcinoma(108;0.112)|OV - Ovarian serous cystadenocarcinoma(136;0.173)|all cancers(137;0.191)														---	---	---	---
LACE1	246269	broad.mit.edu	37	6	108635100	108635100	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:108635100delA	uc003psj.2	+							NM_145315	NP_660358			lactation elevated 1								ATP binding			central_nervous_system(1)	1		all_cancers(87;1.5e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;6.79e-05)|Colorectal(196;0.0294)|all_lung(197;0.0486)|Lung SC(18;0.152)		BRCA - Breast invasive adenocarcinoma(108;0.00179)|Epithelial(106;0.0024)|all cancers(137;0.00379)|OV - Ovarian serous cystadenocarcinoma(136;0.0118)														---	---	---	---
LACE1	246269	broad.mit.edu	37	6	108694730	108694731	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:108694730_108694731delTT	uc003psj.2	+							NM_145315	NP_660358			lactation elevated 1								ATP binding			central_nervous_system(1)	1		all_cancers(87;1.5e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;6.79e-05)|Colorectal(196;0.0294)|all_lung(197;0.0486)|Lung SC(18;0.152)		BRCA - Breast invasive adenocarcinoma(108;0.00179)|Epithelial(106;0.0024)|all cancers(137;0.00379)|OV - Ovarian serous cystadenocarcinoma(136;0.0118)														---	---	---	---
LACE1	246269	broad.mit.edu	37	6	108840763	108840763	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:108840763delA	uc003psj.2	+							NM_145315	NP_660358			lactation elevated 1								ATP binding			central_nervous_system(1)	1		all_cancers(87;1.5e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;6.79e-05)|Colorectal(196;0.0294)|all_lung(197;0.0486)|Lung SC(18;0.152)		BRCA - Breast invasive adenocarcinoma(108;0.00179)|Epithelial(106;0.0024)|all cancers(137;0.00379)|OV - Ovarian serous cystadenocarcinoma(136;0.0118)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	109032395	109032396	+	IGR	DEL	TT	-	-	rs66483935		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:109032395_109032396delTT								FOXO3 (26424 upstream) : ARMC2 (137223 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	109071400	109071400	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:109071400delA	uc003pso.1	+						uc003psp.1_5'Flank					Homo sapiens mRNA sequence.																														---	---	---	---
ARMC2	84071	broad.mit.edu	37	6	109271983	109271983	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:109271983delA	uc003pss.3	+						ARMC2_uc011eao.1_Intron	NM_032131	NP_115507			armadillo repeat containing 2								binding				0		all_cancers(87;1.14e-07)|Acute lymphoblastic leukemia(125;2.3e-10)|all_hematologic(75;3.3e-08)|all_epithelial(87;0.000111)|Colorectal(196;0.03)|all_lung(197;0.11)		Epithelial(106;0.000197)|BRCA - Breast invasive adenocarcinoma(108;0.000236)|all cancers(137;0.000279)|OV - Ovarian serous cystadenocarcinoma(136;0.00434)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	109541608	109541608	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:109541608delA								C6orf182 (56495 upstream) : CD164 (146110 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	109604299	109604302	+	IGR	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:109604299_109604302delTTTT								C6orf182 (119186 upstream) : CD164 (83416 downstream)																																			---	---	---	---
ZBTB24	9841	broad.mit.edu	37	6	109795125	109795125	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:109795125delA	uc003ptl.1	-						ZBTB24_uc011ear.1_Intron|ZBTB24_uc010kds.1_Intron|ZBTB24_uc010kdt.1_Intron	NM_014797	NP_055612			zinc finger and BTB domain containing 24 isoform						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)														---	---	---	---
FIG4	9896	broad.mit.edu	37	6	110064800	110064800	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110064800delA	uc003ptt.2	+						FIG4_uc011eau.1_Intron	NM_014845	NP_055660			Sac domain-containing inositol phosphatase 3						cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	110165355	110165355	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110165355delA								FIG4 (18721 upstream) : GPR6 (134154 downstream)																																			---	---	---	---
WASF1	8936	broad.mit.edu	37	6	110444539	110444539	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110444539delA	uc003ptv.1	-						WASF1_uc003ptw.1_Intron|WASF1_uc003ptx.1_Intron|WASF1_uc003pty.1_Intron|WASF1_uc003ptz.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)														---	---	---	---
WASF1	8936	broad.mit.edu	37	6	110495521	110495521	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110495521delT	uc003ptv.1	-						WASF1_uc003ptw.1_Intron|WASF1_uc003ptx.1_Intron|WASF1_uc003pty.1_Intron|WASF1_uc003ptz.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)														---	---	---	---
CDC40	51362	broad.mit.edu	37	6	110548213	110548213	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110548213delA	uc003pua.2	+							NM_015891	NP_056975			cell division cycle 40 homolog						mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	110819572	110819572	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110819572delA								SLC22A16 (21728 upstream) : CDK19 (111609 downstream)																																			---	---	---	---
CDK19	23097	broad.mit.edu	37	6	111015958	111015958	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111015958delA	uc003puh.1	-						CDK19_uc003pui.1_Intron	NM_015076	NP_055891			cell division cycle 2-like 6 (CDK8-like)								ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
CDK19	23097	broad.mit.edu	37	6	111056517	111056517	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111056517delA	uc003puh.1	-						CDK19_uc003pui.1_Intron	NM_015076	NP_055891			cell division cycle 2-like 6 (CDK8-like)								ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
CDK19	23097	broad.mit.edu	37	6	111127381	111127381	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111127381delA	uc003puh.1	-						CDK19_uc003pui.1_Intron	NM_015076	NP_055891			cell division cycle 2-like 6 (CDK8-like)								ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
AMD1	262	broad.mit.edu	37	6	111165987	111165987	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111165987delA	uc011eay.1	+							NM_001033059	NP_001028231			adenosylmethionine decarboxylase 1 isoform 2						spermidine biosynthetic process|spermine biosynthetic process	cytosol	adenosylmethionine decarboxylase activity			upper_aerodigestive_tract(1)	1		all_cancers(87;3.83e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.0522)|Epithelial(106;0.111)|all cancers(137;0.143)	S-Adenosylmethionine(DB00118)													---	---	---	---
AMD1	262	broad.mit.edu	37	6	111211425	111211425	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111211425delT	uc003puk.1	+						AMD1_uc011eay.1_Intron|AMD1_uc011eaz.1_Intron|AMD1_uc011eba.1_Intron|AMD1_uc003pul.1_Intron	NM_001634	NP_001625			adenosylmethionine decarboxylase 1 isoform 1						spermidine biosynthetic process|spermine biosynthetic process	cytosol	adenosylmethionine decarboxylase activity			upper_aerodigestive_tract(1)	1		all_cancers(87;3.83e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.0522)|Epithelial(106;0.111)|all cancers(137;0.143)	S-Adenosylmethionine(DB00118)													---	---	---	---
SLC16A10	117247	broad.mit.edu	37	6	111459850	111459850	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111459850delT	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)														---	---	---	---
SLC16A10	117247	broad.mit.edu	37	6	111537615	111537615	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111537615delT	uc003pus.2	+						SLC16A10_uc003put.2_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)														---	---	---	---
KIAA1919	91749	broad.mit.edu	37	6	111587016	111587016	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111587016delT	uc003puv.3	+							NM_153369	NP_699200			sodium-dependent glucose transporter 1						carbohydrate transport|sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(3)	3		all_cancers(87;2.35e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.055)|all cancers(137;0.0871)|Epithelial(106;0.0884)														---	---	---	---
REV3L	5980	broad.mit.edu	37	6	111632750	111632750	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111632750delT	uc003puy.3	-						REV3L_uc003pux.3_Intron|REV3L_uc003puz.3_Intron|REV3L_uc003pva.1_Intron|REV3L_uc003puw.3_5'Flank	NM_002912	NP_002903			DNA polymerase zeta						DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)									DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					---	---	---	---
REV3L	5980	broad.mit.edu	37	6	111764368	111764368	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111764368delT	uc003puy.3	-						REV3L_uc003pux.3_Intron|REV3L_uc003puz.3_Intron	NM_002912	NP_002903			DNA polymerase zeta						DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)									DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					---	---	---	---
TRAF3IP2	10758	broad.mit.edu	37	6	111928114	111928115	+	5'Flank	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111928114_111928115delAG	uc011ebc.1	-						TRAF3IP2_uc003pvg.2_5'Flank|TRAF3IP2_uc003pvf.2_5'Flank|TRAF3IP2_uc010kdw.2_5'Flank|TRAF3IP2_uc010kdx.2_5'Flank	NM_147686	NP_679211			TRAF3 interacting protein 2 isoform 2						intracellular signal transduction|positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular				ovary(2)|central_nervous_system(1)	3		all_cancers(87;7.87e-06)|Acute lymphoblastic leukemia(125;3.61e-09)|all_hematologic(75;2.63e-07)|all_epithelial(87;0.0024)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.033)|all cancers(137;0.0412)|Epithelial(106;0.0732)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	111940730	111940731	+	IGR	DEL	TT	-	-	rs113633788		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111940730_111940731delTT								TRAF3IP2 (13256 upstream) : FYN (41756 downstream)																																			---	---	---	---
FYN	2534	broad.mit.edu	37	6	112083998	112084000	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112083998_112084000delAAA	uc003pvj.2	-						FYN_uc003pvk.2_Intron	NM_002037	NP_002028			protein-tyrosine kinase fyn isoform a						axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)													---	---	---	---
FYN	2534	broad.mit.edu	37	6	112095773	112095773	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112095773delC	uc003pvj.2	-						FYN_uc003pvk.2_Intron	NM_002037	NP_002028			protein-tyrosine kinase fyn isoform a						axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	112320452	112320453	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112320452_112320453delAA								FYN (125825 upstream) : WISP3 (54825 downstream)																																			---	---	---	---
LAMA4	3910	broad.mit.edu	37	6	112456149	112456149	+	Intron	DEL	A	-	-	rs71811122		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112456149delA	uc003pvu.2	-						LAMA4_uc003pvv.2_Intron|LAMA4_uc003pvt.2_Intron	NM_001105206	NP_001098676			laminin, alpha 4 isoform 1 precursor						cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)														---	---	---	---
LAMA4	3910	broad.mit.edu	37	6	112514676	112514676	+	Intron	DEL	A	-	-	rs67977052		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112514676delA	uc003pvu.2	-						LAMA4_uc003pvv.2_Intron|LAMA4_uc003pvt.2_Intron	NM_001105206	NP_001098676			laminin, alpha 4 isoform 1 precursor						cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)														---	---	---	---
LAMA4	3910	broad.mit.edu	37	6	112558711	112558711	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112558711delA	uc003pvu.2	-						LAMA4_uc003pvv.2_Intron|LAMA4_uc003pvt.2_Intron|LAMA4_uc003pvw.2_Intron	NM_001105206	NP_001098676			laminin, alpha 4 isoform 1 precursor						cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)														---	---	---	---
LAMA4	3910	broad.mit.edu	37	6	112575549	112575550	+	Intron	DEL	CT	-	-	rs62414023		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112575549_112575550delCT	uc003pvu.2	-						LAMA4_uc003pvv.2_Intron|LAMA4_uc003pvt.2_Intron|LAMA4_uc003pvw.2_Intron|LAMA4_uc010kdz.1_Intron|LAMA4_uc010kea.1_Intron	NM_001105206	NP_001098676			laminin, alpha 4 isoform 1 precursor						cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	112647042	112647042	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112647042delT								LAMA4 (71214 upstream) : RFPL4B (21490 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	112824132	112824132	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112824132delT								RFPL4B (151634 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	113313128	113313128	+	IGR	DEL	A	-	-	rs76277525		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:113313128delA								RFPL4B (640630 upstream) : MARCKS (865399 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	113579878	113579878	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:113579878delA								RFPL4B (907380 upstream) : MARCKS (598649 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	113748531	113748532	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:113748531_113748532delAG								None (None upstream) : MARCKS (429995 downstream)																																			---	---	---	---
HDAC2	3066	broad.mit.edu	37	6	114279066	114279066	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:114279066delA	uc003pwd.1	-						HDAC2_uc003pwc.1_Intron|HDAC2_uc003pwe.1_Intron	NM_001527	NP_001518			histone deacetylase 2						blood coagulation|dendrite development|embryonic digit morphogenesis|epidermal cell differentiation|eyelid development in camera-type eye|fungiform papilla formation|hair follicle placode formation|maintenance of chromatin silencing|negative regulation of apoptosis|negative regulation of cell cycle|negative regulation of neuron projection development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|odontogenesis of dentine-containing tooth|positive regulation of cell proliferation|positive regulation of proteolysis|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|ESC/E(Z) complex|NuRD complex|Sin3 complex	chromatin binding|enzyme 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)|sequence-specific DNA binding|transcription factor binding			skin(2)|ovary(1)|central_nervous_system(1)	4		all_cancers(87;0.000629)|all_epithelial(87;0.00274)|Colorectal(196;0.0317)|all_lung(197;0.24)		all cancers(137;0.00318)|OV - Ovarian serous cystadenocarcinoma(136;0.00569)|Epithelial(106;0.0112)|GBM - Glioblastoma multiforme(226;0.0832)	Vorinostat(DB02546)													---	---	---	---
HS3ST5	222537	broad.mit.edu	37	6	114582325	114582325	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:114582325delA	uc003pwh.3	-						uc003pwf.2_Intron	NM_153612	NP_705840			heparan sulfate (glucosamine)						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)														---	---	---	---
HS3ST5	222537	broad.mit.edu	37	6	114631692	114631692	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:114631692delT	uc003pwh.3	-						uc003pwf.2_Intron	NM_153612	NP_705840			heparan sulfate (glucosamine)						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	114683128	114683131	+	IGR	DEL	TCCT	-	-	rs71028412		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:114683128_114683131delTCCT								HS3ST5 (19588 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	114980100	114980100	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:114980100delA								HS3ST5 (316560 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	115076446	115076446	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:115076446delT								HS3ST5 (412906 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	115155312	115155312	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:115155312delT								HS3ST5 (491772 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	115421243	115421244	+	IGR	INS	-	TTTTA	TTTTA	rs62444794	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:115421243_115421244insTTTTA								HS3ST5 (757703 upstream) : FRK (841449 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	115592064	115592064	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:115592064delT								HS3ST5 (928524 upstream) : FRK (670629 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	116059048	116059048	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116059048delC								None (None upstream) : FRK (203645 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	116139420	116139420	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116139420delA								None (None upstream) : FRK (123273 downstream)																																			---	---	---	---
FRK	2444	broad.mit.edu	37	6	116380570	116380570	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116380570delA	uc003pwi.1	-							NM_002031	NP_002022			fyn-related kinase						negative regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|lung(3)	6		all_cancers(87;0.00559)|all_epithelial(87;0.00738)|Colorectal(196;0.0465)		all cancers(137;0.0128)|OV - Ovarian serous cystadenocarcinoma(136;0.0209)|GBM - Glioblastoma multiforme(226;0.0459)|Epithelial(106;0.0625)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	116406340	116406340	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116406340delA								FRK (24419 upstream) : NT5DC1 (15659 downstream)																																			---	---	---	---
NT5DC1	221294	broad.mit.edu	37	6	116531530	116531530	+	Intron	DEL	A	-	-	rs66763986		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116531530delA	uc003pwj.2	+						NT5DC1_uc003pwk.2_Intron|NT5DC1_uc003pwl.2_Intron	NM_152729	NP_689942			5'-nucleotidase, cytosolic II-like 1 protein								hydrolase activity|metal ion binding				0		all_cancers(87;0.00367)|all_epithelial(87;0.00449)|Colorectal(196;0.0469)		all cancers(137;0.0327)|OV - Ovarian serous cystadenocarcinoma(136;0.0445)|GBM - Glioblastoma multiforme(226;0.0719)|Epithelial(106;0.112)														---	---	---	---
DSE	29940	broad.mit.edu	37	6	116622336	116622337	+	Intron	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116622336_116622337delGA	uc003pws.2	+						DSE_uc011ebf.1_Intron|DSE_uc003pwq.1_Intron|DSE_uc003pwr.2_Intron	NM_001080976	NP_001074445			dermatan sulfate epimerase precursor						dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)														---	---	---	---
DSE	29940	broad.mit.edu	37	6	116637152	116637152	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116637152delA	uc003pws.2	+						DSE_uc011ebf.1_Intron|DSE_uc003pwq.1_Intron|DSE_uc003pwr.2_Intron	NM_001080976	NP_001074445			dermatan sulfate epimerase precursor						dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)														---	---	---	---
DSE	29940	broad.mit.edu	37	6	116653537	116653538	+	Intron	INS	-	TGTGTG	TGTGTG	rs140014042	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116653537_116653538insTGTGTG	uc003pws.2	+						DSE_uc011ebf.1_Intron|DSE_uc003pwq.1_Intron|DSE_uc003pwr.2_Intron	NM_001080976	NP_001074445			dermatan sulfate epimerase precursor						dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)														---	---	---	---
DSE	29940	broad.mit.edu	37	6	116736763	116736766	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116736763_116736766delTTTT	uc003pws.2	+						DSE_uc011ebf.1_Intron|DSE_uc011ebg.1_Intron|DSE_uc003pwt.2_Intron	NM_001080976	NP_001074445			dermatan sulfate epimerase precursor						dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	116764098	116764099	+	IGR	INS	-	T	T	rs138363530	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116764098_116764099insT								DSE (4658 upstream) : FAM26F (18457 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	117292784	117292784	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117292784delT								RFX6 (39476 upstream) : VGLL2 (293937 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	117605444	117605444	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117605444delT								VGLL2 (10717 upstream) : ROS1 (4086 downstream)																																			---	---	---	---
ROS1	6098	broad.mit.edu	37	6	117714618	117714618	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117714618delA	uc003pxp.1	-						ROS1_uc011ebi.1_Intron|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935			proto-oncogene c-ros-1 protein precursor						transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)				T	GOPC|ROS1	glioblastoma|NSCLC								---	---	---	---
DCBLD1	285761	broad.mit.edu	37	6	117859722	117859722	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117859722delT	uc003pxs.2	+						GOPC_uc003pxq.1_Intron|DCBLD1_uc003pxr.1_Intron|DCBLD1_uc003pxt.1_5'Flank	NM_173674	NP_775945			discoidin, CUB and LCCL domain containing 1						cell adhesion	integral to membrane				ovary(1)	1		all_cancers(87;0.171)		GBM - Glioblastoma multiforme(226;0.0447)|OV - Ovarian serous cystadenocarcinoma(136;0.0921)|all cancers(137;0.125)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	118076728	118076728	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:118076728delA								NUS1 (44844 upstream) : SLC35F1 (151961 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	118147652	118147652	+	IGR	DEL	T	-	-	rs112585701		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:118147652delT								NUS1 (115768 upstream) : SLC35F1 (81037 downstream)																																			---	---	---	---
SLC35F1	222553	broad.mit.edu	37	6	118302125	118302125	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:118302125delA	uc003pxx.3	+							NM_001029858	NP_001025029			solute carrier family 35, member F1						transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)														---	---	---	---
SLC35F1	222553	broad.mit.edu	37	6	118425260	118425264	+	Intron	DEL	CCCTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:118425260_118425264delCCCTT	uc003pxx.3	+							NM_001029858	NP_001025029			solute carrier family 35, member F1						transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)														---	---	---	---
SLC35F1	222553	broad.mit.edu	37	6	118439794	118439794	+	Intron	DEL	T	-	-	rs2883773	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:118439794delT	uc003pxx.3	+							NM_001029858	NP_001025029			solute carrier family 35, member F1						transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	118656932	118656932	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:118656932delG								SLC35F1 (18095 upstream) : C6orf204 (129307 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	118661531	118661531	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:118661531delT								SLC35F1 (22694 upstream) : C6orf204 (124708 downstream)																																			---	---	---	---
C6orf204	387119	broad.mit.edu	37	6	118916437	118916438	+	Intron	INS	-	TCATTG	TCATTG	rs143282180	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:118916437_118916438insTCATTG	uc003pxz.1	-						C6orf204_uc003pya.1_Intron|C6orf204_uc003pyb.2_Intron|C6orf204_uc011ebj.1_Intron|C6orf204_uc003pyc.2_Intron|C6orf204_uc011ebl.1_Intron	NM_001042475	NP_001035940			chromosome 6 open reading frame 204 isoform a							centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	119066520	119066520	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:119066520delA								C6orf204 (35282 upstream) : ASF1A (148721 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	119170086	119170086	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:119170086delA	uc011ebm.1	-											RecName: Full=DNA replication licensing factor MCM9; AltName: Full=Mini-chromosome maintenance deficient 9;          Short=hMCM9; AltName: Full=Mini-chromosome maintenance deficient domain-containing protein 1;																														---	---	---	---
ASF1A	25842	broad.mit.edu	37	6	119213952	119213952	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:119213952delA	uc011ebn.1	+							NM_014034	NP_054753			ASF1 anti-silencing function 1 homolog A						chromatin modification|DNA repair|loss of chromatin silencing|nucleosome assembly|transcription, DNA-dependent	chromatin remodeling complex	chromatin binding|histone binding				0		all_cancers(87;0.122)|all_epithelial(87;0.179)		GBM - Glioblastoma multiforme(226;0.0633)|OV - Ovarian serous cystadenocarcinoma(136;0.188)														---	---	---	---
FAM184A	79632	broad.mit.edu	37	6	119434622	119434622	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:119434622delT	uc003pyk.3	-						FAM184A_uc003pyl.3_Intron	NM_001100411	NP_001093881			hypothetical protein LOC79632 isoform 2											ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7																		---	---	---	---
FAM184A	79632	broad.mit.edu	37	6	119460976	119460976	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:119460976delT	uc003pyk.3	-						FAM184A_uc003pyl.3_Intron	NM_001100411	NP_001093881			hypothetical protein LOC79632 isoform 2											ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	119474585	119474585	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:119474585delA								FAM184A (4227 upstream) : MAN1A1 (24682 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	119476613	119476613	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:119476613delT								FAM184A (6255 upstream) : MAN1A1 (22654 downstream)																																			---	---	---	---
MAN1A1	4121	broad.mit.edu	37	6	119643469	119643469	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:119643469delT	uc003pym.1	-						MAN1A1_uc010kei.1_Intron	NM_005907	NP_005898			mannosidase, alpha, class 1A, member 1						post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_epithelial(87;0.173)		OV - Ovarian serous cystadenocarcinoma(136;0.0612)|GBM - Glioblastoma multiforme(226;0.0702)|all cancers(137;0.115)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	119938949	119938949	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:119938949delT								MAN1A1 (268023 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	120431290	120431291	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:120431290_120431291delAA								MAN1A1 (760364 upstream) : C6orf170 (969336 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	120596018	120596018	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:120596018delT								MAN1A1 (925092 upstream) : C6orf170 (804609 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	120771063	120771063	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:120771063delT								None (None upstream) : C6orf170 (629564 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	120869943	120869944	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:120869943_120869944insT								None (None upstream) : C6orf170 (530683 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	120912148	120912148	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:120912148delA								None (None upstream) : C6orf170 (488479 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	121131920	121131920	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:121131920delA								None (None upstream) : C6orf170 (268707 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	121718851	121718851	+	IGR	DEL	T	-	-	rs112874335		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:121718851delT								C6orf170 (63207 upstream) : GJA1 (37894 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	122133831	122133831	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:122133831delT								GJA1 (362959 upstream) : HSF2 (586865 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	122186423	122186424	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:122186423_122186424delTC								GJA1 (415551 upstream) : HSF2 (534272 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	122211357	122211357	+	IGR	DEL	A	-	-	rs35085807		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:122211357delA								GJA1 (440485 upstream) : HSF2 (509339 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	122219308	122219308	+	IGR	DEL	C	-	-	rs71895618		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:122219308delC								GJA1 (448436 upstream) : HSF2 (501388 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	122301173	122301173	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:122301173delT								GJA1 (530301 upstream) : HSF2 (419523 downstream)																																			---	---	---	---
SMPDL3A	10924	broad.mit.edu	37	6	123108734	123108734	+	5'Flank	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:123108734delC	uc003pzg.2	+						SMPDL3A_uc003pzh.2_5'Flank	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	123412927	123412927	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:123412927delA								CLVS2 (27864 upstream) : TRDN (124556 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	123516829	123516829	+	IGR	DEL	A	-	-	rs143309581		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:123516829delA								CLVS2 (131766 upstream) : TRDN (20654 downstream)																																			---	---	---	---
TRDN	10345	broad.mit.edu	37	6	123657266	123657266	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:123657266delT	uc003pzj.1	-						TRDN_uc010kem.1_Intron	NM_006073	NP_006064			triadin						muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)														---	---	---	---
TRDN	10345	broad.mit.edu	37	6	123726416	123726416	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:123726416delA	uc003pzj.1	-						TRDN_uc003pzk.1_Intron|TRDN_uc003pzl.1_Intron	NM_006073	NP_006064			triadin						muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)														---	---	---	---
TRDN	10345	broad.mit.edu	37	6	123752677	123752677	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:123752677delA	uc003pzj.1	-						TRDN_uc003pzk.1_Intron|TRDN_uc003pzl.1_Intron	NM_006073	NP_006064			triadin						muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	124119856	124119857	+	IGR	INS	-	AC	AC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:124119856_124119857insAC								TRDN (161914 upstream) : NKAIN2 (5212 downstream)																																			---	---	---	---
NKAIN2	154215	broad.mit.edu	37	6	124260950	124260950	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:124260950delT	uc003pzo.2	+						NKAIN2_uc003pzn.1_Intron|NKAIN2_uc003pzp.2_Intron|NKAIN2_uc010keq.2_Intron|NKAIN2_uc010kep.1_Intron	NM_001040214	NP_001035304			T-cell lymphoma breakpoint-associated target 1							integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)														---	---	---	---
NKAIN2	154215	broad.mit.edu	37	6	124447732	124447733	+	Intron	DEL	AC	-	-	rs145818101		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:124447732_124447733delAC	uc003pzo.2	+						NKAIN2_uc003pzn.1_Intron|NKAIN2_uc003pzp.2_Intron|NKAIN2_uc010keq.2_Intron|NKAIN2_uc010kep.1_Intron	NM_001040214	NP_001035304			T-cell lymphoma breakpoint-associated target 1							integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)														---	---	---	---
NKAIN2	154215	broad.mit.edu	37	6	124450436	124450436	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:124450436delA	uc003pzo.2	+						NKAIN2_uc003pzn.1_Intron|NKAIN2_uc003pzp.2_Intron|NKAIN2_uc010keq.2_Intron|NKAIN2_uc010kep.1_Intron	NM_001040214	NP_001035304			T-cell lymphoma breakpoint-associated target 1							integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)														---	---	---	---
NKAIN2	154215	broad.mit.edu	37	6	124712078	124712078	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:124712078delA	uc003pzo.2	+						NKAIN2_uc003pzn.1_Intron|NKAIN2_uc003pzp.2_Intron|NKAIN2_uc010keq.2_Intron|NKAIN2_uc010ker.2_Intron	NM_001040214	NP_001035304			T-cell lymphoma breakpoint-associated target 1							integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)														---	---	---	---
NKAIN2	154215	broad.mit.edu	37	6	124860526	124860526	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:124860526delT	uc003pzo.2	+						NKAIN2_uc003pzn.1_Intron|NKAIN2_uc003pzp.2_Intron|NKAIN2_uc010keq.2_Intron|NKAIN2_uc010ker.2_Intron	NM_001040214	NP_001035304			T-cell lymphoma breakpoint-associated target 1							integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)														---	---	---	---
NKAIN2	154215	broad.mit.edu	37	6	124908674	124908674	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:124908674delT	uc003pzo.2	+						NKAIN2_uc003pzn.1_Intron|NKAIN2_uc003pzp.2_Intron|NKAIN2_uc010keq.2_Intron|NKAIN2_uc010ker.2_Intron	NM_001040214	NP_001035304			T-cell lymphoma breakpoint-associated target 1							integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)														---	---	---	---
NKAIN2	154215	broad.mit.edu	37	6	124979215	124979215	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:124979215delA	uc003pzo.2	+						NKAIN2_uc003pzn.1_Intron|NKAIN2_uc003pzp.2_Intron|NKAIN2_uc010keq.2_Intron|NKAIN2_uc010ker.2_Intron	NM_001040214	NP_001035304			T-cell lymphoma breakpoint-associated target 1							integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)														---	---	---	---
STL	7955	broad.mit.edu	37	6	125269419	125269420	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:125269419_125269420delAA	uc003pzq.2	-							NR_026876				Homo sapiens mRNA; cDNA DKFZp451I132 (from clone DKFZp451I132).												0								T	ETV6	B-ALL								---	---	---	---
RNF217	154214	broad.mit.edu	37	6	125321289	125321289	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:125321289delT	uc003pzs.2	+						RNF217_uc003pzr.2_Intron|RNF217_uc003pzt.2_Intron	NM_152553	NP_689766			ring finger protein 217						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0162)														---	---	---	---
TPD52L1	7164	broad.mit.edu	37	6	125529676	125529676	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:125529676delT	uc003pzu.1	+						TPD52L1_uc003pzv.1_Intron|TPD52L1_uc003pzw.1_Intron|TPD52L1_uc003pzx.1_Intron|TPD52L1_uc003pzy.1_Intron|TPD52L1_uc003pzz.1_Intron	NM_003287	NP_003278			tumor protein D52-like 1 isoform 1						DNA fragmentation involved in apoptotic nuclear change|G2/M transition of mitotic cell cycle|induction of apoptosis|positive regulation of JNK cascade|positive regulation of MAP kinase activity	perinuclear region of cytoplasm	caspase activator activity|protein heterodimerization activity|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0265)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	125680756	125680756	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:125680756delA								HDDC2 (57474 upstream) : HEY2 (388024 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	125754627	125754630	+	IGR	DEL	AAAA	-	-	rs111789848		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:125754627_125754630delAAAA								HDDC2 (131345 upstream) : HEY2 (314150 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	125858610	125858610	+	IGR	DEL	T	-	-	rs77939313		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:125858610delT								HDDC2 (235328 upstream) : HEY2 (210170 downstream)																																			---	---	---	---
NCOA7	135112	broad.mit.edu	37	6	126162671	126162671	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:126162671delT	uc010kes.2	+						NCOA7_uc003qae.3_Intron|NCOA7_uc003qah.2_Intron|NCOA7_uc003qai.2_Intron|NCOA7_uc010ket.2_Intron|NCOA7_uc003qaf.2_Intron|NCOA7_uc003qag.2_Intron|NCOA7_uc003qaj.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)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	126265495	126265495	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:126265495delA								NCOA7 (13229 upstream) : HINT3 (12366 downstream)																																			---	---	---	---
TRMT11	60487	broad.mit.edu	37	6	126306927	126306927	+	5'Flank	DEL	A	-	-	rs113455125		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:126306927delA	uc003qam.2	+						TRMT11_uc003qan.2_5'Flank|TRMT11_uc010kev.2_5'Flank	NM_001031712	NP_001026882			tRNA methyltransferase 11						tRNA processing		methyltransferase activity|nucleic acid binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0356)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	126744307	126744307	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:126744307delT	uc003qaq.1	-						CENPW_uc003qap.3_Intron					Homo sapiens cDNA FLJ45564 fis, clone BRTHA3007469.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	127045623	127045623	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:127045623delT	uc003qaq.1	-											Homo sapiens cDNA FLJ45564 fis, clone BRTHA3007469.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	127316843	127316843	+	Intron	DEL	C	-	-	rs1930941	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:127316843delC	uc003qaq.1	-											Homo sapiens cDNA FLJ45564 fis, clone BRTHA3007469.																														---	---	---	---
RNF146	81847	broad.mit.edu	37	6	127607585	127607585	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:127607585delA	uc003qav.2	+						RNF146_uc003qat.2_Intron|RNF146_uc003qau.2_Intron|RNF146_uc003qaw.2_Intron	NM_030963	NP_112225			ring finger protein 146						positive regulation of canonical Wnt receptor signaling pathway|protein autoubiquitination|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol	poly-ADP-D-ribose binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1				GBM - Glioblastoma multiforme(226;0.0407)|all cancers(137;0.2)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	127851315	127851315	+	IGR	DEL	A	-	-	rs76737252	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:127851315delA								C6orf174 (10815 upstream) : C6orf58 (47004 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	127858648	127858649	+	IGR	DEL	TC	-	-	rs67116112		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:127858648_127858649delTC								C6orf174 (18148 upstream) : C6orf58 (39670 downstream)																																			---	---	---	---
THEMIS	387357	broad.mit.edu	37	6	128031312	128031312	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:128031312delA	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																		---	---	---	---
THEMIS	387357	broad.mit.edu	37	6	128165733	128165733	+	Intron	DEL	A	-	-	rs111813846		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:128165733delA	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	128259612	128259612	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:128259612delA								THEMIS (19870 upstream) : PTPRK (30313 downstream)																																			---	---	---	---
PTPRK	5796	broad.mit.edu	37	6	128436127	128436127	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:128436127delA	uc003qbk.2	-						PTPRK_uc003qbj.2_Intron|PTPRK_uc010kfc.2_Intron|PTPRK_uc011ebu.1_Intron|PTPRK_uc003qbl.1_Intron|PTPRK_uc011ebv.1_Intron	NM_002844	NP_002835			protein tyrosine phosphatase, receptor type, K						cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	128894058	128894059	+	IGR	DEL	TT	-	-	rs113066313		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:128894058_128894059delTT								PTPRK (52188 upstream) : LAMA2 (310227 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	129105728	129105728	+	IGR	DEL	T	-	-	rs112703082		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:129105728delT								PTPRK (263858 upstream) : LAMA2 (98558 downstream)																																			---	---	---	---
LAMA2	3908	broad.mit.edu	37	6	129277072	129277072	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:129277072delA	uc003qbn.2	+						LAMA2_uc003qbo.2_Intron	NM_000426	NP_000417			laminin alpha 2 subunit isoform a precursor						cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)														---	---	---	---
LAMA2	3908	broad.mit.edu	37	6	129345410	129345410	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:129345410delA	uc003qbn.2	+						LAMA2_uc003qbo.2_Intron	NM_000426	NP_000417			laminin alpha 2 subunit isoform a precursor						cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)														---	---	---	---
LAMA2	3908	broad.mit.edu	37	6	129740202	129740202	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:129740202delT	uc003qbn.2	+						LAMA2_uc003qbo.2_Intron	NM_000426	NP_000417			laminin alpha 2 subunit isoform a precursor						cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)														---	---	---	---
LAMA2	3908	broad.mit.edu	37	6	129796506	129796506	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:129796506delT	uc003qbn.2	+						LAMA2_uc003qbo.2_Intron	NM_000426	NP_000417			laminin alpha 2 subunit isoform a precursor						cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)														---	---	---	---
ARHGAP18	93663	broad.mit.edu	37	6	129972174	129972175	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:129972174_129972175insT	uc003qbr.2	-						ARHGAP18_uc011ebw.1_Intron	NM_033515	NP_277050			Rho GTPase activating protein 18						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			ovary(2)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(136;0.0621)|GBM - Glioblastoma multiforme(226;0.0638)|all cancers(137;0.074)														---	---	---	---
C6orf191	253582	broad.mit.edu	37	6	130156550	130156552	+	Intron	DEL	AAA	-	-	rs34698135		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:130156550_130156552delAAA	uc003qbs.2	-							NM_001010876	NP_001010876			hypothetical protein LOC253582							integral to membrane				large_intestine(1)	1				GBM - Glioblastoma multiforme(226;0.0387)|all cancers(137;0.115)|OV - Ovarian serous cystadenocarcinoma(155;0.131)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	130249781	130249781	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:130249781delA								C6orf191 (67365 upstream) : L3MBTL3 (89953 downstream)																																			---	---	---	---
L3MBTL3	84456	broad.mit.edu	37	6	130339786	130339786	+	5'UTR	DEL	A	-	-	rs78358089		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:130339786delA	uc003qbt.2	+	1					L3MBTL3_uc003qbu.2_5'UTR	NM_032438	NP_115814			l(3)mbt-like 3 isoform a						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)														---	---	---	---
L3MBTL3	84456	broad.mit.edu	37	6	130413724	130413724	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:130413724delT	uc003qbt.2	+						L3MBTL3_uc003qbu.2_Intron	NM_032438	NP_115814			l(3)mbt-like 3 isoform a						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)														---	---	---	---
SAMD3	154075	broad.mit.edu	37	6	130477468	130477469	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:130477468_130477469insA	uc003qbv.2	-						SAMD3_uc003qbx.2_Intron|SAMD3_uc003qbw.2_Intron	NM_001017373	NP_001017373			sterile alpha motif domain containing 3 isoform											ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)														---	---	---	---
SAMD3	154075	broad.mit.edu	37	6	130652518	130652518	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:130652518delA	uc003qbx.2	-							NM_001017373	NP_001017373			sterile alpha motif domain containing 3 isoform											ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	131084978	131084979	+	IGR	INS	-	G	G	rs137950156	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:131084978_131084979insG								TMEM200A (320770 upstream) : LOC285733 (63345 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	131093181	131093181	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:131093181delA								TMEM200A (328973 upstream) : LOC285733 (55143 downstream)																																			---	---	---	---
EPB41L2	2037	broad.mit.edu	37	6	131199492	131199492	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:131199492delA	uc003qch.2	-						EPB41L2_uc003qce.1_Intron|EPB41L2_uc003qcf.1_Intron|EPB41L2_uc003qcg.1_Intron|EPB41L2_uc011eby.1_Intron|EPB41L2_uc003qci.2_Intron|EPB41L2_uc010kfk.2_Intron|EPB41L2_uc010kfl.1_Intron|EPB41L2_uc003qcj.1_5'Flank	NM_001431	NP_001422			erythrocyte membrane protein band 4.1-like 2						cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)														---	---	---	---
EPB41L2	2037	broad.mit.edu	37	6	131265313	131265316	+	Intron	DEL	ACAC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:131265313_131265316delACAC	uc003qch.2	-						EPB41L2_uc003qcg.1_Intron|EPB41L2_uc011eby.1_Intron|EPB41L2_uc003qci.2_Intron|EPB41L2_uc010kfk.2_Intron|EPB41L2_uc010kfl.1_Intron	NM_001431	NP_001422			erythrocyte membrane protein band 4.1-like 2						cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)														---	---	---	---
EPB41L2	2037	broad.mit.edu	37	6	131285167	131285169	+	Intron	DEL	TTT	-	-	rs72207167		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:131285167_131285169delTTT	uc003qch.2	-						EPB41L2_uc003qcg.1_Intron|EPB41L2_uc011eby.1_Intron|EPB41L2_uc003qci.2_Intron|EPB41L2_uc010kfk.2_Intron|EPB41L2_uc010kfl.1_Intron	NM_001431	NP_001422			erythrocyte membrane protein band 4.1-like 2						cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)														---	---	---	---
ENPP1	5167	broad.mit.edu	37	6	132135546	132135546	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132135546delA	uc011ecf.1	+							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)													---	---	---	---
ENPP1	5167	broad.mit.edu	37	6	132184055	132184055	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132184055delT	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)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	132434045	132434045	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132434045delT								CTGF (161527 upstream) : MOXD1 (183150 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	132774669	132774670	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132774669_132774670delAC								MOXD1 (52005 upstream) : STX7 (3993 downstream)																																			---	---	---	---
STX7	8417	broad.mit.edu	37	6	132791887	132791888	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132791887_132791888delTG	uc003qdg.2	-						STX7_uc011ecg.1_Intron|STX7_uc011ech.1_Intron	NM_003569	NP_003560			syntaxin 7						intracellular protein transport|post-Golgi vesicle-mediated transport	early endosome membrane|integral to membrane	SNAP receptor activity				0	Breast(56;0.0615)			OV - Ovarian serous cystadenocarcinoma(155;0.00532)|GBM - Glioblastoma multiforme(226;0.0114)														---	---	---	---
VNN2	8875	broad.mit.edu	37	6	133065290	133065290	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:133065290delA	uc003qdt.2	-	7					VNN2_uc003qds.2_3'UTR|VNN2_uc010kgb.2_3'UTR|VNN2_uc003qdv.2_3'UTR	NM_004665	NP_004656			vanin 2 isoform 1 precursor						cellular component movement|pantothenate metabolic process	anchored to membrane|plasma membrane	pantetheine hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(155;0.00237)|GBM - Glioblastoma multiforme(226;0.0267)														---	---	---	---
C6orf192	116843	broad.mit.edu	37	6	133106182	133106184	+	Intron	DEL	AAA	-	-	rs111892991		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:133106182_133106184delAAA	uc003qdw.1	-						C6orf192_uc011eco.1_Intron	NM_052831	NP_439896			hypothetical protein LOC116843						transmembrane transport	integral to membrane				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;0.00303)|GBM - Glioblastoma multiforme(226;0.0265)														---	---	---	---
EYA4	2070	broad.mit.edu	37	6	133564228	133564229	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:133564228_133564229delGT	uc003qec.3	+						EYA4_uc011ecq.1_Intron|EYA4_uc011ecr.1_Intron|EYA4_uc003qed.3_Intron|EYA4_uc003qee.3_Intron|EYA4_uc011ecs.1_Intron	NM_004100	NP_004091			eyes absent 4 isoform a						anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)														---	---	---	---
EYA4	2070	broad.mit.edu	37	6	133701813	133701813	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:133701813delT	uc003qec.3	+						EYA4_uc011ecq.1_Intron|EYA4_uc011ecr.1_Intron|EYA4_uc003qed.3_Intron|EYA4_uc003qee.3_Intron|EYA4_uc011ecs.1_Intron	NM_004100	NP_004091			eyes absent 4 isoform a						anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	134115709	134115709	+	Intron	DEL	T	-	-	rs148194392		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:134115709delT	uc003qeg.1	-											Homo sapiens cDNA FLJ36194 fis, clone TESTI2027615.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	134184273	134184276	+	Intron	DEL	TAGT	-	-	rs113376424		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:134184273_134184276delTAGT	uc003qeg.1	-											Homo sapiens cDNA FLJ36194 fis, clone TESTI2027615.																														---	---	---	---
SLC2A12	154091	broad.mit.edu	37	6	134356573	134356574	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:134356573_134356574insA	uc003qem.1	-							NM_145176	NP_660159			solute carrier family 2 (facilitated glucose							endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	134701171	134701171	+	IGR	DEL	T	-	-	rs72153971		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:134701171delT								SGK1 (61975 upstream) : ALDH8A1 (537358 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	134901414	134901415	+	Intron	INS	-	A	A	rs145645662	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:134901414_134901415insA	uc003qev.1	-											AJ606331																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	135025729	135025729	+	IGR	DEL	C	-	-	rs35333949		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:135025729delC								SGK1 (386533 upstream) : ALDH8A1 (212800 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	135166434	135166436	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:135166434_135166436delTTT								SGK1 (527238 upstream) : ALDH8A1 (72093 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	135209714	135209714	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:135209714delA								SGK1 (570518 upstream) : ALDH8A1 (28815 downstream)																																			---	---	---	---
ALDH8A1	64577	broad.mit.edu	37	6	135243855	135243855	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:135243855delA	uc003qew.2	-						ALDH8A1_uc003qex.2_Intron|ALDH8A1_uc010kgh.2_Intron|ALDH8A1_uc011ecx.1_Intron	NM_022568	NP_072090			aldehyde dehydrogenase 8A1 isoform 1						retinal metabolic process	cytoplasm	retinal dehydrogenase activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)														---	---	---	---
MYB	4602	broad.mit.edu	37	6	135501865	135501865	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:135501865delA	uc003qfc.2	+						MYB_uc003qfh.2_5'Flank|MYB_uc003qfi.2_5'Flank|MYB_uc010kgi.2_5'Flank|MYB_uc003qfq.2_5'Flank|MYB_uc010kgj.2_5'Flank|MYB_uc003qfo.2_5'Flank|MYB_uc003qfu.2_5'Flank|MYB_uc003qfl.2_5'Flank|MYB_uc003qfv.2_5'Flank|MYB_uc003qfz.2_5'Flank|MYB_uc003qfx.2_5'Flank|MYB_uc003qga.2_5'Flank|MYB_uc003qgb.2_5'Flank|MYB_uc010kgk.2_5'Flank|MYB_uc003qfd.2_5'Flank|MYB_uc003qfe.2_5'Flank|MYB_uc003qfg.2_5'Flank|MYB_uc003qff.2_5'Flank|MYB_uc003qfj.2_5'Flank|MYB_uc003qfm.2_5'Flank|MYB_uc003qfp.2_5'Flank|MYB_uc003qfn.2_5'Flank|MYB_uc003qfk.2_5'Flank|MYB_uc003qfr.2_5'Flank|MYB_uc003qfs.2_5'Flank|MYB_uc003qft.2_5'Flank|MYB_uc003qfw.2_5'Flank|MYB_uc003qfy.2_5'Flank|MYB_uc003qfb.1_5'Flank	NM_005375	NP_005366			v-myb myeloblastosis viral oncogene homolog						blood coagulation|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone H3-K4 methylation|positive regulation of histone H3-K9 methylation|positive regulation of T-helper cell differentiation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear matrix	DNA binding|protein binding			lung(1)	1	all_epithelial(2;0.109)|Breast(56;0.158)|Colorectal(23;0.221)	Lung NSC(302;3.08e-05)|Ovarian(999;0.208)		OV - Ovarian serous cystadenocarcinoma(155;0.0079)|GBM - Glioblastoma multiforme(68;0.0117)				T	NFIB	adenoid cystic carcinoma								---	---	---	---
Unknown	0	broad.mit.edu	37	6	135591065	135591065	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:135591065delG								MIR548A2 (30671 upstream) : AHI1 (14047 downstream)																																			---	---	---	---
AHI1	54806	broad.mit.edu	37	6	135751150	135751150	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:135751150delA	uc003qgi.2	-						AHI1_uc003qgf.2_Intron|AHI1_uc003qgg.2_Intron|AHI1_uc003qgh.2_Intron|AHI1_uc003qgj.2_Intron|AHI1_uc003qgk.3_Intron|AHI1_uc003qgl.3_Intron	NM_001134831	NP_001128303			Abelson helper integration site 1 isoform a							adherens junction|cilium|microtubule basal body				ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)														---	---	---	---
C6orf217	100131814	broad.mit.edu	37	6	135923774	135923774	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:135923774delT	uc003qgn.2	+						C6orf217_uc003qgo.2_Intron|C6orf217_uc010kgo.2_Intron					Homo sapiens cDNA clone IMAGE:4795512.												0																		---	---	---	---
C6orf217	100131814	broad.mit.edu	37	6	135935120	135935120	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:135935120delT	uc003qgn.2	+						C6orf217_uc003qgo.2_Intron|C6orf217_uc010kgo.2_Intron					Homo sapiens cDNA clone IMAGE:4795512.												0																		---	---	---	---
C6orf217	100131814	broad.mit.edu	37	6	136015462	136015464	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136015462_136015464delAAA	uc003qgn.2	+						C6orf217_uc003qgo.2_Intron					Homo sapiens cDNA clone IMAGE:4795512.												0																		---	---	---	---
C6orf217	100131814	broad.mit.edu	37	6	136028205	136028205	+	Intron	DEL	A	-	-	rs113470149		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136028205delA	uc003qgn.2	+						C6orf217_uc003qgo.2_Intron					Homo sapiens cDNA clone IMAGE:4795512.												0																		---	---	---	---
PDE7B	27115	broad.mit.edu	37	6	136347020	136347020	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136347020delT	uc003qgp.2	+						uc003qgq.1_Intron	NM_018945	NP_061818			phosphodiesterase 7B						signal transduction|synaptic transmission	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(1)	1	Colorectal(23;0.24)			OV - Ovarian serous cystadenocarcinoma(155;0.0136)|GBM - Glioblastoma multiforme(68;0.0147)	Dyphylline(DB00651)|Ketotifen(DB00920)													---	---	---	---
FAM54A	113115	broad.mit.edu	37	6	136566111	136566111	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136566111delT	uc010kgp.1	-						FAM54A_uc003qgt.1_Intron|FAM54A_uc003qgu.1_Intron	NM_001099286	NP_001092756			DUF729 domain containing 1											skin(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00228)|OV - Ovarian serous cystadenocarcinoma(155;0.00504)														---	---	---	---
FAM54A	113115	broad.mit.edu	37	6	136568488	136568489	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136568488_136568489delAA	uc010kgp.1	-						FAM54A_uc003qgt.1_Intron|FAM54A_uc003qgu.1_Intron	NM_001099286	NP_001092756			DUF729 domain containing 1											skin(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00228)|OV - Ovarian serous cystadenocarcinoma(155;0.00504)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	136662110	136662110	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136662110delA								BCLAF1 (51121 upstream) : MAP7 (1763 downstream)																																			---	---	---	---
MAP7	9053	broad.mit.edu	37	6	136732878	136732878	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136732878delA	uc003qgz.2	-						MAP7_uc011edf.1_Intron|MAP7_uc011edg.1_Intron|MAP7_uc010kgu.2_Intron|MAP7_uc011edh.1_Intron|MAP7_uc010kgv.2_Intron|MAP7_uc010kgs.2_Intron|MAP7_uc011edi.1_Intron|MAP7_uc010kgq.1_Intron|MAP7_uc003qha.1_Intron|MAP7_uc010kgr.2_Intron|MAP7_uc010kgt.2_Intron	NM_003980	NP_003971			microtubule-associated protein 7						establishment or maintenance of cell polarity|microtubule cytoskeleton organization|protein localization in plasma membrane|response to osmotic stress	basolateral plasma membrane|microtubule|microtubule associated complex|nucleus|perinuclear region of cytoplasm	receptor binding|structural molecule activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00199)|OV - Ovarian serous cystadenocarcinoma(155;0.00643)														---	---	---	---
MAP7	9053	broad.mit.edu	37	6	136781667	136781667	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136781667delA	uc003qgz.2	-						MAP7_uc011edf.1_Intron|MAP7_uc011edg.1_Intron|MAP7_uc010kgu.2_Intron|MAP7_uc011edh.1_Intron|MAP7_uc010kgv.2_Intron|MAP7_uc010kgs.2_Intron|MAP7_uc011edi.1_Intron|MAP7_uc010kgq.1_Intron|MAP7_uc003qha.1_Intron|MAP7_uc010kgr.2_Intron|MAP7_uc010kgt.2_Intron	NM_003980	NP_003971			microtubule-associated protein 7						establishment or maintenance of cell polarity|microtubule cytoskeleton organization|protein localization in plasma membrane|response to osmotic stress	basolateral plasma membrane|microtubule|microtubule associated complex|nucleus|perinuclear region of cytoplasm	receptor binding|structural molecule activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00199)|OV - Ovarian serous cystadenocarcinoma(155;0.00643)														---	---	---	---
MAP3K5	4217	broad.mit.edu	37	6	137083673	137083673	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:137083673delG	uc003qhc.2	-						MAP3K5_uc011edk.1_Intron|MAP3K5_uc010kgw.1_Intron	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)														---	---	---	---
IL22RA2	116379	broad.mit.edu	37	6	137497055	137497055	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:137497055delT	uc003qhl.2	-						IL22RA2_uc003qhm.2_5'Flank|IL22RA2_uc003qhn.2_5'Flank	NM_052962	NP_443194			interleukin 22-binding protein isoform 1						regulation of tyrosine phosphorylation of Stat3 protein	extracellular space	interleukin-22 receptor activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000313)|OV - Ovarian serous cystadenocarcinoma(155;0.00407)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	138078013	138078014	+	IGR	INS	-	TG	TG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138078013_138078014insTG								OLIG3 (262482 upstream) : TNFAIP3 (110567 downstream)																																			---	---	---	---
TNFAIP3	7128	broad.mit.edu	37	6	138196579	138196579	+	Intron	DEL	T	-	-	rs111927614		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138196579delT	uc003qhr.2	+						TNFAIP3_uc003qhs.2_Intron	NM_006290	NP_006281			tumor necrosis factor, alpha-induced protein 3						anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)				D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								---	---	---	---
Unknown	0	broad.mit.edu	37	6	138267147	138267148	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138267147_138267148delAA								TNFAIP3 (62702 upstream) : PERP (142494 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	138288316	138288316	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138288316delA								TNFAIP3 (83871 upstream) : PERP (121326 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	138304931	138304931	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138304931delT								TNFAIP3 (100486 upstream) : PERP (104711 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	138435805	138435805	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138435805delT								PERP (7145 upstream) : KIAA1244 (47419 downstream)																																			---	---	---	---
KIAA1244	57221	broad.mit.edu	37	6	138492725	138492726	+	Intron	INS	-	C	C	rs141802497	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138492725_138492726insC	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	138684714	138684714	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138684714delT								KIAA1244 (24778 upstream) : HEBP2 (40622 downstream)																																			---	---	---	---
NHSL1	57224	broad.mit.edu	37	6	138836124	138836124	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138836124delA	uc003qhx.2	-							NM_020464	NP_065197			NHS-like 1 isoform 1												0																		---	---	---	---
NHSL1	57224	broad.mit.edu	37	6	138890383	138890384	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138890383_138890384delTG	uc003qhx.2	-							NM_020464	NP_065197			NHS-like 1 isoform 1												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	138941190	138941190	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138941190delT								NHSL1 (47522 upstream) : CCDC28A (153467 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	139005789	139005789	+	IGR	DEL	C	-	-	rs6940904	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139005789delC								NHSL1 (112121 upstream) : CCDC28A (88868 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	139040173	139040173	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139040173delT								NHSL1 (146505 upstream) : CCDC28A (54484 downstream)																																			---	---	---	---
ECT2L	345930	broad.mit.edu	37	6	139148508	139148508	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139148508delA	uc003qif.1	+						ECT2L_uc011edq.1_Intron	NM_001077706	NP_001071174			epithelial cell transforming sequence 2						regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity				0																		---	---	---	---
REPS1	85021	broad.mit.edu	37	6	139275253	139275254	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139275253_139275254delAA	uc003qii.2	-						REPS1_uc003qig.3_Intron|REPS1_uc011edr.1_Intron|REPS1_uc003qij.2_Intron|REPS1_uc003qik.2_Intron	NM_031922	NP_114128			RALBP1 associated Eps domain containing 1							coated pit|plasma membrane	calcium ion binding|SH3 domain binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(68;0.000434)|OV - Ovarian serous cystadenocarcinoma(155;0.000548)														---	---	---	---
REPS1	85021	broad.mit.edu	37	6	139307925	139307925	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139307925delA	uc003qii.2	-						REPS1_uc003qig.3_Intron|REPS1_uc011edr.1_Intron|REPS1_uc003qij.2_Intron|REPS1_uc003qik.2_Intron	NM_031922	NP_114128			RALBP1 associated Eps domain containing 1							coated pit|plasma membrane	calcium ion binding|SH3 domain binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(68;0.000434)|OV - Ovarian serous cystadenocarcinoma(155;0.000548)														---	---	---	---
HECA	51696	broad.mit.edu	37	6	139453396	139453396	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139453396delA	uc003qin.2	+							NM_016217	NP_057301			headcase						respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	139628349	139628350	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139628349_139628350insT								TXLNB (15141 upstream) : CITED2 (65047 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	139663414	139663414	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139663414delT								TXLNB (50206 upstream) : CITED2 (29983 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	139688673	139688674	+	IGR	INS	-	ACC	ACC	rs151004027	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139688673_139688674insACC								TXLNB (75465 upstream) : CITED2 (4723 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	139872388	139872388	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139872388delT								CITED2 (176603 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	140017638	140017639	+	IGR	INS	-	TT	TT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:140017638_140017639insTT								CITED2 (321853 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	140141033	140141033	+	Intron	DEL	A	-	-	rs11355783		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:140141033delA	uc003qir.2	+											Homo sapiens, clone IMAGE:5557975, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	140202699	140202699	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:140202699delA								CITED2 (506914 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	140476194	140476194	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:140476194delA								CITED2 (780409 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	140587512	140587513	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:140587512_140587513delTT								CITED2 (891727 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	140782354	140782354	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:140782354delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	141278866	141278866	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:141278866delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	141427634	141427637	+	IGR	DEL	TGTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:141427634_141427637delTGTG								None (None upstream) : NMBR (969109 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	141570451	141570451	+	IGR	DEL	A	-	-	rs72273370		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:141570451delA								None (None upstream) : NMBR (826295 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	141679900	141679900	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:141679900delT								None (None upstream) : NMBR (716846 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	141700728	141700728	+	IGR	DEL	A	-	-	rs73575890	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:141700728delA								None (None upstream) : NMBR (696018 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	141960643	141960643	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:141960643delT	uc003qit.1	-											SubName: Full=ORF2-like protein; Flags: Fragment;																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	143028436	143028436	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:143028436delA								LOC153910 (69410 upstream) : HIVEP2 (44169 downstream)																																			---	---	---	---
AIG1	51390	broad.mit.edu	37	6	143640811	143640811	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:143640811delT	uc003qjh.2	+						AIG1_uc003qjf.2_Intron|AIG1_uc003qji.2_Intron	NM_016108	NP_057192			androgen-induced 1							integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(155;2.34e-05)|GBM - Glioblastoma multiforme(68;0.0246)														---	---	---	---
AIG1	51390	broad.mit.edu	37	6	143658062	143658062	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:143658062delA	uc003qjh.2	+						AIG1_uc003qjf.2_Intron|AIG1_uc003qji.2_Intron	NM_016108	NP_057192			androgen-induced 1							integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(155;2.34e-05)|GBM - Glioblastoma multiforme(68;0.0246)														---	---	---	---
PEX3	8504	broad.mit.edu	37	6	143792919	143792919	+	Intron	DEL	T	-	-	rs71641631		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:143792919delT	uc003qjl.2	+						PEX3_uc011edx.1_Intron	NM_003630	NP_003621			peroxisomal biogenesis factor 3						protein import into peroxisome membrane|transmembrane transport	integral to peroxisomal membrane	protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;5.73e-06)|GBM - Glioblastoma multiforme(68;0.0117)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	143868173	143868174	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:143868173_143868174delAA								FUCA2 (35310 upstream) : LOC285740 (7293 downstream)																																			---	---	---	---
PHACTR2	9749	broad.mit.edu	37	6	144109706	144109707	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144109706_144109707insT	uc003qjq.3	+						PHACTR2_uc010khh.2_Intron|PHACTR2_uc010khi.2_Intron|PHACTR2_uc003qjr.3_Intron	NM_014721	NP_055536			phosphatase and actin regulator 2 isoform 3								actin binding|protein phosphatase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(155;1.58e-05)|GBM - Glioblastoma multiforme(68;0.0386)														---	---	---	---
LTV1	84946	broad.mit.edu	37	6	144171190	144171190	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144171190delG	uc003qjs.2	+							NM_032860	NP_116249			LTV1 homolog											ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;2.72e-06)|GBM - Glioblastoma multiforme(68;0.0372)														---	---	---	---
LTV1	84946	broad.mit.edu	37	6	144181842	144181842	+	Intron	DEL	A	-	-	rs138724144	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)														---	---	---	---
C6orf94	153918	broad.mit.edu	37	6	144213435	144213436	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144213435_144213436delTT	uc010khk.2	+						C6orf94_uc010khj.2_Intron|C6orf94_uc011edy.1_Intron	NM_001013623	NP_001013645			hypothetical protein LOC153918												0																		---	---	---	---
PLAGL1	5325	broad.mit.edu	37	6	144340611	144340611	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144340611delA	uc003qkj.2	-						PLAGL1_uc003qki.2_Intron|PLAGL1_uc003qkk.2_Intron|PLAGL1_uc003qkl.2_Intron|PLAGL1_uc003qkm.2_Intron|PLAGL1_uc010khn.2_Intron|PLAGL1_uc003qkn.2_Intron|PLAGL1_uc003qko.2_Intron|PLAGL1_uc003qkp.2_Intron	NM_002656	NP_002647			pleiomorphic adenoma gene-like 1 isoform 1						cell cycle arrest|induction of apoptosis|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(155;5.74e-07)|GBM - Glioblastoma multiforme(68;0.0885)														---	---	---	---
PLAGL1	5325	broad.mit.edu	37	6	144344408	144344408	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144344408delT	uc003qkj.2	-						PLAGL1_uc003qki.2_Intron|PLAGL1_uc003qkk.2_Intron|PLAGL1_uc003qkl.2_Intron|PLAGL1_uc003qkm.2_Intron|PLAGL1_uc010khn.2_Intron|PLAGL1_uc003qkn.2_Intron|PLAGL1_uc003qko.2_Intron|PLAGL1_uc003qkp.2_Intron	NM_002656	NP_002647			pleiomorphic adenoma gene-like 1 isoform 1						cell cycle arrest|induction of apoptosis|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(155;5.74e-07)|GBM - Glioblastoma multiforme(68;0.0885)														---	---	---	---
UTRN	7402	broad.mit.edu	37	6	144796037	144796037	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144796037delA	uc003qkt.2	+						UTRN_uc010khq.1_Intron	NM_007124	NP_009055			utrophin						muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)														---	---	---	---
UTRN	7402	broad.mit.edu	37	6	144809036	144809037	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144809036_144809037insA	uc003qkt.2	+							NM_007124	NP_009055			utrophin						muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)														---	---	---	---
UTRN	7402	broad.mit.edu	37	6	144843999	144843999	+	Intron	DEL	A	-	-	rs150930485		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144843999delA	uc003qkt.2	+							NM_007124	NP_009055			utrophin						muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)														---	---	---	---
UTRN	7402	broad.mit.edu	37	6	144846777	144846778	+	Intron	INS	-	TT	TT	rs146671381	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144846777_144846778insTT	uc003qkt.2	+							NM_007124	NP_009055			utrophin						muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)														---	---	---	---
UTRN	7402	broad.mit.edu	37	6	144952056	144952056	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144952056delA	uc003qkt.2	+							NM_007124	NP_009055			utrophin						muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	145174277	145174277	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:145174277delT								UTRN (109 upstream) : EPM2A (772169 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	145483672	145483672	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:145483672delT								UTRN (309504 upstream) : EPM2A (462774 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	145582958	145582958	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:145582958delA								UTRN (408790 upstream) : EPM2A (363488 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	145608085	145608086	+	IGR	DEL	AA	-	-	rs111741517		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:145608085_145608086delAA								UTRN (433917 upstream) : EPM2A (338360 downstream)																																			---	---	---	---
SHPRH	257218	broad.mit.edu	37	6	146244956	146244956	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146244956delT	uc003qlf.2	-						SHPRH_uc003qld.2_Intron|SHPRH_uc003qle.2_Intron|SHPRH_uc003qlg.1_Intron|SHPRH_uc003qlh.2_Intron|SHPRH_uc003qli.1_Intron	NM_001042683	NP_001036148			SNF2 histone linker PHD RING helicase isoform a						DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	146296046	146296046	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146296046delC								SHPRH (10487 upstream) : GRM1 (52736 downstream)																																			---	---	---	---
GRM1	2911	broad.mit.edu	37	6	146681117	146681117	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146681117delA	uc010khw.1	+						GRM1_uc010khv.1_Intron|GRM1_uc003qll.2_Intron|GRM1_uc011edz.1_Intron|GRM1_uc011eea.1_Intron	NM_000838	NP_000829			glutamate receptor, metabotropic 1 isoform alpha						synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	146781535	146781535	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146781535delT								GRM1 (22804 upstream) : RAB32 (83293 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	146899223	146899223	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146899223delT								RAB32 (23137 upstream) : C6orf103 (20913 downstream)																																			---	---	---	---
C6orf103	79747	broad.mit.edu	37	6	146941613	146941613	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146941613delT	uc010khx.2	+						C6orf103_uc003qlp.2_Intron	NM_024694	NP_078970			hypothetical protein LOC79747						oxygen transport|proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|heme binding|oxygen binding			central_nervous_system(2)|lung(1)	3		Ovarian(120;0.142)		OV - Ovarian serous cystadenocarcinoma(155;2.04e-08)|GBM - Glioblastoma multiforme(68;0.0113)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	147302998	147302999	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:147302998_147302999insA	uc003qlt.1	-						uc003qlu.1_Intron|uc003qlv.2_Intron					Homo sapiens cDNA FLJ34275 fis, clone FEBRA2003454.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	147461349	147461349	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:147461349delA	uc003qlt.1	-						uc003qlu.1_Intron					Homo sapiens cDNA FLJ34275 fis, clone FEBRA2003454.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	147489718	147489720	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:147489718_147489720delAAA	uc003qlt.1	-						uc003qlu.1_Intron					Homo sapiens cDNA FLJ34275 fis, clone FEBRA2003454.																														---	---	---	---
Unknown	0	broad.mit.edu	37	6	147510617	147510617	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:147510617delA	uc003qlt.1	-						uc003qlu.1_Intron					Homo sapiens cDNA FLJ34275 fis, clone FEBRA2003454.																														---	---	---	---
STXBP5	134957	broad.mit.edu	37	6	147542881	147542881	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:147542881delT	uc003qlz.2	+						STXBP5_uc010khz.1_Intron|STXBP5_uc003qlx.2_Intron|STXBP5_uc003qly.2_Intron	NM_001127715	NP_001121187			syntaxin binding protein 5 (tomosyn) isoform b						exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	148043416	148043416	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:148043416delT								SAMD5 (152259 upstream) : SASH1 (620313 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	148179875	148179875	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:148179875delT								SAMD5 (288718 upstream) : SASH1 (483854 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	148234345	148234345	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:148234345delA								SAMD5 (343188 upstream) : SASH1 (429384 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	148362353	148362354	+	IGR	INS	-	C	C	rs141225273	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:148362353_148362354insC								SAMD5 (471196 upstream) : SASH1 (301375 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	148451720	148451721	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:148451720_148451721insA								SAMD5 (560563 upstream) : SASH1 (212008 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	148576766	148576766	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:148576766delT								SAMD5 (685609 upstream) : SASH1 (86963 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	148886122	148886123	+	IGR	INS	-	T	T	rs148319995	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:148886122_148886123insT								SASH1 (12938 upstream) : UST (182148 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	148893180	148893181	+	IGR	DEL	TT	-	-	rs116512739	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:148893180_148893181delTT								SASH1 (19996 upstream) : UST (175090 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	149461178	149461178	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:149461178delA								UST (63053 upstream) : TAB2 (78581 downstream)																																			---	---	---	---
TAB2	23118	broad.mit.edu	37	6	149553372	149553372	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:149553372delT	uc011eec.1	+							NM_015093	NP_055908			mitogen-activated protein kinase kinase kinase 7						activation of MAPK activity|heart development|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	K63-linked polyubiquitin binding|zinc ion binding				0																		---	---	---	---
TAB2	23118	broad.mit.edu	37	6	149631019	149631020	+	Intron	INS	-	GT	GT	rs141557575	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:149631019_149631020insGT	uc011eec.1	+							NM_015093	NP_055908			mitogen-activated protein kinase kinase kinase 7						activation of MAPK activity|heart development|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	K63-linked polyubiquitin binding|zinc ion binding				0																		---	---	---	---
TAB2	23118	broad.mit.edu	37	6	149723135	149723137	+	Intron	DEL	AAA	-	-	rs147141394		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:149723135_149723137delAAA	uc003qmj.2	+						TAB2_uc011eec.1_Intron|TAB2_uc003qmk.3_Intron	NM_015093	NP_055908			mitogen-activated protein kinase kinase kinase 7						activation of MAPK activity|heart development|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	K63-linked polyubiquitin binding|zinc ion binding				0																		---	---	---	---
PPIL4	85313	broad.mit.edu	37	6	149862317	149862320	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:149862317_149862320delTTTT	uc003qmo.1	-						PPIL4_uc010kic.2_Intron|PPIL4_uc003qmp.1_Intron	NM_139126	NP_624311			peptidylprolyl isomerase-like 4						protein folding	nucleus	nucleotide binding|peptidyl-prolyl cis-trans isomerase activity|RNA binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.11e-11)|GBM - Glioblastoma multiforme(68;0.0885)														---	---	---	---
KATNA1	11104	broad.mit.edu	37	6	149930507	149930507	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:149930507delA	uc003qmr.1	-						KATNA1_uc003qms.2_Intron|KATNA1_uc003qmt.2_Intron|KATNA1_uc011eed.1_Intron	NM_007044	NP_008975			katanin p60 subunit A 1						cell division|interphase of mitotic cell cycle|mitosis	microtubule|microtubule organizing center|spindle pole	ATP binding|microtubule binding|microtubule-severing ATPase activity|protein heterodimerization activity			skin(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;2.95e-12)|GBM - Glioblastoma multiforme(68;0.173)														---	---	---	---
LATS1	9113	broad.mit.edu	37	6	150013557	150013557	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:150013557delA	uc003qmu.1	-						LATS1_uc010kif.1_Intron|LATS1_uc003qmv.1_Intron|LATS1_uc003qmw.2_Intron|LATS1_uc010kig.1_Intron	NM_004690	NP_004681			LATS homolog 1						cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)														---	---	---	---
LATS1	9113	broad.mit.edu	37	6	150027646	150027646	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:150027646delA	uc003qmu.1	-						LATS1_uc010kif.1_Intron|LATS1_uc003qmw.2_Intron|LATS1_uc010kig.1_Intron	NM_004690	NP_004681			LATS homolog 1						cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)														---	---	---	---
PCMT1	5110	broad.mit.edu	37	6	150092136	150092137	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:150092136_150092137insA	uc003qne.2	+						PCMT1_uc003qna.2_Intron|PCMT1_uc003qnb.2_Intron|PCMT1_uc011eeg.1_Intron|PCMT1_uc003qnc.2_Intron|PCMT1_uc003qnd.2_Intron|PCMT1_uc003qnf.2_Intron	NM_005389	NP_005380			protein-L-isoaspartate (D-aspartate)											ovary(1)	1		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.221)	OV - Ovarian serous cystadenocarcinoma(155;5.63e-13)|GBM - Glioblastoma multiforme(68;0.207)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	150192850	150192850	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:150192850delT	uc003qni.1	+											Homo sapiens low density lipoprotein receptor-related protein 11, mRNA (cDNA clone IMAGE:4072521), partial cds.																														---	---	---	---
PPP1R14C	81706	broad.mit.edu	37	6	150482413	150482413	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:150482413delA	uc003qnt.2	+							NM_030949	NP_112211			protein phosphatase 1, regulatory (inhibitor)						regulation of phosphorylation	cytoplasm|membrane					0		Ovarian(120;0.0284)	BRCA - Breast invasive adenocarcinoma(37;0.215)	OV - Ovarian serous cystadenocarcinoma(155;9.14e-12)														---	---	---	---
PPP1R14C	81706	broad.mit.edu	37	6	150494160	150494161	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:150494160_150494161insT	uc003qnt.2	+							NM_030949	NP_112211			protein phosphatase 1, regulatory (inhibitor)						regulation of phosphorylation	cytoplasm|membrane					0		Ovarian(120;0.0284)	BRCA - Breast invasive adenocarcinoma(37;0.215)	OV - Ovarian serous cystadenocarcinoma(155;9.14e-12)														---	---	---	---
MTHFD1L	25902	broad.mit.edu	37	6	151223101	151223101	+	Intron	DEL	T	-	-	rs113707030		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151223101delT	uc003qob.2	+						MTHFD1L_uc011een.1_Intron|MTHFD1L_uc011eeo.1_Intron|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)														---	---	---	---
MTHFD1L	25902	broad.mit.edu	37	6	151273677	151273677	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151273677delT	uc003qob.2	+						MTHFD1L_uc011een.1_Intron|MTHFD1L_uc011eeo.1_Intron|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)														---	---	---	---
MTHFD1L	25902	broad.mit.edu	37	6	151284054	151284055	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151284054_151284055insC	uc003qob.2	+						MTHFD1L_uc011een.1_Intron|MTHFD1L_uc011eeo.1_Intron|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)														---	---	---	---
MTHFD1L	25902	broad.mit.edu	37	6	151336482	151336483	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151336482_151336483delTT	uc003qob.2	+						MTHFD1L_uc011een.1_Intron|MTHFD1L_uc011eeo.1_Intron|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)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	151485260	151485260	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151485260delT								MTHFD1L (62240 upstream) : AKAP12 (75874 downstream)																																			---	---	---	---
AKAP12	9590	broad.mit.edu	37	6	151599809	151599809	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151599809delT	uc011eep.1	+						AKAP12_uc003qoe.2_Intron	NM_005100	NP_005091			A kinase (PRKA) anchor protein 12 isoform 1						G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)														---	---	---	---
C6orf211	79624	broad.mit.edu	37	6	151773568	151773568	+	5'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151773568delT	uc003qok.1	+	1					C6orf211_uc011ees.1_5'UTR|RMND1_uc003qoi.2_5'Flank	NM_024573	NP_078849			hypothetical protein LOC79624								protein binding				0			BRCA - Breast invasive adenocarcinoma(37;0.183)	OV - Ovarian serous cystadenocarcinoma(155;5.27e-11)														---	---	---	---
ESR1	2099	broad.mit.edu	37	6	152179157	152179157	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152179157delT	uc003qom.3	+						ESR1_uc010kin.2_Intron|ESR1_uc010kio.2_Intron|ESR1_uc010kip.2_Intron|ESR1_uc003qon.3_Intron|ESR1_uc003qoo.3_Intron|ESR1_uc010kiq.2_Intron|ESR1_uc010kir.2_Intron|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_Intron|ESR1_uc011eev.1_Intron|ESR1_uc011eew.1_Intron	NM_001122742	NP_001116214			estrogen receptor alpha isoform 4						positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)													---	---	---	---
SYNE1	23345	broad.mit.edu	37	6	152642258	152642258	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152642258delT	uc010kiw.2	-						SYNE1_uc010kiv.2_5'Flank|SYNE1_uc003qos.3_5'Flank|SYNE1_uc003qot.3_Intron|SYNE1_uc003qou.3_Intron|SYNE1_uc010kiz.2_Intron	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)			---	---	---	---
SYNE1	23345	broad.mit.edu	37	6	152713398	152713398	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152713398delA	uc010kiw.2	-						SYNE1_uc003qot.3_Intron|SYNE1_uc003qou.3_Intron|SYNE1_uc010kjb.1_Intron	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)			---	---	---	---
SYNE1	23345	broad.mit.edu	37	6	152725693	152725693	+	Intron	DEL	A	-	-	rs147671287		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152725693delA	uc010kiw.2	-						SYNE1_uc003qot.3_Intron|SYNE1_uc003qou.3_Intron|SYNE1_uc010kjb.1_Intron	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)			---	---	---	---
SYNE1	23345	broad.mit.edu	37	6	152868776	152868776	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152868776delA	uc010kiw.2	-						SYNE1_uc003qot.3_Intron|SYNE1_uc003qou.3_Intron|SYNE1_uc010kjb.1_Intron|SYNE1_uc003qpa.1_Intron	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)			---	---	---	---
SYNE1	23345	broad.mit.edu	37	6	152878409	152878409	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152878409delA	uc010kiw.2	-						SYNE1_uc003qot.3_Intron|SYNE1_uc003qou.3_Intron|SYNE1_uc010kjb.1_Intron|SYNE1_uc003qpa.1_Intron	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)			---	---	---	---
SYNE1	23345	broad.mit.edu	37	6	152955933	152955933	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152955933delT	uc010kiw.2	-						SYNE1_uc003qot.3_Intron|SYNE1_uc003qou.3_Intron|SYNE1_uc010kjb.1_Intron	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)			---	---	---	---
Unknown	0	broad.mit.edu	37	6	153601228	153601228	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:153601228delA								RGS17 (148839 upstream) : OPRM1 (730408 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	153621876	153621877	+	IGR	DEL	TT	-	-	rs145237897		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:153621876_153621877delTT								RGS17 (169487 upstream) : OPRM1 (709759 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	153740555	153740555	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:153740555delA								RGS17 (288166 upstream) : OPRM1 (591081 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	153829885	153829885	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:153829885delA								RGS17 (377496 upstream) : OPRM1 (501751 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	153935584	153935584	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:153935584delT								RGS17 (483195 upstream) : OPRM1 (396052 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	153983708	153983708	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:153983708delT								RGS17 (531319 upstream) : OPRM1 (347928 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	154037518	154037518	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:154037518delT								RGS17 (585129 upstream) : OPRM1 (294118 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	154126844	154126844	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:154126844delT								RGS17 (674455 upstream) : OPRM1 (204792 downstream)																																			---	---	---	---
CNKSR3	154043	broad.mit.edu	37	6	154766150	154766151	+	Intron	DEL	TT	-	-	rs112843346		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:154766150_154766151delTT	uc003qpy.2	-							NM_173515	NP_775786			CNKSR family member 3						negative regulation of ERK1 and ERK2 cascade|negative regulation of peptidyl-serine phosphorylation|positive regulation of sodium ion transport	cytoplasm|membrane				ovary(2)|breast(1)|skin(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;5.03e-11)|BRCA - Breast invasive adenocarcinoma(81;0.00627)														---	---	---	---
CNKSR3	154043	broad.mit.edu	37	6	154821391	154821392	+	Intron	DEL	AC	-	-	rs57938572		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:154821391_154821392delAC	uc003qpy.2	-							NM_173515	NP_775786			CNKSR family member 3						negative regulation of ERK1 and ERK2 cascade|negative regulation of peptidyl-serine phosphorylation|positive regulation of sodium ion transport	cytoplasm|membrane				ovary(2)|breast(1)|skin(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;5.03e-11)|BRCA - Breast invasive adenocarcinoma(81;0.00627)														---	---	---	---
CNKSR3	154043	broad.mit.edu	37	6	154824601	154824601	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:154824601delT	uc003qpy.2	-							NM_173515	NP_775786			CNKSR family member 3						negative regulation of ERK1 and ERK2 cascade|negative regulation of peptidyl-serine phosphorylation|positive regulation of sodium ion transport	cytoplasm|membrane				ovary(2)|breast(1)|skin(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;5.03e-11)|BRCA - Breast invasive adenocarcinoma(81;0.00627)														---	---	---	---
TIAM2	26230	broad.mit.edu	37	6	155267605	155267605	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155267605delT	uc003qqb.2	+							NM_012454	NP_036586			T-cell lymphoma invasion and metastasis 2						apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)														---	---	---	---
TIAM2	26230	broad.mit.edu	37	6	155478222	155478222	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155478222delT	uc003qqb.2	+						TIAM2_uc003qqe.2_Intron|TIAM2_uc010kjj.2_Intron|TIAM2_uc003qqf.2_Intron|TIAM2_uc011efl.1_Intron|TIAM2_uc003qqg.2_Intron	NM_012454	NP_036586			T-cell lymphoma invasion and metastasis 2						apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	155667063	155667064	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155667063_155667064insT								TFB1M (31437 upstream) : NOX3 (49439 downstream)																																			---	---	---	---
NOX3	50508	broad.mit.edu	37	6	155773773	155773773	+	Intron	DEL	T	-	-	rs67368429		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155773773delT	uc003qqm.2	-							NM_015718	NP_056533			NADPH oxidase 3								electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	155831718	155831718	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155831718delT								NOX3 (54681 upstream) : MIR1202 (436213 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	155869772	155869772	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155869772delT								NOX3 (92735 upstream) : MIR1202 (398159 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	156287891	156287891	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:156287891delA								MIR1202 (19878 upstream) : ARID1B (811195 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	156631993	156631993	+	IGR	DEL	A	-	-	rs80252740		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:156631993delA								MIR1202 (363980 upstream) : ARID1B (467093 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	156681729	156681729	+	IGR	DEL	A	-	-	rs7750205	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:156681729delA								MIR1202 (413716 upstream) : ARID1B (417357 downstream)																																			---	---	---	---
ARID1B	57492	broad.mit.edu	37	6	157347062	157347063	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:157347062_157347063delTT	uc003qqn.2	+						ARID1B_uc003qqo.2_Intron|ARID1B_uc003qqp.2_Intron|ARID1B_uc003qqq.1_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)														---	---	---	---
ZDHHC14	79683	broad.mit.edu	37	6	157867421	157867421	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:157867421delT	uc003qqt.2	+						ZDHHC14_uc003qqs.2_Intron	NM_024630	NP_078906			zinc finger, DHHC-type containing 14 isoform 1							integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|skin(1)	2		Breast(66;0.00586)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.9e-17)|BRCA - Breast invasive adenocarcinoma(81;5.8e-05)														---	---	---	---
SYNJ2	8871	broad.mit.edu	37	6	158461566	158461567	+	Intron	DEL	AA	-	-	rs79095597		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158461566_158461567delAA	uc003qqx.1	+						SYNJ2_uc011efm.1_Intron|SYNJ2_uc003qqw.1_Intron|SYNJ2_uc003qqy.1_Intron|SYNJ2_uc011efn.1_Intron|SYNJ2_uc010kjo.1_Intron	NM_003898	NP_003889			synaptojanin 2								nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)														---	---	---	---
SYNJ2	8871	broad.mit.edu	37	6	158508009	158508009	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158508009delC	uc003qqx.1	+	23	3406	c.3331delC	c.(3331-3333)CCCfs	p.P1111fs	SYNJ2_uc003qqw.1_Frame_Shift_Del_p.P1111fs|SYNJ2_uc003qqy.1_Frame_Shift_Del_p.P824fs|SYNJ2_uc003qqz.1_Frame_Shift_Del_p.P728fs|SYNJ2_uc003qra.1_Frame_Shift_Del_p.P454fs|SYNJ2_uc010kjp.1_5'UTR	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	1111	Pro-rich.|Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)														---	---	---	---
SERAC1	84947	broad.mit.edu	37	6	158563514	158563515	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158563514_158563515delTT	uc003qrc.2	-						SERAC1_uc003qrb.2_Intron	NM_032861	NP_116250			serine active site containing 1						GPI anchor metabolic process|intracellular protein transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	binding|hydrolase activity, acting on ester bonds				0		Breast(66;0.00519)|Ovarian(120;0.123)|Prostate(117;0.178)		OV - Ovarian serous cystadenocarcinoma(65;1.37e-18)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)														---	---	---	---
SERAC1	84947	broad.mit.edu	37	6	158583001	158583001	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158583001delA	uc003qrc.2	-						SERAC1_uc003qrb.2_5'UTR	NM_032861	NP_116250			serine active site containing 1						GPI anchor metabolic process|intracellular protein transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	binding|hydrolase activity, acting on ester bonds				0		Breast(66;0.00519)|Ovarian(120;0.123)|Prostate(117;0.178)		OV - Ovarian serous cystadenocarcinoma(65;1.37e-18)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	158635549	158635553	+	IGR	DEL	AAAAC	-	-	rs111715987		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158635549_158635553delAAAAC								GTF2H5 (15183 upstream) : TULP4 (98139 downstream)																																			---	---	---	---
TULP4	56995	broad.mit.edu	37	6	158816848	158816848	+	Intron	DEL	T	-	-	rs143361139		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158816848delT	uc003qrf.2	+						TULP4_uc011efo.1_Intron|TULP4_uc003qrg.2_Intron	NM_020245	NP_064630			tubby like protein 4 isoform 1						intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)														---	---	---	---
TMEM181	57583	broad.mit.edu	37	6	158978385	158978386	+	Intron	INS	-	AG	AG	rs139689763	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158978385_158978386insAG	uc003qrm.3	+						TMEM181_uc010kjr.1_Intron	NM_020823	NP_065874			G protein-coupled receptor 178						pathogenesis	integral to membrane	toxin binding			ovary(2)|central_nervous_system(1)	3		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;8.15e-18)|BRCA - Breast invasive adenocarcinoma(81;1.38e-05)														---	---	---	---
SYTL3	94120	broad.mit.edu	37	6	159126596	159126597	+	Intron	INS	-	G	G	rs145177528	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159126596_159126597insG	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)												OREG0017758	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
SYTL3	94120	broad.mit.edu	37	6	159185851	159185852	+	3'UTR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159185851_159185852delCT	uc003qrp.2	+	17					SYTL3_uc003qro.2_3'UTR|SYTL3_uc003qrq.2_3'UTR|SYTL3_uc003qrr.2_3'UTR|SYTL3_uc003qrs.2_3'UTR|SYTL3_uc011efq.1_3'UTR	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)														---	---	---	---
OSTCL	202459	broad.mit.edu	37	6	159268489	159268489	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159268489delT	uc003qrw.2	-							NM_145303	NP_660346			oligosaccharyltransferase complex subunit-like												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	159443277	159443278	+	IGR	INS	-	A	A	rs146386710	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159443277_159443278insA								RSPH3 (22079 upstream) : TAGAP (12751 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	159518169	159518169	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159518169delA								TAGAP (51985 upstream) : FNDC1 (72260 downstream)																																			---	---	---	---
FNDC1	84624	broad.mit.edu	37	6	159632600	159632600	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159632600delT	uc010kjv.2	+						FNDC1_uc010kjw.1_Intron	NM_032532	NP_115921			fibronectin type III domain containing 1							extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)														---	---	---	---
IGF2R	3482	broad.mit.edu	37	6	160468601	160468601	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160468601delA	uc003qta.2	+							NM_000876	NP_000867			insulin-like growth factor 2 receptor precursor						receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)														---	---	---	---
SLC22A3	6581	broad.mit.edu	37	6	160824145	160824145	+	Intron	DEL	C	-	-	rs2457014	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160824145delC	uc003qti.2	+						SLC22A3_uc011efx.1_Intron	NM_021977	NP_068812			solute carrier family 22 member 3							integral to plasma membrane|membrane fraction	protein binding|quaternary ammonium group transmembrane transporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(66;0.00028)|Ovarian(120;0.0308)|Prostate(117;0.218)		OV - Ovarian serous cystadenocarcinoma(65;9.47e-17)|BRCA - Breast invasive adenocarcinoma(81;9.75e-06)														---	---	---	---
LPAL2	80350	broad.mit.edu	37	6	160887595	160887595	+	RNA	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160887595delT	uc003qtj.2	-	10		c.1960delA				NR_028093				Homo sapiens cDNA FLJ43922 fis, clone TESTI4012406.												0		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.214)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)														---	---	---	---
LPA	4018	broad.mit.edu	37	6	160975171	160975171	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160975171delT	uc003qtl.2	-							NM_005577	NP_005568			lipoprotein Lp(a) precursor						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)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	161108160	161108161	+	IGR	DEL	GC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161108160_161108161delGC								LPA (20753 upstream) : PLG (15113 downstream)																																			---	---	---	---
PLG	5340	broad.mit.edu	37	6	161130002	161130004	+	Intron	DEL	TAA	-	-	rs34126283	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161130002_161130004delTAA	uc003qtm.3	+							NM_000301	NP_000292			plasminogen						extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	161174378	161174378	+	IGR	DEL	T	-	-	rs4252177		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161174378delT								PLG (33 upstream) : MAP3K4 (238444 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	161331564	161331564	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161331564delT								PLG (157219 upstream) : MAP3K4 (81258 downstream)																																			---	---	---	---
AGPAT4	56895	broad.mit.edu	37	6	161688755	161688755	+	Intron	DEL	A	-	-	rs75457203		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161688755delA	uc003qtr.1	-						AGPAT4_uc003qts.1_Intron|AGPAT4_uc011egb.1_Intron|AGPAT4_uc011egc.1_Intron|AGPAT4_uc011egd.1_Intron|AGPAT4_uc011ege.1_Intron	NM_020133	NP_064518			1-acylglycerol-3-phosphate O-acyltransferase 4						phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	161709519	161709520	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161709519_161709520delTT								AGPAT4 (14412 upstream) : PARK2 (59071 downstream)																																			---	---	---	---
PARK2	5071	broad.mit.edu	37	6	161979301	161979302	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161979301_161979302delAA	uc003qtx.3	-						PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Intron|PARK2_uc003qtw.3_Intron|PARK2_uc003qty.3_Intron|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Intron|PARK2_uc011egf.1_Intron	NM_004562	NP_004553			parkin isoform 1						aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)														---	---	---	---
PARK2	5071	broad.mit.edu	37	6	162115455	162115455	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:162115455delT	uc003qtx.3	-						PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Intron|PARK2_uc003qtw.3_Intron|PARK2_uc003qty.3_Intron|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Intron|PARK2_uc011egf.1_Intron	NM_004562	NP_004553			parkin isoform 1						aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)														---	---	---	---
PARK2	5071	broad.mit.edu	37	6	162658825	162658825	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:162658825delA	uc003qtx.3	-						PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Intron|PARK2_uc003qtw.3_Intron|PARK2_uc003qty.3_Intron|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Intron	NM_004562	NP_004553			parkin isoform 1						aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)														---	---	---	---
PARK2	5071	broad.mit.edu	37	6	162817959	162817960	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:162817959_162817960delAC	uc003qtx.3	-						PARK2_uc010kkd.2_Intron|PARK2_uc003qtw.3_Intron|PARK2_uc003qty.3_Intron|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Intron	NM_004562	NP_004553			parkin isoform 1						aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)														---	---	---	---
PARK2	5071	broad.mit.edu	37	6	162820159	162820159	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:162820159delT	uc003qtx.3	-						PARK2_uc010kkd.2_Intron|PARK2_uc003qtw.3_Intron|PARK2_uc003qty.3_Intron|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Intron	NM_004562	NP_004553			parkin isoform 1						aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)														---	---	---	---
PARK2	5071	broad.mit.edu	37	6	162848687	162848687	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:162848687delT	uc003qtx.3	-						PARK2_uc010kkd.2_Intron|PARK2_uc003qtw.3_Intron|PARK2_uc003qty.3_Intron|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Intron	NM_004562	NP_004553			parkin isoform 1						aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)														---	---	---	---
PARK2	5071	broad.mit.edu	37	6	162885861	162885861	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:162885861delA	uc003qtx.3	-						PARK2_uc003qty.3_Intron|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Intron	NM_004562	NP_004553			parkin isoform 1						aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)														---	---	---	---
PARK2	5071	broad.mit.edu	37	6	162936012	162936012	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:162936012delA	uc003qtx.3	-						PARK2_uc003qty.3_Intron|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Intron	NM_004562	NP_004553			parkin isoform 1						aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)														---	---	---	---
PACRG	135138	broad.mit.edu	37	6	163660574	163660574	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:163660574delG	uc003qua.2	+						PACRG_uc003qub.2_Intron|PACRG_uc003quc.2_Intron	NM_152410	NP_689623			parkin co-regulated gene protein isoform 1												0		Breast(66;2.41e-05)|Ovarian(120;0.0245)|Prostate(117;0.0273)|all_neural(5;0.0416)|Glioma(2;0.203)		OV - Ovarian serous cystadenocarcinoma(33;4.31e-19)|GBM - Glioblastoma multiforme(2;7.42e-11)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)|KIRC - Kidney renal clear cell carcinoma(3;0.205)|Kidney(3;0.242)														---	---	---	---
PACRG	135138	broad.mit.edu	37	6	163683559	163683561	+	Intron	DEL	TTT	-	-	rs111526693		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:163683559_163683561delTTT	uc003qua.2	+						PACRG_uc003qub.2_Intron|PACRG_uc003quc.2_Intron	NM_152410	NP_689623			parkin co-regulated gene protein isoform 1												0		Breast(66;2.41e-05)|Ovarian(120;0.0245)|Prostate(117;0.0273)|all_neural(5;0.0416)|Glioma(2;0.203)		OV - Ovarian serous cystadenocarcinoma(33;4.31e-19)|GBM - Glioblastoma multiforme(2;7.42e-11)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)|KIRC - Kidney renal clear cell carcinoma(3;0.205)|Kidney(3;0.242)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	163784564	163784564	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:163784564delA								LOC285796 (39070 upstream) : QKI (51111 downstream)																																			---	---	---	---
QKI	9444	broad.mit.edu	37	6	163901292	163901293	+	Intron	DEL	TC	-	-	rs138903989		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:163901292_163901293delTC	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)														---	---	---	---
QKI	9444	broad.mit.edu	37	6	163966635	163966635	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:163966635delA	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	164204916	164204916	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:164204916delA								QKI (210024 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	164210887	164210887	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:164210887delC								QKI (215995 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	164369854	164369854	+	IGR	DEL	T	-	-	rs66934921		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:164369854delT								QKI (374962 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	164370504	164370505	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:164370504_164370505insT								QKI (375612 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	164407291	164407291	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:164407291delT								QKI (412399 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	165041929	165041929	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:165041929delT								None (None upstream) : C6orf118 (651226 downstream)																																			---	---	---	---
PDE10A	10846	broad.mit.edu	37	6	165771387	165771388	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:165771387_165771388insT	uc003qun.2	-						PDE10A_uc011egj.1_Intron|PDE10A_uc011egk.1_Intron|PDE10A_uc003quo.2_Intron	NM_006661	NP_006652			phosphodiesterase 10A isoform 2						platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)													---	---	---	---
PDE10A	10846	broad.mit.edu	37	6	165894076	165894076	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:165894076delA	uc003qun.2	-						PDE10A_uc011egj.1_Intron|PDE10A_uc011egk.1_Intron|PDE10A_uc003quo.2_Intron	NM_006661	NP_006652			phosphodiesterase 10A isoform 2						platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)													---	---	---	---
PDE10A	10846	broad.mit.edu	37	6	166042504	166042505	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:166042504_166042505delTT	uc003qun.2	-						PDE10A_uc003quo.2_Intron	NM_006661	NP_006652			phosphodiesterase 10A isoform 2						platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	166153805	166153806	+	IGR	DEL	AG	-	-	rs111362501		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:166153805_166153806delAG								PDE10A (78221 upstream) : C6orf176 (183730 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	166429219	166429219	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:166429219delA								LOC441177 (26116 upstream) : T (141867 downstream)																																			---	---	---	---
RPS6KA2	6196	broad.mit.edu	37	6	167218910	167218910	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167218910delT	uc003qvd.1	-						RPS6KA2_uc003qvc.1_Intron	NM_021135	NP_066958			ribosomal protein S6 kinase, 90kDa, polypeptide						axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|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|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)														---	---	---	---
RPS6KA2	6196	broad.mit.edu	37	6	167268853	167268854	+	Intron	INS	-	GAA	GAA	rs142771541	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167268853_167268854insGAA	uc003qvd.1	-						RPS6KA2_uc003qvc.1_Intron	NM_021135	NP_066958			ribosomal protein S6 kinase, 90kDa, polypeptide						axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|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|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)														---	---	---	---
RNASET2	8635	broad.mit.edu	37	6	167352665	167352666	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167352665_167352666insA	uc003qve.2	-						RNASET2_uc003qvh.2_Intron|RNASET2_uc003qvf.2_Intron|RNASET2_uc003qvg.2_Intron|RNASET2_uc003qvi.1_Intron	NM_003730	NP_003721			ribonuclease T2 precursor						RNA catabolic process	extracellular region	ribonuclease T2 activity|RNA binding				0		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;1.53e-19)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00665)														---	---	---	---
CCR6	1235	broad.mit.edu	37	6	167416821	167416821	+	5'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167416821delT	uc003qvl.2	+	3					FGFR1OP_uc011egp.1_Intron|FGFR1OP_uc003qvj.2_Intron|FGFR1OP_uc003qvk.2_Intron	NM_031409	NP_113597			chemokine (C-C motif) receptor 6						cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|humoral immune response	integral to plasma membrane	C-C chemokine receptor activity			ovary(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;8.21e-20)|BRCA - Breast invasive adenocarcinoma(81;4.55e-06)|GBM - Glioblastoma multiforme(31;0.00507)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	167920475	167920475	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167920475delT								TCP10 (122477 upstream) : C6orf123 (264746 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	168042177	168042181	+	IGR	DEL	CACAA	-	-	rs147423623	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168042177_168042181delCACAA								TCP10 (244179 upstream) : C6orf123 (143040 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	168051724	168051724	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168051724delA								TCP10 (253726 upstream) : C6orf123 (133497 downstream)																																			---	---	---	---
MLLT4	4301	broad.mit.edu	37	6	168293104	168293104	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168293104delT	uc003qwd.2	+						MLLT4_uc003qwb.1_Intron|MLLT4_uc003qwc.1_Intron|MLLT4_uc003qwf.2_Intron	NM_001040001	NP_001035090			myeloid/lymphoid or mixed-lineage leukemia						adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)				T	MLL	AL								---	---	---	---
MLLT4	4301	broad.mit.edu	37	6	168305607	168305607	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168305607delC	uc003qwd.2	+						MLLT4_uc003qwb.1_Intron|MLLT4_uc003qwc.1_Intron|MLLT4_uc003qwf.2_Intron	NM_001040001	NP_001035090			myeloid/lymphoid or mixed-lineage leukemia						adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)				T	MLL	AL								---	---	---	---
KIF25	3834	broad.mit.edu	37	6	168441245	168441245	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168441245delA	uc003qwk.1	+						KIF25_uc003qwl.1_Intron	NM_030615	NP_085118			kinesin family member 25 isoform 1						microtubule-based movement|mitotic sister chromatid segregation	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(1)|pancreas(1)	2		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	168815385	168815385	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168815385delA								DACT2 (94983 upstream) : SMOC2 (26646 downstream)																																			---	---	---	---
SMOC2	64094	broad.mit.edu	37	6	168957499	168957499	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168957499delT	uc003qws.1	+						SMOC2_uc003qwr.1_Intron	NM_022138	NP_071421			SPARC related modular calcium binding 2						signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	169132113	169132113	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:169132113delT								SMOC2 (63442 upstream) : THBS2 (483763 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	169148635	169148635	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:169148635delT								SMOC2 (79964 upstream) : THBS2 (467241 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	169309219	169309219	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:169309219delT								SMOC2 (240548 upstream) : THBS2 (306657 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	169474468	169474468	+	IGR	DEL	A	-	-	rs67958914		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:169474468delA								SMOC2 (405797 upstream) : THBS2 (141408 downstream)																																			---	---	---	---
THBS2	7058	broad.mit.edu	37	6	169642518	169642518	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:169642518delT	uc003qwt.2	-							NM_003247	NP_003238			thrombospondin 2 precursor						cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)														---	---	---	---
WDR27	253769	broad.mit.edu	37	6	169903933	169903933	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:169903933delA	uc003qwx.2	-						WDR27_uc003qwv.1_Intron|WDR27_uc010kkw.1_Intron|WDR27_uc003qwy.2_Intron					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)														---	---	---	---
WDR27	253769	broad.mit.edu	37	6	169974534	169974535	+	Intron	INS	-	AAAAC	AAAAC	rs150638393	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:169974534_169974535insAAAAC	uc003qwx.2	-						WDR27_uc003qwv.1_Intron|WDR27_uc010kkw.1_Intron|WDR27_uc003qwy.2_Intron					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)														---	---	---	---
PHF10	55274	broad.mit.edu	37	6	170112033	170112033	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170112033delA	uc011egy.1	-						PHF10_uc011egz.1_Intron|PHF10_uc011eha.1_Intron	NM_018288	NP_060758			PHD finger protein 10 isoform a						nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	npBAF complex	zinc ion binding			urinary_tract(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.4e-21)|BRCA - Breast invasive adenocarcinoma(81;1.4e-07)|GBM - Glioblastoma multiforme(31;0.00176)														---	---	---	---
PHF10	55274	broad.mit.edu	37	6	170118766	170118766	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170118766delA	uc011egy.1	-						PHF10_uc011egz.1_Intron|PHF10_uc011eha.1_5'Flank	NM_018288	NP_060758			PHD finger protein 10 isoform a						nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	npBAF complex	zinc ion binding			urinary_tract(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.4e-21)|BRCA - Breast invasive adenocarcinoma(81;1.4e-07)|GBM - Glioblastoma multiforme(31;0.00176)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	170220498	170220502	+	IGR	DEL	AAACA	-	-	rs72472885		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170220498_170220502delAAACA								C6orf208 (17529 upstream) : LOC154449 (342920 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	170458048	170458048	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170458048delA								C6orf208 (255079 upstream) : LOC154449 (105374 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	6	170588224	170588225	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170588224_170588225insA								LOC154449 (16567 upstream) : DLL1 (3071 downstream)																																			---	---	---	---
FAM120B	84498	broad.mit.edu	37	6	170690644	170690644	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170690644delA	uc003qxp.2	+						FAM120B_uc003qxo.1_Intron|FAM120B_uc011ehd.1_Intron|FAM120B_uc010kla.1_Intron	NM_032448	NP_115824			family with sequence similarity 120B						cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)														---	---	---	---
PSMB1	5689	broad.mit.edu	37	6	170849764	170849764	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170849764delA	uc011ehe.1	-						PSMB1_uc003qxq.2_Intron|PSMB1_uc003qxr.2_Intron	NM_002793	NP_002784			proteasome beta 1 subunit precursor						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	cell junction|cytoplasm|nucleus|proteasome core complex	protein binding|threonine-type endopeptidase activity			ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.0563)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;7.5e-23)|BRCA - Breast invasive adenocarcinoma(81;4.88e-06)|GBM - Glioblastoma multiforme(31;0.00643)	Bortezomib(DB00188)													---	---	---	---
Unknown	0	broad.mit.edu	37	6	170882326	170882326	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170882326delT								TBP (380 upstream) : PDCD2 (4125 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	10039	10039	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:10039delA								None (None upstream) : FAM20C (182930 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	506976	506977	+	IGR	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:506976_506977insC								FAM20C (206265 upstream) : PDGFA (29922 downstream)																																			---	---	---	---
PRKAR1B	5575	broad.mit.edu	37	7	600649	600650	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:600649_600650delAC	uc003siu.1	-						PRKAR1B_uc003siv.2_Intron|PRKAR1B_uc003siw.1_Intron	NM_002735	NP_002726			protein kinase, cAMP-dependent, regulatory, type						activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of insulin secretion|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|Epithelial(4;5.75e-19)|OV - Ovarian serous cystadenocarcinoma(56;2.01e-18)|all cancers(6;3.96e-16)|BRCA - Breast invasive adenocarcinoma(126;0.152)														---	---	---	---
PRKAR1B	5575	broad.mit.edu	37	7	606164	606169	+	Intron	DEL	ATTATG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:606164_606169delATTATG	uc003siu.1	-						PRKAR1B_uc003siv.2_Intron|PRKAR1B_uc003siw.1_Intron	NM_002735	NP_002726			protein kinase, cAMP-dependent, regulatory, type						activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of insulin secretion|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|Epithelial(4;5.75e-19)|OV - Ovarian serous cystadenocarcinoma(56;2.01e-18)|all cancers(6;3.96e-16)|BRCA - Breast invasive adenocarcinoma(126;0.152)														---	---	---	---
PRKAR1B	5575	broad.mit.edu	37	7	651407	651410	+	Intron	DEL	ATGG	-	-	rs145313415		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:651407_651410delATGG	uc003siu.1	-						PRKAR1B_uc003siv.2_Intron|PRKAR1B_uc003siw.1_Intron	NM_002735	NP_002726			protein kinase, cAMP-dependent, regulatory, type						activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of insulin secretion|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|Epithelial(4;5.75e-19)|OV - Ovarian serous cystadenocarcinoma(56;2.01e-18)|all cancers(6;3.96e-16)|BRCA - Breast invasive adenocarcinoma(126;0.152)														---	---	---	---
HEATR2	54919	broad.mit.edu	37	7	804338	804338	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:804338delT	uc010krz.1	+						HEATR2_uc003siz.2_Intron|HEATR2_uc003sja.2_Intron	NM_017802	NP_060272			HEAT repeat containing 2								protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)														---	---	---	---
C7orf50	84310	broad.mit.edu	37	7	1080772	1080773	+	Intron	INS	-	GA	GA	rs148244659	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:1080772_1080773insGA	uc003sju.2	-						C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron	NM_032350	NP_115726			hypothetical protein LOC84310								protein binding				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0216)|OV - Ovarian serous cystadenocarcinoma(56;1.3e-15)														---	---	---	---
MICALL2	79778	broad.mit.edu	37	7	1485933	1485934	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:1485933_1485934delAG	uc003skj.3	-							NM_182924	NP_891554			MICAL-like 2 isoform 1							cytoplasm|cytoskeleton	zinc ion binding			central_nervous_system(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;6.01e-15)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	1565797	1565797	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:1565797delG								INTS1 (21779 upstream) : MAFK (4571 downstream)																																			---	---	---	---
MAD1L1	8379	broad.mit.edu	37	7	2179627	2179627	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2179627delC	uc003slh.1	-						MAD1L1_uc003sle.1_Intron|MAD1L1_uc003slf.1_Intron|MAD1L1_uc003slg.1_Intron|MAD1L1_uc010ksh.1_Intron|MAD1L1_uc003sli.1_Intron|MAD1L1_uc010ksi.1_Intron|MAD1L1_uc010ksj.2_Intron	NM_001013836	NP_001013858			MAD1-like 1 protein						cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)														---	---	---	---
MAD1L1	8379	broad.mit.edu	37	7	2228794	2228794	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2228794delA	uc003slh.1	-						MAD1L1_uc003sle.1_Intron|MAD1L1_uc003slf.1_Intron|MAD1L1_uc003slg.1_Intron|MAD1L1_uc010ksh.1_Intron|MAD1L1_uc003sli.1_Intron|MAD1L1_uc010ksi.1_Intron|MAD1L1_uc010ksj.2_Intron	NM_001013836	NP_001013858			MAD1-like 1 protein						cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	2479055	2479055	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2479055delT	uc003sme.2	+											Homo sapiens, clone IMAGE:4778475, mRNA.																														---	---	---	---
LFNG	3955	broad.mit.edu	37	7	2566966	2566967	+	3'UTR	INS	-	TGTGCA	TGTGCA	rs150935549	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2566966_2566967insTGTGCA	uc003smf.2	+	8					LFNG_uc003smg.2_Intron	NM_001040167	NP_001035257			lunatic fringe isoform a						organ morphogenesis	extracellular region|integral to Golgi membrane	O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity				0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.54e-14)														---	---	---	---
GNA12	2768	broad.mit.edu	37	7	2837649	2837649	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2837649delA	uc003smu.2	-						GNA12_uc011jwb.1_Intron|GNA12_uc003smt.2_Intron	NM_007353	NP_031379			guanine nucleotide binding protein (G protein)						G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|Rho protein signal transduction	brush border membrane|heterotrimeric G-protein complex	D5 dopamine receptor binding|G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.02e-13)														---	---	---	---
CARD11	84433	broad.mit.edu	37	7	2976234	2976234	+	Intron	DEL	A	-	-	rs35204601		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2976234delA	uc003smv.2	-							NM_032415	NP_115791			caspase recruitment domain family, member 11						positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)				Mis		DLBCL								---	---	---	---
Unknown	0	broad.mit.edu	37	7	3131862	3131862	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:3131862delC								CARD11 (48283 upstream) : SDK1 (209218 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	3289187	3289188	+	IGR	DEL	AA	-	-	rs77293793		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:3289187_3289188delAA								CARD11 (205608 upstream) : SDK1 (51892 downstream)																																			---	---	---	---
SDK1	221935	broad.mit.edu	37	7	3377094	3377095	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:3377094_3377095delAA	uc003smx.2	+							NM_152744	NP_689957			sidekick 1 precursor						cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)														---	---	---	---
SDK1	221935	broad.mit.edu	37	7	3454462	3454463	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:3454462_3454463delTT	uc003smx.2	+							NM_152744	NP_689957			sidekick 1 precursor						cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)														---	---	---	---
SDK1	221935	broad.mit.edu	37	7	3495014	3495014	+	Intron	DEL	T	-	-	rs78169673		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:3495014delT	uc003smx.2	+							NM_152744	NP_689957			sidekick 1 precursor						cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)														---	---	---	---
SDK1	221935	broad.mit.edu	37	7	3931549	3931549	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:3931549delT	uc003smx.2	+							NM_152744	NP_689957			sidekick 1 precursor						cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)														---	---	---	---
SDK1	221935	broad.mit.edu	37	7	4269212	4269212	+	Intron	DEL	T	-	-	rs76739591		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:4269212delT	uc003smx.2	+						SDK1_uc010kso.2_Intron|SDK1_uc003smy.2_Intron|SDK1_uc003smz.2_Intron	NM_152744	NP_689957			sidekick 1 precursor						cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	4322060	4322060	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:4322060delA								SDK1 (13431 upstream) : FOXK1 (361328 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	4325866	4325866	+	IGR	DEL	T	-	-	rs12701531	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:4325866delT								SDK1 (17237 upstream) : FOXK1 (357522 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	4403355	4403355	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:4403355delA								SDK1 (94726 upstream) : FOXK1 (280033 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	4412122	4412122	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:4412122delT								SDK1 (103493 upstream) : FOXK1 (271266 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	4608946	4608946	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:4608946delT								SDK1 (300317 upstream) : FOXK1 (74442 downstream)																																			---	---	---	---
FOXK1	221937	broad.mit.edu	37	7	4757085	4757099	+	Intron	DEL	TGTGGCTGGGAGGCA	-	-	rs72157718		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:4757085_4757099delTGTGGCTGGGAGGCA	uc003snc.1	+						FOXK1_uc003sna.1_Intron|FOXK1_uc003snb.1_Intron	NM_001037165	NP_001032242			forkhead box K1						cell differentiation|embryo development|muscle organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			upper_aerodigestive_tract(1)|skin(1)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)														---	---	---	---
RADIL	55698	broad.mit.edu	37	7	4887141	4887141	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:4887141delA	uc003snj.1	-						RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron	NM_018059	NP_060529			Rap GTPase interactor						cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	5281192	5281192	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5281192delT								WIPI2 (7707 upstream) : SLC29A4 (41369 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	5285215	5285215	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5285215delG								WIPI2 (11730 upstream) : SLC29A4 (37346 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	5471499	5471500	+	IGR	INS	-	AC	AC	rs143567638	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5471499_5471500insAC								TNRC18 (6454 upstream) : FBXL18 (43929 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	5514269	5514269	+	IGR	DEL	T	-	-	rs76280779		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5514269delT								TNRC18 (49224 upstream) : FBXL18 (1160 downstream)																																			---	---	---	---
RNF216	54476	broad.mit.edu	37	7	5670016	5670016	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5670016delT	uc003soy.1	-						RNF216_uc010ksz.1_Intron|RNF216_uc010kta.1_Intron|RNF216_uc011jwj.1_Intron|RNF216_uc003sox.1_Intron	NM_207116	NP_996999			ring finger protein 216 isoform b						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)														---	---	---	---
ZNF815	401303	broad.mit.edu	37	7	5881840	5881840	+	Intron	DEL	T	-	-	rs77501881		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5881840delT	uc010ktb.1	+						ZNF815_uc003spc.2_Intron|ZNF815_uc003spd.2_Intron					Homo sapiens cDNA FLJ38969 fis, clone NT2RI2002359.												0																		---	---	---	---
USP42	84132	broad.mit.edu	37	7	6156259	6156259	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6156259delT	uc011jwo.1	+						USP42_uc011jwn.1_Intron|USP42_uc010kth.1_Intron|USP42_uc011jwp.1_Intron|USP42_uc011jwq.1_Intron|USP42_uc011jwr.1_5'Flank	NM_032172	NP_115548			ubiquitin specific peptidase 42						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)														---	---	---	---
USP42	84132	broad.mit.edu	37	7	6176440	6176440	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6176440delT	uc011jwo.1	+						USP42_uc011jwn.1_Intron|USP42_uc010kth.1_Intron|USP42_uc011jwp.1_Intron|USP42_uc011jwq.1_Intron|USP42_uc011jwr.1_Intron	NM_032172	NP_115548			ubiquitin specific peptidase 42						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)														---	---	---	---
USP42	84132	broad.mit.edu	37	7	6190735	6190735	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6190735delA	uc011jwo.1	+						USP42_uc011jwp.1_Intron|USP42_uc011jwq.1_Intron|USP42_uc011jwr.1_Intron	NM_032172	NP_115548			ubiquitin specific peptidase 42						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)														---	---	---	---
CYTH3	9265	broad.mit.edu	37	7	6297944	6297945	+	Intron	DEL	AA	-	-	rs75963417		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6297944_6297945delAA	uc003spt.2	-							NM_004227	NP_004218			cytohesin 3						regulation of ARF protein signal transduction|regulation of cell adhesion|vesicle-mediated transport	cytoplasm|membrane fraction|plasma membrane	1-phosphatidylinositol binding|ARF guanyl-nucleotide exchange factor activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity				0																		---	---	---	---
DAGLB	221955	broad.mit.edu	37	7	6460071	6460072	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6460071_6460072delAA	uc003sqa.2	-						DAGLB_uc003spy.2_5'Flank|DAGLB_uc003spz.2_Intron|DAGLB_uc011jwt.1_Intron|DAGLB_uc011jwu.1_Intron|DAGLB_uc003sqb.2_Intron|DAGLB_uc003sqc.2_Intron|DAGLB_uc011jwv.1_Intron|DAGLB_uc003sqd.3_Intron|DAGLB_uc011jww.1_Intron	NM_139179	NP_631918			diacylglycerol lipase, beta isoform 1						lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)														---	---	---	---
DAGLB	221955	broad.mit.edu	37	7	6496972	6496972	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6496972delT	uc003sqd.3	-							NM_139179	NP_631918			diacylglycerol lipase, beta isoform 1						lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)														---	---	---	---
GRID2IP	392862	broad.mit.edu	37	7	6559922	6559922	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6559922delA	uc011jwx.1	-							NM_001145118	NP_001138590			glutamate receptor, ionotropic, delta 2 (Grid2)						actin cytoskeleton organization	cell junction|postsynaptic membrane	actin binding				0																		---	---	---	---
GRID2IP	392862	broad.mit.edu	37	7	6569082	6569082	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6569082delA	uc011jwx.1	-							NM_001145118	NP_001138590			glutamate receptor, ionotropic, delta 2 (Grid2)						actin cytoskeleton organization	cell junction|postsynaptic membrane	actin binding				0																		---	---	---	---
GRID2IP	392862	broad.mit.edu	37	7	6580639	6580639	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6580639delT	uc011jwx.1	-							NM_001145118	NP_001138590			glutamate receptor, ionotropic, delta 2 (Grid2)						actin cytoskeleton organization	cell junction|postsynaptic membrane	actin binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	6685333	6685333	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6685333delA								ZNF853 (21414 upstream) : ZNF12 (42731 downstream)																																			---	---	---	---
RSPH10B2	728194	broad.mit.edu	37	7	6820558	6820558	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6820558delT	uc003sqw.1	+						RSPH10B2_uc010ktk.1_Intron|RSPH10B2_uc011jxc.1_Intron|RSPH10B2_uc010ktl.1_Intron	NM_173565	NP_775836			radial spoke head 10 homolog B											ovary(1)|pancreas(1)|skin(1)	3																		---	---	---	---
C7orf28B	221960	broad.mit.edu	37	7	6845367	6845368	+	Intron	INS	-	AAC	AAC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6845367_6845368insAAC	uc003sqx.1	-						C7orf28B_uc011jxd.1_Intron	NM_198097	NP_932765			hypothetical protein LOC221960							lysosomal membrane					0		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)														---	---	---	---
C1GALT1	56913	broad.mit.edu	37	7	7248170	7248170	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:7248170delA	uc010ktn.2	+						C1GALT1_uc010ktm.1_Intron	NM_020156	NP_064541			core 1 synthase,						angiogenesis|cell differentiation|kidney development	integral to membrane	glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase activity|metal ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (126;0.177)														---	---	---	---
C1GALT1	56913	broad.mit.edu	37	7	7265999	7265999	+	Intron	DEL	A	-	-	rs71543815		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:7265999delA	uc010ktn.2	+						C1GALT1_uc010ktm.1_Intron	NM_020156	NP_064541			core 1 synthase,						angiogenesis|cell differentiation|kidney development	integral to membrane	glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase activity|metal ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (126;0.177)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	7322827	7322827	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:7322827delA								C1GALT1 (38848 upstream) : COL28A1 (75417 downstream)																																			---	---	---	---
GLCCI1	113263	broad.mit.edu	37	7	8057319	8057319	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:8057319delA	uc003srk.2	+							NM_138426	NP_612435			glucocorticoid induced transcript 1												0		Ovarian(82;0.0608)		UCEC - Uterine corpus endometrioid carcinoma (126;0.206)														---	---	---	---
NXPH1	30010	broad.mit.edu	37	7	8637971	8637971	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:8637971delA	uc003srv.2	+						NXPH1_uc011jxh.1_Intron	NM_152745	NP_689958			neurexophilin 1 precursor							extracellular region				ovary(1)|central_nervous_system(1)	2		Ovarian(82;0.0628)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)														---	---	---	---
NXPH1	30010	broad.mit.edu	37	7	8693826	8693826	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:8693826delT	uc003srv.2	+						NXPH1_uc011jxh.1_Intron	NM_152745	NP_689958			neurexophilin 1 precursor							extracellular region				ovary(1)|central_nervous_system(1)	2		Ovarian(82;0.0628)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	8964395	8964395	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:8964395delA								NXPH1 (171803 upstream) : PER4 (709505 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	9237503	9237503	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:9237503delA								NXPH1 (444911 upstream) : PER4 (436397 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	9389843	9389843	+	IGR	DEL	T	-	-	rs111997649		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:9389843delT								NXPH1 (597251 upstream) : PER4 (284057 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	9539395	9539397	+	IGR	DEL	TGG	-	-	rs112246666		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:9539395_9539397delTGG								NXPH1 (746803 upstream) : PER4 (134503 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	9895245	9895245	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:9895245delT								PER4 (219798 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	9910705	9910706	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:9910705_9910706delTT								PER4 (235258 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	10061523	10061523	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:10061523delT								PER4 (386076 upstream) : NDUFA4 (911292 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	10283624	10283624	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:10283624delT								PER4 (608177 upstream) : NDUFA4 (689191 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	10289775	10289775	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:10289775delA								PER4 (614328 upstream) : NDUFA4 (683040 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	10462513	10462514	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:10462513_10462514delAA								PER4 (787066 upstream) : NDUFA4 (510301 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	10725417	10725417	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:10725417delA								None (None upstream) : NDUFA4 (247398 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	10952519	10952522	+	IGR	DEL	CTAT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:10952519_10952522delCTAT								None (None upstream) : NDUFA4 (20293 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	10956066	10956067	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:10956066_10956067delAA								None (None upstream) : NDUFA4 (16748 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	10962740	10962740	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:10962740delT								None (None upstream) : NDUFA4 (10075 downstream)																																			---	---	---	---
PHF14	9678	broad.mit.edu	37	7	11033037	11033037	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:11033037delT	uc003sry.1	+						PHF14_uc011jxi.1_Intron|PHF14_uc003srz.2_Intron|PHF14_uc011jxj.1_Intron	NM_014660	NP_055475			PHD finger protein 14 isoform 2								zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)														---	---	---	---
PHF14	9678	broad.mit.edu	37	7	11045311	11045311	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:11045311delT	uc003sry.1	+						PHF14_uc011jxi.1_Intron|PHF14_uc003srz.2_Intron|PHF14_uc011jxj.1_Intron	NM_014660	NP_055475			PHD finger protein 14 isoform 2								zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	11325501	11325501	+	Intron	DEL	C	-	-	rs35820592		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:11325501delC	uc003ssb.2	+											Homo sapiens cDNA clone IMAGE:4830466.																														---	---	---	---
THSD7A	221981	broad.mit.edu	37	7	11485147	11485148	+	Intron	DEL	TG	-	-	rs72480953		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:11485147_11485148delTG	uc003ssf.3	-							NM_015204	NP_056019			thrombospondin, type I, domain containing 7A							integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)											HNSCC(18;0.044)			---	---	---	---
THSD7A	221981	broad.mit.edu	37	7	11693502	11693502	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:11693502delA	uc003ssf.3	-							NM_015204	NP_056019			thrombospondin, type I, domain containing 7A							integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)											HNSCC(18;0.044)			---	---	---	---
Unknown	0	broad.mit.edu	37	7	12060582	12060582	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12060582delT								THSD7A (188758 upstream) : TMEM106B (190266 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	12132784	12132784	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12132784delA								THSD7A (260960 upstream) : TMEM106B (118064 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	12141808	12141808	+	IGR	DEL	A	-	-	rs75100172		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12141808delA								THSD7A (269984 upstream) : TMEM106B (109040 downstream)																																			---	---	---	---
VWDE	221806	broad.mit.edu	37	7	12397273	12397273	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12397273delT	uc003ssj.2	-						VWDE_uc011jxl.1_Intron|VWDE_uc011jxm.1_Intron	NM_001135924	NP_001129396			von Willebrand factor D and EGF domains							extracellular region					0																		---	---	---	---
SCIN	85477	broad.mit.edu	37	7	12679141	12679141	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12679141delA	uc003ssn.3	+						SCIN_uc010ktt.2_Intron|SCIN_uc003sso.3_Intron	NM_001112706	NP_001106177			scinderin isoform 1						actin filament capping|actin filament severing|actin nucleation|calcium ion-dependent exocytosis|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of megakaryocyte differentiation|positive regulation of secretion|regulation of chondrocyte differentiation	cell cortex|cytoskeleton	1-phosphatidylinositol binding|actin filament binding|calcium ion binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.195)														---	---	---	---
SCIN	85477	broad.mit.edu	37	7	12689007	12689007	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12689007delA	uc003ssn.3	+						SCIN_uc010ktt.2_Intron|SCIN_uc003sso.3_Intron	NM_001112706	NP_001106177			scinderin isoform 1						actin filament capping|actin filament severing|actin nucleation|calcium ion-dependent exocytosis|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of megakaryocyte differentiation|positive regulation of secretion|regulation of chondrocyte differentiation	cell cortex|cytoskeleton	1-phosphatidylinositol binding|actin filament binding|calcium ion binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.195)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	12772939	12772942	+	IGR	DEL	CTAA	-	-	rs66716808		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12772939_12772942delCTAA								ARL4A (42383 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	12777982	12777982	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12777982delT								ARL4A (47426 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	12874682	12874682	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12874682delA								ARL4A (144126 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	13081005	13081006	+	IGR	INS	-	A	A	rs28690868	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:13081005_13081006insA								ARL4A (350449 upstream) : ETV1 (849852 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	13330198	13330198	+	IGR	DEL	T	-	-	rs35746447		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:13330198delT								ARL4A (599642 upstream) : ETV1 (600660 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	13557298	13557298	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:13557298delA								ARL4A (826742 upstream) : ETV1 (373560 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	13818568	13818568	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:13818568delG								None (None upstream) : ETV1 (112290 downstream)																																			---	---	---	---
DGKB	1607	broad.mit.edu	37	7	14501349	14501349	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:14501349delA	uc003ssz.2	-						DGKB_uc011jxt.1_Intron|DGKB_uc003sta.2_Intron|DGKB_uc011jxu.1_Intron	NM_004080	NP_004071			diacylglycerol kinase, beta isoform 1						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)													---	---	---	---
DGKB	1607	broad.mit.edu	37	7	14784463	14784463	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:14784463delT	uc003ssz.2	-						DGKB_uc011jxt.1_Intron|DGKB_uc003sta.2_Intron|DGKB_uc011jxu.1_Intron|DGKB_uc011jxv.1_Intron	NM_004080	NP_004071			diacylglycerol kinase, beta isoform 1						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)													---	---	---	---
MEOX2	4223	broad.mit.edu	37	7	15721111	15721112	+	Intron	DEL	AT	-	-	rs146696159	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:15721111_15721112delAT	uc003stc.2	-						MEOX2_uc011jxw.1_Intron|uc003ste.2_RNA	NM_005924	NP_005915			mesenchyme homeobox 2						blood circulation|multicellular organismal development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.0822)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	15773968	15773968	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:15773968delT								MEOX2 (47660 upstream) : ISPD (353184 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	16607713	16607713	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:16607713delA								SOSTDC1 (37508 upstream) : ANKMY2 (31700 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	16627022	16627023	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:16627022_16627023delTT								SOSTDC1 (56817 upstream) : ANKMY2 (12390 downstream)																																			---	---	---	---
ANKMY2	57037	broad.mit.edu	37	7	16656703	16656704	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:16656703_16656704delTT	uc003sti.2	-						ANKMY2_uc010ktz.2_Intron	NM_020319	NP_064715			ankyrin repeat and MYND domain containing 2							cilium	zinc ion binding			central_nervous_system(1)	1	Lung NSC(10;0.103)|all_lung(11;0.204)			UCEC - Uterine corpus endometrioid carcinoma (126;0.195)														---	---	---	---
TSPAN13	27075	broad.mit.edu	37	7	16804560	16804560	+	Intron	DEL	T	-	-	rs67142424		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:16804560delT	uc003stq.2	+							NM_014399	NP_055214			tetraspan NET-6							integral to plasma membrane|membrane fraction				ovary(1)	1	Lung NSC(10;0.0494)|all_lung(11;0.109)			UCEC - Uterine corpus endometrioid carcinoma (126;0.188)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	16849837	16849838	+	IGR	INS	-	CATT	CATT	rs147097724	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:16849837_16849838insCATT								AGR2 (5099 upstream) : AGR3 (49193 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	17094001	17094001	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:17094001delA								AGR3 (172388 upstream) : AHR (244275 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	17123817	17123817	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:17123817delT								AGR3 (202204 upstream) : AHR (214459 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	17476028	17476029	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:17476028_17476029insA								AHR (90253 upstream) : SNX13 (354357 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	17733112	17733112	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:17733112delC								AHR (347337 upstream) : SNX13 (97274 downstream)																																			---	---	---	---
HDAC9	9734	broad.mit.edu	37	7	18499091	18499091	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:18499091delT	uc003sua.1	+						HDAC9_uc011jya.1_Intron	NM_014707	NP_055522			histone deacetylase 9 isoform 3						B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|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)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)													---	---	---	---
HDAC9	9734	broad.mit.edu	37	7	18816318	18816318	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:18816318delT	uc003suh.2	+						HDAC9_uc003sue.2_Intron|HDAC9_uc011jyd.1_Intron|HDAC9_uc003sui.2_Intron|HDAC9_uc003suj.2_Intron|HDAC9_uc003sua.1_Intron	NM_058176	NP_478056			histone deacetylase 9 isoform 1						B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|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)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)													---	---	---	---
HDAC9	9734	broad.mit.edu	37	7	18865092	18865092	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:18865092delA	uc003suh.2	+						HDAC9_uc003sue.2_Intron|HDAC9_uc011jyd.1_Intron|HDAC9_uc003sui.2_Intron|HDAC9_uc003suj.2_Intron|HDAC9_uc003suk.2_Intron|HDAC9_uc003sua.1_Intron	NM_058176	NP_478056			histone deacetylase 9 isoform 1						B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|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)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)													---	---	---	---
Unknown	0	broad.mit.edu	37	7	19049458	19049458	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:19049458delT								HDAC9 (12474 upstream) : TWIST1 (105635 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	19167718	19167718	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:19167718delA								TWIST1 (10423 upstream) : FERD3L (16687 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	19332977	19332977	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:19332977delA								FERD3L (147933 upstream) : TWISTNB (402108 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	19388284	19388285	+	IGR	DEL	AA	-	-	rs874375	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:19388284_19388285delAA								FERD3L (203240 upstream) : TWISTNB (346800 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	19697057	19697057	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:19697057delT								FERD3L (512013 upstream) : TWISTNB (38028 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	19965596	19965596	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:19965596delA								TMEM196 (152380 upstream) : MACC1 (208692 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	20053562	20053562	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:20053562delA								TMEM196 (240346 upstream) : MACC1 (120726 downstream)																																			---	---	---	---
MACC1	346389	broad.mit.edu	37	7	20245129	20245129	+	Intron	DEL	T	-	-	rs112484661		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:20245129delT	uc003sus.3	-						MACC1_uc010kug.2_Intron	NM_182762	NP_877439			putative binding protein 7a5						positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	20492127	20492127	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:20492127delA								ITGB8 (36749 upstream) : ABCB5 (163118 downstream)																																			---	---	---	---
ABCB5	340273	broad.mit.edu	37	7	20779341	20779341	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:20779341delT	uc003suw.3	+						ABCB5_uc010kuh.2_Intron	NM_178559	NP_848654			ATP-binding cassette, sub-family B, member 5						regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	21120832	21120832	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21120832delT								RPL23P8 (253393 upstream) : SP4 (346857 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	21322397	21322397	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21322397delA								RPL23P8 (454958 upstream) : SP4 (145292 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	21343010	21343010	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21343010delT								RPL23P8 (475571 upstream) : SP4 (124679 downstream)																																			---	---	---	---
SP4	6671	broad.mit.edu	37	7	21466620	21466620	+	5'Flank	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21466620delG	uc003sva.2	+						SP4_uc003svb.2_5'Flank	NM_003112	NP_003103			Sp4 transcription factor						regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5																		---	---	---	---
DNAH11	8701	broad.mit.edu	37	7	21632502	21632502	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21632502delA	uc003svc.2	+							NM_003777	NP_003768			dynein, axonemal, heavy chain 11						microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15														Kartagener_syndrome				---	---	---	---
DNAH11	8701	broad.mit.edu	37	7	21721534	21721534	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21721534delA	uc003svc.2	+							NM_003777	NP_003768			dynein, axonemal, heavy chain 11						microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15														Kartagener_syndrome				---	---	---	---
DNAH11	8701	broad.mit.edu	37	7	21881055	21881055	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21881055delA	uc003svc.2	+							NM_003777	NP_003768			dynein, axonemal, heavy chain 11						microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15														Kartagener_syndrome				---	---	---	---
DNAH11	8701	broad.mit.edu	37	7	21912710	21912711	+	Intron	DEL	TT	-	-	rs72365929		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21912710_21912711delTT	uc003svc.2	+							NM_003777	NP_003768			dynein, axonemal, heavy chain 11						microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15														Kartagener_syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	7	22016702	22016702	+	IGR	DEL	T	-	-	rs72391953		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:22016702delT								CDCA7L (31160 upstream) : RAPGEF5 (141207 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	22114634	22114635	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:22114634_22114635delAA								CDCA7L (129092 upstream) : RAPGEF5 (43274 downstream)																																			---	---	---	---
RAPGEF5	9771	broad.mit.edu	37	7	22171997	22171997	+	Intron	DEL	T	-	-	rs71961301		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:22171997delT	uc003svg.2	-						RAPGEF5_uc011jyl.1_Intron	NM_012294	NP_036426			Rap guanine nucleotide exchange factor (GEF) 5						nervous system development|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	nucleus	GTP-dependent protein binding|Rap guanyl-nucleotide exchange factor activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	22813189	22813189	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:22813189delT								IL6 (41570 upstream) : TOMM7 (39065 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	23071848	23071848	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:23071848delT								FAM126A (18078 upstream) : KLHL7 (73505 downstream)																																			---	---	---	---
IGF2BP3	10643	broad.mit.edu	37	7	23509748	23509748	+	5'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:23509748delA	uc003swg.2	-	1					IGF2BP3_uc003swh.1_RNA	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	23689784	23689784	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:23689784delT								CCDC126 (5458 upstream) : C7orf46 (29965 downstream)																																			---	---	---	---
STK31	56164	broad.mit.edu	37	7	23810399	23810399	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:23810399delT	uc003sws.3	+						STK31_uc003swt.3_Intron|STK31_uc011jze.1_Intron|STK31_uc010kuq.2_Intron	NM_031414	NP_113602			serine/threonine kinase 31 isoform a								ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9																		---	---	---	---
STK31	56164	broad.mit.edu	37	7	23813397	23813397	+	Intron	DEL	T	-	-	rs11981711		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:23813397delT	uc003sws.3	+						STK31_uc003swt.3_Intron|STK31_uc011jze.1_Intron|STK31_uc010kuq.2_Intron	NM_031414	NP_113602			serine/threonine kinase 31 isoform a								ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9																		---	---	---	---
STK31	56164	broad.mit.edu	37	7	23847349	23847349	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:23847349delT	uc003sws.3	+						STK31_uc003swt.3_Intron|STK31_uc011jze.1_Intron|STK31_uc010kuq.2_Intron|STK31_uc003swv.1_Intron	NM_031414	NP_113602			serine/threonine kinase 31 isoform a								ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	24027143	24027143	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:24027143delA								STK31 (82778 upstream) : NPY (296666 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	24244670	24244670	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:24244670delT								STK31 (300305 upstream) : NPY (79139 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	24306462	24306463	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:24306462_24306463insA								STK31 (362097 upstream) : NPY (17346 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	24526309	24526309	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:24526309delA								NPY (194832 upstream) : MPP6 (86776 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	25079270	25079270	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:25079270delT								OSBPL3 (59510 upstream) : CYCS (79007 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	25146176	25146177	+	IGR	INS	-	T	T	rs113214465	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:25146176_25146177insT								OSBPL3 (126416 upstream) : CYCS (12100 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	25320409	25320409	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:25320409delA								NPVF (52304 upstream) : MIR148A (669130 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	25421649	25421650	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:25421649_25421650insA								NPVF (153544 upstream) : MIR148A (567889 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	25603694	25603695	+	IGR	INS	-	G	G	rs2952521	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:25603694_25603695insG								NPVF (335589 upstream) : MIR148A (385844 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	25737132	25737133	+	IGR	INS	-	A	A	rs147399483	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:25737132_25737133insA								NPVF (469027 upstream) : MIR148A (252406 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	25779834	25779836	+	IGR	DEL	TTC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:25779834_25779836delTTC								NPVF (511729 upstream) : MIR148A (209703 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	25958404	25958404	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:25958404delA								NPVF (690299 upstream) : MIR148A (31135 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	25962945	25962945	+	IGR	DEL	A	-	-	rs34350273		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:25962945delA								NPVF (694840 upstream) : MIR148A (26594 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	26000802	26000802	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:26000802delT								MIR148A (11196 upstream) : NFE2L3 (191045 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	26124715	26124715	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:26124715delA								MIR148A (135109 upstream) : NFE2L3 (67132 downstream)																																			---	---	---	---
LOC441204	441204	broad.mit.edu	37	7	26485559	26485559	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:26485559delA	uc003sxy.1	+						LOC441204_uc003sxz.2_Intron					Homo sapiens cDNA FLJ31922 fis, clone NT2RP7005219.												0																		---	---	---	---
LOC441204	441204	broad.mit.edu	37	7	26528157	26528157	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:26528157delT	uc003sxy.1	+						LOC441204_uc003sxz.2_Intron					Homo sapiens cDNA FLJ31922 fis, clone NT2RP7005219.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	26551344	26551344	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:26551344delT								LOC441204 (12750 upstream) : KIAA0087 (21396 downstream)																																			---	---	---	---
SKAP2	8935	broad.mit.edu	37	7	26886709	26886709	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:26886709delT	uc003syc.2	-						SKAP2_uc011jzi.1_Intron|SKAP2_uc011jzj.1_Intron	NM_003930	NP_003921			src kinase associated phosphoprotein 2						B cell activation|cell junction assembly|protein complex assembly|signal transduction	cytosol|plasma membrane	SH3/SH2 adaptor activity			pancreas(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	27092866	27092867	+	IGR	DEL	AA	-	-	rs146143140		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27092866_27092867delAA								SKAP2 (58008 upstream) : HOXA1 (39749 downstream)																																			---	---	---	---
TAX1BP1	8887	broad.mit.edu	37	7	27817804	27817804	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27817804delA	uc003szl.2	+						TAX1BP1_uc011jzo.1_Intron|TAX1BP1_uc003szk.2_Intron|TAX1BP1_uc011jzp.1_Intron	NM_006024	NP_006015			Tax1 (human T-cell leukemia virus type I)						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)															---	---	---	---
JAZF1	221895	broad.mit.edu	37	7	27872051	27872052	+	3'UTR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27872051_27872052insA	uc003szn.2	-	5					JAZF1_uc003szm.2_3'UTR	NM_175061	NP_778231			JAZF zinc finger 1						negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcriptional repressor complex	nucleic acid binding|transcription corepressor activity|zinc ion binding		JAZF1/SUZ12(131)	soft_tissue(98)|endometrium(33)	131								T	SUZ12	endometrial stromal tumours								---	---	---	---
JAZF1	221895	broad.mit.edu	37	7	27912439	27912439	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27912439delT	uc003szn.2	-						JAZF1_uc003szm.2_Intron	NM_175061	NP_778231			JAZF zinc finger 1						negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcriptional repressor complex	nucleic acid binding|transcription corepressor activity|zinc ion binding		JAZF1/SUZ12(131)	soft_tissue(98)|endometrium(33)	131								T	SUZ12	endometrial stromal tumours								---	---	---	---
CREB5	9586	broad.mit.edu	37	7	28421518	28421518	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:28421518delA	uc003szo.2	+							NM_182899	NP_878902			cAMP responsive element binding protein 5						positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2																		---	---	---	---
CREB5	9586	broad.mit.edu	37	7	28738795	28738796	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:28738795_28738796delTT	uc003szq.2	+						CREB5_uc003szo.2_Intron|CREB5_uc003szr.2_Intron|CREB5_uc003szs.2_Intron|CREB5_uc011jzr.1_Intron	NM_182898	NP_878901			cAMP responsive element binding protein 5						positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2																		---	---	---	---
CREB5	9586	broad.mit.edu	37	7	28755974	28755974	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:28755974delT	uc003szq.2	+						CREB5_uc003szo.2_Intron|CREB5_uc003szr.2_Intron|CREB5_uc003szs.2_Intron|CREB5_uc011jzr.1_Intron	NM_182898	NP_878901			cAMP responsive element binding protein 5						positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2																		---	---	---	---
CREB5	9586	broad.mit.edu	37	7	28847407	28847407	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:28847407delA	uc003szq.2	+						CREB5_uc003szo.2_Intron|CREB5_uc003szr.2_Intron|CREB5_uc003szs.2_Intron	NM_182898	NP_878901			cAMP responsive element binding protein 5						positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2																		---	---	---	---
CREB5	9586	broad.mit.edu	37	7	28855744	28855744	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:28855744delT	uc003szq.2	+						CREB5_uc003szo.2_Intron|CREB5_uc003szr.2_Intron|CREB5_uc003szs.2_Intron	NM_182898	NP_878901			cAMP responsive element binding protein 5						positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2																		---	---	---	---
CHN2	1124	broad.mit.edu	37	7	29240376	29240377	+	Intron	INS	-	CAGA	CAGA	rs146448621	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:29240376_29240377insCAGA	uc003szz.2	+						CHN2_uc011jzs.1_Intron|CHN2_uc010kva.2_Intron|CHN2_uc010kvb.2_Intron|CHN2_uc010kvc.2_Intron|CHN2_uc011jzt.1_Intron|CHN2_uc010kvd.2_Intron|CHN2_uc011jzu.1_Intron	NM_004067	NP_004058			beta chimerin isoform 2						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|membrane	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)	2																		---	---	---	---
CHN2	1124	broad.mit.edu	37	7	29282501	29282501	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:29282501delT	uc003szz.2	+						CHN2_uc011jzs.1_Intron|CHN2_uc010kva.2_Intron|CHN2_uc010kvb.2_Intron|CHN2_uc010kvc.2_Intron|CHN2_uc011jzt.1_Intron|CHN2_uc010kvd.2_Intron|CHN2_uc011jzu.1_Intron	NM_004067	NP_004058			beta chimerin isoform 2						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|membrane	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	29957071	29957072	+	IGR	INS	-	A	A	rs147060903	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:29957071_29957072insA								WIPF3 (11280 upstream) : SCRN1 (2648 downstream)																																			---	---	---	---
FKBP14	55033	broad.mit.edu	37	7	30062189	30062189	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:30062189delA	uc003tal.1	-						FKBP14_uc010kvq.1_Intron	NM_017946	NP_060416			FK506 binding protein 14 precursor						protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	30460599	30460599	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:30460599delC								DKFZP586I1420 (48191 upstream) : NOD1 (3545 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	31245328	31245328	+	IGR	DEL	T	-	-	rs35396917		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:31245328delT								ADCYAP1R1 (99017 upstream) : NEUROD6 (131754 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	31275326	31275327	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:31275326_31275327insT								ADCYAP1R1 (129015 upstream) : NEUROD6 (101755 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	31525923	31525923	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:31525923delT								NEUROD6 (145385 upstream) : CCDC129 (27762 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	32416747	32416748	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:32416747_32416748delAA								PDE1C (77806 upstream) : LSM5 (108197 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	32474250	32474251	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:32474250_32474251insA								PDE1C (135309 upstream) : LSM5 (50694 downstream)																																			---	---	---	---
AVL9	23080	broad.mit.edu	37	7	32594260	32594260	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:32594260delT	uc003tcv.1	+						AVL9_uc011kai.1_Intron|AVL9_uc010kwj.1_Intron	NM_015060	NP_055875			AVL9 homolog (S. cerevisiase)							integral to membrane					0																		---	---	---	---
AVL9	23080	broad.mit.edu	37	7	32650791	32650791	+	Intron	DEL	T	-	-	rs11413374		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:32650791delT	uc011kai.1	+						uc003tcw.2_Intron	NM_015060	NP_055875			AVL9 homolog (S. cerevisiase)							integral to membrane					0																		---	---	---	---
AVL9	23080	broad.mit.edu	37	7	32735985	32735985	+	Intron	DEL	A	-	-	rs117184099	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:32735985delA	uc011kai.1	+						uc003tcw.2_Intron	NM_015060	NP_055875			AVL9 homolog (S. cerevisiase)							integral to membrane					0																		---	---	---	---
AVL9	23080	broad.mit.edu	37	7	32867251	32867252	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:32867251_32867252delTT	uc011kai.1	+						uc003tda.1_Intron	NM_015060	NP_055875			AVL9 homolog (S. cerevisiase)							integral to membrane					0																		---	---	---	---
AVL9	23080	broad.mit.edu	37	7	32938621	32938621	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:32938621delT	uc011kai.1	+							NM_015060	NP_055875			AVL9 homolog (S. cerevisiase)							integral to membrane					0																		---	---	---	---
FKBP9	11328	broad.mit.edu	37	7	33029608	33029609	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:33029608_33029609delTT	uc003tdh.2	+						AVL9_uc011kai.1_Intron|FKBP9_uc011kak.1_Intron|FKBP9_uc011kal.1_Intron|FKBP9_uc011kam.1_Intron	NM_007270	NP_009201			FK506 binding protein 9 precursor						protein folding	endoplasmic reticulum|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			central_nervous_system(13)|ovary(1)	14			GBM - Glioblastoma multiforme(11;0.0156)															---	---	---	---
BBS9	27241	broad.mit.edu	37	7	33312484	33312485	+	Intron	DEL	AG	-	-	rs75369651	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:33312484_33312485delAG	uc003tdn.1	+						BBS9_uc003tdo.1_Intron|BBS9_uc003tdp.1_Intron|BBS9_uc003tdq.1_Intron|BBS9_uc010kwn.1_Intron|BBS9_uc011kan.1_Intron|BBS9_uc011kao.1_Intron	NM_198428	NP_940820			parathyroid hormone-responsive B1 isoform 2						fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)											Bardet-Biedl_syndrome				---	---	---	---
BBS9	27241	broad.mit.edu	37	7	33637485	33637485	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:33637485delA	uc003tdn.1	+						BBS9_uc003tdo.1_Intron|BBS9_uc003tdp.1_Intron|BBS9_uc003tdq.1_Intron|BBS9_uc010kwn.1_Intron|BBS9_uc003tdr.1_Intron|BBS9_uc003tds.1_Intron|BBS9_uc003tdt.2_Intron	NM_198428	NP_940820			parathyroid hormone-responsive B1 isoform 2						fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)											Bardet-Biedl_syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	7	33645928	33645928	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:33645928delA								BBS9 (248 upstream) : BMPER (299184 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	33724129	33724129	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:33724129delT								BBS9 (78449 upstream) : BMPER (220983 downstream)																																			---	---	---	---
BMPER	168667	broad.mit.edu	37	7	34017834	34017834	+	Intron	DEL	C	-	-	rs144181106	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:34017834delC	uc011kap.1	+							NM_133468	NP_597725			BMP-binding endothelial regulator precursor						blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3																		---	---	---	---
DPY19L2P1	554236	broad.mit.edu	37	7	35131318	35131318	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:35131318delT	uc003teq.1	-						DPY19L2P1_uc003tep.1_Intron|DPY19L2P1_uc010kwz.1_Intron					RecName: Full=Protein dpy-19 homolog 2-like 2; AltName: Full=Dpy-19-like protein 2 pseudogene 2;												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	35418029	35418029	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:35418029delG								TBX20 (124787 upstream) : HERPUD2 (254243 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	35549044	35549044	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:35549044delT								TBX20 (255802 upstream) : HERPUD2 (123228 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	35610936	35610936	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:35610936delA								TBX20 (317694 upstream) : HERPUD2 (61336 downstream)																																			---	---	---	---
SEPT7	989	broad.mit.edu	37	7	35944037	35944037	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:35944037delT	uc010kxc.2	+	13					SEPT7_uc011kat.1_3'UTR|SEPT7_uc011kau.1_3'UTR|SEPT7_uc011kav.1_3'UTR|SEPT7_uc003tey.2_3'UTR	NM_001788	NP_001779			cell division cycle 10 isoform 1						cilium morphogenesis|cytokinesis|mitosis|protein heterooligomerization|regulation of embryonic cell shape	cilium axoneme|cleavage furrow|condensed chromosome kinetochore|midbody|nucleus|septin complex|spindle|stress fiber	GTP binding|protein binding|structural molecule activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	36034325	36034326	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:36034325_36034326delTT								SEPT7 (89410 upstream) : EEPD1 (158510 downstream)																																			---	---	---	---
EEPD1	80820	broad.mit.edu	37	7	36332077	36332078	+	Intron	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:36332077_36332078delTC	uc003tfa.2	+							NM_030636	NP_085139			endonuclease/exonuclease/phosphatase family						DNA repair		DNA binding				0																		---	---	---	---
ELMO1	9844	broad.mit.edu	37	7	36907954	36907956	+	Intron	DEL	TTT	-	-	rs71553092		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:36907954_36907956delTTT	uc003tfk.1	-						ELMO1_uc003tfi.1_Intron|ELMO1_uc003tfj.1_Intron|ELMO1_uc011kbb.1_Intron|ELMO1_uc011kbc.1_Intron|ELMO1_uc010kxg.1_Intron	NM_014800	NP_055615			engulfment and cell motility 1 isoform 1						actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6																		---	---	---	---
ELMO1	9844	broad.mit.edu	37	7	36946757	36946757	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:36946757delA	uc003tfk.1	-						ELMO1_uc003tfi.1_Intron|ELMO1_uc003tfj.1_Intron|ELMO1_uc011kbb.1_Intron|ELMO1_uc011kbc.1_Intron|ELMO1_uc010kxg.1_Intron	NM_014800	NP_055615			engulfment and cell motility 1 isoform 1						actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6																		---	---	---	---
ELMO1	9844	broad.mit.edu	37	7	37067449	37067449	+	Intron	DEL	A	-	-	rs35248975		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37067449delA	uc003tfk.1	-						ELMO1_uc011kbc.1_Intron|ELMO1_uc010kxg.1_Intron	NM_014800	NP_055615			engulfment and cell motility 1 isoform 1						actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6																		---	---	---	---
ELMO1	9844	broad.mit.edu	37	7	37484123	37484123	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37484123delT	uc003tfk.1	-						ELMO1_uc010kxg.1_Intron	NM_014800	NP_055615			engulfment and cell motility 1 isoform 1						actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	37613693	37613694	+	IGR	INS	-	CA	CA	rs142298726		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37613693_37613694insCA								ELMO1 (125163 upstream) : GPR141 (166302 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	37709783	37709783	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37709783delT								ELMO1 (221253 upstream) : GPR141 (70213 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	37717799	37717802	+	IGR	DEL	GTGT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37717799_37717802delGTGT								ELMO1 (229269 upstream) : GPR141 (62194 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	37853305	37853305	+	Intron	DEL	A	-	-	rs60877650		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37853305delA	uc003tfl.2	+											Homo sapiens, clone IMAGE:3881224, mRNA.																														---	---	---	---
TXNDC3	51314	broad.mit.edu	37	7	37887656	37887656	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37887656delA	uc003tfn.2	+							NM_016616	NP_057700			thioredoxin domain containing 3						cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3														Kartagener_syndrome				---	---	---	---
SFRP4	6424	broad.mit.edu	37	7	37955475	37955475	+	Intron	DEL	T	-	-	rs36048041		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37955475delT	uc003tfo.3	-							NM_003014	NP_003005			secreted frizzled-related  protein 4 precursor						brain development|cell differentiation|decidualization|embryo development|epithelium development|gonad development|mammary gland involution|menstrual cycle phase|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell proliferation|negative regulation of JNK cascade|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of sodium-dependent phosphate transport|phosphate ion homeostasis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epidermal cell differentiation|positive regulation of gene expression|positive regulation of receptor internalization|vasculature development|Wnt receptor signaling pathway	cell surface|cytoplasm|extracellular space|nucleus	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	38051199	38051203	+	IGR	DEL	AGAAG	-	-	rs67804827		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38051199_38051203delAGAAG								EPDR1 (59660 upstream) : STARD3NL (166730 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	38376857	38376857	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38376857delA	uc010kxk.1	-											Homo sapiens cDNA FLJ77147 complete cds, highly similar to Homo sapiens T cell receptor gamma variable 7, mRNA.																														---	---	---	---
VPS41	27072	broad.mit.edu	37	7	38764723	38764724	+	3'UTR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38764723_38764724insA	uc003tgy.2	-	29					VPS41_uc003tgz.2_3'UTR|VPS41_uc010kxn.2_3'UTR|VPS41_uc003tgx.2_RNA	NM_014396	NP_055211			vacuolar protein sorting 41 isoform 1						Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4																		---	---	---	---
VPS41	27072	broad.mit.edu	37	7	38803165	38803165	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38803165delA	uc003tgy.2	-						VPS41_uc003tgz.2_Intron|VPS41_uc010kxn.2_Intron	NM_014396	NP_055211			vacuolar protein sorting 41 isoform 1						Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4																		---	---	---	---
VPS41	27072	broad.mit.edu	37	7	38910544	38910544	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38910544delA	uc003tgy.2	-						VPS41_uc003tgz.2_Intron|VPS41_uc010kxn.2_Intron	NM_014396	NP_055211			vacuolar protein sorting 41 isoform 1						Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	39634828	39634828	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:39634828delT								C7orf36 (22358 upstream) : LOC646999 (14258 downstream)																																			---	---	---	---
LOC349114	349114	broad.mit.edu	37	7	39806617	39806617	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:39806617delT	uc003thf.2	+							NR_026999				Homo sapiens cDNA FLJ40085 fis, clone TESTI2002993.												0																		---	---	---	---
LOC349114	349114	broad.mit.edu	37	7	39808485	39808486	+	Intron	DEL	TT	-	-	rs112880923		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:39808485_39808486delTT	uc003thf.2	+							NR_026999				Homo sapiens cDNA FLJ40085 fis, clone TESTI2002993.												0																		---	---	---	---
CDK13	8621	broad.mit.edu	37	7	40029831	40029831	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:40029831delT	uc003thh.3	+						CDK13_uc003thi.3_Intron|CDK13_uc011kbf.1_Intron	NM_003718	NP_003709			cell division cycle 2-like 5 isoform 1						alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5																		---	---	---	---
CDK13	8621	broad.mit.edu	37	7	40032763	40032763	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:40032763delT	uc003thh.3	+						CDK13_uc003thi.3_Intron|CDK13_uc011kbf.1_Intron	NM_003718	NP_003709			cell division cycle 2-like 5 isoform 1						alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5																		---	---	---	---
CDK13	8621	broad.mit.edu	37	7	40070303	40070303	+	Intron	DEL	T	-	-	rs111919957		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:40070303delT	uc003thh.3	+						CDK13_uc003thi.3_Intron|CDK13_uc011kbf.1_Intron	NM_003718	NP_003709			cell division cycle 2-like 5 isoform 1						alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5																		---	---	---	---
C7orf10	79783	broad.mit.edu	37	7	40337570	40337570	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:40337570delT	uc003thn.1	+						C7orf10_uc003thm.1_Intron|C7orf10_uc003tho.1_Intron	NM_024728	NP_079004			dermal papilla derived protein 13								transferase activity			ovary(2)	2																		---	---	---	---
C7orf10	79783	broad.mit.edu	37	7	40531001	40531001	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:40531001delC	uc003thn.1	+						C7orf10_uc003thm.1_Intron|C7orf10_uc003tho.1_Intron	NM_024728	NP_079004			dermal papilla derived protein 13								transferase activity			ovary(2)	2																		---	---	---	---
C7orf10	79783	broad.mit.edu	37	7	40531259	40531260	+	Intron	DEL	AA	-	-	rs11356280		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:40531259_40531260delAA	uc003thn.1	+						C7orf10_uc003thm.1_Intron|C7orf10_uc003tho.1_Intron	NM_024728	NP_079004			dermal papilla derived protein 13								transferase activity			ovary(2)	2																		---	---	---	---
C7orf10	79783	broad.mit.edu	37	7	40653214	40653215	+	Intron	DEL	TT	-	-	rs111253461		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:40653214_40653215delTT	uc003thn.1	+						C7orf10_uc003thm.1_Intron|C7orf10_uc003tho.1_Intron	NM_024728	NP_079004			dermal papilla derived protein 13								transferase activity			ovary(2)	2																		---	---	---	---
C7orf10	79783	broad.mit.edu	37	7	40654182	40654182	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:40654182delT	uc003thn.1	+						C7orf10_uc003thm.1_Intron|C7orf10_uc003tho.1_Intron	NM_024728	NP_079004			dermal papilla derived protein 13								transferase activity			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	40938297	40938297	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:40938297delA								C7orf10 (37940 upstream) : INHBA (790306 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	40999252	40999252	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:40999252delC								C7orf10 (98895 upstream) : INHBA (729351 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	41260850	41260850	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:41260850delT								C7orf10 (360493 upstream) : INHBA (467753 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	41413699	41413699	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:41413699delT								C7orf10 (513342 upstream) : INHBA (314904 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	41452775	41452776	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:41452775_41452776insT								C7orf10 (552418 upstream) : INHBA (275827 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	41896595	41896596	+	IGR	DEL	TC	-	-	rs10568918		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:41896595_41896596delTC								LOC285954 (77621 upstream) : GLI3 (103954 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	41958005	41958005	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:41958005delT								LOC285954 (139031 upstream) : GLI3 (42545 downstream)																																			---	---	---	---
GLI3	2737	broad.mit.edu	37	7	42003913	42003913	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:42003913delT	uc011kbh.1	-	15					GLI3_uc011kbg.1_3'UTR	NM_000168	NP_000159			GLI-Kruppel family member GLI3						negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19														Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				---	---	---	---
GLI3	2737	broad.mit.edu	37	7	42033703	42033703	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:42033703delA	uc011kbh.1	-						GLI3_uc011kbg.1_Intron	NM_000168	NP_000159			GLI-Kruppel family member GLI3						negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19														Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	7	43121254	43121254	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43121254delT								MRPL32 (143803 upstream) : HECW1 (30944 downstream)																																			---	---	---	---
HECW1	23072	broad.mit.edu	37	7	43293510	43293511	+	Intron	DEL	AA	-	-	rs74779735		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43293510_43293511delAA	uc003tid.1	+						HECW1_uc011kbi.1_Intron|HECW1_uc003tie.1_Intron	NM_015052	NP_055867			NEDD4-like ubiquitin-protein ligase 1						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23																		---	---	---	---
HECW1	23072	broad.mit.edu	37	7	43345185	43345187	+	Intron	DEL	TTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43345185_43345187delTTG	uc003tid.1	+						HECW1_uc011kbi.1_Intron|HECW1_uc003tie.1_Intron	NM_015052	NP_055867			NEDD4-like ubiquitin-protein ligase 1						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23																		---	---	---	---
C7orf44	55744	broad.mit.edu	37	7	43759875	43759875	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43759875delA	uc003tin.1	-						C7orf44_uc003til.2_Intron|C7orf44_uc003tii.2_Intron|C7orf44_uc003tij.2_Intron|C7orf44_uc010kxu.1_Intron|C7orf44_uc003tik.2_Intron|C7orf44_uc003tim.1_Intron|C7orf44_uc003tio.1_Intron|C7orf44_uc003tiq.1_Intron|C7orf44_uc003tip.1_Intron	NM_018224	NP_060694			hypothetical protein LOC55744							integral to membrane				ovary(1)	1																		---	---	---	---
URGCP	55665	broad.mit.edu	37	7	43944796	43944796	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43944796delT	uc003tiw.2	-						URGCP_uc003tiv.2_Intron|URGCP_uc003tix.2_Intron|URGCP_uc003tiy.2_Intron|URGCP_uc003tiz.2_Intron|URGCP_uc011kbj.1_Intron	NM_001077663	NP_001071131			up-regulated gene 4 isoform 3						cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4																		---	---	---	---
UBE2D4	51619	broad.mit.edu	37	7	43969730	43969730	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43969730delT	uc003tja.1	+						UBE2D4_uc003tjb.1_Intron	NM_015983	NP_057067			ubiquitin-conjugating enzyme E2D 4 (putative)						protein K11-linked ubiquitination|protein K27-linked ubiquitination|protein K29-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|protein K63-linked ubiquitination		ATP binding|protein binding|ubiquitin-protein ligase activity				0																		---	---	---	---
CAMK2B	816	broad.mit.edu	37	7	44293361	44293361	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44293361delT	uc003tkq.2	-						CAMK2B_uc003tkp.2_Intron|CAMK2B_uc003tkx.2_Intron|CAMK2B_uc010kyd.2_Intron|CAMK2B_uc003tkr.2_Intron|CAMK2B_uc003tks.2_Intron|CAMK2B_uc003tku.2_Intron|CAMK2B_uc003tkv.2_Intron|CAMK2B_uc003tkt.2_Intron|CAMK2B_uc003tkw.2_Intron|CAMK2B_uc010kyc.2_Intron	NM_001220	NP_001211			calcium/calmodulin-dependent protein kinase II						interferon-gamma-mediated signaling pathway|synaptic transmission	cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)|ovary(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	44547426	44547426	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44547426delT								NUDCD3 (17041 upstream) : NPC1L1 (4710 downstream)																																			---	---	---	---
OGDH	4967	broad.mit.edu	37	7	44665409	44665409	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44665409delT	uc003tln.2	+						OGDH_uc003tlm.2_Intron|OGDH_uc011kbx.1_Intron|OGDH_uc011kby.1_Intron|OGDH_uc003tlp.2_Intron|OGDH_uc011kbz.1_Intron	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)													---	---	---	---
Unknown	0	broad.mit.edu	37	7	44753642	44753642	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44753642delC								OGDH (4974 upstream) : ZMIZ2 (34538 downstream)																																			---	---	---	---
ZMIZ2	83637	broad.mit.edu	37	7	44798684	44798694	+	Intron	DEL	AAAAAAAAAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44798684_44798694delAAAAAAAAAAA	uc003tlr.2	+						ZMIZ2_uc003tlq.2_Intron|ZMIZ2_uc003tls.2_Intron|ZMIZ2_uc003tlt.2_5'Flank|ZMIZ2_uc010kyj.2_5'Flank	NM_031449	NP_113637			zinc finger, MIZ-type containing 2 isoform 1						positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	44845845	44845846	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44845845_44845846delTG								PPIA (3130 upstream) : H2AFV (20642 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	44970570	44970570	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44970570delA								PURB (45610 upstream) : MYO1G (31690 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	45182360	45182360	+	IGR	DEL	T	-	-	rs111746175		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45182360delT								TBRG4 (31043 upstream) : RAMP3 (15007 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	45473392	45473392	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45473392delT								RAMP3 (249545 upstream) : ADCY1 (140347 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	45509197	45509197	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45509197delA								RAMP3 (285350 upstream) : ADCY1 (104542 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	45600745	45600745	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45600745delA								RAMP3 (376898 upstream) : ADCY1 (12994 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	45873000	45873003	+	IGR	DEL	AAAA	-	-	rs77517032		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45873000_45873003delAAAA								SEPT7P2 (64383 upstream) : IGFBP1 (54956 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	46048036	46048037	+	IGR	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:46048036_46048037insC								IGFBP3 (87165 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	46218277	46218277	+	IGR	DEL	G	-	-	rs111285967		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:46218277delG								IGFBP3 (257406 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	46286897	46286898	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:46286897_46286898delTT								IGFBP3 (326026 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	46672825	46672825	+	IGR	DEL	T	-	-	rs2195890	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:46672825delT								IGFBP3 (711954 upstream) : TNS3 (641928 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	46784020	46784020	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:46784020delT								IGFBP3 (823149 upstream) : TNS3 (530733 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	46830707	46830707	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:46830707delA								IGFBP3 (869836 upstream) : TNS3 (484046 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	46839241	46839241	+	IGR	DEL	T	-	-	rs75609298		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:46839241delT								IGFBP3 (878370 upstream) : TNS3 (475512 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	46843050	46843052	+	IGR	DEL	TTT	-	-	rs35416382		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:46843050_46843052delTTT								IGFBP3 (882179 upstream) : TNS3 (471701 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	46887339	46887340	+	IGR	DEL	AT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:46887339_46887340delAT								IGFBP3 (926468 upstream) : TNS3 (427413 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	47097718	47097719	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47097718_47097719delAA								None (None upstream) : TNS3 (217034 downstream)																																			---	---	---	---
TNS3	64759	broad.mit.edu	37	7	47504663	47504663	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47504663delA	uc003tnv.2	-						TNS3_uc003tnw.2_Intron|TNS3_uc010kyo.1_Intron	NM_022748	NP_073585			tensin 3							focal adhesion	protein binding			ovary(4)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	47629731	47629732	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47629731_47629732delTC								TNS3 (7989 upstream) : C7orf65 (65110 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	47809049	47809049	+	IGR	DEL	T	-	-	rs111920176		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47809049delT								C7orf65 (107803 upstream) : PKD1L1 (5241 downstream)																																			---	---	---	---
C7orf69	80099	broad.mit.edu	37	7	47859242	47859242	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47859242delA	uc003tnz.3	+	3					PKD1L1_uc003tny.1_Intron|C7orf69_uc003toa.1_Intron|PKD1L1_uc003tob.2_Intron	NM_025031	NP_079307			hypothetical protein LOC80099 precursor							extracellular region					0																		---	---	---	---
PKD1L1	168507	broad.mit.edu	37	7	47952843	47952843	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47952843delA	uc003tny.1	-							NM_138295	NP_612152			polycystin-1L1						cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11																		---	---	---	---
PKD1L1	168507	broad.mit.edu	37	7	47958070	47958071	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47958070_47958071delAA	uc003tny.1	-							NM_138295	NP_612152			polycystin-1L1						cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11																		---	---	---	---
C7orf57	136288	broad.mit.edu	37	7	48076529	48076530	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48076529_48076530delTT	uc003toh.3	+						C7orf57_uc003toi.3_Intron	NM_001100159	NP_001093629			hypothetical protein LOC136288											ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	48115827	48115827	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48115827delA								C7orf57 (14934 upstream) : UPP1 (12528 downstream)																																			---	---	---	---
ABCA13	154664	broad.mit.edu	37	7	48278659	48278659	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48278659delT	uc003toq.2	+						ABCA13_uc010kyr.2_Intron	NM_152701	NP_689914			ATP binding cassette, sub-family A (ABC1),						transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	48924209	48924209	+	IGR	DEL	T	-	-	rs113611040		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48924209delT								ABCA13 (237118 upstream) : CDC14C (39948 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	49499207	49499207	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:49499207delA								CDC14C (532158 upstream) : VWC2 (314050 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	49521820	49521820	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:49521820delA								CDC14C (554771 upstream) : VWC2 (291437 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	49531265	49531265	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:49531265delA								CDC14C (564216 upstream) : VWC2 (281992 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	49610622	49610622	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:49610622delA								CDC14C (643573 upstream) : VWC2 (202635 downstream)																																			---	---	---	---
VWC2	375567	broad.mit.edu	37	7	49918121	49918122	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:49918121_49918122insT	uc003tot.1	+							NM_198570	NP_940972			von Willebrand factor C domain containing 2						negative regulation of BMP signaling pathway|positive regulation of neuron differentiation	basement membrane|extracellular space					0																		---	---	---	---
ZPBP	11055	broad.mit.edu	37	7	50118581	50118581	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:50118581delA	uc003tou.2	-						ZPBP_uc011kci.1_Intron|ZPBP_uc010kyw.2_Intron	NM_007009	NP_008940			zona pellucida binding protein isoform 1						binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	50329605	50329606	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:50329605_50329606delTC								C7orf72 (130247 upstream) : IKZF1 (14772 downstream)																																			---	---	---	---
IKZF1	10320	broad.mit.edu	37	7	50367216	50367218	+	Intron	DEL	CTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:50367216_50367218delCTT	uc003tow.3	+						IKZF1_uc003tox.3_Intron|IKZF1_uc003toy.3_Intron|IKZF1_uc011kck.1_Intron|IKZF1_uc003toz.3_5'Flank|IKZF1_uc010kyx.2_5'Flank|IKZF1_uc003tov.1_Intron	NM_006060	NP_006051			zinc finger protein, subfamily 1A, 1 (Ikaros)						cell cycle|chromatin modification|mesoderm development	cytoplasm|nucleus	zinc ion binding	p.?(17)		haematopoietic_and_lymphoid_tissue(147)|lung(1)	148	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)						D		ALL								---	---	---	---
Unknown	0	broad.mit.edu	37	7	50476393	50476393	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:50476393delA								IKZF1 (3597 upstream) : FIGNL1 (35441 downstream)																																			---	---	---	---
COBL	23242	broad.mit.edu	37	7	51312192	51312193	+	Intron	DEL	AG	-	-	rs72254593		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:51312192_51312193delAG	uc003tpr.3	-						COBL_uc003tps.2_Intron|COBL_uc011kcl.1_Intron|COBL_uc010kzc.2_Intron|COBL_uc003tpt.2_Intron	NM_015198	NP_056013			cordon-bleu homolog											skin(3)|ovary(2)	5	Glioma(55;0.08)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	51584819	51584819	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:51584819delT								COBL (200304 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	51719444	51719445	+	IGR	DEL	AC	-	-	rs71729067		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:51719444_51719445delAC								COBL (334929 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	52016051	52016051	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:52016051delT								COBL (631536 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	52092761	52092761	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:52092761delA								COBL (708246 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	52238132	52238132	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:52238132delA								COBL (853617 upstream) : POM121L12 (865217 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	52648254	52648254	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:52648254delA								None (None upstream) : POM121L12 (455095 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	52794458	52794461	+	IGR	DEL	CACA	-	-	rs72304734		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:52794458_52794461delCACA								None (None upstream) : POM121L12 (308888 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	53224592	53224592	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:53224592delT								POM121L12 (119975 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	53305360	53305360	+	IGR	DEL	T	-	-	rs67786903		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:53305360delT								POM121L12 (200743 upstream) : HPVC1 (963557 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	53405864	53405864	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:53405864delT								POM121L12 (301247 upstream) : HPVC1 (863053 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	54098028	54098028	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:54098028delA								POM121L12 (993411 upstream) : HPVC1 (170889 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	54144233	54144233	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:54144233delT								None (None upstream) : HPVC1 (124684 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	54200380	54200380	+	IGR	DEL	A	-	-	rs2030703		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:54200380delA								None (None upstream) : HPVC1 (68537 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	54367261	54367261	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:54367261delT								HPVC1 (97147 upstream) : VSTM2A (242758 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	54551084	54551084	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:54551084delA								HPVC1 (280970 upstream) : VSTM2A (58935 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	55012279	55012280	+	IGR	DEL	AA	-	-	rs72339878		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55012279_55012280delAA								SEC61G (185340 upstream) : EGFR (74445 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	55040707	55040708	+	IGR	INS	-	TTTT	TTTT	rs146404248	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55040707_55040708insTTTT								SEC61G (213768 upstream) : EGFR (46017 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	55053946	55053946	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55053946delA								SEC61G (227007 upstream) : EGFR (32779 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	55069880	55069881	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55069880_55069881insG								SEC61G (242941 upstream) : EGFR (16844 downstream)																																			---	---	---	---
EGFR	1956	broad.mit.edu	37	7	55136463	55136464	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55136463_55136464delAG	uc003tqk.2	+						EGFR_uc003tqh.2_Intron|EGFR_uc003tqi.2_Intron|EGFR_uc003tqj.2_Intron|EGFR_uc010kzg.1_Intron	NM_005228	NP_005219			epidermal growth factor receptor isoform a						activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			---	---	---	---
Unknown	0	broad.mit.edu	37	7	55837678	55837680	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55837678_55837680delAAA								FKBP9L (65418 upstream) : SEPT14 (23557 downstream)																																			---	---	---	---
ZNF713	349075	broad.mit.edu	37	7	55976291	55976291	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55976291delT	uc003tra.1	+						MRPS17_uc003trb.2_Intron	NM_182633	NP_872439			zinc finger protein 713						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)															---	---	---	---
ZNF713	349075	broad.mit.edu	37	7	55985398	55985399	+	Intron	DEL	AA	-	-	rs113616516		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55985398_55985399delAA	uc003trc.1	+						ZNF713_uc003tra.1_Intron|MRPS17_uc003trb.2_Intron	NM_182633	NP_872439			zinc finger protein 713						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)															---	---	---	---
Unknown	0	broad.mit.edu	37	7	56203044	56203044	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:56203044delT								PSPH (18954 upstream) : DKFZp434L192 (360872 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	56367749	56367751	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:56367749_56367751delTTT								PSPH (183659 upstream) : DKFZp434L192 (196165 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	56494037	56494038	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:56494037_56494038delAA								PSPH (309947 upstream) : DKFZp434L192 (69878 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	57225894	57225894	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57225894delT								ZNF479 (18323 upstream) : ZNF716 (283989 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	57357438	57357438	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57357438delT								ZNF479 (149867 upstream) : ZNF716 (152445 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	57637203	57637203	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57637203delA								ZNF716 (103938 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	57701099	57701099	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57701099delT								ZNF716 (167834 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	57737520	57737525	+	IGR	DEL	ATAATT	-	-	rs111496547		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57737520_57737525delATAATT								ZNF716 (204255 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	57918948	57918949	+	IGR	INS	-	AG	AG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57918948_57918949insAG								ZNF716 (385683 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	58019179	58019180	+	IGR	INS	-	T	T	rs112582728		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:58019179_58019180insT								ZNF716 (485914 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	61067046	61067046	+	IGR	DEL	T	-	-	rs35770668		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:61067046delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	61526871	61526871	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:61526871delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	61558882	61558882	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:61558882delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	61778107	61778108	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:61778107_61778108insA								None (None upstream) : LOC643955 (973564 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	61823405	61823405	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:61823405delA								None (None upstream) : LOC643955 (928267 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	61890047	61890047	+	IGR	DEL	T	-	-	rs112301303		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:61890047delT								None (None upstream) : LOC643955 (861625 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	61901876	61901876	+	IGR	DEL	C	-	-	rs112154530		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:61901876delC								None (None upstream) : LOC643955 (849796 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	62061338	62061338	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:62061338delA								None (None upstream) : LOC643955 (690334 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	62290384	62290385	+	IGR	DEL	AG	-	-	rs12535616	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:62290384_62290385delAG								None (None upstream) : LOC643955 (461287 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	62335996	62335996	+	IGR	DEL	T	-	-	rs113770933		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:62335996delT								None (None upstream) : LOC643955 (415676 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	62632598	62632598	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:62632598delA								None (None upstream) : LOC643955 (119074 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	62692628	62692629	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:62692628_62692629delTT								None (None upstream) : LOC643955 (59043 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	62984752	62984752	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:62984752delA								LOC100287704 (172601 upstream) : ZNF727 (521069 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	63320395	63320395	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:63320395delT								LOC100287704 (508244 upstream) : ZNF727 (185426 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	63400278	63400279	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:63400278_63400279delTT								LOC100287704 (588127 upstream) : ZNF727 (105542 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	63420006	63420006	+	IGR	DEL	A	-	-	rs35020901		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:63420006delA								LOC100287704 (607855 upstream) : ZNF727 (85815 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	63433905	63433905	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:63433905delA								LOC100287704 (621754 upstream) : ZNF727 (71916 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	63502790	63502791	+	IGR	INS	-	AG	AG	rs148991345	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:63502790_63502791insAG								LOC100287704 (690639 upstream) : ZNF727 (3030 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	63660020	63660021	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:63660020_63660021insT								ZNF727 (121095 upstream) : ZNF735 (7560 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	63795676	63795676	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:63795676delA	uc011kdo.1	+											SubName: Full=cDNA FLJ57041, moderately similar to Zinc finger protein 92;																														---	---	---	---
Unknown	0	broad.mit.edu	37	7	63834553	63834554	+	IGR	DEL	GG	-	-	rs35224790		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:63834553_63834554delGG								ZNF679 (107253 upstream) : ZNF680 (145701 downstream)																																			---	---	---	---
ZNF138	7697	broad.mit.edu	37	7	64275141	64275141	+	Intron	DEL	A	-	-	rs139933821		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:64275141delA	uc011kdp.1	+						ZNF138_uc003ttg.2_Intron|ZNF138_uc011kdq.1_Intron|ZNF138_uc003tth.2_Intron|ZNF138_uc010kzs.2_Intron	NM_001160183	NP_001153655			zinc finger protein 138 isoform 2						regulation of transcription, DNA-dependent	intracellular	nucleic acid binding				0		Lung NSC(55;0.0795)|all_lung(88;0.18)																---	---	---	---
Unknown	0	broad.mit.edu	37	7	64532452	64532459	+	Intron	DEL	TTTTTTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:64532452_64532459delTTTTTTTT	uc003ttt.1	+						uc010kzt.1_Intron					Homo sapiens cDNA clone IMAGE:4215179, partial cds.																														---	---	---	---
Unknown	0	broad.mit.edu	37	7	64749591	64749591	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:64749591delA								INTS4L1 (54992 upstream) : ZNF92 (89177 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	65200624	65200624	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:65200624delA	uc003tud.1	-						uc003tuf.2_Intron					Homo sapiens hypothetical LOC441242, mRNA (cDNA clone MGC:87648 IMAGE:5267764), complete cds.																														---	---	---	---
Unknown	0	broad.mit.edu	37	7	65222951	65222951	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:65222951delT	uc003tud.1	-						CCT6P1_uc003tug.2_Intron|CCT6P1_uc003tuh.2_Intron|CCT6P1_uc003tui.2_Intron|uc003tuk.1_5'Flank					Homo sapiens hypothetical LOC441242, mRNA (cDNA clone MGC:87648 IMAGE:5267764), complete cds.																														---	---	---	---
VKORC1L1	154807	broad.mit.edu	37	7	65385816	65385816	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:65385816delA	uc003tul.2	+						VKORC1L1_uc011kds.1_Intron	NM_173517	NP_775788			vitamin K epoxide reductase complex, subunit							integral to membrane					0		Lung NSC(55;0.197)			Menadione(DB00170)|Warfarin(DB00682)													---	---	---	---
TPST1	8460	broad.mit.edu	37	7	65711005	65711005	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:65711005delT	uc003tuw.2	+						TPST1_uc010kzy.2_Intron|TPST1_uc010kzz.2_Intron|TPST1_uc010laa.2_Intron	NM_003596	NP_003587			tyrosylprotein sulfotransferase 1						inflammatory response|peptidyl-tyrosine sulfation	Golgi membrane|integral to membrane|membrane fraction	protein-tyrosine sulfotransferase activity				0																		---	---	---	---
RABGEF1	27342	broad.mit.edu	37	7	66186964	66186964	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:66186964delC	uc003tvf.2	+						RABGEF1_uc003tvg.2_Intron	NM_014504	NP_055319			RAB guanine nucleotide exchange factor (GEF) 1						endocytosis|protein transport	early endosome|recycling endosome	DNA binding|protein binding|zinc ion binding			ovary(1)	1																		---	---	---	---
RABGEF1	27342	broad.mit.edu	37	7	66193260	66193260	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:66193260delG	uc003tvf.2	+						RABGEF1_uc003tvg.2_Intron	NM_014504	NP_055319			RAB guanine nucleotide exchange factor (GEF) 1						endocytosis|protein transport	early endosome|recycling endosome	DNA binding|protein binding|zinc ion binding			ovary(1)	1																		---	---	---	---
RABGEF1	27342	broad.mit.edu	37	7	66209029	66209031	+	Intron	DEL	TTT	-	-	rs111338333		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:66209029_66209031delTTT	uc010lag.2	+						RABGEF1_uc003tvf.2_Intron|RABGEF1_uc003tvg.2_Intron|RABGEF1_uc003tvh.2_Intron	NM_014504	NP_055319			RAB guanine nucleotide exchange factor (GEF) 1						endocytosis|protein transport	early endosome|recycling endosome	DNA binding|protein binding|zinc ion binding			ovary(1)	1																		---	---	---	---
LOC729156	729156	broad.mit.edu	37	7	66277046	66277046	+	Intron	DEL	A	-	-	rs76501328		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:66277046delA	uc003tvj.1	-							NR_003934				Homo sapiens cDNA FLJ36054 fis, clone TESTI2018290.												0																		---	---	---	---
TYW1	55253	broad.mit.edu	37	7	66559991	66559992	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:66559991_66559992delTT	uc003tvn.2	+						TYW1_uc010lai.2_Intron|TYW1_uc011kef.1_Intron	NM_018264	NP_060734			radical S-adenosyl methionine and flavodoxin						tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)																---	---	---	---
Unknown	0	broad.mit.edu	37	7	66895606	66895606	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:66895606delT								STAG3L4 (109094 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	67038235	67038235	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:67038235delA								STAG3L4 (251723 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	67307495	67307496	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:67307495_67307496delCT								STAG3L4 (520983 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	67406483	67406483	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:67406483delT								STAG3L4 (619971 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	67567217	67567217	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:67567217delT								STAG3L4 (780705 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	67662587	67662587	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:67662587delT								STAG3L4 (876075 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	67835528	67835528	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:67835528delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	67940735	67940736	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:67940735_67940736delTT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	68010670	68010670	+	IGR	DEL	A	-	-	rs112385311		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:68010670delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	68137989	68137990	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:68137989_68137990delCT								None (None upstream) : AUTS2 (925915 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	68169047	68169047	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:68169047delA								None (None upstream) : AUTS2 (894858 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	68336396	68336397	+	IGR	INS	-	G	G	rs140513951	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:68336396_68336397insG								None (None upstream) : AUTS2 (727508 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	68405442	68405442	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:68405442delA								None (None upstream) : AUTS2 (658463 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	68554675	68554675	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:68554675delA								None (None upstream) : AUTS2 (509230 downstream)																																			---	---	---	---
AUTS2	26053	broad.mit.edu	37	7	69081496	69081496	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:69081496delT	uc003tvw.3	+						AUTS2_uc003tvv.3_Intron|AUTS2_uc003tvx.3_Intron	NM_015570	NP_056385			autism susceptibility candidate 2 isoform 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)														---	---	---	---
AUTS2	26053	broad.mit.edu	37	7	69096162	69096162	+	Intron	DEL	T	-	-	rs72153961		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:69096162delT	uc003tvw.3	+						AUTS2_uc003tvv.3_Intron|AUTS2_uc003tvx.3_Intron	NM_015570	NP_056385			autism susceptibility candidate 2 isoform 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)														---	---	---	---
AUTS2	26053	broad.mit.edu	37	7	69122628	69122628	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:69122628delT	uc003tvw.3	+						AUTS2_uc003tvv.3_Intron|AUTS2_uc003tvx.3_Intron	NM_015570	NP_056385			autism susceptibility candidate 2 isoform 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)														---	---	---	---
AUTS2	26053	broad.mit.edu	37	7	69274066	69274066	+	Intron	DEL	T	-	-	rs113662227		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:69274066delT	uc003tvw.3	+						AUTS2_uc003tvv.3_Intron|AUTS2_uc003tvx.3_Intron	NM_015570	NP_056385			autism susceptibility candidate 2 isoform 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)														---	---	---	---
AUTS2	26053	broad.mit.edu	37	7	69483196	69483196	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:69483196delT	uc003tvw.3	+						AUTS2_uc003tvv.3_Intron|AUTS2_uc003tvx.3_Intron	NM_015570	NP_056385			autism susceptibility candidate 2 isoform 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)														---	---	---	---
AUTS2	26053	broad.mit.edu	37	7	69722030	69722030	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:69722030delT	uc003tvw.3	+						AUTS2_uc003tvv.3_Intron|AUTS2_uc003tvx.3_Intron	NM_015570	NP_056385			autism susceptibility candidate 2 isoform 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)														---	---	---	---
AUTS2	26053	broad.mit.edu	37	7	69766924	69766924	+	Intron	DEL	T	-	-	rs35067729		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:69766924delT	uc003tvw.3	+						AUTS2_uc003tvx.3_Intron	NM_015570	NP_056385			autism susceptibility candidate 2 isoform 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)														---	---	---	---
AUTS2	26053	broad.mit.edu	37	7	69801449	69801449	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:69801449delT	uc003tvw.3	+						AUTS2_uc003tvx.3_Intron	NM_015570	NP_056385			autism susceptibility candidate 2 isoform 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)														---	---	---	---
AUTS2	26053	broad.mit.edu	37	7	70054386	70054386	+	Intron	DEL	A	-	-	rs113964353		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70054386delA	uc003tvw.3	+						AUTS2_uc003tvx.3_Intron	NM_015570	NP_056385			autism susceptibility candidate 2 isoform 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)														---	---	---	---
AUTS2	26053	broad.mit.edu	37	7	70107512	70107525	+	Intron	DEL	GTGTCCTCAACCAG	-	-	rs141685101		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70107512_70107525delGTGTCCTCAACCAG	uc003tvw.3	+						AUTS2_uc003tvx.3_Intron	NM_015570	NP_056385			autism susceptibility candidate 2 isoform 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)														---	---	---	---
AUTS2	26053	broad.mit.edu	37	7	70122636	70122636	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70122636delT	uc003tvw.3	+						AUTS2_uc003tvx.3_Intron	NM_015570	NP_056385			autism susceptibility candidate 2 isoform 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)														---	---	---	---
AUTS2	26053	broad.mit.edu	37	7	70229815	70229816	+	Frame_Shift_Ins	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70229815_70229816insC	uc003tvw.3	+	8	2035_2036	c.1292_1293insC	c.(1291-1293)TTCfs	p.F431fs	AUTS2_uc003tvx.3_Frame_Shift_Ins_p.F431fs|AUTS2_uc011keg.1_5'Flank	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	431										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)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	70287674	70287674	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70287674delA								AUTS2 (29790 upstream) : WBSCR17 (310115 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	70311103	70311103	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70311103delA								AUTS2 (53219 upstream) : WBSCR17 (286686 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	70364676	70364676	+	IGR	DEL	T	-	-	rs34275115		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70364676delT								AUTS2 (106792 upstream) : WBSCR17 (233113 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	70405092	70405092	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70405092delT								AUTS2 (147208 upstream) : WBSCR17 (192697 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	70554855	70554855	+	IGR	DEL	A	-	-	rs144862876		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70554855delA								AUTS2 (296971 upstream) : WBSCR17 (42934 downstream)																																			---	---	---	---
WBSCR17	64409	broad.mit.edu	37	7	70932764	70932764	+	Intron	DEL	A	-	-	rs146413785		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70932764delA	uc003tvy.2	+						WBSCR17_uc003tvz.2_Intron	NM_022479	NP_071924			UDP-GalNAc:polypeptide							Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)																---	---	---	---
WBSCR17	64409	broad.mit.edu	37	7	70981133	70981133	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70981133delA	uc003tvy.2	+						WBSCR17_uc003tvz.2_Intron	NM_022479	NP_071924			UDP-GalNAc:polypeptide							Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)																---	---	---	---
WBSCR17	64409	broad.mit.edu	37	7	70990669	70990669	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70990669delT	uc003tvy.2	+						WBSCR17_uc003tvz.2_Intron	NM_022479	NP_071924			UDP-GalNAc:polypeptide							Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)																---	---	---	---
WBSCR17	64409	broad.mit.edu	37	7	71023303	71023303	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:71023303delT	uc003tvy.2	+						WBSCR17_uc003tvz.2_Intron	NM_022479	NP_071924			UDP-GalNAc:polypeptide							Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)																---	---	---	---
CALN1	83698	broad.mit.edu	37	7	71847788	71847789	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:71847788_71847789insT	uc003twb.3	-						CALN1_uc003twc.3_Intron	NM_031468	NP_113656			calneuron 1 isoform 1							Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)																---	---	---	---
TYW1B	441250	broad.mit.edu	37	7	72099165	72099165	+	Intron	DEL	T	-	-	rs71517351		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72099165delT	uc011kej.1	-						TYW1B_uc011keh.1_Intron|TYW1B_uc011kei.1_Intron	NM_001145440	NP_001138912			tRNA-yW synthesizing protein 1 homolog B isoform						tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0																		---	---	---	---
TYW1B	441250	broad.mit.edu	37	7	72103966	72103966	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72103966delA	uc011kej.1	-						TYW1B_uc011keh.1_Intron|TYW1B_uc011kei.1_Intron	NM_001145440	NP_001138912			tRNA-yW synthesizing protein 1 homolog B isoform						tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	72836833	72836833	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72836833delT								FKBP6 (64192 upstream) : FZD9 (11276 downstream)																																			---	---	---	---
BAZ1B	9031	broad.mit.edu	37	7	72864383	72864384	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72864383_72864384delTT	uc003tyc.2	-							NM_032408	NP_115784			bromodomain adjacent to zinc finger domain, 1B						ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)																---	---	---	---
BCL7B	9275	broad.mit.edu	37	7	72966813	72966813	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72966813delA	uc003tyf.1	-						BCL7B_uc003tye.1_Intron|BCL7B_uc003tyg.1_Intron	NM_001707	NP_001698			B-cell CLL/lymphoma 7B								actin binding			ovary(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)																---	---	---	---
RFC2	5982	broad.mit.edu	37	7	73206896	73206896	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73206896delA	uc011kfa.1	-							NM_181471				replication factor C 2 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|protein binding			liver(1)|central_nervous_system(1)	2																		---	---	---	---
LIMK1	3984	broad.mit.edu	37	7	73529753	73529753	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73529753delA	uc003uaa.1	+						RFC2_uc011kfa.1_Intron|LIMK1_uc010lbl.1_Intron|LIMK1_uc003uab.2_Intron	NM_002314	NP_002305			LIM domain kinase 1						actin cytoskeleton organization|axon guidance|negative regulation of ubiquitin-protein ligase activity|positive regulation of actin filament bundle assembly|positive regulation of axon extension|Rho protein signal transduction	cytosol|growth cone|nucleus	ATP binding|heat shock protein binding|protein serine/threonine kinase activity|zinc ion binding			stomach(2)|ovary(1)	3		Lung NSC(55;0.137)																---	---	---	---
CLIP2	7461	broad.mit.edu	37	7	73796421	73796421	+	Intron	DEL	T	-	-	rs72046555		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73796421delT	uc003uam.2	+						CLIP2_uc003uan.2_Intron	NM_003388	NP_003379			CAP-GLY domain containing linker protein 2							microtubule associated complex				skin(3)	3																		---	---	---	---
GTF2IRD1	9569	broad.mit.edu	37	7	73885141	73885141	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73885141delT	uc003uaq.2	+						GTF2IRD1_uc010lbq.2_Intron|GTF2IRD1_uc003uap.2_Intron	NM_016328	NP_057412			GTF2I repeat domain containing 1 isoform 1							nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4																		---	---	---	---
GTF2IRD1	9569	broad.mit.edu	37	7	73938055	73938055	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73938055delA	uc003uaq.2	+						GTF2IRD1_uc010lbq.2_Intron|GTF2IRD1_uc003uap.2_Intron|GTF2IRD1_uc003uar.1_Intron	NM_016328	NP_057412			GTF2I repeat domain containing 1 isoform 1							nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4																		---	---	---	---
GTF2IRD1	9569	broad.mit.edu	37	7	73956426	73956426	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73956426delA	uc003uaq.2	+						GTF2IRD1_uc010lbq.2_Intron|GTF2IRD1_uc003uap.2_Intron|GTF2IRD1_uc003uar.1_Intron	NM_016328	NP_057412			GTF2I repeat domain containing 1 isoform 1							nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	74045432	74045432	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:74045432delA	uc010lbr.1	+											Homo sapiens mRNA sequence.																														---	---	---	---
GTF2I	2969	broad.mit.edu	37	7	74104549	74104549	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:74104549delA	uc003uau.2	+						GTF2I_uc003uat.2_Intron|GTF2I_uc003uav.2_Intron|GTF2I_uc003uaw.2_Intron|GTF2I_uc003uay.2_Intron|GTF2I_uc003uax.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																		---	---	---	---
HIP1	3092	broad.mit.edu	37	7	75260002	75260002	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75260002delT	uc003uds.1	-							NM_005338	NP_005329			huntingtin interacting protein 1						activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8								T	PDGFRB	CMML								---	---	---	---
HIP1	3092	broad.mit.edu	37	7	75327979	75327979	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75327979delT	uc003uds.1	-							NM_005338	NP_005329			huntingtin interacting protein 1						activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8								T	PDGFRB	CMML								---	---	---	---
RHBDD2	57414	broad.mit.edu	37	7	75506982	75506983	+	5'Flank	DEL	TT	-	-	rs72029183		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75506982_75506983delTT	uc003udw.1	+						RHBDD2_uc003udv.1_5'Flank	NM_001040456	NP_001035546			rhomboid domain containing 2 isoform a							integral to membrane	serine-type endopeptidase activity				0																		---	---	---	---
POR	5447	broad.mit.edu	37	7	75579357	75579357	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75579357delT	uc003udy.2	+							NM_000941	NP_000932			cytochrome P450 reductase						cellular organofluorine metabolic process|positive regulation of monooxygenase activity	endoplasmic reticulum membrane	iron ion binding|NADPH-hemoprotein reductase activity			central_nervous_system(1)	1					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Lipoic Acid(DB00166)|Menadione(DB00170)|Methoxyflurane(DB01028)|Mitomycin(DB00305)|Nilutamide(DB00665)													---	---	---	---
SRRM3	222183	broad.mit.edu	37	7	75914389	75914389	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75914389delT	uc010ldi.2	+						SRRM3_uc003uet.1_Intron	NM_001110199	NP_001103669			serine/arginine repetitive matrix 3												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	76344766	76344767	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:76344766_76344767insT								POMZP3 (88146 upstream) : PMS2L11 (265372 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	76739114	76739114	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:76739114delT								LOC100132832 (56759 upstream) : CCDC146 (12820 downstream)																																			---	---	---	---
PION	54103	broad.mit.edu	37	7	77002059	77002059	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77002059delA	uc003ugf.2	-						PION_uc003ugg.1_Intron	NM_017439	NP_059135			pigeon homolog						beta-amyloid formation|regulation of proteolysis	trans-Golgi network	beta-amyloid binding			central_nervous_system(1)	1																		---	---	---	---
PTPN12	5782	broad.mit.edu	37	7	77262588	77262588	+	Intron	DEL	A	-	-	rs67232806		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77262588delA	uc003ugh.2	+						PTPN12_uc011kgp.1_Intron|PTPN12_uc011kgq.1_Intron|PTPN12_uc010lds.2_Intron	NM_002835	NP_002826			protein tyrosine phosphatase, non-receptor type							soluble fraction	non-membrane spanning protein tyrosine phosphatase activity|SH3 domain binding			ovary(1)|breast(1)|pancreas(1)	3																		---	---	---	---
PHTF2	57157	broad.mit.edu	37	7	77517440	77517440	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77517440delT	uc003ugs.3	+						PHTF2_uc003ugo.3_Intron|PHTF2_uc003ugp.2_Intron|PHTF2_uc003ugq.3_Intron|PHTF2_uc010ldv.2_Intron|PHTF2_uc003ugr.3_Intron|PHTF2_uc003ugt.3_Intron|PHTF2_uc003ugu.3_Intron	NM_001127357	NP_001120829			putative homeodomain transcription factor 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1																		---	---	---	---
PHTF2	57157	broad.mit.edu	37	7	77555371	77555371	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77555371delA	uc003ugs.3	+						PHTF2_uc003ugp.2_Intron|PHTF2_uc003ugq.3_Intron|PHTF2_uc010ldv.2_Intron|PHTF2_uc003ugt.3_Intron|PHTF2_uc003ugu.3_Intron|PHTF2_uc003ugv.2_Intron|PHTF2_uc010ldw.1_Intron	NM_001127357	NP_001120829			putative homeodomain transcription factor 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1																		---	---	---	---
PHTF2	57157	broad.mit.edu	37	7	77557804	77557804	+	Intron	DEL	A	-	-	rs67776230		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77557804delA	uc003ugs.3	+						PHTF2_uc003ugp.2_Intron|PHTF2_uc003ugq.3_Intron|PHTF2_uc010ldv.2_Intron|PHTF2_uc003ugt.3_Intron|PHTF2_uc003ugu.3_Intron|PHTF2_uc003ugv.2_Intron|PHTF2_uc010ldw.1_Intron	NM_001127357	NP_001120829			putative homeodomain transcription factor 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1																		---	---	---	---
PHTF2	57157	broad.mit.edu	37	7	77581910	77581910	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77581910delA	uc003ugs.3	+						PHTF2_uc003ugq.3_Intron|PHTF2_uc010ldv.2_Intron|PHTF2_uc003ugt.3_Intron|PHTF2_uc003ugu.3_Intron	NM_001127357	NP_001120829			putative homeodomain transcription factor 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	77605257	77605257	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77605257delT								PHTF2 (18439 upstream) : MAGI2 (41118 downstream)																																			---	---	---	---
MAGI2	9863	broad.mit.edu	37	7	77747025	77747025	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77747025delA	uc003ugx.2	-						MAGI2_uc003ugy.2_Intron|MAGI2_uc010ldx.1_Intron	NM_012301	NP_036433			membrane associated guanylate kinase, WW and PDZ							cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)																---	---	---	---
MAGI2	9863	broad.mit.edu	37	7	77794258	77794258	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77794258delA	uc003ugx.2	-						MAGI2_uc003ugy.2_Intron|MAGI2_uc010ldx.1_Intron	NM_012301	NP_036433			membrane associated guanylate kinase, WW and PDZ							cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)																---	---	---	---
MAGI2	9863	broad.mit.edu	37	7	78031248	78031248	+	Intron	DEL	T	-	-	rs11372680		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:78031248delT	uc003ugx.2	-						MAGI2_uc003ugy.2_Intron|MAGI2_uc010ldx.1_Intron|MAGI2_uc010ldy.1_Intron|MAGI2_uc011kgr.1_Intron|MAGI2_uc011kgs.1_Intron	NM_012301	NP_036433			membrane associated guanylate kinase, WW and PDZ							cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)																---	---	---	---
MAGI2	9863	broad.mit.edu	37	7	78090259	78090260	+	Intron	DEL	AC	-	-	rs67920027		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:78090259_78090260delAC	uc003ugx.2	-						MAGI2_uc003ugy.2_Intron|MAGI2_uc010ldx.1_Intron|MAGI2_uc010ldy.1_Intron|MAGI2_uc011kgr.1_Intron|MAGI2_uc011kgs.1_Intron	NM_012301	NP_036433			membrane associated guanylate kinase, WW and PDZ							cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)																---	---	---	---
MAGI2	9863	broad.mit.edu	37	7	78444825	78444825	+	Intron	DEL	T	-	-	rs72397014		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:78444825delT	uc003ugx.2	-						MAGI2_uc003ugy.2_Intron	NM_012301	NP_036433			membrane associated guanylate kinase, WW and PDZ							cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)																---	---	---	---
MAGI2	9863	broad.mit.edu	37	7	78977979	78977979	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:78977979delT	uc003ugx.2	-						MAGI2_uc003ugy.2_Intron	NM_012301	NP_036433			membrane associated guanylate kinase, WW and PDZ							cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)																---	---	---	---
Unknown	0	broad.mit.edu	37	7	79628856	79628856	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:79628856delG								MAGI2 (545966 upstream) : GNAI1 (135284 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	79708889	79708889	+	IGR	DEL	T	-	-	rs67295556		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:79708889delT								MAGI2 (625999 upstream) : GNAI1 (55251 downstream)																																			---	---	---	---
GNAI1	2770	broad.mit.edu	37	7	79818381	79818381	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:79818381delT	uc003uhb.1	+						GNAI1_uc011kgt.1_Intron	NM_002069	NP_002060			guanine nucleotide binding protein (G protein),						cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody|nucleus	G-protein beta/gamma-subunit complex binding|GTP binding|metabotropic serotonin receptor binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
GNAI1	2770	broad.mit.edu	37	7	79843833	79843834	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:79843833_79843834insT	uc003uhb.1	+						GNAI1_uc011kgt.1_Intron	NM_002069	NP_002060			guanine nucleotide binding protein (G protein),						cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody|nucleus	G-protein beta/gamma-subunit complex binding|GTP binding|metabotropic serotonin receptor binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	79925829	79925829	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:79925829delT								GNAI1 (77104 upstream) : CD36 (73062 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	81313821	81313822	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:81313821_81313822delAA	uc003uhk.1	-											Homo sapiens mRNA sequence.																														---	---	---	---
CACNA2D1	781	broad.mit.edu	37	7	81619865	81619865	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:81619865delA	uc003uhr.1	-							NM_000722	NP_000713			calcium channel, voltage-dependent, alpha							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)													---	---	---	---
CACNA2D1	781	broad.mit.edu	37	7	81660439	81660440	+	Intron	DEL	TT	-	-	rs74347939		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:81660439_81660440delTT	uc003uhr.1	-							NM_000722	NP_000713			calcium channel, voltage-dependent, alpha							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)													---	---	---	---
CACNA2D1	781	broad.mit.edu	37	7	81931090	81931091	+	Intron	INS	-	AG	AG	rs72129980		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:81931090_81931091insAG	uc003uhr.1	-							NM_000722	NP_000713			calcium channel, voltage-dependent, alpha							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)													---	---	---	---
CACNA2D1	781	broad.mit.edu	37	7	82050147	82050149	+	Intron	DEL	AAA	-	-	rs74600042		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82050147_82050149delAAA	uc003uhr.1	-							NM_000722	NP_000713			calcium channel, voltage-dependent, alpha							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)													---	---	---	---
Unknown	0	broad.mit.edu	37	7	82185465	82185465	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82185465delA								CACNA2D1 (112434 upstream) : PCLO (197856 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	82311040	82311040	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82311040delT								CACNA2D1 (238009 upstream) : PCLO (72281 downstream)																																			---	---	---	---
PCLO	27445	broad.mit.edu	37	7	82578620	82578623	+	Intron	DEL	CACG	-	-	rs115703843	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82578620_82578623delCACG	uc003uhx.2	-						PCLO_uc003uhv.2_Intron|PCLO_uc010lec.2_Intron	NM_033026	NP_149015			piccolo isoform 1						cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7																		---	---	---	---
PCLO	27445	broad.mit.edu	37	7	82644201	82644201	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82644201delT	uc003uhx.2	-						PCLO_uc003uhv.2_Intron	NM_033026	NP_149015			piccolo isoform 1						cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7																		---	---	---	---
SEMA3E	9723	broad.mit.edu	37	7	83147686	83147687	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:83147686_83147687insA	uc003uhy.1	-							NM_012431	NP_036563			semaphorin 3E precursor						axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)																---	---	---	---
SEMA3A	10371	broad.mit.edu	37	7	83724943	83724944	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:83724943_83724944delTT	uc003uhz.2	-							NM_006080	NP_006071			semaphorin 3A precursor						axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4																		---	---	---	---
SEMA3A	10371	broad.mit.edu	37	7	83788686	83788686	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:83788686delA	uc003uhz.2	-							NM_006080	NP_006071			semaphorin 3A precursor						axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4																		---	---	---	---
SEMA3A	10371	broad.mit.edu	37	7	83824177	83824179	+	5'UTR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:83824177_83824179delAAA	uc003uhz.2	-	1						NM_006080	NP_006071			semaphorin 3A precursor						axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	84128650	84128650	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:84128650delA								SEMA3A (304433 upstream) : SEMA3D (496224 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	84220435	84220435	+	IGR	DEL	T	-	-	rs35470959		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:84220435delT								SEMA3A (396218 upstream) : SEMA3D (404439 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	84379392	84379392	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:84379392delA								SEMA3A (555175 upstream) : SEMA3D (245482 downstream)																																			---	---	---	---
SEMA3D	223117	broad.mit.edu	37	7	84754391	84754391	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:84754391delA	uc010led.2	-						SEMA3D_uc010lee.1_Intron	NM_152754	NP_689967			semaphorin 3D precursor						cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	85905633	85905633	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:85905633delA								None (None upstream) : GRM3 (367597 downstream)																																			---	---	---	---
GRM3	2913	broad.mit.edu	37	7	86422185	86422185	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:86422185delT	uc003uid.2	+						GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Intron|GRM3_uc010leh.2_Intron	NM_000840	NP_000831			glutamate receptor, metabotropic 3 precursor						synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)													---	---	---	---
GRM3	2913	broad.mit.edu	37	7	86485598	86485598	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:86485598delA	uc003uid.2	+						GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Intron|GRM3_uc010leh.2_Intron	NM_000840	NP_000831			glutamate receptor, metabotropic 3 precursor						synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)													---	---	---	---
KIAA1324L	222223	broad.mit.edu	37	7	86621959	86621959	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:86621959delA	uc011kha.1	-						KIAA1324L_uc003uif.1_Intron|KIAA1324L_uc011kgz.1_Intron	NM_001142749	NP_001136221			hypothetical protein LOC222223 isoform 1							integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	86736279	86736279	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:86736279delA								KIAA1324L (47265 upstream) : DMTF1 (45398 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	86919530	86919530	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:86919530delT								C7orf23 (70499 upstream) : TP53TG1 (35136 downstream)																																			---	---	---	---
ABCB1	5243	broad.mit.edu	37	7	87180976	87180976	+	Intron	DEL	A	-	-	rs28381892		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87180976delA	uc003uiz.1	-						ABCB1_uc011khc.1_Intron	NM_000927	NP_000918			ATP-binding cassette, subfamily B, member 1						G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)													---	---	---	---
ABCB1	5243	broad.mit.edu	37	7	87181964	87181965	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87181964_87181965delAA	uc003uiz.1	-						ABCB1_uc011khc.1_Intron	NM_000927	NP_000918			ATP-binding cassette, subfamily B, member 1						G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)													---	---	---	---
ABCB1	5243	broad.mit.edu	37	7	87233942	87233942	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87233942delA	uc003uiz.1	-						ABCB1_uc003uja.1_Intron|ABCB1_uc010lei.1_Intron	NM_000927	NP_000918			ATP-binding cassette, subfamily B, member 1						G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)													---	---	---	---
ADAM22	53616	broad.mit.edu	37	7	87574142	87574146	+	Intron	DEL	TTTTG	-	-	rs11311070		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87574142_87574146delTTTTG	uc003ujn.2	+						ADAM22_uc003uji.1_Intron|ADAM22_uc003ujj.1_Intron|ADAM22_uc003ujk.1_Intron|ADAM22_uc003ujl.1_Intron|ADAM22_uc003ujm.2_Intron|ADAM22_uc003ujo.2_Intron|ADAM22_uc003ujp.1_Intron	NM_021723	NP_068369			ADAM metallopeptidase domain 22 isoform 1						cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
ADAM22	53616	broad.mit.edu	37	7	87786228	87786228	+	Intron	DEL	A	-	-	rs79705912		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87786228delA	uc003ujn.2	+						ADAM22_uc003ujk.1_Intron|ADAM22_uc003ujl.1_Intron|ADAM22_uc003ujm.2_Intron|ADAM22_uc003ujo.2_Intron|ADAM22_uc003ujp.1_Intron	NM_021723	NP_068369			ADAM metallopeptidase domain 22 isoform 1						cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
Unknown	0	broad.mit.edu	37	7	87831535	87831535	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87831535delT								ADAM22 (5088 upstream) : SRI (2897 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	88097047	88097047	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:88097047delC								STEAP4 (160838 upstream) : ZNF804B (291706 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	88338255	88338255	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:88338255delT								STEAP4 (402046 upstream) : ZNF804B (50498 downstream)																																			---	---	---	---
ZNF804B	219578	broad.mit.edu	37	7	88435931	88435932	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:88435931_88435932delGT	uc011khi.1	+							NM_181646	NP_857597			zinc finger protein 804B							intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)												HNSCC(36;0.09)			---	---	---	---
ZNF804B	219578	broad.mit.edu	37	7	88795166	88795167	+	Intron	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:88795166_88795167delGA	uc011khi.1	+							NM_181646	NP_857597			zinc finger protein 804B							intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)												HNSCC(36;0.09)			---	---	---	---
ZNF804B	219578	broad.mit.edu	37	7	88861398	88861398	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:88861398delT	uc011khi.1	+							NM_181646	NP_857597			zinc finger protein 804B							intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)												HNSCC(36;0.09)			---	---	---	---
Unknown	0	broad.mit.edu	37	7	89161224	89161224	+	IGR	DEL	T	-	-	rs113461831		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:89161224delT								ZNF804B (194880 upstream) : DPY19L2P4 (587490 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	89766558	89766559	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:89766558_89766559delAG								DPY19L2P4 (11644 upstream) : STEAP1 (17130 downstream)																																			---	---	---	---
CLDN12	9069	broad.mit.edu	37	7	90028406	90028406	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:90028406delA	uc003ukp.2	+						CLDN12_uc003ukq.2_Intron	NM_012129	NP_036261			claudin 12						calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0																		---	---	---	---
CDK14	5218	broad.mit.edu	37	7	90386525	90386526	+	Intron	DEL	GT	-	-	rs112823035		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:90386525_90386526delGT	uc003uky.2	+						CDK14_uc003ukt.1_Intron|CDK14_uc003ukv.1_Intron|CDK14_uc003uku.1_Intron|CDK14_uc003ukx.1_Intron|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																		---	---	---	---
CDK14	5218	broad.mit.edu	37	7	90547182	90547182	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:90547182delT	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																		---	---	---	---
CDK14	5218	broad.mit.edu	37	7	90658801	90658801	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:90658801delT	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																		---	---	---	---
CDK14	5218	broad.mit.edu	37	7	90815241	90815241	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:90815241delC	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	91049889	91049890	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91049889_91049890delTT								FZD1 (151758 upstream) : MTERF (381570 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	91251931	91251931	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91251931delT								FZD1 (353800 upstream) : MTERF (179529 downstream)																																			---	---	---	---
AKAP9	10142	broad.mit.edu	37	7	91575710	91575711	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91575710_91575711delTT	uc003ulg.2	+						AKAP9_uc003uld.3_Intron|AKAP9_uc003ule.2_Intron|AKAP9_uc003ulf.2_Intron	NM_005751	NP_005742			A-kinase anchor protein 9 isoform 2						G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)					T	BRAF	papillary thyroid								---	---	---	---
AKAP9	10142	broad.mit.edu	37	7	91632716	91632716	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91632716delT	uc003ulg.2	+						AKAP9_uc003ule.2_Intron|AKAP9_uc003ulf.2_Intron|AKAP9_uc003uli.2_Intron	NM_005751	NP_005742			A-kinase anchor protein 9 isoform 2						G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)					T	BRAF	papillary thyroid								---	---	---	---
Unknown	0	broad.mit.edu	37	7	91740163	91740163	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91740163delT								AKAP9 (177 upstream) : CYP51A1 (1301 downstream)																																			---	---	---	---
KRIT1	889	broad.mit.edu	37	7	91855166	91855166	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91855166delA	uc003ulq.1	-						KRIT1_uc010lev.1_Intron|KRIT1_uc003ulr.1_Intron|KRIT1_uc003uls.1_Intron|KRIT1_uc003ult.1_Intron|KRIT1_uc003ulu.1_Intron|KRIT1_uc003ulv.1_Intron	NM_194456	NP_919438			krev interaction trapped 1 isoform 1						angiogenesis|cell redox homeostasis|negative regulation of angiogenesis|negative regulation of endothelial cell apoptosis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|regulation of establishment of cell polarity|small GTPase mediated signal transduction	cell-cell junction|cytoskeleton	protein binding|small GTPase regulator activity			ovary(2)|lung(1)	3	all_cancers(62;1.04e-09)|all_epithelial(64;5.75e-09)|Breast(17;0.00206)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)											Familial_Cerebral_Cavernous_Angioma				---	---	---	---
KRIT1	889	broad.mit.edu	37	7	91856003	91856003	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91856003delA	uc003ulq.1	-						KRIT1_uc010lev.1_Intron|KRIT1_uc003ulr.1_Intron|KRIT1_uc003uls.1_Intron|KRIT1_uc003ult.1_Intron|KRIT1_uc003ulu.1_Intron|KRIT1_uc003ulv.1_Intron	NM_194456	NP_919438			krev interaction trapped 1 isoform 1						angiogenesis|cell redox homeostasis|negative regulation of angiogenesis|negative regulation of endothelial cell apoptosis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|regulation of establishment of cell polarity|small GTPase mediated signal transduction	cell-cell junction|cytoskeleton	protein binding|small GTPase regulator activity			ovary(2)|lung(1)	3	all_cancers(62;1.04e-09)|all_epithelial(64;5.75e-09)|Breast(17;0.00206)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)											Familial_Cerebral_Cavernous_Angioma				---	---	---	---
ANKIB1	54467	broad.mit.edu	37	7	91925540	91925540	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91925540delT	uc003ulw.2	+							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)															---	---	---	---
PEX1	5189	broad.mit.edu	37	7	92122177	92122177	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92122177delA	uc003uly.2	-						PEX1_uc011khr.1_Intron|PEX1_uc010ley.2_Intron|PEX1_uc011khs.1_Intron	NM_000466	NP_000457			peroxin1						microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)															---	---	---	---
C7orf64	84060	broad.mit.edu	37	7	92166572	92166572	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92166572delT	uc003ulz.2	+	5					C7orf64_uc003uma.2_3'UTR|MGC16142_uc011khv.1_5'Flank	NM_032120	NP_115496			hypothetical protein LOC84060								nucleotide binding			ovary(2)	2																		---	---	---	---
FAM133B	257415	broad.mit.edu	37	7	92221288	92221288	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92221288delT	uc003umc.2	-						FAM133B_uc003umb.2_5'Flank|FAM133B_uc003umd.2_5'Flank	NM_152789	NP_690002			hypothetical protein LOC257415 isoform 1											ovary(1)	1	all_cancers(62;7.39e-11)|all_epithelial(64;7.03e-10)|Breast(17;0.00201)|all_lung(186;0.0384)|Lung NSC(181;0.053)|all_hematologic(106;0.237)		STAD - Stomach adenocarcinoma(4;6.16e-07)|GBM - Glioblastoma multiforme(5;9.78e-06)|all cancers(6;1.67e-05)|Epithelial(20;0.113)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)															---	---	---	---
Unknown	0	broad.mit.edu	37	7	92473374	92473374	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92473374delT								CDK6 (7433 upstream) : SAMD9 (255458 downstream)																																			---	---	---	---
CALCR	799	broad.mit.edu	37	7	93108972	93108973	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:93108972_93108973insA	uc003umv.1	-						CALCR_uc003ums.1_Intron|CALCR_uc003umt.1_Intron|CALCR_uc003umu.1_Intron|CALCR_uc003umw.2_Intron	NM_001742	NP_001733			calcitonin receptor isoform 2 precursor						activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)													---	---	---	---
Unknown	0	broad.mit.edu	37	7	93208870	93208871	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:93208870_93208871delTG								CALCR (4828 upstream) : GNGT1 (12014 downstream)																																			---	---	---	---
COL1A2	1278	broad.mit.edu	37	7	94034068	94034068	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94034068delT	uc003ung.1	+						COL1A2_uc011kib.1_Intron|COL1A2_uc010lfh.1_5'Flank	NM_000089	NP_000080			alpha 2 type I collagen precursor						axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)										HNSCC(75;0.22)			---	---	---	---
COL1A2	1278	broad.mit.edu	37	7	94040080	94040080	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94040080delT	uc003ung.1	+						COL1A2_uc011kib.1_Intron	NM_000089	NP_000080			alpha 2 type I collagen precursor						axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)										HNSCC(75;0.22)			---	---	---	---
Unknown	0	broad.mit.edu	37	7	94114425	94114425	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94114425delA								COL1A2 (53881 upstream) : CASD1 (24745 downstream)																																			---	---	---	---
CASD1	64921	broad.mit.edu	37	7	94176376	94176376	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94176376delT	uc003uni.3	+						CASD1_uc003unj.3_Intron	NM_022900	NP_075051			CAS1 domain containing 1 precursor							integral to membrane				ovary(2)	2	all_cancers(62;6.71e-10)|all_epithelial(64;5e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)															---	---	---	---
CASD1	64921	broad.mit.edu	37	7	94176572	94176572	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94176572delT	uc003uni.3	+						CASD1_uc003unj.3_Intron	NM_022900	NP_075051			CAS1 domain containing 1 precursor							integral to membrane				ovary(2)	2	all_cancers(62;6.71e-10)|all_epithelial(64;5e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)															---	---	---	---
PPP1R9A	55607	broad.mit.edu	37	7	94741353	94741353	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94741353delA	uc003unp.2	+						PPP1R9A_uc010lfj.2_Intron|PPP1R9A_uc011kif.1_Intron|PPP1R9A_uc003unq.2_Intron|PPP1R9A_uc011kig.1_Intron	NM_017650	NP_060120			protein phosphatase 1, regulatory (inhibitor)							cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)												HNSCC(28;0.073)			---	---	---	---
PON2	5445	broad.mit.edu	37	7	95064965	95064966	+	5'Flank	INS	-	TGTG	TGTG	rs148516771	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95064965_95064966insTGTG	uc003unv.2	-						PON2_uc003unu.2_5'Flank|PON2_uc010lfk.2_5'Flank|PON2_uc003unw.2_5'Flank	NM_000305	NP_000296			paraoxonase 2 isoform 1						aromatic compound catabolic process	extracellular region|plasma membrane	arylesterase activity|identical protein binding|metal ion binding				0	all_cancers(62;9.35e-11)|all_epithelial(64;3.37e-09)		STAD - Stomach adenocarcinoma(171;0.0151)															---	---	---	---
Unknown	0	broad.mit.edu	37	7	95083127	95083129	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95083127_95083129delTTT								PON2 (18743 upstream) : ASB4 (32155 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	95107234	95107234	+	IGR	DEL	T	-	-	rs5885916		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95107234delT								PON2 (42850 upstream) : ASB4 (8050 downstream)																																			---	---	---	---
ASB4	51666	broad.mit.edu	37	7	95155767	95155770	+	Intron	DEL	CATA	-	-	rs111785503		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95155767_95155770delCATA	uc011kij.1	+						ASB4_uc003unx.2_Intron	NM_016116	NP_057200			ankyrin repeat and SOCS box-containing protein 4						intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)															---	---	---	---
DYNC1I1	1780	broad.mit.edu	37	7	95409585	95409585	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95409585delT	uc003uoc.3	+						DYNC1I1_uc003uod.3_Intron|DYNC1I1_uc003uob.2_Intron|DYNC1I1_uc003uoe.3_Intron	NM_004411	NP_004402			dynein, cytoplasmic 1, intermediate chain 1						vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)															---	---	---	---
DYNC1I1	1780	broad.mit.edu	37	7	95473317	95473317	+	Intron	DEL	T	-	-	rs114633707	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95473317delT	uc003uoc.3	+						DYNC1I1_uc003uod.3_Intron|DYNC1I1_uc003uob.2_Intron|DYNC1I1_uc003uoe.3_Intron|DYNC1I1_uc010lfl.2_Intron	NM_004411	NP_004402			dynein, cytoplasmic 1, intermediate chain 1						vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)															---	---	---	---
DYNC1I1	1780	broad.mit.edu	37	7	95673769	95673770	+	Intron	DEL	TT	-	-	rs72110480		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95673769_95673770delTT	uc003uoc.3	+						DYNC1I1_uc003uod.3_Intron|DYNC1I1_uc003uob.2_Intron|DYNC1I1_uc003uoe.3_Intron|DYNC1I1_uc010lfl.2_Intron	NM_004411	NP_004402			dynein, cytoplasmic 1, intermediate chain 1						vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)															---	---	---	---
SLC25A13	10165	broad.mit.edu	37	7	95804462	95804462	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95804462delA	uc003uof.3	-						SLC25A13_uc003uog.3_Intron|SLC25A13_uc011kik.1_Intron	NM_014251	NP_055066			solute carrier family 25, member 13 isoform 2						ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)													---	---	---	---
Unknown	0	broad.mit.edu	37	7	96142166	96142166	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:96142166delA								SLC25A13 (190707 upstream) : SHFM1 (160071 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	96279943	96279943	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:96279943delC	uc010lfm.1	-											Homo sapiens cDNA, FLJ17342.																														---	---	---	---
Unknown	0	broad.mit.edu	37	7	96354376	96354377	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:96354376_96354377delTT								SHFM1 (15173 upstream) : DLX6AS (243451 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	96374891	96374891	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:96374891delA								SHFM1 (35688 upstream) : DLX6AS (222937 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	96422464	96422464	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:96422464delA								SHFM1 (83261 upstream) : DLX6AS (175364 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	96540303	96540304	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:96540303_96540304delGA								SHFM1 (201100 upstream) : DLX6AS (57524 downstream)																																			---	---	---	---
ACN9	57001	broad.mit.edu	37	7	96793546	96793546	+	Intron	DEL	T	-	-	rs77386837		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:96793546delT	uc003uoo.3	+							NM_020186	NP_064571			ACN9 homolog precursor						regulation of gluconeogenesis	mitochondrial intermembrane space					0	all_cancers(62;2.54e-08)|all_epithelial(64;2.24e-08)|Esophageal squamous(72;0.00507)|all_lung(186;0.154)|Lung NSC(181;0.159)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	96836820	96836820	+	IGR	DEL	T	-	-	rs74741388		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:96836820delT								ACN9 (25747 upstream) : TAC1 (524451 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	97090865	97090865	+	IGR	DEL	A	-	-	rs75629064		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97090865delA								ACN9 (279792 upstream) : TAC1 (270406 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	97195783	97195783	+	IGR	DEL	A	-	-	rs142204502		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97195783delA								ACN9 (384710 upstream) : TAC1 (165488 downstream)																																			---	---	---	---
MGC72080	389538	broad.mit.edu	37	7	97549324	97549324	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97549324delT	uc010lfp.1	-											Homo sapiens cDNA, FLJ99734.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	97633151	97633151	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97633151delT								OCM2 (13735 upstream) : LMTK2 (103046 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	97633316	97633319	+	IGR	DEL	CCTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97633316_97633319delCCTT								OCM2 (13900 upstream) : LMTK2 (102878 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	97671062	97671062	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97671062delA								OCM2 (51646 upstream) : LMTK2 (65135 downstream)																																			---	---	---	---
LMTK2	22853	broad.mit.edu	37	7	97743400	97743400	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97743400delT	uc003upd.1	+							NM_014916	NP_055731			lemur tyrosine kinase 2 precursor						early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)																	---	---	---	---
LMTK2	22853	broad.mit.edu	37	7	97792604	97792604	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97792604delT	uc003upd.1	+							NM_014916	NP_055731			lemur tyrosine kinase 2 precursor						early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)																	---	---	---	---
TECPR1	25851	broad.mit.edu	37	7	97874777	97874777	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97874777delT	uc003upg.2	-						TECPR1_uc003uph.1_Intron	NM_015395	NP_056210			tectonin beta-propeller repeat containing 1							integral to membrane	protein binding			pancreas(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	98047193	98047194	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98047193_98047194delTT								BAIAP2L1 (16766 upstream) : NPTX2 (199403 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	98130674	98130674	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98130674delT								BAIAP2L1 (100247 upstream) : NPTX2 (115923 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	98202861	98202862	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98202861_98202862delAA								BAIAP2L1 (172434 upstream) : NPTX2 (43735 downstream)																																			---	---	---	---
NPTX2	4885	broad.mit.edu	37	7	98258753	98258754	+	3'UTR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98258753_98258754delTT	uc003upl.2	+	5						NM_002523	NP_002514			neuronal pentraxin II precursor						synaptic transmission	extracellular region	metal ion binding|sugar binding			central_nervous_system(2)|skin(1)	3	all_cancers(62;2.28e-09)|all_epithelial(64;4.86e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0128)|all_lung(186;0.0142)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
Unknown	0	broad.mit.edu	37	7	98351410	98351410	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98351410delT								NPTX2 (92229 upstream) : TMEM130 (92702 downstream)																																			---	---	---	---
TMEM130	222865	broad.mit.edu	37	7	98458106	98458106	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98458106delC	uc003upo.2	-						TMEM130_uc011kiq.1_Intron|TMEM130_uc011kir.1_Intron|TMEM130_uc003upn.2_Intron	NM_001134450	NP_001127922			transmembrane protein 130 isoform a							Golgi membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(62;4.05e-09)|all_epithelial(64;2.62e-09)|Lung NSC(181;0.01)|all_lung(186;0.0115)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
TRRAP	8295	broad.mit.edu	37	7	98518469	98518469	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98518469delT	uc003upp.2	+						TRRAP_uc011kis.1_Intron|TRRAP_uc003upr.2_Intron	NM_003496	NP_003487			transformation/transcription domain-associated						histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
TRRAP	8295	broad.mit.edu	37	7	98589415	98589415	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98589415delT	uc003upp.2	+						TRRAP_uc011kis.1_Intron|TRRAP_uc003upr.2_Intron	NM_003496	NP_003487			transformation/transcription domain-associated						histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
ARPC1A	10552	broad.mit.edu	37	7	98933584	98933585	+	Intron	DEL	AA	-	-	rs11764622		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98933584_98933585delAA	uc003upx.1	+						ARPC1A_uc010lfu.1_Intron|ARPC1A_uc003upy.1_Intron|ARPC1A_uc011kit.1_Intron	NM_006409	NP_006400			actin related protein 2/3 complex subunit 1A						actin cytoskeleton organization|regulation of actin filament polymerization	actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	all_cancers(62;4.46e-09)|all_epithelial(64;3.44e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0258)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
ARPC1A	10552	broad.mit.edu	37	7	98948650	98948650	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98948650delA	uc003upx.1	+						ARPC1A_uc010lfu.1_Intron|ARPC1A_uc003upy.1_Intron|ARPC1A_uc011kit.1_Intron	NM_006409	NP_006400			actin related protein 2/3 complex subunit 1A						actin cytoskeleton organization|regulation of actin filament polymerization	actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	all_cancers(62;4.46e-09)|all_epithelial(64;3.44e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0258)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
BUD31	8896	broad.mit.edu	37	7	99008673	99008673	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99008673delT	uc003uqf.2	+						PDAP1_uc003uqe.2_5'Flank|BUD31_uc011kiu.1_Intron|BUD31_uc011kiv.1_Intron|BUD31_uc003uqg.3_Intron	NM_003910	NP_003901			G10 protein						regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_cancers(62;1.76e-08)|all_epithelial(64;1.63e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
PTCD1	26024	broad.mit.edu	37	7	99032218	99032220	+	Intron	DEL	AAA	-	-	rs80240572		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99032218_99032220delAAA	uc003uqh.2	-						PTCD1_uc011kiw.1_Intron	NM_015545	NP_056360			pentatricopeptide repeat domain 1											ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
PTCD1	26024	broad.mit.edu	37	7	99062588	99062588	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99062588delA	uc011kiw.1	-						ATP5J2_uc003uql.2_Intron|ATP5J2_uc003uqm.2_Intron|ATP5J2_uc003uqn.2_Intron|ATP5J2_uc003uqo.2_Intron	NM_015545	NP_056360			pentatricopeptide repeat domain 1											ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
ZNF789	285989	broad.mit.edu	37	7	99074674	99074674	+	Intron	DEL	T	-	-	rs78292841		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99074674delT	uc003uqq.1	+						ZNF789_uc003uqp.2_Intron|ZNF789_uc010lfw.1_Intron	NM_213603	NP_998768			zinc finger protein 789 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)																	---	---	---	---
ZKSCAN5	23660	broad.mit.edu	37	7	99105921	99105921	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99105921delA	uc003uqv.2	+						ZKSCAN5_uc010lfx.2_Intron|ZKSCAN5_uc003uqw.2_Intron|ZKSCAN5_uc003uqx.2_Intron|ZKSCAN5_uc003uqy.2_Intron	NM_145102	NP_659570			zinc finger with KRAB and SCAN domains 5						viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)																	---	---	---	---
ZKSCAN5	23660	broad.mit.edu	37	7	99118040	99118040	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99118040delT	uc003uqv.2	+						ZKSCAN5_uc010lfx.2_Intron|ZKSCAN5_uc003uqw.2_Intron|ZKSCAN5_uc003uqx.2_Intron|ZKSCAN5_uc003uqy.2_Intron	NM_145102	NP_659570			zinc finger with KRAB and SCAN domains 5						viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	99184954	99184954	+	IGR	DEL	C	-	-	rs2108154	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99184954delC								ZNF655 (10880 upstream) : ZNF498 (29617 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	99482941	99482941	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99482941delA								OR2AE1 (8285 upstream) : TRIM4 (5096 downstream)																																			---	---	---	---
ZSCAN21	7589	broad.mit.edu	37	7	99661059	99661059	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99661059delA	uc003uso.2	+						ZSCAN21_uc003usn.1_Intron	NM_145914	NP_666019			zinc finger protein 38						positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3	Lung NSC(181;0.0211)|all_lung(186;0.0323)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)															---	---	---	---
STAG3	10734	broad.mit.edu	37	7	99784960	99784960	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99784960delT	uc003utx.1	+						STAG3_uc010lgs.1_Intron|STAG3_uc011kjk.1_Intron	NM_012447	NP_036579			stromal antigen 3						chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)																	---	---	---	---
STAG3	10734	broad.mit.edu	37	7	99792006	99792007	+	Intron	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99792006_99792007delGA	uc003utx.1	+						STAG3_uc010lgs.1_Intron|STAG3_uc011kjk.1_Intron	NM_012447	NP_036579			stromal antigen 3						chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)																	---	---	---	---
STAG3	10734	broad.mit.edu	37	7	99798191	99798193	+	Intron	DEL	TGC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99798191_99798193delTGC	uc003utx.1	+						STAG3_uc010lgs.1_Intron|STAG3_uc011kjk.1_Intron|STAG3_uc003uub.1_5'Flank	NM_012447	NP_036579			stromal antigen 3						chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)																	---	---	---	---
SPDYE3	441272	broad.mit.edu	37	7	99911897	99911897	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99911897delA	uc003uug.1	+							NM_001004351	NP_001004351			speedy homolog E3												0																		---	---	---	---
C7orf61	402573	broad.mit.edu	37	7	100060733	100060734	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100060733_100060734delAA	uc003uuz.1	-							NM_001004323	NP_001004323			hypothetical protein LOC402573												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	100327197	100327197	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100327197delA								EPO (5876 upstream) : ZAN (4052 downstream)																																			---	---	---	---
ZAN	7455	broad.mit.edu	37	7	100367079	100367079	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100367079delT	uc003uwj.2	+						ZAN_uc003uwk.2_Intron|ZAN_uc003uwl.2_Intron|ZAN_uc010lhh.2_Intron|ZAN_uc010lhi.2_Intron|ZAN_uc011kkd.1_Intron	NM_003386	NP_003377			zonadhesin isoform 3						binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)															---	---	---	---
Unknown	0	broad.mit.edu	37	7	100430397	100430397	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100430397delT								EPHB4 (5254 upstream) : SLC12A9 (19961 downstream)																																			---	---	---	---
FIS1	51024	broad.mit.edu	37	7	100893469	100893469	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100893469delA	uc010lht.2	-						FIS1_uc010lhu.2_Intron					Homo sapiens CGI-135 protein mRNA, complete cds.						apoptosis|mitochondrial fission|peroxisome fission	integral to mitochondrial outer membrane|integral to peroxisomal membrane	protein binding				0	Lung NSC(181;0.168)|all_lung(186;0.215)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	100956248	100956248	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100956248delG								FIS1 (60655 upstream) : RABL5 (401 downstream)																																			---	---	---	---
EMID2	136227	broad.mit.edu	37	7	101004127	101004128	+	5'Flank	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:101004127_101004128delTT	uc010lhy.1	+						EMID2_uc003uyo.1_5'Flank	NM_133457	NP_597714			EMI domain containing 2							collagen				ovary(1)	1	Lung NSC(181;0.215)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	101352008	101352008	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:101352008delT								MYL10 (79432 upstream) : CUX1 (107284 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	101414289	101414289	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:101414289delT								MYL10 (141713 upstream) : CUX1 (45003 downstream)																																			---	---	---	---
CUX1	1523	broad.mit.edu	37	7	101756308	101756308	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:101756308delA	uc003uyx.3	+						CUX1_uc003uys.3_Intron|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530			cut-like homeobox 1 isoform a						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																		---	---	---	---
CUX1	1523	broad.mit.edu	37	7	101761816	101761816	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:101761816delA	uc003uyx.3	+						CUX1_uc003uys.3_Intron|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530			cut-like homeobox 1 isoform a						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																		---	---	---	---
SH2B2	10603	broad.mit.edu	37	7	101936736	101936737	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:101936736_101936737delAA	uc011kko.1	+							NM_020979	NP_066189			SH2B adaptor protein 2						blood coagulation|insulin receptor signaling pathway|intracellular signal transduction	cytosol|plasma membrane	JAK pathway signal transduction adaptor activity|SH3/SH2 adaptor activity|signal transducer activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	102020719	102020720	+	Intron	DEL	AA	-	-	rs77963773		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102020719_102020720delAA	uc003uzd.1	+						uc003uze.1_Intron|PRKRIP1_uc003uzf.2_Intron|PRKRIP1_uc003uzg.2_Intron|PRKRIP1_uc011kkq.1_Intron	NM_001003686	NP_001003686			SubName: Full=Putative uncharacterized protein PMS2L3;																														---	---	---	---
PRKRIP1	79706	broad.mit.edu	37	7	102052505	102052505	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102052505delT	uc003uzh.2	+						PRKRIP1_uc003uzf.2_Intron|PRKRIP1_uc003uzg.2_Intron|PRKRIP1_uc011kkq.1_Intron|PRKRIP1_uc011kkr.1_Intron	NM_024653	NP_078929			PRKR interacting protein 1 (IL11 inducible)							nucleolus				ovary(1)	1																		---	---	---	---
RASA4	10156	broad.mit.edu	37	7	102331239	102331239	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102331239delG	uc011kld.1	-											Homo sapiens mRNA for KIAA0538 protein, partial cds.						intracellular signal transduction|negative regulation of Ras protein signal transduction	cytosol|intrinsic to internal side of plasma membrane	metal ion binding|Ras GTPase activator activity				0																		---	---	---	---
FBXL13	222235	broad.mit.edu	37	7	102493027	102493027	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102493027delA	uc003vaq.2	-						FBXL13_uc010liq.1_Intron|FBXL13_uc010lir.1_Intron|FBXL13_uc003var.2_Intron|FBXL13_uc003vas.2_Intron	NM_145032	NP_659469			F-box and leucine-rich repeat protein 13 isoform												0																		---	---	---	---
DPY19L2P2	349152	broad.mit.edu	37	7	102902926	102902926	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102902926delA	uc003vbh.3	-						DPY19L2P2_uc003vbg.3_Intron|DPY19L2P2_uc010lit.2_Intron	NR_003561				RecName: Full=Protein dpy-19 homolog 2-like 2; AltName: Full=Dpy-19-like protein 2 pseudogene 2;												0																		---	---	---	---
SLC26A5	375611	broad.mit.edu	37	7	103000598	103000598	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103000598delT	uc003vbt.1	-						SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|PSMC2_uc011kln.1_Intron|PSMC2_uc003vbs.2_Intron|PSMC2_uc011klo.1_Intron	NM_206883	NP_996766			prestin isoform b						regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1																		---	---	---	---
SLC26A5	375611	broad.mit.edu	37	7	103015124	103015125	+	Intron	DEL	TT	-	-	rs72245175		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103015124_103015125delTT	uc003vbz.2	-						SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|SLC26A5_uc003vbw.2_Intron|SLC26A5_uc003vbx.2_Intron|SLC26A5_uc003vby.2_Intron|SLC26A5_uc010liy.2_Intron	NM_198999	NP_945350			prestin isoform a						regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1																		---	---	---	---
RELN	5649	broad.mit.edu	37	7	103119237	103119237	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103119237delA	uc003vca.2	-						RELN_uc010liz.2_Intron	NM_005045	NP_005036			reelin isoform a						axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)														---	---	---	---
RELN	5649	broad.mit.edu	37	7	103307256	103307256	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103307256delT	uc003vca.2	-						RELN_uc010liz.2_Intron	NM_005045	NP_005036			reelin isoform a						axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)														---	---	---	---
RELN	5649	broad.mit.edu	37	7	103541537	103541537	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103541537delA	uc003vca.2	-						RELN_uc010liz.2_Intron	NM_005045	NP_005036			reelin isoform a						axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	103678196	103678197	+	IGR	DEL	AC	-	-	rs147925910		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103678196_103678197delAC								RELN (48233 upstream) : ORC5L (88593 downstream)																																			---	---	---	---
LHFPL3	375612	broad.mit.edu	37	7	104070304	104070304	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104070304delA	uc003vce.2	+						LHFPL3_uc003vcf.2_Intron	NM_199000	NP_945351			lipoma HMGIC fusion partner-like 3							integral to membrane					0																		---	---	---	---
LHFPL3	375612	broad.mit.edu	37	7	104206121	104206121	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104206121delT	uc003vce.2	+						LHFPL3_uc003vcf.2_Intron	NM_199000	NP_945351			lipoma HMGIC fusion partner-like 3							integral to membrane					0																		---	---	---	---
LHFPL3	375612	broad.mit.edu	37	7	104394152	104394152	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104394152delA	uc003vce.2	+						LHFPL3_uc003vcf.2_Intron	NM_199000	NP_945351			lipoma HMGIC fusion partner-like 3							integral to membrane					0																		---	---	---	---
LOC723809	723809	broad.mit.edu	37	7	104557877	104557879	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104557877_104557879delAAA	uc003vch.1	-							NR_027374				Homo sapiens, clone IMAGE:5754998, mRNA.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	104588840	104588840	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104588840delT	uc003vci.2	+											Homo sapiens cDNA clone IMAGE:4358995, partial cds.																														---	---	---	---
MLL5	55904	broad.mit.edu	37	7	104694637	104694637	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104694637delT	uc003vcm.2	+						MLL5_uc010lja.1_Intron|MLL5_uc010ljb.1_Intron|MLL5_uc003vcl.2_Intron|MLL5_uc010ljc.2_Intron	NM_182931	NP_891847			myeloid/lymphoid or mixed-lineage leukemia 5						cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3																		---	---	---	---
SRPK2	6733	broad.mit.edu	37	7	104891336	104891336	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104891336delG	uc003vct.2	-						SRPK2_uc003vcu.2_Intron|SRPK2_uc003vcv.2_Intron|SRPK2_uc003vcw.1_Intron	NM_182691	NP_872633			serine/arginine-rich protein-specific kinase 2						angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6																		---	---	---	---
SRPK2	6733	broad.mit.edu	37	7	104915091	104915091	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104915091delA	uc003vcv.2	-						SRPK2_uc003vcu.2_Intron|SRPK2_uc003vcw.1_Intron	NM_182692	NP_872634			serine/arginine-rich protein-specific kinase 2						angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6																		---	---	---	---
SRPK2	6733	broad.mit.edu	37	7	104956470	104956472	+	Intron	DEL	TTT	-	-	rs35539085		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104956470_104956472delTTT	uc003vcv.2	-						SRPK2_uc003vcw.1_Intron	NM_182692	NP_872634			serine/arginine-rich protein-specific kinase 2						angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6																		---	---	---	---
RINT1	60561	broad.mit.edu	37	7	105170258	105170258	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:105170258delA	uc003vda.1	+						RINT1_uc010ljj.1_5'Flank	NM_021930	NP_068749			RAD50 interactor 1						cell cycle|G2/M transition DNA damage checkpoint|protein transport|vesicle-mediated transport	endoplasmic reticulum membrane	protein binding			ovary(3)|central_nervous_system(1)	4																		---	---	---	---
ATXN7L1	222255	broad.mit.edu	37	7	105454884	105454884	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:105454884delT	uc003vde.2	-						ATXN7L1_uc003vdi.2_Intron	NM_020725	NP_065776			ataxin 7-like 1 isoform 1												0																		---	---	---	---
CDHR3	222256	broad.mit.edu	37	7	105644159	105644159	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:105644159delA	uc003vdl.3	+						CDHR3_uc003vdk.2_Intron|CDHR3_uc011kls.1_Intron|CDHR3_uc003vdm.3_Intron|CDHR3_uc011klt.1_Intron|CDHR3_uc003vdn.2_Intron	NM_152750	NP_689963			hypothetical protein LOC222256 precursor						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	106120256	106120256	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106120256delT								NAMPT (194618 upstream) : FLJ36031 (178894 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	106178383	106178384	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106178383_106178384insT	uc003vds.2	-											Homo sapiens full length insert cDNA clone ZC44D09.																														---	---	---	---
Unknown	0	broad.mit.edu	37	7	106308399	106308401	+	Intron	DEL	AAA	-	-	rs148757896		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106308399_106308401delAAA	uc003vds.2	-											Homo sapiens full length insert cDNA clone ZC44D09.																														---	---	---	---
Unknown	0	broad.mit.edu	37	7	106558061	106558061	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106558061delA								PIK3CG (10476 upstream) : PRKAR2B (127117 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	106639863	106639863	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106639863delT								PIK3CG (92278 upstream) : PRKAR2B (45315 downstream)																																			---	---	---	---
PRKAR2B	5577	broad.mit.edu	37	7	106690260	106690260	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106690260delT	uc003vdx.2	+							NM_002736	NP_002727			cAMP-dependent protein kinase, regulatory						activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1																		---	---	---	---
PRKAR2B	5577	broad.mit.edu	37	7	106765229	106765230	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106765229_106765230delTT	uc003vdx.2	+							NM_002736	NP_002727			cAMP-dependent protein kinase, regulatory						activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1																		---	---	---	---
COG5	10466	broad.mit.edu	37	7	106850082	106850082	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106850082delA	uc003ved.2	-						COG5_uc003vec.2_Intron|COG5_uc003vee.2_3'UTR	NM_181733	NP_859422			component of oligomeric golgi complex 5 isoform						intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4																		---	---	---	---
COG5	10466	broad.mit.edu	37	7	106868138	106868138	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106868138delT	uc003ved.2	-						COG5_uc003vec.2_Intron|COG5_uc003vee.2_Intron	NM_181733	NP_859422			component of oligomeric golgi complex 5 isoform						intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4																		---	---	---	---
COG5	10466	broad.mit.edu	37	7	106888947	106888948	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106888947_106888948delAA	uc003ved.2	-						COG5_uc003vec.2_Intron|COG5_uc003vee.2_Intron	NM_181733	NP_859422			component of oligomeric golgi complex 5 isoform						intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4																		---	---	---	---
COG5	10466	broad.mit.edu	37	7	107098370	107098370	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107098370delA	uc003ved.2	-						COG5_uc003vec.2_Intron|COG5_uc003vee.2_Intron	NM_181733	NP_859422			component of oligomeric golgi complex 5 isoform						intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4																		---	---	---	---
COG5	10466	broad.mit.edu	37	7	107107809	107107809	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107107809delT	uc003ved.2	-						COG5_uc003vec.2_Intron|COG5_uc003vee.2_Intron|GPR22_uc003vef.2_5'Flank	NM_181733	NP_859422			component of oligomeric golgi complex 5 isoform						intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4																		---	---	---	---
COG5	10466	broad.mit.edu	37	7	107179199	107179201	+	Intron	DEL	AAA	-	-	rs34214783		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107179199_107179201delAAA	uc003ved.2	-						COG5_uc003vec.2_Intron|COG5_uc003vee.2_Intron	NM_181733	NP_859422			component of oligomeric golgi complex 5 isoform						intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4																		---	---	---	---
DLD	1738	broad.mit.edu	37	7	107539813	107539813	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107539813delA	uc003vet.2	+						DLD_uc010ljm.1_Intron|DLD_uc011kmg.1_Intron|DLD_uc011kmh.1_Intron|DLD_uc011kmi.1_Intron	NM_000108	NP_000099			dihydrolipoamide dehydrogenase precursor						branched chain family amino acid catabolic process|cell redox homeostasis|lysine catabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|tricarboxylic acid cycle	mitochondrial matrix	dihydrolipoyl dehydrogenase activity			central_nervous_system(1)	1					NADH(DB00157)													---	---	---	---
LAMB4	22798	broad.mit.edu	37	7	107674976	107674976	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107674976delA	uc010ljo.1	-						LAMB4_uc003vey.2_Intron|LAMB4_uc010ljp.1_Intron	NM_007356	NP_031382			laminin, beta 4 precursor						cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8																		---	---	---	---
LAMB4	22798	broad.mit.edu	37	7	107749452	107749452	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107749452delT	uc010ljo.1	-						LAMB4_uc003vey.2_Intron	NM_007356	NP_031382			laminin, beta 4 precursor						cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8																		---	---	---	---
NRCAM	4897	broad.mit.edu	37	7	107857193	107857193	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107857193delT	uc003vfb.2	-						NRCAM_uc003vfc.2_Intron|NRCAM_uc011kmk.1_Intron|NRCAM_uc003vfd.2_Intron|NRCAM_uc003vfe.2_Intron	NM_001037132	NP_001032209			neuronal cell adhesion molecule isoform A						angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5																		---	---	---	---
NRCAM	4897	broad.mit.edu	37	7	107895161	107895161	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107895161delT	uc003vfb.2	-						NRCAM_uc003vfc.2_Intron|NRCAM_uc011kmk.1_Intron|NRCAM_uc003vfd.2_Intron|NRCAM_uc003vfe.2_Intron	NM_001037132	NP_001032209			neuronal cell adhesion molecule isoform A						angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5																		---	---	---	---
NRCAM	4897	broad.mit.edu	37	7	108066300	108066301	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:108066300_108066301insA	uc003vfb.2	-						NRCAM_uc003vfc.2_Intron|NRCAM_uc011kmk.1_Intron|NRCAM_uc003vfd.2_Intron|NRCAM_uc003vfe.2_Intron	NM_001037132	NP_001032209			neuronal cell adhesion molecule isoform A						angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5																		---	---	---	---
PNPLA8	50640	broad.mit.edu	37	7	108167332	108167332	+	5'Flank	DEL	A	-	-	rs34383036		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:108167332delA	uc003vff.1	-						PNPLA8_uc003vfg.1_5'Flank|PNPLA8_uc003vfh.1_5'Flank|PNPLA8_uc003vfi.1_5'Flank|PNPLA8_uc003vfj.1_5'Flank|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																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	108270995	108270995	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:108270995delA								DNAJB9 (55703 upstream) : C7orf66 (253045 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	108320342	108320342	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:108320342delA								DNAJB9 (105050 upstream) : C7orf66 (203698 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	108356062	108356063	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:108356062_108356063delAA								DNAJB9 (140770 upstream) : C7orf66 (167977 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	108418883	108418883	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:108418883delT								DNAJB9 (203591 upstream) : C7orf66 (105157 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	108684307	108684307	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:108684307delA								C7orf66 (159670 upstream) : EIF3IP1 (914977 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	108796086	108796087	+	IGR	DEL	TT	-	-	rs79269861		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:108796086_108796087delTT								C7orf66 (271449 upstream) : EIF3IP1 (803197 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	109231636	109231636	+	IGR	DEL	A	-	-	rs5886507		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:109231636delA								C7orf66 (706999 upstream) : EIF3IP1 (367648 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	109640112	109640112	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:109640112delA								EIF3IP1 (39842 upstream) : IMMP2L (662998 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	109696085	109696086	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:109696085_109696086delAA								EIF3IP1 (95815 upstream) : IMMP2L (607024 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	110213639	110213641	+	IGR	DEL	AAG	-	-	rs149298027	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:110213639_110213641delAAG								EIF3IP1 (613369 upstream) : IMMP2L (89469 downstream)																																			---	---	---	---
IMMP2L	83943	broad.mit.edu	37	7	110488300	110488300	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:110488300delA	uc003vfq.1	-						IMMP2L_uc010ljr.1_Intron	NM_032549	NP_115938			IMP2 inner mitochondrial membrane protease-like						protein processing involved in protein targeting to mitochondrion|proteolysis	integral to membrane|mitochondrial inner membrane peptidase complex|nucleus	serine-type peptidase activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.053)|Epithelial(3;2.27e-07)|all cancers(3;1.36e-05)|STAD - Stomach adenocarcinoma(3;0.00148)|KIRC - Kidney renal clear cell carcinoma(11;0.0339)|Lung(3;0.0375)|Kidney(11;0.0415)|LUSC - Lung squamous cell carcinoma(290;0.173)														---	---	---	---
IMMP2L	83943	broad.mit.edu	37	7	110876204	110876205	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:110876204_110876205delTT	uc003vfq.1	-						IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron	NM_032549	NP_115938			IMP2 inner mitochondrial membrane protease-like						protein processing involved in protein targeting to mitochondrion|proteolysis	integral to membrane|mitochondrial inner membrane peptidase complex|nucleus	serine-type peptidase activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.053)|Epithelial(3;2.27e-07)|all cancers(3;1.36e-05)|STAD - Stomach adenocarcinoma(3;0.00148)|KIRC - Kidney renal clear cell carcinoma(11;0.0339)|Lung(3;0.0375)|Kidney(11;0.0415)|LUSC - Lung squamous cell carcinoma(290;0.173)														---	---	---	---
IMMP2L	83943	broad.mit.edu	37	7	110894156	110894156	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:110894156delT	uc003vfq.1	-						IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron	NM_032549	NP_115938			IMP2 inner mitochondrial membrane protease-like						protein processing involved in protein targeting to mitochondrion|proteolysis	integral to membrane|mitochondrial inner membrane peptidase complex|nucleus	serine-type peptidase activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.053)|Epithelial(3;2.27e-07)|all cancers(3;1.36e-05)|STAD - Stomach adenocarcinoma(3;0.00148)|KIRC - Kidney renal clear cell carcinoma(11;0.0339)|Lung(3;0.0375)|Kidney(11;0.0415)|LUSC - Lung squamous cell carcinoma(290;0.173)														---	---	---	---
IMMP2L	83943	broad.mit.edu	37	7	110945229	110945229	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:110945229delA	uc003vfq.1	-						IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron	NM_032549	NP_115938			IMP2 inner mitochondrial membrane protease-like						protein processing involved in protein targeting to mitochondrion|proteolysis	integral to membrane|mitochondrial inner membrane peptidase complex|nucleus	serine-type peptidase activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.053)|Epithelial(3;2.27e-07)|all cancers(3;1.36e-05)|STAD - Stomach adenocarcinoma(3;0.00148)|KIRC - Kidney renal clear cell carcinoma(11;0.0339)|Lung(3;0.0375)|Kidney(11;0.0415)|LUSC - Lung squamous cell carcinoma(290;0.173)														---	---	---	---
IMMP2L	83943	broad.mit.edu	37	7	111003122	111003122	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:111003122delT	uc003vfq.1	-						IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron	NM_032549	NP_115938			IMP2 inner mitochondrial membrane protease-like						protein processing involved in protein targeting to mitochondrion|proteolysis	integral to membrane|mitochondrial inner membrane peptidase complex|nucleus	serine-type peptidase activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.053)|Epithelial(3;2.27e-07)|all cancers(3;1.36e-05)|STAD - Stomach adenocarcinoma(3;0.00148)|KIRC - Kidney renal clear cell carcinoma(11;0.0339)|Lung(3;0.0375)|Kidney(11;0.0415)|LUSC - Lung squamous cell carcinoma(290;0.173)														---	---	---	---
IMMP2L	83943	broad.mit.edu	37	7	111190670	111190670	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:111190670delA	uc003vfq.1	-						IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron	NM_032549	NP_115938			IMP2 inner mitochondrial membrane protease-like						protein processing involved in protein targeting to mitochondrion|proteolysis	integral to membrane|mitochondrial inner membrane peptidase complex|nucleus	serine-type peptidase activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.053)|Epithelial(3;2.27e-07)|all cancers(3;1.36e-05)|STAD - Stomach adenocarcinoma(3;0.00148)|KIRC - Kidney renal clear cell carcinoma(11;0.0339)|Lung(3;0.0375)|Kidney(11;0.0415)|LUSC - Lung squamous cell carcinoma(290;0.173)														---	---	---	---
DOCK4	9732	broad.mit.edu	37	7	111512199	111512199	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:111512199delT	uc003vfx.2	-						DOCK4_uc003vfw.2_Intron|DOCK4_uc003vfy.2_Intron|DOCK4_uc003vga.1_Intron	NM_014705	NP_055520			dedicator of cytokinesis 4						cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)																---	---	---	---
DOCK4	9732	broad.mit.edu	37	7	111549332	111549332	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:111549332delT	uc003vfx.2	-						DOCK4_uc003vfy.2_Intron|DOCK4_uc003vga.1_Intron	NM_014705	NP_055520			dedicator of cytokinesis 4						cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)																---	---	---	---
Unknown	0	broad.mit.edu	37	7	112032412	112032412	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:112032412delA								ZNF277 (48423 upstream) : IFRD1 (30814 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	112162991	112162991	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:112162991delT								C7orf53 (32056 upstream) : TMEM168 (242798 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	112244851	112244851	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:112244851delT								C7orf53 (113916 upstream) : TMEM168 (160938 downstream)																																			---	---	---	---
TMEM168	64418	broad.mit.edu	37	7	112415501	112415501	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:112415501delA	uc003vgn.2	-						TMEM168_uc010lju.2_Intron|TMEM168_uc011kmr.1_Intron	NM_022484	NP_071929			transmembrane protein 168							integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	112774579	112774580	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:112774579_112774580delGA								LOC401397 (15942 upstream) : PPP1R3A (742302 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	113035960	113035960	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113035960delA								LOC401397 (277323 upstream) : PPP1R3A (480922 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	113154577	113154578	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113154577_113154578delTT								LOC401397 (395940 upstream) : PPP1R3A (362304 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	113262335	113262335	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113262335delT								LOC401397 (503698 upstream) : PPP1R3A (254547 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	113264255	113264255	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113264255delA								LOC401397 (505618 upstream) : PPP1R3A (252627 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	113298764	113298764	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113298764delT								LOC401397 (540127 upstream) : PPP1R3A (218118 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	113317511	113317511	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113317511delT								LOC401397 (558874 upstream) : PPP1R3A (199371 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	113338645	113338645	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113338645delT								LOC401397 (580008 upstream) : PPP1R3A (178237 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	113372418	113372418	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113372418delT								LOC401397 (613781 upstream) : PPP1R3A (144464 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	113390144	113390144	+	IGR	DEL	A	-	-	rs35787448		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113390144delA								LOC401397 (631507 upstream) : PPP1R3A (126738 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	113425304	113425304	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113425304delA								LOC401397 (666667 upstream) : PPP1R3A (91578 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	113455726	113455726	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113455726delT								LOC401397 (697089 upstream) : PPP1R3A (61156 downstream)																																			---	---	---	---
FOXP2	93986	broad.mit.edu	37	7	113903405	113903406	+	Intron	DEL	TT	-	-	rs11437591		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113903405_113903406delTT	uc003vgu.2	+						FOXP2_uc003vgt.1_Intron					Homo sapiens full length insert cDNA clone YX52E07.						camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8																		---	---	---	---
FOXP2	93986	broad.mit.edu	37	7	113906128	113906128	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113906128delA	uc003vgu.2	+						FOXP2_uc003vgt.1_Intron					Homo sapiens full length insert cDNA clone YX52E07.						camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8																		---	---	---	---
FOXP2	93986	broad.mit.edu	37	7	114003885	114003885	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:114003885delA	uc003vgv.1	+						FOXP2_uc003vgu.2_Intron|FOXP2_uc003vgt.1_Intron	NM_014491	NP_055306			forkhead box P2 isoform I						camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8																		---	---	---	---
FOXP2	93986	broad.mit.edu	37	7	114024797	114024797	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:114024797delT	uc003vgv.1	+						FOXP2_uc003vgu.2_Intron|FOXP2_uc003vgt.1_Intron	NM_014491	NP_055306			forkhead box P2 isoform I						camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8																		---	---	---	---
FOXP2	93986	broad.mit.edu	37	7	114122743	114122743	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:114122743delT	uc003vhb.2	+						FOXP2_uc003vgu.2_Intron|FOXP2_uc003vgz.2_Intron|FOXP2_uc003vha.2_Intron|FOXP2_uc011kmu.1_Intron|FOXP2_uc011kmv.1_Intron|FOXP2_uc003vgt.1_Intron|FOXP2_uc003vgv.1_Intron|FOXP2_uc003vgw.2_Intron|FOXP2_uc003vgx.2_Intron|FOXP2_uc003vhd.2_Intron|FOXP2_uc003vhc.2_Intron	NM_014491	NP_055306			forkhead box P2 isoform I						camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8																		---	---	---	---
FOXP2	93986	broad.mit.edu	37	7	114210823	114210823	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:114210823delA	uc003vhb.2	+						FOXP2_uc003vgu.2_Intron|FOXP2_uc003vgz.2_Intron|FOXP2_uc003vha.2_Intron|FOXP2_uc011kmu.1_Intron|FOXP2_uc011kmv.1_Intron|FOXP2_uc003vgt.1_Intron|FOXP2_uc003vgv.1_Intron|FOXP2_uc003vgw.2_Intron|FOXP2_uc003vgx.2_Intron|FOXP2_uc003vhd.2_Intron|FOXP2_uc003vhc.2_Intron	NM_014491	NP_055306			forkhead box P2 isoform I						camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8																		---	---	---	---
FOXP2	93986	broad.mit.edu	37	7	114300320	114300320	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:114300320delA	uc003vhb.2	+						FOXP2_uc003vgu.2_Intron|FOXP2_uc003vgz.2_Intron|FOXP2_uc003vha.2_Intron|FOXP2_uc011kmu.1_Intron|FOXP2_uc011kmv.1_Intron|FOXP2_uc010ljz.1_Intron|FOXP2_uc003vhe.1_Intron	NM_014491	NP_055306			forkhead box P2 isoform I						camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	114368923	114368923	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:114368923delT								FOXP2 (37831 upstream) : MDFIC (193286 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	114552836	114552836	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:114552836delA								FOXP2 (221744 upstream) : MDFIC (9373 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	115363331	115363331	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:115363331delA								MDFIC (704068 upstream) : TFEC (211871 downstream)																																			---	---	---	---
TES	26136	broad.mit.edu	37	7	115876070	115876071	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:115876070_115876071insT	uc003vho.2	+						TES_uc011kmx.1_Intron|TES_uc011kmy.1_Intron|TES_uc010lka.1_Intron|TES_uc003vhp.2_Intron	NM_015641	NP_056456			testin isoform 1						negative regulation of cell proliferation	cytoplasm|focal adhesion|nucleus|protein complex	zinc ion binding				0	Lung NSC(10;0.0137)|all_lung(10;0.0148)	Breast(660;0.0602)	STAD - Stomach adenocarcinoma(10;0.00878)															---	---	---	---
TES	26136	broad.mit.edu	37	7	115879645	115879645	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:115879645delT	uc003vho.2	+						TES_uc011kmx.1_Intron|TES_uc011kmy.1_Intron|TES_uc010lka.1_Intron|TES_uc003vhp.2_Intron	NM_015641	NP_056456			testin isoform 1						negative regulation of cell proliferation	cytoplasm|focal adhesion|nucleus|protein complex	zinc ion binding				0	Lung NSC(10;0.0137)|all_lung(10;0.0148)	Breast(660;0.0602)	STAD - Stomach adenocarcinoma(10;0.00878)															---	---	---	---
CAV1	857	broad.mit.edu	37	7	116152940	116152940	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116152940delT	uc010lkd.1	+						CAV1_uc010lke.1_Intron	NM_001753	NP_001744			caveolin 1						blood coagulation|calcium ion transport|caveola assembly|cellular response to starvation|cholesterol homeostasis|cytosolic calcium ion homeostasis|inactivation of MAPK activity|interspecies interaction between organisms|leukocyte migration|lipid storage|maintenance of protein location in cell|mammary gland involution|membrane depolarization|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of endothelial cell proliferation|negative regulation of epithelial cell differentiation|negative regulation of nitric oxide biosynthetic process|negative regulation of peptidyl-serine phosphorylation|negative regulation of protein binding|negative regulation of transcription from RNA polymerase II promoter|nitric oxide homeostasis|nitric oxide metabolic process|positive regulation of calcium ion transport into cytosol|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of metalloenzyme activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of vasoconstriction|protein homooligomerization|receptor internalization|regulation of blood coagulation|regulation of fatty acid metabolic process|regulation of nitric-oxide synthase activity|regulation of smooth muscle contraction|response to calcium ion|response to estrogen stimulus|response to hypoxia|response to progesterone stimulus|skeletal muscle tissue development|T cell costimulation|triglyceride metabolic process|vasculogenesis|vesicle organization	apical plasma membrane|basolateral plasma membrane|caveola|caveola|cytosol|endoplasmic reticulum|endosome|Golgi membrane|lipid particle|perinuclear region of cytoplasm	cholesterol binding|nitric-oxide synthase binding|peptidase activator activity|protein binding|protein complex scaffold|receptor binding				0	all_epithelial(6;1.42e-06)|Lung NSC(10;0.0056)|all_lung(10;0.00609)		STAD - Stomach adenocarcinoma(10;0.00878)															---	---	---	---
CAPZA2	830	broad.mit.edu	37	7	116477122	116477122	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116477122delT	uc003vik.1	+											Homo sapiens mRNA for capping protein (actin filament) muscle Z-line, alpha 2 variant, clone: HSI05568.						actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement|innate immune response|protein complex assembly	cytosol|extracellular region|F-actin capping protein complex	actin binding				0	all_cancers(3;8.53e-08)|all_epithelial(6;7.79e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)		GBM - Glioblastoma multiforme(2;5.01e-06)|STAD - Stomach adenocarcinoma(10;0.000512)|all cancers(2;0.00326)															---	---	---	---
CAPZA2	830	broad.mit.edu	37	7	116481048	116481049	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116481048_116481049insT	uc003vik.1	+											Homo sapiens mRNA for capping protein (actin filament) muscle Z-line, alpha 2 variant, clone: HSI05568.						actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement|innate immune response|protein complex assembly	cytosol|extracellular region|F-actin capping protein complex	actin binding				0	all_cancers(3;8.53e-08)|all_epithelial(6;7.79e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)		GBM - Glioblastoma multiforme(2;5.01e-06)|STAD - Stomach adenocarcinoma(10;0.000512)|all cancers(2;0.00326)															---	---	---	---
Unknown	0	broad.mit.edu	37	7	116574871	116574871	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116574871delT								CAPZA2 (15559 upstream) : ST7OT1 (17632 downstream)																																			---	---	---	---
ST7	7982	broad.mit.edu	37	7	116648102	116648102	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116648102delA	uc003vin.2	+						ST7_uc011knl.1_Intron|ST7_uc003vio.2_Intron	NM_021908	NP_068708			suppression of tumorigenicity 7 isoform b							integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)														---	---	---	---
ST7	7982	broad.mit.edu	37	7	116655451	116655453	+	Intron	DEL	GTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116655451_116655453delGTG	uc003vin.2	+						ST7_uc011knl.1_Intron|ST7_uc003vio.2_Intron|ST7_uc003viq.2_Intron	NM_021908	NP_068708			suppression of tumorigenicity 7 isoform b							integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)														---	---	---	---
ST7	7982	broad.mit.edu	37	7	116857343	116857344	+	Intron	DEL	AA	-	-	rs66888495		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116857343_116857344delAA	uc003vin.2	+						ST7_uc011knl.1_Intron|ST7_uc003vio.2_Intron|ST7_uc003viq.2_Intron|ST7_uc011knm.1_Intron|ST7_uc003vir.2_Intron|ST7_uc011knn.1_Intron	NM_021908	NP_068708			suppression of tumorigenicity 7 isoform b							integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)														---	---	---	---
ASZ1	136991	broad.mit.edu	37	7	117056083	117056083	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117056083delA	uc003vjb.2	-						ASZ1_uc011kno.1_Intron|ASZ1_uc011knp.1_Intron	NM_130768	NP_570124			ankyrin repeat, SAM and basic leucine zipper						cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	signal transducer activity			central_nervous_system(2)|ovary(1)	3	Lung NSC(10;0.00156)|all_lung(10;0.00175)		STAD - Stomach adenocarcinoma(10;0.000512)															---	---	---	---
Unknown	0	broad.mit.edu	37	7	117090953	117090954	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117090953_117090954insA								ASZ1 (23376 upstream) : CFTR (29063 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	117104303	117104303	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117104303delT								ASZ1 (36726 upstream) : CFTR (15714 downstream)																																			---	---	---	---
CFTR	1080	broad.mit.edu	37	7	117263449	117263450	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117263449_117263450delTT	uc003vjd.2	+						CFTR_uc011knq.1_Intron	NM_000492	NP_000483			cystic fibrosis transmembrane conductance						respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)									Cystic_Fibrosis				---	---	---	---
CTTNBP2	83992	broad.mit.edu	37	7	117420473	117420473	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117420473delA	uc003vjf.2	-							NM_033427	NP_219499			cortactin binding protein 2											ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)														---	---	---	---
CTTNBP2	83992	broad.mit.edu	37	7	117423300	117423300	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117423300delA	uc003vjf.2	-							NM_033427	NP_219499			cortactin binding protein 2											ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)														---	---	---	---
CTTNBP2	83992	broad.mit.edu	37	7	117431024	117431024	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117431024delA	uc003vjf.2	-							NM_033427	NP_219499			cortactin binding protein 2											ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	117883742	117883742	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117883742delA								ANKRD7 (960 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	117991507	117991508	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117991507_117991508delGT								ANKRD7 (108725 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	118212631	118212631	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:118212631delT								ANKRD7 (329849 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	118681245	118681245	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:118681245delA								ANKRD7 (798463 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	118704759	118704759	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:118704759delT								ANKRD7 (821977 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	119253389	119253390	+	IGR	DEL	AC	-	-	rs72144047		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:119253389_119253390delAC								None (None upstream) : KCND2 (660332 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	119294836	119294836	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:119294836delA								None (None upstream) : KCND2 (618886 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	119571683	119571683	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:119571683delC								None (None upstream) : KCND2 (342039 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	119841009	119841009	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:119841009delA								None (None upstream) : KCND2 (72713 downstream)																																			---	---	---	---
KCND2	3751	broad.mit.edu	37	7	120183281	120183282	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:120183281_120183282insT	uc003vjj.1	+							NM_012281	NP_036413			potassium voltage-gated channel, Shal-related						regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)																	---	---	---	---
TSPAN12	23554	broad.mit.edu	37	7	120499319	120499320	+	5'Flank	INS	-	A	A	rs149673722	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:120499319_120499320insA	uc003vjk.2	-							NM_012338	NP_036470			transmembrane 4 superfamily member 12						angiogenesis|cell surface receptor linked signaling pathway|regulation of angiogenesis|retina layer formation	integral to plasma membrane|membrane fraction					0	all_neural(327;0.117)																	---	---	---	---
C7orf58	79974	broad.mit.edu	37	7	120933608	120933608	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:120933608delA	uc003vjq.3	+							NM_024913	NP_079189			hypothetical protein LOC79974 isoform 1							endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)																	---	---	---	---
FAM3C	10447	broad.mit.edu	37	7	121026968	121026969	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:121026968_121026969insT	uc003vjx.2	-						FAM3C_uc010lkm.2_Intron	NM_014888	NP_055703			family with sequence similarity 3, member C						multicellular organismal development	cytoplasmic membrane-bounded vesicle|extracellular region	cytokine activity				0	all_neural(327;0.117)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	121314544	121314544	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:121314544delT								FAM3C (278122 upstream) : PTPRZ1 (198615 downstream)																																			---	---	---	---
PTPRZ1	5803	broad.mit.edu	37	7	121685736	121685736	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:121685736delT	uc003vjy.2	+						PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842			protein tyrosine phosphatase, receptor-type,						central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	121802054	121802054	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:121802054delA								AASS (17710 upstream) : FEZF1 (139395 downstream)																																			---	---	---	---
CADPS2	93664	broad.mit.edu	37	7	121959917	121959917	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:121959917delA	uc010lkp.2	-	29					CADPS2_uc011knx.1_3'UTR|CADPS2_uc003vkg.3_3'UTR|CADPS2_uc010lkq.2_3'UTR	NM_017954	NP_060424			Ca2+-dependent activator protein for secretion 2						exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
CADPS2	93664	broad.mit.edu	37	7	122025627	122025628	+	Intron	DEL	AA	-	-	rs76821426		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:122025627_122025628delAA	uc010lkp.2	-						CADPS2_uc011knx.1_Intron|CADPS2_uc003vkg.3_Intron|CADPS2_uc010lkq.2_Intron	NM_017954	NP_060424			Ca2+-dependent activator protein for secretion 2						exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
CADPS2	93664	broad.mit.edu	37	7	122316893	122316893	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:122316893delT	uc010lkp.2	-						CADPS2_uc010lkq.2_Intron	NM_017954	NP_060424			Ca2+-dependent activator protein for secretion 2						exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
CADPS2	93664	broad.mit.edu	37	7	122364793	122364793	+	Intron	DEL	T	-	-	rs67135570		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:122364793delT	uc010lkp.2	-						CADPS2_uc010lkq.2_Intron	NM_017954	NP_060424			Ca2+-dependent activator protein for secretion 2						exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
WASL	8976	broad.mit.edu	37	7	123324436	123324436	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:123324436delA	uc003vkz.2	-	11						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																		---	---	---	---
WASL	8976	broad.mit.edu	37	7	123388031	123388031	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:123388031delG	uc003vkz.2	-						uc003vla.2_5'Flank	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																		---	---	---	---
SPAM1	6677	broad.mit.edu	37	7	123599452	123599452	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:123599452delA	uc003vld.2	+						SPAM1_uc003vle.2_Intron|SPAM1_uc011koa.1_Intron|SPAM1_uc003vlf.3_Intron|SPAM1_uc010lku.2_Intron	NM_153189	NP_694859			sperm adhesion molecule 1 isoform 2						binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)													---	---	---	---
Unknown	0	broad.mit.edu	37	7	123657095	123657095	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:123657095delA	uc003vlg.2	+						uc010lkv.1_Intron					Homo sapiens cDNA clone IMAGE:5301388.																														---	---	---	---
Unknown	0	broad.mit.edu	37	7	124694278	124694278	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:124694278delT	uc010lkx.1	+						uc003vlp.2_Intron|uc003vlq.1_Intron					Homo sapiens cDNA FLJ33356 fis, clone BRACE2005160.																														---	---	---	---
Unknown	0	broad.mit.edu	37	7	124784143	124784143	+	RNA	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:124784143delA	uc010lkx.1	+	11		c.2798delA			uc003vlp.2_RNA|uc003vlq.1_Intron					Homo sapiens cDNA FLJ33356 fis, clone BRACE2005160.																														---	---	---	---
Unknown	0	broad.mit.edu	37	7	125066049	125066049	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:125066049delT								POT1 (496012 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	125642880	125642882	+	IGR	DEL	TTG	-	-	rs71520354		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:125642880_125642882delTTG								None (None upstream) : GRM8 (435770 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	125704970	125704970	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:125704970delA								None (None upstream) : GRM8 (373682 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	125794177	125794177	+	IGR	DEL	T	-	-	rs149186310		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:125794177delT								None (None upstream) : GRM8 (284475 downstream)																																			---	---	---	---
GRM8	2918	broad.mit.edu	37	7	126201523	126201524	+	Intron	DEL	AA	-	-	rs77308388		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:126201523_126201524delAA	uc003vlr.2	-						GRM8_uc003vls.2_Intron|GRM8_uc011kof.1_Intron|GRM8_uc003vlt.2_Intron|GRM8_uc010lkz.1_Intron	NM_000845	NP_000836			glutamate receptor, metabotropic 8 isoform a						negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)										HNSCC(24;0.065)			---	---	---	---
GRM8	2918	broad.mit.edu	37	7	126268951	126268951	+	Intron	DEL	A	-	-	rs4731317	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:126268951delA	uc003vlr.2	-						GRM8_uc003vls.2_Intron|GRM8_uc011kof.1_Intron|GRM8_uc003vlt.2_Intron|GRM8_uc010lkz.1_Intron	NM_000845	NP_000836			glutamate receptor, metabotropic 8 isoform a						negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)										HNSCC(24;0.065)			---	---	---	---
GRM8	2918	broad.mit.edu	37	7	126685604	126685604	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:126685604delT	uc003vlr.2	-						GRM8_uc003vls.2_Intron|GRM8_uc011kof.1_Intron|GRM8_uc003vlt.2_Intron|GRM8_uc010lkz.1_Intron|GRM8_uc003vlu.1_Intron	NM_000845	NP_000836			glutamate receptor, metabotropic 8 isoform a						negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)										HNSCC(24;0.065)			---	---	---	---
GRM8	2918	broad.mit.edu	37	7	126759536	126759537	+	Intron	DEL	TC	-	-	rs66684637		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:126759536_126759537delTC	uc003vlr.2	-						GRM8_uc003vls.2_Intron|GRM8_uc011kof.1_Intron|GRM8_uc003vlt.2_Intron|GRM8_uc010lkz.1_Intron	NM_000845	NP_000836			glutamate receptor, metabotropic 8 isoform a						negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)										HNSCC(24;0.065)			---	---	---	---
GRM8	2918	broad.mit.edu	37	7	126860710	126860710	+	Intron	DEL	A	-	-	rs9690723		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:126860710delA	uc003vlr.2	-						GRM8_uc003vls.2_Intron|GRM8_uc011kof.1_Intron|GRM8_uc003vlt.2_Intron|GRM8_uc010lkz.1_Intron|uc003vlv.2_Intron	NM_000845	NP_000836			glutamate receptor, metabotropic 8 isoform a						negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)										HNSCC(24;0.065)			---	---	---	---
Unknown	0	broad.mit.edu	37	7	126938693	126938693	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:126938693delT								GRM8 (45546 upstream) : ZNF800 (71661 downstream)																																			---	---	---	---
SND1	27044	broad.mit.edu	37	7	127570668	127570668	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127570668delA	uc003vmi.2	+						SND1_uc010lle.2_Intron	NM_014390	NP_055205			staphylococcal nuclease domain containing 1						gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
SND1	27044	broad.mit.edu	37	7	127678742	127678742	+	Intron	DEL	T	-	-	rs66906469		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127678742delT	uc003vmi.2	+						SND1_uc010lle.2_Intron	NM_014390	NP_055205			staphylococcal nuclease domain containing 1						gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	128022370	128022371	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128022370_128022371delAA								PRRT4 (20631 upstream) : IMPDH1 (9960 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	128078110	128078110	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128078110delA								IMPDH1 (28074 upstream) : C7orf68 (17774 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	128201102	128201102	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128201102delT								METTL2B (58125 upstream) : FLJ45340 (80193 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	128701709	128701709	+	IGR	DEL	T	-	-	rs35947320		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128701709delT								TPI1P2 (4416 upstream) : LOC407835 (64616 downstream)																																			---	---	---	---
AHCYL2	23382	broad.mit.edu	37	7	129012496	129012496	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129012496delA	uc011kov.1	+						AHCYL2_uc003vot.2_Intron|AHCYL2_uc003vov.2_Intron|AHCYL2_uc011kow.1_Intron|AHCYL2_uc011kox.1_5'Flank	NM_015328	NP_056143			S-adenosylhomocysteine hydrolase-like 2 isoform						one-carbon metabolic process		adenosylhomocysteinase activity			ovary(2)	2																		---	---	---	---
FAM40B	57464	broad.mit.edu	37	7	129107123	129107123	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129107123delT	uc011koy.1	+						FAM40B_uc003vow.2_Intron|FAM40B_uc011koz.1_Intron	NM_020704	NP_065755			hypothetical protein LOC57464 isoform a												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	129169014	129169014	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129169014delA								FAM40B (40777 upstream) : NRF1 (82541 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	129201417	129201417	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129201417delT								FAM40B (73180 upstream) : NRF1 (50138 downstream)																																			---	---	---	---
NRF1	4899	broad.mit.edu	37	7	129395139	129395139	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129395139delT	uc003voz.2	+	11					NRF1_uc003vpa.2_3'UTR|NRF1_uc011kpa.1_3'UTR|NRF1_uc003vpb.2_3'UTR	NM_005011	NP_005002			nuclear respiratory factor 1						generation of precursor metabolites and energy|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1																		---	---	---	---
KLHDC10	23008	broad.mit.edu	37	7	129771905	129771905	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129771905delT	uc003vpj.1	+	10					KLHDC10_uc003vpk.1_3'UTR|KLHDC10_uc010lmb.1_3'UTR|uc003vpl.1_5'Flank	NM_014997	NP_055812			kelch domain containing 10												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	129887065	129887065	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129887065delT								C7orf45 (30382 upstream) : CPA2 (19638 downstream)																																			---	---	---	---
TSGA14	95681	broad.mit.edu	37	7	130038412	130038412	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130038412delA	uc003vpz.2	-	11					TSGA14_uc003vpy.2_3'UTR|TSGA14_uc010lmf.2_3'UTR|TSGA14_uc003vqa.2_3'UTR|TSGA14_uc011kpg.1_3'UTR	NM_018718	NP_061188			testis specific, 14						G2/M transition of mitotic cell cycle	centrosome|cytosol					0	Melanoma(18;0.0435)																	---	---	---	---
TSGA14	95681	broad.mit.edu	37	7	130039100	130039100	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130039100delT	uc003vpz.2	-						TSGA14_uc003vpy.2_Intron|TSGA14_uc010lmf.2_Intron|TSGA14_uc003vqa.2_Intron|TSGA14_uc011kpg.1_Intron	NM_018718	NP_061188			testis specific, 14						G2/M transition of mitotic cell cycle	centrosome|cytosol					0	Melanoma(18;0.0435)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	130101473	130101473	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130101473delA								TSGA14 (20619 upstream) : MEST (24573 downstream)																																			---	---	---	---
COPG2	26958	broad.mit.edu	37	7	130315884	130315884	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130315884delA	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)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	130478215	130478215	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130478215delT								KLF14 (59355 upstream) : MIR29A (83291 downstream)																																			---	---	---	---
FLJ43663	378805	broad.mit.edu	37	7	130760080	130760080	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130760080delA	uc011kpk.1	-						FLJ43663_uc003vqo.1_Intron|FLJ43663_uc003vqp.2_Intron|FLJ43663_uc003vqq.2_Intron	NR_024153				Homo sapiens cDNA FLJ43663 fis, clone SYNOV4005989.												0																		---	---	---	---
MKLN1	4289	broad.mit.edu	37	7	130911563	130911563	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130911563delT	uc011kpl.1	+							NM_001145354	NP_001138826			muskelin 1, intracellular mediator containing						signal transduction	cytoplasm	protein binding			breast(1)	1	Melanoma(18;0.162)																	---	---	---	---
MKLN1	4289	broad.mit.edu	37	7	130927794	130927794	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130927794delA	uc011kpl.1	+							NM_001145354	NP_001138826			muskelin 1, intracellular mediator containing						signal transduction	cytoplasm	protein binding			breast(1)	1	Melanoma(18;0.162)																	---	---	---	---
MKLN1	4289	broad.mit.edu	37	7	130954576	130954576	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130954576delA	uc011kpl.1	+							NM_001145354	NP_001138826			muskelin 1, intracellular mediator containing						signal transduction	cytoplasm	protein binding			breast(1)	1	Melanoma(18;0.162)																	---	---	---	---
MKLN1	4289	broad.mit.edu	37	7	131068927	131068927	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:131068927delT	uc011kpm.1	+						MKLN1_uc011kpl.1_Intron|MKLN1_uc010lmh.2_Intron|MKLN1_uc003vqs.2_Intron	NM_013255	NP_037387			muskelin 1, intracellular mediator containing						signal transduction	cytoplasm	protein binding			breast(1)	1	Melanoma(18;0.162)																	---	---	---	---
MKLN1	4289	broad.mit.edu	37	7	131114111	131114112	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:131114111_131114112delAG	uc011kpm.1	+						MKLN1_uc011kpl.1_Intron|MKLN1_uc010lmh.2_Intron|MKLN1_uc003vqs.2_Intron	NM_013255	NP_037387			muskelin 1, intracellular mediator containing						signal transduction	cytoplasm	protein binding			breast(1)	1	Melanoma(18;0.162)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	131330034	131330034	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:131330034delT								PODXL (88658 upstream) : PLXNA4 (478058 downstream)																																			---	---	---	---
PLXNA4	91584	broad.mit.edu	37	7	132264639	132264639	+	Intron	DEL	T	-	-	rs10713108		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132264639delT	uc003vrb.2	-							NM_181775	NP_861440			plexin A4 isoform 2							integral to membrane|intracellular|plasma membrane				ovary(1)	1																		---	---	---	---
PLXNA4	91584	broad.mit.edu	37	7	132267268	132267268	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132267268delA	uc003vrb.2	-							NM_181775	NP_861440			plexin A4 isoform 2							integral to membrane|intracellular|plasma membrane				ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	132383745	132383745	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132383745delT	uc003vrd.1	+											Homo sapiens cDNA FLJ40288 fis, clone TESTI2028098.																														---	---	---	---
CHCHD3	54927	broad.mit.edu	37	7	132590362	132590362	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132590362delA	uc003vre.2	-						CHCHD3_uc010lmi.2_Intron|CHCHD3_uc003vrf.2_Intron|CHCHD3_uc010lmj.2_Intron	NM_017812	NP_060282			coiled-coil-helix-coiled-coil-helix domain						inner mitochondrial membrane organization|mitochondrial fusion	mitochondrial inner membrane	protein complex scaffold				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	132813557	132813558	+	IGR	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132813557_132813558insC								CHCHD3 (46729 upstream) : EXOC4 (124265 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	132880823	132880824	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132880823_132880824insA								CHCHD3 (113995 upstream) : EXOC4 (56999 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	132921089	132921089	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132921089delT								CHCHD3 (154261 upstream) : EXOC4 (16734 downstream)																																			---	---	---	---
EXOC4	60412	broad.mit.edu	37	7	132989824	132989827	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132989824_132989827delTTTT	uc003vrk.2	+						EXOC4_uc011kpo.1_Intron|EXOC4_uc003vri.2_Intron|EXOC4_uc003vrj.2_Intron	NM_021807	NP_068579			SEC8 protein isoform a						vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)																---	---	---	---
EXOC4	60412	broad.mit.edu	37	7	133040962	133040963	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:133040962_133040963insA	uc003vrk.2	+						EXOC4_uc011kpo.1_Intron|EXOC4_uc003vri.2_Intron|EXOC4_uc003vrj.2_Intron	NM_021807	NP_068579			SEC8 protein isoform a						vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)																---	---	---	---
EXOC4	60412	broad.mit.edu	37	7	133385735	133385735	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:133385735delA	uc003vrk.2	+						EXOC4_uc011kpo.1_Intron|EXOC4_uc003vrl.2_Intron|EXOC4_uc011kpp.1_Intron	NM_021807	NP_068579			SEC8 protein isoform a						vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)																---	---	---	---
EXOC4	60412	broad.mit.edu	37	7	133506237	133506237	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:133506237delT	uc003vrk.2	+						EXOC4_uc011kpo.1_Intron|EXOC4_uc003vrl.2_Intron|EXOC4_uc011kpp.1_Intron	NM_021807	NP_068579			SEC8 protein isoform a						vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)																---	---	---	---
Unknown	0	broad.mit.edu	37	7	134118183	134118183	+	IGR	DEL	A	-	-	rs72330328		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134118183delA								SLC35B4 (116356 upstream) : AKR1B1 (8924 downstream)																																			---	---	---	---
AKR1B10	57016	broad.mit.edu	37	7	134211834	134211835	+	5'Flank	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134211834_134211835insT	uc003vrr.2	+							NM_020299	NP_064695			aldo-keto reductase family 1, member B10						cellular aldehyde metabolic process|digestion|steroid metabolic process	cytoplasm	aldo-keto reductase (NADP) activity|protein binding			skin(5)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	134301170	134301170	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134301170delA								AKR1B15 (36870 upstream) : BPGM (30361 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	134305556	134305556	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134305556delT								AKR1B15 (41256 upstream) : BPGM (25975 downstream)																																			---	---	---	---
BPGM	669	broad.mit.edu	37	7	134351198	134351198	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134351198delA	uc003vrv.2	+						BPGM_uc003vrw.2_Intron|BPGM_uc003vrx.2_Intron	NM_199186	NP_954655			bisphosphoglycerate mutase						glycolysis|respiratory gaseous exchange		2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity|phosphoglycerate mutase activity				0																		---	---	---	---
CALD1	800	broad.mit.edu	37	7	134478571	134478572	+	Intron	DEL	TT	-	-	rs35866482		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134478571_134478572delTT	uc003vrz.2	+						CALD1_uc003vry.2_Intron|CALD1_uc003vsa.2_Intron|CALD1_uc003vsb.2_Intron|CALD1_uc010lmm.2_Intron|CALD1_uc011kpt.1_Intron	NM_033138	NP_149129			caldesmon 1 isoform 1						cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0																		---	---	---	---
CALD1	800	broad.mit.edu	37	7	134500129	134500129	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134500129delT	uc003vrz.2	+						CALD1_uc003vry.2_Intron|CALD1_uc003vsa.2_Intron|CALD1_uc003vsb.2_Intron|CALD1_uc010lmm.2_Intron|CALD1_uc011kpt.1_Intron	NM_033138	NP_149129			caldesmon 1 isoform 1						cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0																		---	---	---	---
CALD1	800	broad.mit.edu	37	7	134595404	134595405	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134595404_134595405delAC	uc003vrz.2	+						CALD1_uc003vry.2_Intron|CALD1_uc003vsa.2_Intron|CALD1_uc003vsb.2_Intron|CALD1_uc010lmm.2_Intron|CALD1_uc011kpt.1_Intron|CALD1_uc003vsc.2_Intron|CALD1_uc003vsd.2_Intron	NM_033138	NP_149129			caldesmon 1 isoform 1						cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0																		---	---	---	---
CALD1	800	broad.mit.edu	37	7	134623393	134623393	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134623393delA	uc003vrz.2	+						CALD1_uc003vry.2_Intron|CALD1_uc003vsa.2_Intron|CALD1_uc003vsb.2_Intron|CALD1_uc010lmm.2_Intron|CALD1_uc011kpt.1_Intron|CALD1_uc003vsc.2_Intron|CALD1_uc003vsd.2_Intron|CALD1_uc011kpu.1_Intron|CALD1_uc011kpv.1_Intron|CALD1_uc003vse.2_Intron	NM_033138	NP_149129			caldesmon 1 isoform 1						cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0																		---	---	---	---
AGBL3	340351	broad.mit.edu	37	7	134732551	134732551	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134732551delT	uc011kpw.1	+							NM_178563	NP_848658			carboxypeptidase 3, cytosolic						proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding				0																		---	---	---	---
STRA8	346673	broad.mit.edu	37	7	134922661	134922662	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134922661_134922662delAA	uc011kpx.1	+							NM_182489	NP_872295			STRA8						DNA replication|regulation of transcription, DNA-dependent	cytoplasm|nucleus					0																		---	---	---	---
NUP205	23165	broad.mit.edu	37	7	135246497	135246497	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:135246497delT	uc003vsw.2	+						NUP205_uc011kqa.1_Intron	NM_015135	NP_055950			nucleoporin 205kDa						carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6																		---	---	---	---
LUZP6	767558	broad.mit.edu	37	7	135614510	135614510	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:135614510delT	uc003vte.3	-	4					LUZP6_uc010lmv.2_RNA	NM_145808	NP_665807			myotrophin												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	135978164	135978166	+	IGR	DEL	AAA	-	-	rs77259177		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:135978164_135978166delAAA								LUZP6 (315960 upstream) : CHRM2 (575233 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	135984831	135984832	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:135984831_135984832delAA								LUZP6 (322627 upstream) : CHRM2 (568567 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	136007155	136007155	+	IGR	DEL	G	-	-	rs6943382	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:136007155delG								LUZP6 (344951 upstream) : CHRM2 (546244 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	136161395	136161395	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:136161395delA								LUZP6 (499191 upstream) : CHRM2 (392004 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	136175181	136175182	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:136175181_136175182delAA								LUZP6 (512977 upstream) : CHRM2 (378217 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	136737093	136737093	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:136737093delT	uc003vtp.1	-											Homo sapiens clone N1 NTera2D1 teratocarcinoma mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	7	136891878	136891879	+	IGR	INS	-	TCCT	TCCT	rs145795040	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:136891878_136891879insTCCT								CHRM2 (190107 upstream) : PTN (20213 downstream)																																			---	---	---	---
DGKI	9162	broad.mit.edu	37	7	137161067	137161067	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:137161067delT	uc003vtt.2	-						DGKI_uc003vtu.2_Intron	NM_004717	NP_004708			diacylglycerol kinase, iota						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3																		---	---	---	---
DGKI	9162	broad.mit.edu	37	7	137527398	137527398	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:137527398delT	uc003vtt.2	-						DGKI_uc003vtu.2_Intron	NM_004717	NP_004708			diacylglycerol kinase, iota						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3																		---	---	---	---
CREB3L2	64764	broad.mit.edu	37	7	137571334	137571334	+	Intron	DEL	G	-	-	rs35422017		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:137571334delG	uc003vtw.2	-						CREB3L2_uc003vtx.1_Intron|CREB3L2_uc003vtv.2_Intron	NM_194071	NP_919047			cAMP responsive element binding protein 3-like						chondrocyte differentiation|positive regulation of transcription, DNA-dependent|response to endoplasmic reticulum stress|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	cAMP response element binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		FUS/CREB3L2(158)	soft_tissue(158)|upper_aerodigestive_tract(1)|ovary(1)	160								T	FUS	fibromyxoid sarcoma								---	---	---	---
AKR1D1	6718	broad.mit.edu	37	7	137706647	137706647	+	Intron	DEL	A	-	-	rs66683057		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:137706647delA	uc011kqb.1	+						AKR1D1_uc011kqc.1_Intron|AKR1D1_uc011kqd.1_Intron	NM_005989	NP_005980			aldo-keto reductase family 1, member D1						androgen metabolic process|bile acid biosynthetic process|bile acid catabolic process|C21-steroid hormone metabolic process|cholesterol catabolic process|digestion	cytosol	aldo-keto reductase (NADP) activity|delta4-3-oxosteroid 5beta-reductase activity|steroid binding			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	137916069	137916069	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:137916069delT								AKR1D1 (113019 upstream) : TRIM24 (229010 downstream)																																			---	---	---	---
TRIM24	8805	broad.mit.edu	37	7	138265053	138265053	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	138497237	138497237	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138497237delT								TMEM213 (6470 upstream) : KIAA1549 (18892 downstream)																																			---	---	---	---
ZC3HAV1L	92092	broad.mit.edu	37	7	138713748	138713748	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138713748delT	uc003vum.1	-							NM_080660	NP_542391			zinc finger CCCH-type, antiviral 1-like												0																		---	---	---	---
UBN2	254048	broad.mit.edu	37	7	138953993	138953993	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138953993delT	uc011kqr.1	+						UBN2_uc003vuv.2_Intron	NM_173569	NP_775840			ubinuclein 2											ovary(1)|skin(1)	2																		---	---	---	---
LUC7L2	51631	broad.mit.edu	37	7	139104956	139104956	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139104956delT	uc003vux.2	+						LUC7L2_uc011kqs.1_Intron|LUC7L2_uc011kqt.1_Intron|LUC7L2_uc003vuy.2_Intron|LUC7L2_uc003vva.2_Intron	NM_016019	NP_057103			LUC7-like 2								enzyme binding|metal ion binding				0	Melanoma(164;0.242)																	---	---	---	---
KLRG2	346689	broad.mit.edu	37	7	139140569	139140569	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139140569delA	uc003vvb.2	-						KLRG2_uc010lnc.2_Intron	NM_198508	NP_940910			killer cell lectin-like receptor subfamily G,							integral to membrane	sugar binding			central_nervous_system(1)	1	Melanoma(164;0.233)																	---	---	---	---
KLRG2	346689	broad.mit.edu	37	7	139140769	139140769	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139140769delA	uc003vvb.2	-						KLRG2_uc010lnc.2_Intron	NM_198508	NP_940910			killer cell lectin-like receptor subfamily G,							integral to membrane	sugar binding			central_nervous_system(1)	1	Melanoma(164;0.233)																	---	---	---	---
CLEC2L	154790	broad.mit.edu	37	7	139225765	139225766	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139225765_139225766insT	uc010lnd.2	+							NM_001080511	NP_001073980			C-type lectin domain family 2, member L							integral to membrane	sugar binding				0	Melanoma(164;0.233)																	---	---	---	---
HIPK2	28996	broad.mit.edu	37	7	139332492	139332492	+	Intron	DEL	A	-	-	rs115598555	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139332492delA	uc003vvf.3	-						HIPK2_uc003vvd.3_Intron	NM_022740	NP_073577			homeodomain interacting protein kinase 2 isoform						apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)																	---	---	---	---
HIPK2	28996	broad.mit.edu	37	7	139341620	139341621	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139341620_139341621delTT	uc003vvf.3	-						HIPK2_uc003vvd.3_Intron	NM_022740	NP_073577			homeodomain interacting protein kinase 2 isoform						apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)																	---	---	---	---
HIPK2	28996	broad.mit.edu	37	7	139425410	139425410	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139425410delG	uc003vvf.3	-						HIPK2_uc003vvd.3_Intron	NM_022740	NP_073577			homeodomain interacting protein kinase 2 isoform						apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)																	---	---	---	---
TBXAS1	6916	broad.mit.edu	37	7	139665018	139665019	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139665018_139665019delAA	uc011kqv.1	+						TBXAS1_uc003vvh.2_Intron|TBXAS1_uc010lne.2_Intron|TBXAS1_uc011kqu.1_Intron|TBXAS1_uc003vvi.2_Intron|TBXAS1_uc003vvj.2_Intron|TBXAS1_uc011kqw.1_Intron	NM_001130966	NP_001124438			thromboxane A synthase 1, platelet isoform						hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|thromboxane-A synthase activity			ovary(2)|breast(1)	3	Melanoma(164;0.0142)																	---	---	---	---
TBXAS1	6916	broad.mit.edu	37	7	139694317	139694317	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139694317delT	uc011kqv.1	+						TBXAS1_uc003vvh.2_Intron|TBXAS1_uc010lne.2_Intron|TBXAS1_uc011kqu.1_Intron|TBXAS1_uc003vvi.2_Intron|TBXAS1_uc003vvj.2_Intron|TBXAS1_uc011kqw.1_Intron	NM_001130966	NP_001124438			thromboxane A synthase 1, platelet isoform						hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|thromboxane-A synthase activity			ovary(2)|breast(1)	3	Melanoma(164;0.0142)																	---	---	---	---
PARP12	64761	broad.mit.edu	37	7	139738671	139738671	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139738671delA	uc003vvl.1	-						PARP12_uc003vvk.1_Intron|PARP12_uc010lnf.1_Intron	NM_022750	NP_073587			poly ADP-ribose polymerase 12							nucleus	NAD+ ADP-ribosyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)	3	Melanoma(164;0.0142)																	---	---	---	---
JHDM1D	80853	broad.mit.edu	37	7	139857449	139857449	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139857449delA	uc003vvm.2	-							NM_030647	NP_085150			jumonji C domain containing histone demethylase						midbrain development|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1	Melanoma(164;0.0142)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	140028870	140028871	+	IGR	INS	-	AC	AC	rs144383100	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140028870_140028871insAC								LOC100134229 (149431 upstream) : SLC37A3 (4683 downstream)																																			---	---	---	---
SLC37A3	84255	broad.mit.edu	37	7	140046744	140046744	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140046744delA	uc003vvo.2	-						SLC37A3_uc003vvp.2_Intron|SLC37A3_uc010lnh.2_Intron	NM_207113	NP_996996			solute carrier family 37 (glycerol-3-phosphate						carbohydrate transport|transmembrane transport	integral to membrane				ovary(3)	3	Melanoma(164;0.0142)																	---	---	---	---
DENND2A	27147	broad.mit.edu	37	7	140223385	140223385	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140223385delT	uc010lnj.2	-						DENND2A_uc011kre.1_Intron|DENND2A_uc010lnk.2_Intron|DENND2A_uc003vvw.2_Intron	NM_015689	NP_056504			DENN/MADD domain containing 2A											ovary(3)|breast(1)	4	Melanoma(164;0.00956)																	---	---	---	---
DENND2A	27147	broad.mit.edu	37	7	140236158	140236159	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140236158_140236159delAA	uc010lnj.2	-						DENND2A_uc011kre.1_Intron|DENND2A_uc010lnk.2_Intron|DENND2A_uc003vvw.2_Intron	NM_015689	NP_056504			DENN/MADD domain containing 2A											ovary(3)|breast(1)	4	Melanoma(164;0.00956)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	140347422	140347422	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140347422delA								DENND2A (6136 upstream) : ADCK2 (25531 downstream)																																			---	---	---	---
BRAF	673	broad.mit.edu	37	7	140476994	140476995	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140476994_140476995delTT	uc003vwc.3	-							NM_004333	NP_004324			B-Raf						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	140783291	140783292	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140783291_140783292delGA								MRPS33 (68510 upstream) : AGK (467786 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	140980899	140980900	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140980899_140980900delTT								MRPS33 (266118 upstream) : AGK (270178 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	140990320	140990339	+	IGR	DEL	CACACACATACACATGTGCA	-	-	rs79279334		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140990320_140990339delCACACACATACACATGTGCA								MRPS33 (275539 upstream) : AGK (260739 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	141032297	141032297	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141032297delT								MRPS33 (317516 upstream) : AGK (218781 downstream)																																			---	---	---	---
WEE2	494551	broad.mit.edu	37	7	141412885	141412885	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141412885delA	uc003vwn.2	+						FLJ40852_uc011krh.1_Intron|FLJ40852_uc010lnm.2_Intron|FLJ40852_uc010lnn.2_Intron|FLJ40852_uc003vwm.3_Intron|FLJ40852_uc010lno.2_Intron	NM_001105558	NP_001099028			WEE1 homolog 2						egg activation|female meiosis|female pronucleus assembly|meiotic metaphase II|meiotic prophase I|mitosis|negative regulation of oocyte development|regulation of meiosis I	centrosome|nucleus	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2	Melanoma(164;0.0171)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	141459327	141459328	+	IGR	INS	-	AA	AA	rs149311876	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141459327_141459328insAA								SSBP1 (9070 upstream) : TAS2R3 (4569 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	141808406	141808406	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141808406delA								MGAM (1860 upstream) : LOC93432 (3143 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	141937972	141937987	+	5'Flank	DEL	CTTGTTTCCATTTTTT	-	-	rs34590110		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141937972_141937987delCTTGTTTCCATTTTTT	uc011krn.1	+							NR_024346				Homo sapiens monooxygenase, DBH-like 2 pseudogene (MOXD2), non-coding RNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	7	143540727	143540727	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143540727delT								LOC154761 (6917 upstream) : FAM115A (9322 downstream)																																			---	---	---	---
TPK1	27010	broad.mit.edu	37	7	144320127	144320127	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:144320127delA	uc003weq.2	-						TPK1_uc003weo.2_Intron|TPK1_uc003wep.2_Intron|TPK1_uc003wer.2_Intron|TPK1_uc003wes.2_Intron	NM_022445	NP_071890			thiamin pyrophosphokinase 1 isoform a						thiamine diphosphate biosynthetic process	cytosol	ATP binding|kinase activity|thiamine diphosphokinase activity			ovary(2)	2					Thiamine(DB00152)													---	---	---	---
Unknown	0	broad.mit.edu	37	7	144930580	144930580	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:144930580delT								TPK1 (397434 upstream) : CNTNAP2 (882873 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	145335610	145335610	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:145335610delT								TPK1 (802464 upstream) : CNTNAP2 (477843 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	145653086	145653086	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:145653086delT								None (None upstream) : CNTNAP2 (160367 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	145665355	145665355	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:145665355delA								None (None upstream) : CNTNAP2 (148098 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	145788953	145788953	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:145788953delA								None (None upstream) : CNTNAP2 (24500 downstream)																																			---	---	---	---
CNTNAP2	26047	broad.mit.edu	37	7	146081802	146081802	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:146081802delA	uc003weu.1	+							NM_014141	NP_054860			cell recognition molecule Caspr2 precursor						behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)												HNSCC(39;0.1)			---	---	---	---
CNTNAP2	26047	broad.mit.edu	37	7	146353029	146353029	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:146353029delA	uc003weu.1	+							NM_014141	NP_054860			cell recognition molecule Caspr2 precursor						behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)												HNSCC(39;0.1)			---	---	---	---
CNTNAP2	26047	broad.mit.edu	37	7	146850186	146850186	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:146850186delA	uc003weu.1	+							NM_014141	NP_054860			cell recognition molecule Caspr2 precursor						behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)												HNSCC(39;0.1)			---	---	---	---
CNTNAP2	26047	broad.mit.edu	37	7	146854076	146854076	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:146854076delA	uc003weu.1	+							NM_014141	NP_054860			cell recognition molecule Caspr2 precursor						behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)												HNSCC(39;0.1)			---	---	---	---
CNTNAP2	26047	broad.mit.edu	37	7	147138287	147138287	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:147138287delT	uc003weu.1	+							NM_014141	NP_054860			cell recognition molecule Caspr2 precursor						behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)												HNSCC(39;0.1)			---	---	---	---
CNTNAP2	26047	broad.mit.edu	37	7	147333878	147333878	+	Intron	DEL	G	-	-	rs150929620	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:147333878delG	uc003weu.1	+							NM_014141	NP_054860			cell recognition molecule Caspr2 precursor						behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)												HNSCC(39;0.1)			---	---	---	---
CNTNAP2	26047	broad.mit.edu	37	7	148110928	148110929	+	Intron	INS	-	AACA	AACA	rs145395853	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:148110928_148110929insAACA	uc003weu.1	+						CNTNAP2_uc003wev.1_Intron	NM_014141	NP_054860			cell recognition molecule Caspr2 precursor						behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)												HNSCC(39;0.1)			---	---	---	---
Unknown	0	broad.mit.edu	37	7	148165030	148165030	+	IGR	DEL	A	-	-	rs11324742		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:148165030delA								CNTNAP2 (46944 upstream) : C7orf33 (122627 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	149580621	149580621	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:149580621delA								ATP6V0E2 (2835 upstream) : ACTR3C (363681 downstream)																																	OREG0018428	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	149742833	149742833	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:149742833delT								ATP6V0E2 (165047 upstream) : ACTR3C (201469 downstream)																																			---	---	---	---
LOC728743	728743	broad.mit.edu	37	7	150106231	150106232	+	Intron	DEL	GA	-	-	rs72573469		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150106231_150106232delGA	uc003whg.2	+						LOC728743_uc011kus.1_Intron|LOC728743_uc011kut.1_Intron					Homo sapiens primary neuroblastoma cDNA, clone:Nbla00433, full insert sequence.												0																		---	---	---	---
ATG9B	285973	broad.mit.edu	37	7	150719079	150719080	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150719079_150719080delTT	uc011kvc.1	-						ATG9B_uc003wig.3_Intron	NM_173681	NP_775952			ATG9 autophagy related 9 homolog B						autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane				ovary(1)	1	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)														---	---	---	---
ASB10	136371	broad.mit.edu	37	7	150880225	150880225	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150880225delT	uc003wjm.1	-						ASB10_uc003wjl.1_Intron|ASB10_uc003wjn.1_Intron	NM_001142459	NP_001135931			ankyrin repeat and SOCS box-containing 10						intracellular signal transduction						0			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	151009859	151009860	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151009859_151009860delTG								SMARCD3 (35628 upstream) : NUB1 (28998 downstream)																																			---	---	---	---
NUB1	51667	broad.mit.edu	37	7	151059327	151059327	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151059327delT	uc003wjx.2	+						NUB1_uc003wjw.2_Intron|NUB1_uc003wjy.2_RNA|NUB1_uc010lqc.2_Intron	NM_016118	NP_057202			NEDD8 ultimate buster-1						positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|response to interferon-gamma|response to tumor necrosis factor|ubiquitin-dependent protein catabolic process	nucleus	protein binding				0			OV - Ovarian serous cystadenocarcinoma(82;0.00569)	UCEC - Uterine corpus endometrioid carcinoma (81;0.172)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	151231609	151231611	+	IGR	DEL	TTC	-	-	rs76131566		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151231609_151231611delTTC								RHEB (14599 upstream) : PRKAG2 (21592 downstream)																																			---	---	---	---
PRKAG2	51422	broad.mit.edu	37	7	151305913	151305913	+	Intron	DEL	T	-	-	rs67353252		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151305913delT	uc003wkk.2	-						PRKAG2_uc003wki.2_Intron|PRKAG2_uc011kvl.1_Intron|PRKAG2_uc003wkj.2_Intron|PRKAG2_uc010lqe.1_Intron	NM_016203	NP_057287			AMP-activated protein kinase gamma2 subunit						ATP biosynthetic process|carnitine shuttle|cell cycle arrest|fatty acid biosynthetic process|glycogen metabolic process|insulin receptor signaling pathway|intracellular protein kinase cascade|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein kinase activity|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation|regulation of glucose import|regulation of glycolysis|sterol biosynthetic process	AMP-activated protein kinase complex|cytosol|nucleoplasm	ADP binding|ATP binding|cAMP-dependent protein kinase inhibitor activity|cAMP-dependent protein kinase regulator activity|phosphorylase kinase regulator activity|protein kinase activator activity|protein kinase binding			breast(1)|kidney(1)	2	all_neural(206;0.187)	all_hematologic(28;0.0605)	OV - Ovarian serous cystadenocarcinoma(82;0.00252)	UCEC - Uterine corpus endometrioid carcinoma (81;0.185)														---	---	---	---
PRKAG2	51422	broad.mit.edu	37	7	151377217	151377218	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151377217_151377218delTG	uc003wkk.2	-						PRKAG2_uc011kvl.1_Intron|PRKAG2_uc003wkj.2_Intron|PRKAG2_uc010lqe.1_Intron|PRKAG2_uc003wkm.1_Intron	NM_016203	NP_057287			AMP-activated protein kinase gamma2 subunit						ATP biosynthetic process|carnitine shuttle|cell cycle arrest|fatty acid biosynthetic process|glycogen metabolic process|insulin receptor signaling pathway|intracellular protein kinase cascade|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein kinase activity|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation|regulation of glucose import|regulation of glycolysis|sterol biosynthetic process	AMP-activated protein kinase complex|cytosol|nucleoplasm	ADP binding|ATP binding|cAMP-dependent protein kinase inhibitor activity|cAMP-dependent protein kinase regulator activity|phosphorylase kinase regulator activity|protein kinase activator activity|protein kinase binding			breast(1)|kidney(1)	2	all_neural(206;0.187)	all_hematologic(28;0.0605)	OV - Ovarian serous cystadenocarcinoma(82;0.00252)	UCEC - Uterine corpus endometrioid carcinoma (81;0.185)														---	---	---	---
PRKAG2	51422	broad.mit.edu	37	7	151529314	151529321	+	Intron	DEL	GAAGGAGA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151529314_151529321delGAAGGAGA	uc003wkk.2	-						PRKAG2_uc010lqe.1_Intron|PRKAG2_uc003wkm.1_Intron	NM_016203	NP_057287			AMP-activated protein kinase gamma2 subunit						ATP biosynthetic process|carnitine shuttle|cell cycle arrest|fatty acid biosynthetic process|glycogen metabolic process|insulin receptor signaling pathway|intracellular protein kinase cascade|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein kinase activity|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation|regulation of glucose import|regulation of glycolysis|sterol biosynthetic process	AMP-activated protein kinase complex|cytosol|nucleoplasm	ADP binding|ATP binding|cAMP-dependent protein kinase inhibitor activity|cAMP-dependent protein kinase regulator activity|phosphorylase kinase regulator activity|protein kinase activator activity|protein kinase binding			breast(1)|kidney(1)	2	all_neural(206;0.187)	all_hematologic(28;0.0605)	OV - Ovarian serous cystadenocarcinoma(82;0.00252)	UCEC - Uterine corpus endometrioid carcinoma (81;0.185)														---	---	---	---
MLL3	58508	broad.mit.edu	37	7	152020923	152020924	+	Intron	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152020923_152020924delGA	uc003wla.2	-							NM_170606	NP_733751			myeloid/lymphoid or mixed-lineage leukemia 3						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								---	---	---	---
MLL3	58508	broad.mit.edu	37	7	152026662	152026662	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152026662delA	uc003wla.2	-							NM_170606	NP_733751			myeloid/lymphoid or mixed-lineage leukemia 3						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								---	---	---	---
Unknown	0	broad.mit.edu	37	7	152400325	152400325	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152400325delT								XRCC2 (27075 upstream) : ACTR3B (56526 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	152680262	152680262	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152680262delA								ACTR3B (127799 upstream) : DPP6 (904157 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	153155257	153155258	+	IGR	DEL	AC	-	-	rs147278913		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:153155257_153155258delAC								ACTR3B (602794 upstream) : DPP6 (429161 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	153501139	153501142	+	IGR	DEL	TTTT	-	-	rs35433180		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:153501139_153501142delTTTT								ACTR3B (948676 upstream) : DPP6 (83277 downstream)																																			---	---	---	---
DPP6	1804	broad.mit.edu	37	7	153609195	153609195	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:153609195delA	uc003wli.2	+							NM_001039350	NP_001034439			dipeptidyl-peptidase 6 isoform 3						cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)															---	---	---	---
DPP6	1804	broad.mit.edu	37	7	153694116	153694117	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:153694116_153694117delCT	uc003wli.2	+							NM_001039350	NP_001034439			dipeptidyl-peptidase 6 isoform 3						cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)															---	---	---	---
DPP6	1804	broad.mit.edu	37	7	153717196	153717197	+	Intron	INS	-	AC	AC	rs142853735	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:153717196_153717197insAC	uc003wli.2	+							NM_001039350	NP_001034439			dipeptidyl-peptidase 6 isoform 3						cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)															---	---	---	---
DPP6	1804	broad.mit.edu	37	7	154539365	154539365	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:154539365delA	uc003wlk.2	+						DPP6_uc003wli.2_Intron|DPP6_uc003wlm.2_Intron|DPP6_uc011kvq.1_Intron	NM_130797	NP_570629			dipeptidyl-peptidase 6 isoform 1						cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)															---	---	---	---
DPP6	1804	broad.mit.edu	37	7	154674894	154674895	+	Intron	INS	-	TG	TG	rs146358170		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:154674894_154674895insTG	uc003wlk.2	+						DPP6_uc003wli.2_Intron|DPP6_uc003wlm.2_Intron|DPP6_uc011kvq.1_Intron	NM_130797	NP_570629			dipeptidyl-peptidase 6 isoform 1						cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)															---	---	---	---
DPP6	1804	broad.mit.edu	37	7	154675717	154675718	+	Intron	DEL	CA	-	-	rs147260123		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:154675717_154675718delCA	uc003wlk.2	+						DPP6_uc003wli.2_Intron|DPP6_uc003wlm.2_Intron|DPP6_uc011kvq.1_Intron	NM_130797	NP_570629			dipeptidyl-peptidase 6 isoform 1						cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)															---	---	---	---
HTR5A	3361	broad.mit.edu	37	7	154876817	154876818	+	3'UTR	DEL	AC	-	-	rs34932101		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:154876817_154876818delAC	uc003wlu.1	+	2						NM_024012	NP_076917			5-hydroxytryptamine receptor 5A							integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)														---	---	---	---
Unknown	0	broad.mit.edu	37	7	155179824	155179824	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:155179824delA	uc003wma.1	+											Homo sapiens cDNA FLJ30260 fis, clone BRACE2002495.																														---	---	---	---
Unknown	0	broad.mit.edu	37	7	155765060	155765060	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:155765060delA								SHH (160093 upstream) : C7orf4 (568125 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	155767737	155767737	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:155767737delA								SHH (162770 upstream) : C7orf4 (565448 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	156150480	156150480	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:156150480delA								SHH (545513 upstream) : C7orf4 (182705 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	156767832	156767832	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:156767832delT								NOM1 (1957 upstream) : MNX1 (18914 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	156865362	156865362	+	IGR	DEL	A	-	-	rs35154961		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:156865362delA								MNX1 (62015 upstream) : UBE3C (66293 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	157301014	157301015	+	IGR	DEL	AG	-	-	rs72044631		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:157301014_157301015delAG								DNAJB6 (90882 upstream) : PTPRN2 (30736 downstream)																																			---	---	---	---
PTPRN2	5799	broad.mit.edu	37	7	157757129	157757130	+	Intron	DEL	AA	-	-	rs75623136		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:157757129_157757130delAA	uc003wno.2	-						PTPRN2_uc003wnp.2_Intron|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Intron|PTPRN2_uc011kwa.1_Intron	NM_002847	NP_002838			protein tyrosine phosphatase, receptor type, N							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)														---	---	---	---
PTPRN2	5799	broad.mit.edu	37	7	157943914	157943917	+	Intron	DEL	CTCT	-	-	rs28580409		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:157943914_157943917delCTCT	uc003wno.2	-						PTPRN2_uc003wnp.2_Intron|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Intron|PTPRN2_uc011kwa.1_Intron	NM_002847	NP_002838			protein tyrosine phosphatase, receptor type, N							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)														---	---	---	---
PTPRN2	5799	broad.mit.edu	37	7	158016521	158016521	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158016521delA	uc003wno.2	-						PTPRN2_uc003wnp.2_Intron|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Intron|PTPRN2_uc011kwa.1_Intron	NM_002847	NP_002838			protein tyrosine phosphatase, receptor type, N							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)														---	---	---	---
PTPRN2	5799	broad.mit.edu	37	7	158259066	158259066	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158259066delT	uc003wno.2	-						PTPRN2_uc003wnp.2_Intron|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Intron|PTPRN2_uc011kwa.1_Intron	NM_002847	NP_002838			protein tyrosine phosphatase, receptor type, N							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)														---	---	---	---
ESYT2	57488	broad.mit.edu	37	7	158575177	158575178	+	Intron	DEL	GT	-	-	rs147703409		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158575177_158575178delGT	uc003wob.1	-						ESYT2_uc003woc.1_Intron|ESYT2_uc003wod.1_Intron	NM_020728	NP_065779			family with sequence similarity 62 (C2 domain							integral to membrane|plasma membrane				central_nervous_system(2)|kidney(1)	3																		---	---	---	---
VIPR2	7434	broad.mit.edu	37	7	158834761	158834761	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158834761delT	uc003woh.2	-						VIPR2_uc010lqx.2_Intron|VIPR2_uc010lqy.2_Intron	NM_003382	NP_003373			vasoactive intestinal peptide receptor 2						cell-cell signaling	integral to plasma membrane				lung(1)|central_nervous_system(1)	2	Ovarian(565;0.152)	all_cancers(7;1.13e-11)|all_epithelial(9;0.000545)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00231)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)|STAD - Stomach adenocarcinoma(7;0.18)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	25964	25964	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:25964delA								None (None upstream) : OR4F21 (90124 downstream)																																			---	---	---	---
FBXO25	26260	broad.mit.edu	37	8	413453	413453	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:413453delC	uc003wox.2	+						FBXO25_uc003woy.2_Intron|FBXO25_uc003woz.2_Intron|FBXO25_uc003wpa.2_Intron	NM_183421	NP_904357			F-box only protein 25 isoform 1							nucleus|SCF ubiquitin ligase complex	actin binding|ubiquitin-protein ligase activity			lung(1)	1		Ovarian(12;0.00965)|Colorectal(14;0.0815)|Myeloproliferative disorder(644;0.116)|all_neural(12;0.122)		Epithelial(5;3.14e-14)|OV - Ovarian serous cystadenocarcinoma(5;1.56e-07)|BRCA - Breast invasive adenocarcinoma(11;1.88e-06)														---	---	---	---
ERICH1	157697	broad.mit.edu	37	8	583305	583306	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:583305_583306insA	uc011kwh.1	-						ERICH1_uc003wpe.1_Intron	NM_207332	NP_997215			glutamate-rich 1											large_intestine(2)	2		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)														---	---	---	---
ERICH1	157697	broad.mit.edu	37	8	604706	604706	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:604706delC	uc011kwh.1	-						ERICH1_uc003wpe.1_Intron	NM_207332	NP_997215			glutamate-rich 1											large_intestine(2)	2		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	729468	729469	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:729468_729469delTT	uc003wpj.1	+											Homo sapiens cDNA clone IMAGE:4824304.																														---	---	---	---
Unknown	0	broad.mit.edu	37	8	821914	821914	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:821914delT	uc003wpj.1	+											Homo sapiens cDNA clone IMAGE:4824304.																														---	---	---	---
DLGAP2	9228	broad.mit.edu	37	8	1463665	1463666	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1463665_1463666delCA	uc003wpl.2	+							NM_004745	NP_004736			discs large-associated protein 2						neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	1965347	1965347	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1965347delG								KBTBD11 (10239 upstream) : MYOM2 (27811 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	1988318	1988319	+	IGR	INS	-	G	G	rs111539395		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1988318_1988319insG								KBTBD11 (33210 upstream) : MYOM2 (4839 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	2184153	2184154	+	IGR	DEL	AT	-	-	rs146032869		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2184153_2184154delAT								MYOM2 (90774 upstream) : CSMD1 (608722 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	2306336	2306336	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2306336delT								MYOM2 (212957 upstream) : CSMD1 (486540 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	2370668	2370668	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2370668delC								MYOM2 (277289 upstream) : CSMD1 (422208 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	2596457	2596457	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2596457delT								MYOM2 (503078 upstream) : CSMD1 (196419 downstream)																																			---	---	---	---
CSMD1	64478	broad.mit.edu	37	8	3224789	3224790	+	Intron	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:3224789_3224790delGA	uc011kwk.1	-						CSMD1_uc011kwj.1_Intron|CSMD1_uc003wqe.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	3509120	3509120	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:3509120delC	uc011kwk.1	-							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	3569793	3569793	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:3569793delT	uc011kwk.1	-							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	3737580	3737580	+	Intron	DEL	T	-	-	rs143414158		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:3737580delT	uc011kwk.1	-							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	4695423	4695423	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:4695423delA	uc011kwk.1	-							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)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	4865499	4865500	+	IGR	DEL	TT	-	-	rs113307532		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:4865499_4865500delTT								CSMD1 (13171 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	5266292	5266293	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:5266292_5266293insA								CSMD1 (413964 upstream) : MCPH1 (997828 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	5652829	5652829	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:5652829delA								CSMD1 (800501 upstream) : MCPH1 (611292 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	5885498	5885498	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:5885498delT								None (None upstream) : MCPH1 (378623 downstream)																																			---	---	---	---
MCPH1	79648	broad.mit.edu	37	8	6473261	6473261	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:6473261delA	uc003wqi.2	+							NM_024596	NP_078872			microcephalin							microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)														---	---	---	---
AGPAT5	55326	broad.mit.edu	37	8	6606846	6606846	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:6606846delA	uc003wqo.2	+						AGPAT5_uc011kwm.1_Intron	NM_018361	NP_060831			1-acylglycerol-3-phosphate O-acyltransferase 5						phospholipid biosynthetic process	integral to membrane|mitochondrion	1-acylglycerol-3-phosphate O-acyltransferase activity				0			STAD - Stomach adenocarcinoma(24;0.0578)	READ - Rectum adenocarcinoma(644;0.156)|COAD - Colon adenocarcinoma(149;0.191)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	6770260	6770260	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:6770260delT								DEFB1 (34731 upstream) : DEFA6 (11961 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	8909167	8909168	+	IGR	INS	-	A	A	rs139900633		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:8909167_8909168insA								ERI1 (18318 upstream) : PPP1R3B (84606 downstream)																																			---	---	---	---
PPP1R3B	79660	broad.mit.edu	37	8	9005900	9005901	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:9005900_9005901delAA	uc003wsn.3	-						PPP1R3B_uc003wso.3_Intron	NM_024607	NP_078883			protein phosphatase 1, regulatory (inhibitor)						glycogen metabolic process					ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(149;0.0717)|READ - Rectum adenocarcinoma(644;0.241)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	9043355	9043355	+	IGR	DEL	T	-	-	rs10088196	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:9043355delT								PPP1R3B (34271 upstream) : TNKS (370090 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	9224649	9224649	+	IGR	DEL	A	-	-	rs35400515		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:9224649delA								PPP1R3B (215565 upstream) : TNKS (188796 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	9247518	9247518	+	IGR	DEL	T	-	-	rs10712880		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:9247518delT								PPP1R3B (238434 upstream) : TNKS (165927 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	9275809	9275809	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:9275809delC								PPP1R3B (266725 upstream) : TNKS (137636 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	9310667	9310667	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:9310667delA								PPP1R3B (301583 upstream) : TNKS (102778 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	9385721	9385721	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:9385721delA								PPP1R3B (376637 upstream) : TNKS (27724 downstream)																																			---	---	---	---
MSRA	4482	broad.mit.edu	37	8	10102516	10102516	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10102516delT	uc003wsx.2	+						MSRA_uc011kwx.1_Intron|MSRA_uc011kwy.1_Intron|MSRA_uc003wsz.2_Intron|MSRA_uc003wsy.2_Intron	NM_012331	NP_036463			methionine sulfoxide reductase A isoform a						methionine metabolic process|protein modification process|response to oxidative stress	mitochondrion|nucleus	peptide-methionine-(S)-S-oxide reductase activity				0		Myeloproliferative disorder(644;0.178)			L-Methionine(DB00134)													---	---	---	---
MSRA	4482	broad.mit.edu	37	8	10102826	10102826	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10102826delT	uc003wsx.2	+						MSRA_uc011kwx.1_Intron|MSRA_uc011kwy.1_Intron|MSRA_uc003wsz.2_Intron|MSRA_uc003wsy.2_Intron	NM_012331	NP_036463			methionine sulfoxide reductase A isoform a						methionine metabolic process|protein modification process|response to oxidative stress	mitochondrion|nucleus	peptide-methionine-(S)-S-oxide reductase activity				0		Myeloproliferative disorder(644;0.178)			L-Methionine(DB00134)													---	---	---	---
Unknown	0	broad.mit.edu	37	8	10331706	10331706	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10331706delT								MSRA (45307 upstream) : PRSS55 (51375 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	10414012	10414013	+	IGR	DEL	AA	-	-	rs80033715		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10414012_10414013delAA								PRSS55 (11305 upstream) : RP1L1 (49849 downstream)																																			---	---	---	---
RP1L1	94137	broad.mit.edu	37	8	10478117	10478117	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10478117delA	uc003wtc.2	-							NM_178857	NP_849188			retinitis pigmentosa 1-like 1						intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)														---	---	---	---
SOX7	83595	broad.mit.edu	37	8	10687201	10687201	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10687201delT	uc011kwz.1	-						PINX1_uc003wth.2_Intron|PINX1_uc003wti.2_Intron	NM_031439	NP_113627			SRY-box 7						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)														---	---	---	---
XKR6	286046	broad.mit.edu	37	8	10764851	10764851	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10764851delT	uc003wtk.1	-							NM_173683	NP_775954			XK, Kell blood group complex subunit-related							integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)														---	---	---	---
XKR6	286046	broad.mit.edu	37	8	11047512	11047512	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11047512delA	uc003wtk.1	-							NM_173683	NP_775954			XK, Kell blood group complex subunit-related							integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)														---	---	---	---
MTMR9	66036	broad.mit.edu	37	8	11146996	11146996	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11146996delT	uc003wtm.2	+						MTMR9_uc010lrx.2_Intron|MTMR9_uc011kxa.1_Intron	NM_015458	NP_056273			myotubularin related protein 9							cytoplasm	phosphatase activity|protein binding				0			STAD - Stomach adenocarcinoma(15;0.215)	COAD - Colon adenocarcinoma(149;0.0678)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	11479639	11479639	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11479639delT								BLK (57532 upstream) : GATA4 (54829 downstream)																																			---	---	---	---
GATA4	2626	broad.mit.edu	37	8	11534354	11534354	+	5'Flank	DEL	A	-	-	rs33960237		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11534354delA	uc003wub.1	+						GATA4_uc011kxb.1_5'Flank	NM_002052	NP_002043			GATA binding protein 4						atrial septum primum morphogenesis|atrial septum secundum morphogenesis|blood coagulation|cardiac right ventricle morphogenesis|cell-cell signaling|embryonic foregut morphogenesis|embryonic heart tube anterior/posterior pattern formation|endocardial cushion development|endoderm development|heart looping|intestinal epithelial cell differentiation|male gonad development|positive regulation of angiogenesis|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|response to drug|transcription from RNA polymerase II promoter|ventricular septum development	nucleoplasm	activating transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(15;0.0839)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.199)														---	---	---	---
GATA4	2626	broad.mit.edu	37	8	11570562	11570562	+	Intron	DEL	T	-	-	rs35874748		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11570562delT	uc003wuc.2	+						GATA4_uc003wub.1_Intron|GATA4_uc011kxc.1_Intron	NM_002052	NP_002043			GATA binding protein 4						atrial septum primum morphogenesis|atrial septum secundum morphogenesis|blood coagulation|cardiac right ventricle morphogenesis|cell-cell signaling|embryonic foregut morphogenesis|embryonic heart tube anterior/posterior pattern formation|endocardial cushion development|endoderm development|heart looping|intestinal epithelial cell differentiation|male gonad development|positive regulation of angiogenesis|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|response to drug|transcription from RNA polymerase II promoter|ventricular septum development	nucleoplasm	activating transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(15;0.0839)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.199)														---	---	---	---
FDFT1	2222	broad.mit.edu	37	8	11667982	11667982	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11667982delC	uc003wui.2	+						FDFT1_uc003wuh.2_Intron|FDFT1_uc010lsa.1_Intron|FDFT1_uc011kxe.1_Intron|FDFT1_uc011kxf.1_Intron|FDFT1_uc011kxg.1_Intron|FDFT1_uc003wuj.2_Intron|FDFT1_uc010lsb.2_Intron|FDFT1_uc011kxh.1_Intron|FDFT1_uc011kxi.1_Intron|FDFT1_uc011kxj.1_Intron|FDFT1_uc003wuk.2_Intron|FDFT1_uc011kxk.1_Intron	NM_004462	NP_004453			squalene synthase						cholesterol biosynthetic process|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	farnesyl-diphosphate farnesyltransferase activity|oxidoreductase activity|protein binding|squalene synthase activity				0	all_epithelial(15;0.234)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.18)														---	---	---	---
FDFT1	2222	broad.mit.edu	37	8	11685629	11685629	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11685629delA	uc003wui.2	+						FDFT1_uc003wuh.2_Intron|FDFT1_uc010lsa.1_Intron|FDFT1_uc011kxe.1_Intron|FDFT1_uc011kxf.1_Intron|FDFT1_uc011kxg.1_Intron|FDFT1_uc003wuj.2_Intron|FDFT1_uc010lsb.2_Intron|FDFT1_uc011kxh.1_Intron|FDFT1_uc011kxi.1_Intron|FDFT1_uc011kxj.1_Intron|FDFT1_uc003wuk.2_Intron|FDFT1_uc011kxk.1_Intron	NM_004462	NP_004453			squalene synthase						cholesterol biosynthetic process|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	farnesyl-diphosphate farnesyltransferase activity|oxidoreductase activity|protein binding|squalene synthase activity				0	all_epithelial(15;0.234)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.18)														---	---	---	---
LOC340357	340357	broad.mit.edu	37	8	12668861	12668861	+	Intron	DEL	A	-	-	rs77799741		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:12668861delA	uc003wwf.3	-						LOC340357_uc003wwe.3_Intron	NR_015383				Homo sapiens cDNA clone IMAGE:3922201.												0																		---	---	---	---
DLC1	10395	broad.mit.edu	37	8	13058120	13058120	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:13058120delT	uc003wwm.2	-						DLC1_uc003wwl.1_Intron	NM_182643	NP_872584			deleted in liver cancer 1 isoform 1						actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7																		---	---	---	---
DLC1	10395	broad.mit.edu	37	8	13058648	13058648	+	Intron	DEL	A	-	-	rs5889426		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:13058648delA	uc003wwm.2	-						DLC1_uc003wwl.1_Intron	NM_182643	NP_872584			deleted in liver cancer 1 isoform 1						actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7																		---	---	---	---
DLC1	10395	broad.mit.edu	37	8	13280308	13280308	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:13280308delA	uc003wwm.2	-						DLC1_uc003wwn.2_Intron|DLC1_uc011kxy.1_Intron	NM_182643	NP_872584			deleted in liver cancer 1 isoform 1						actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	13394255	13394255	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:13394255delT								DLC1 (21826 upstream) : C8orf48 (30097 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	13412838	13412838	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:13412838delT								DLC1 (40409 upstream) : C8orf48 (11514 downstream)																																			---	---	---	---
C8orf48	157773	broad.mit.edu	37	8	13425581	13425581	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:13425581delT	uc003wwp.2	+	1						NM_001007090	NP_001007091			hypothetical protein LOC157773								protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	13512617	13512617	+	IGR	DEL	A	-	-	rs112897704		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:13512617delA								C8orf48 (86821 upstream) : SGCZ (434757 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	13669597	13669598	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:13669597_13669598insA								C8orf48 (243801 upstream) : SGCZ (277776 downstream)																																			---	---	---	---
SGCZ	137868	broad.mit.edu	37	8	14055059	14055059	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:14055059delA	uc003wwq.2	-						SGCZ_uc010lss.2_Intron	NM_139167	NP_631906			sarcoglycan zeta						cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)														---	---	---	---
SGCZ	137868	broad.mit.edu	37	8	14147838	14147838	+	Intron	DEL	T	-	-	rs34389354		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:14147838delT	uc003wwq.2	-						SGCZ_uc010lss.2_Intron	NM_139167	NP_631906			sarcoglycan zeta						cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)														---	---	---	---
SGCZ	137868	broad.mit.edu	37	8	14389199	14389199	+	Intron	DEL	T	-	-	rs73190285	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:14389199delT	uc003wwq.2	-						SGCZ_uc010lss.2_Intron	NM_139167	NP_631906			sarcoglycan zeta						cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)														---	---	---	---
SGCZ	137868	broad.mit.edu	37	8	14414416	14414416	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:14414416delT	uc003wwq.2	-						SGCZ_uc010lss.2_5'Flank	NM_139167	NP_631906			sarcoglycan zeta						cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)														---	---	---	---
SGCZ	137868	broad.mit.edu	37	8	14681539	14681539	+	Intron	DEL	A	-	-	rs12678018		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:14681539delA	uc003wwq.2	-							NM_139167	NP_631906			sarcoglycan zeta						cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	15339248	15339248	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:15339248delA								SGCZ (243456 upstream) : TUSC3 (58482 downstream)																																			---	---	---	---
TUSC3	7991	broad.mit.edu	37	8	15451683	15451683	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:15451683delT	uc003wwt.2	+						TUSC3_uc003wwr.2_Intron|TUSC3_uc003wws.2_Intron|TUSC3_uc003wwu.2_Intron|TUSC3_uc003wwv.2_Intron|TUSC3_uc003www.2_Intron|TUSC3_uc003wwx.2_Intron|TUSC3_uc003wwy.2_Intron	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)														---	---	---	---
TUSC3	7991	broad.mit.edu	37	8	15482756	15482756	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:15482756delT	uc003wwt.2	+						TUSC3_uc003wwr.2_Intron|TUSC3_uc003wws.2_Intron|TUSC3_uc003wwu.2_Intron|TUSC3_uc003wwv.2_Intron|TUSC3_uc003www.2_Intron|TUSC3_uc003wwx.2_Intron|TUSC3_uc003wwy.2_Intron	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)														---	---	---	---
TUSC3	7991	broad.mit.edu	37	8	15573878	15573878	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:15573878delA	uc003wwt.2	+						TUSC3_uc003wws.2_Intron|TUSC3_uc003wwu.2_Intron|TUSC3_uc003wwv.2_Intron|TUSC3_uc003www.2_Intron|TUSC3_uc003wwx.2_Intron|TUSC3_uc003wwy.2_Intron	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)														---	---	---	---
TUSC3	7991	broad.mit.edu	37	8	15577039	15577039	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:15577039delA	uc003wwt.2	+						TUSC3_uc003wws.2_Intron|TUSC3_uc003wwu.2_Intron|TUSC3_uc003wwv.2_Intron|TUSC3_uc003www.2_Intron|TUSC3_uc003wwx.2_Intron|TUSC3_uc003wwy.2_Intron	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	15654864	15654865	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:15654864_15654865insT								TUSC3 (32871 upstream) : MSR1 (310523 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	15899618	15899619	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:15899618_15899619insT								TUSC3 (277625 upstream) : MSR1 (65769 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	16172748	16172748	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:16172748delA								MSR1 (122448 upstream) : FGF20 (677586 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	16384098	16384099	+	IGR	DEL	AA	-	-	rs71763218		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:16384098_16384099delAA								MSR1 (333798 upstream) : FGF20 (466235 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	16670030	16670030	+	IGR	DEL	A	-	-	rs11308298		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:16670030delA								MSR1 (619730 upstream) : FGF20 (180304 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	16785662	16785665	+	IGR	DEL	AAAA	-	-	rs33933558		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:16785662_16785665delAAAA								MSR1 (735362 upstream) : FGF20 (64669 downstream)																																			---	---	---	---
ZDHHC2	51201	broad.mit.edu	37	8	17040268	17040268	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17040268delT	uc003wxe.2	+							NM_016353	NP_057437			zinc finger, DHHC-type containing 2							integral to membrane	acyltransferase activity|zinc ion binding				0				Colorectal(111;0.0697)|COAD - Colon adenocarcinoma(73;0.244)														---	---	---	---
VPS37A	137492	broad.mit.edu	37	8	17111620	17111620	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17111620delT	uc003wxj.2	+						VPS37A_uc003wxk.2_Intron	NM_152415	NP_689628			hepatocellular carcinoma related protein 1						cellular membrane organization|endosome transport|protein transport	centrosome|late endosome membrane|nucleus					0				Colorectal(111;0.0553)|COAD - Colon adenocarcinoma(73;0.212)														---	---	---	---
PDGFRL	5157	broad.mit.edu	37	8	17486241	17486241	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17486241delG	uc003wxr.2	+	4	812	c.751delG	c.(751-753)GGGfs	p.G251fs		NM_006207	NP_006198	Q15198	PGFRL_HUMAN	platelet-derived growth factor receptor-like	251						extracellular region	platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity				0				Colorectal(111;0.0752)														---	---	---	---
MTUS1	57509	broad.mit.edu	37	8	17540780	17540781	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17540780_17540781insA	uc003wxv.2	-						MTUS1_uc003wxt.2_Intron|MTUS1_uc011kyg.1_Intron|MTUS1_uc010lsy.2_Intron|MTUS1_uc003wxw.2_Intron|MTUS1_uc003wxs.2_Intron|hsa-mir-548v|MI0014174_5'Flank	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)														---	---	---	---
MTUS1	57509	broad.mit.edu	37	8	17581721	17581721	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17581721delA	uc003wxv.2	-						MTUS1_uc003wxt.2_5'Flank|MTUS1_uc011kyg.1_5'Flank|MTUS1_uc010lsy.2_Intron|MTUS1_uc003wxw.2_Intron|MTUS1_uc010lsz.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)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	17677871	17677871	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17677871delA								MTUS1 (19445 upstream) : FGL1 (44031 downstream)																																			---	---	---	---
FGL1	2267	broad.mit.edu	37	8	17731464	17731464	+	Intron	DEL	A	-	-	rs72051707		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17731464delA	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)														---	---	---	---
NAT1	9	broad.mit.edu	37	8	18055675	18055675	+	Intron	DEL	A	-	-	rs145350863		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:18055675delA	uc010ltd.2	+							NM_001160179	NP_001153651			N-acetyltransferase 1 isoform a						xenobiotic metabolic process	cytosol	arylamine N-acetyltransferase activity				0				Colorectal(111;0.0519)|COAD - Colon adenocarcinoma(73;0.208)														---	---	---	---
NAT1	9	broad.mit.edu	37	8	18069322	18069326	+	Intron	DEL	GAAAA	-	-	rs150371189		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:18069322_18069326delGAAAA	uc010ltd.2	+						NAT1_uc003wyt.2_Intron|NAT1_uc003wyu.2_Intron|NAT1_uc003wyv.2_Intron|NAT1_uc010ltc.2_Intron|NAT1_uc003wys.2_Intron|NAT1_uc003wyr.2_Intron|NAT1_uc003wyq.2_Intron	NM_001160179	NP_001153651			N-acetyltransferase 1 isoform a						xenobiotic metabolic process	cytosol	arylamine N-acetyltransferase activity				0				Colorectal(111;0.0519)|COAD - Colon adenocarcinoma(73;0.208)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	18083692	18083692	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:18083692delT								NAT1 (2495 upstream) : NAT2 (165063 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	18132890	18132890	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:18132890delT								NAT1 (51693 upstream) : NAT2 (115865 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	18310500	18310502	+	IGR	DEL	ATT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:18310500_18310502delATT								NAT2 (51777 upstream) : PSD3 (74312 downstream)																																			---	---	---	---
PSD3	23362	broad.mit.edu	37	8	18529803	18529803	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:18529803delA	uc003wza.2	-						PSD3_uc003wyx.3_Intron|PSD3_uc003wyy.2_Intron|PSD3_uc003wyz.2_Intron	NM_015310	NP_056125			ADP-ribosylation factor guanine nucleotide						regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)														---	---	---	---
PSD3	23362	broad.mit.edu	37	8	18686581	18686581	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:18686581delA	uc003wza.2	-							NM_015310	NP_056125			ADP-ribosylation factor guanine nucleotide						regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)														---	---	---	---
CSGALNACT1	55790	broad.mit.edu	37	8	19380943	19380944	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:19380943_19380944delTT	uc011kyn.1	-						CSGALNACT1_uc011kyo.1_Intron|CSGALNACT1_uc003wzg.2_Intron|CSGALNACT1_uc011kyp.1_Intron|CSGALNACT1_uc003wzh.2_Intron	NM_001130518	NP_001123990			chondroitin sulfate						anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)														---	---	---	---
CSGALNACT1	55790	broad.mit.edu	37	8	19402515	19402517	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:19402515_19402517delTTT	uc011kyn.1	-						CSGALNACT1_uc011kyo.1_Intron|CSGALNACT1_uc003wzg.2_Intron|CSGALNACT1_uc011kyp.1_Intron|CSGALNACT1_uc003wzh.2_Intron	NM_001130518	NP_001123990			chondroitin sulfate						anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)														---	---	---	---
CSGALNACT1	55790	broad.mit.edu	37	8	19498393	19498393	+	Intron	DEL	T	-	-	rs68005846		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:19498393delT	uc011kyo.1	-						CSGALNACT1_uc003wzg.2_Intron|CSGALNACT1_uc011kyp.1_Intron	NM_018371	NP_060841			chondroitin sulfate						anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	20097181	20097181	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:20097181delG								ATP6V1B2 (17976 upstream) : LZTS1 (6496 downstream)																																			---	---	---	---
LZTS1	11178	broad.mit.edu	37	8	20114871	20114871	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:20114871delA	uc003wzr.2	-						LZTS1_uc010ltg.1_5'Flank	NM_021020	NP_066300			leucine zipper, putative tumor suppressor 1						cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	20245806	20245806	+	IGR	DEL	T	-	-	rs1484800	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:20245806delT								LZTS1 (133003 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	20250131	20250131	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:20250131delT								LZTS1 (137328 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	20340032	20340032	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:20340032delA								LZTS1 (227229 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	20563398	20563398	+	IGR	DEL	A	-	-	rs2597396	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:20563398delA								LZTS1 (450595 upstream) : GFRA2 (986132 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	20950128	20950128	+	IGR	DEL	A	-	-	rs72140172		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:20950128delA								LZTS1 (837325 upstream) : GFRA2 (599402 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	21024139	21024139	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21024139delG								LZTS1 (911336 upstream) : GFRA2 (525391 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	21273826	21273826	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21273826delA								None (None upstream) : GFRA2 (275704 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	21333631	21333631	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21333631delA								None (None upstream) : GFRA2 (215899 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	21344591	21344592	+	IGR	DEL	AA	-	-	rs139376874		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21344591_21344592delAA								None (None upstream) : GFRA2 (204938 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	21479538	21479538	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21479538delA								None (None upstream) : GFRA2 (69992 downstream)																																			---	---	---	---
GFRA2	2675	broad.mit.edu	37	8	21604309	21604309	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21604309delA	uc003wzu.1	-						GFRA2_uc003wzv.1_Intron|GFRA2_uc003wzw.1_Intron|DOK2_uc003wzx.1_Intron	NM_001495	NP_001486			GDNF family receptor alpha 2 isoform a							anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity				0				Colorectal(74;0.0189)|COAD - Colon adenocarcinoma(73;0.0727)														---	---	---	---
PIWIL2	55124	broad.mit.edu	37	8	22173617	22173618	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:22173617_22173618insT	uc003xbn.2	+						PIWIL2_uc011kzf.1_Intron|PIWIL2_uc010ltv.2_Intron	NM_018068	NP_060538			piwi-like 2						DNA methylation involved in gamete generation|gene silencing by RNA|germ-line stem cell maintenance|multicellular organismal development|oogenesis|piRNA metabolic process|positive regulation of translation|RNA 5'-end processing|spermatogenesis	chromatoid body|pi-body	piRNA binding			skin(1)	1				Colorectal(74;0.018)|COAD - Colon adenocarcinoma(73;0.0707)														---	---	---	---
SLC39A14	23516	broad.mit.edu	37	8	22230478	22230478	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:22230478delA	uc003xbq.3	+						SLC39A14_uc011kzg.1_Intron|SLC39A14_uc003xbp.3_Intron|SLC39A14_uc011kzh.1_Intron	NM_001128431	NP_001121903			solute carrier family 39 (zinc transporter),							endoplasmic reticulum|Golgi apparatus|integral to membrane|lamellipodium|plasma membrane	zinc ion transmembrane transporter activity				0				Colorectal(74;0.019)|COAD - Colon adenocarcinoma(73;0.0731)														---	---	---	---
SLC39A14	23516	broad.mit.edu	37	8	22248227	22248227	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:22248227delT	uc003xbq.3	+						SLC39A14_uc011kzg.1_Intron|SLC39A14_uc003xbp.3_Intron|SLC39A14_uc011kzh.1_Intron	NM_001128431	NP_001121903			solute carrier family 39 (zinc transporter),							endoplasmic reticulum|Golgi apparatus|integral to membrane|lamellipodium|plasma membrane	zinc ion transmembrane transporter activity				0				Colorectal(74;0.019)|COAD - Colon adenocarcinoma(73;0.0731)														---	---	---	---
PPP3CC	5533	broad.mit.edu	37	8	22392934	22392934	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:22392934delT	uc003xbs.2	+						PPP3CC_uc011kzi.1_Intron|PPP3CC_uc003xbt.2_Intron|PPP3CC_uc011kzj.1_Intron	NM_005605	NP_005596			protein phosphatase 3, catalytic subunit, gamma						activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals	cytosol	calmodulin binding|metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		Prostate(55;0.104)		BRCA - Breast invasive adenocarcinoma(99;0.00756)|Colorectal(74;0.0238)|COAD - Colon adenocarcinoma(73;0.0835)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	22798004	22798005	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:22798004_22798005delTT								PEBP4 (12583 upstream) : RHOBTB2 (46925 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	22817813	22817817	+	IGR	DEL	CCCTC	-	-	rs71546840		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:22817813_22817817delCCCTC								PEBP4 (32392 upstream) : RHOBTB2 (27113 downstream)																																			---	---	---	---
TNFRSF10D	8793	broad.mit.edu	37	8	23013708	23013708	+	Intron	DEL	T	-	-	rs112438726		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:23013708delT	uc003xcz.1	-							NM_003840	NP_003831			tumor necrosis factor receptor superfamily,						anti-apoptosis|apoptosis	integral to membrane	TRAIL binding|transmembrane receptor activity				0		Prostate(55;0.0421)|Breast(100;0.067)		Colorectal(74;0.0147)|COAD - Colon adenocarcinoma(73;0.0612)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	23323095	23323095	+	IGR	DEL	T	-	-	rs111606456		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:23323095delT								ENTPD4 (7851 upstream) : SLC25A37 (63268 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	23379035	23379035	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:23379035delA								ENTPD4 (63791 upstream) : SLC25A37 (7328 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	23508979	23508983	+	IGR	DEL	TTTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:23508979_23508983delTTTTT								SLC25A37 (78918 upstream) : NKX3-1 (27224 downstream)																																			---	---	---	---
ADAM7	8756	broad.mit.edu	37	8	24339566	24339566	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:24339566delT	uc003xeb.2	+						ADAM7_uc003xec.2_Intron	NM_003817	NP_003808			a disintegrin and metalloproteinase domain 7						proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	24493379	24493380	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:24493379_24493380insA								ADAM7 (108898 upstream) : NEFM (277894 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	24518003	24518004	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:24518003_24518004delCT								ADAM7 (133522 upstream) : NEFM (253270 downstream)																																			---	---	---	---
DOCK5	80005	broad.mit.edu	37	8	25257417	25257417	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:25257417delT	uc003xeg.2	+						PPP2R2A_uc003xek.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)														---	---	---	---
KCTD9	54793	broad.mit.edu	37	8	25287255	25287255	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:25287255delT	uc003xeo.2	-	12					PPP2R2A_uc003xek.2_Intron|KCTD9_uc011lad.1_RNA	NM_017634	NP_060104			potassium channel tetramerisation domain							voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		all_cancers(63;0.0164)|Ovarian(32;0.000878)|all_epithelial(46;0.00542)|Breast(100;0.0164)|Hepatocellular(4;0.114)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Epithelial(17;2.39e-12)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0438)														---	---	---	---
EBF2	64641	broad.mit.edu	37	8	25809646	25809646	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:25809646delA	uc003xes.1	-						PPP2R2A_uc003xek.2_Intron	NM_022659	NP_073150			early B-cell factor 2						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)														---	---	---	---
EBF2	64641	broad.mit.edu	37	8	25888087	25888088	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:25888087_25888088delAA	uc003xes.1	-						PPP2R2A_uc003xek.2_Intron	NM_022659	NP_073150			early B-cell factor 2						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)														---	---	---	---
EBF2	64641	broad.mit.edu	37	8	25890746	25890746	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:25890746delT	uc003xes.1	-						PPP2R2A_uc003xek.2_Intron|EBF2_uc003xet.1_Intron	NM_022659	NP_073150			early B-cell factor 2						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)														---	---	---	---
PPP2R2A	5520	broad.mit.edu	37	8	25902514	25902515	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:25902514_25902515delAA	uc003xek.2	+						EBF2_uc003xes.1_5'Flank|EBF2_uc003xet.1_5'Flank	NM_002717	NP_002708			alpha isoform of regulatory subunit B55, protein						protein dephosphorylation|signal transduction	protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity			ovary(1)|kidney(1)	2		all_cancers(63;0.086)|Ovarian(32;2.61e-05)|all_epithelial(46;0.0514)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.000754)|Epithelial(17;3.02e-15)|all cancers(2;1.52e-13)|OV - Ovarian serous cystadenocarcinoma(2;1.89e-10)|Colorectal(74;0.155)														---	---	---	---
PPP2R2A	5520	broad.mit.edu	37	8	26075848	26075848	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26075848delT	uc003xek.2	+							NM_002717	NP_002708			alpha isoform of regulatory subunit B55, protein						protein dephosphorylation|signal transduction	protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity			ovary(1)|kidney(1)	2		all_cancers(63;0.086)|Ovarian(32;2.61e-05)|all_epithelial(46;0.0514)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.000754)|Epithelial(17;3.02e-15)|all cancers(2;1.52e-13)|OV - Ovarian serous cystadenocarcinoma(2;1.89e-10)|Colorectal(74;0.155)														---	---	---	---
PPP2R2A	5520	broad.mit.edu	37	8	26085473	26085474	+	Intron	DEL	TT	-	-	rs79815824		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26085473_26085474delTT	uc003xek.2	+							NM_002717	NP_002708			alpha isoform of regulatory subunit B55, protein						protein dephosphorylation|signal transduction	protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity			ovary(1)|kidney(1)	2		all_cancers(63;0.086)|Ovarian(32;2.61e-05)|all_epithelial(46;0.0514)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.000754)|Epithelial(17;3.02e-15)|all cancers(2;1.52e-13)|OV - Ovarian serous cystadenocarcinoma(2;1.89e-10)|Colorectal(74;0.155)														---	---	---	---
PPP2R2A	5520	broad.mit.edu	37	8	26186896	26186896	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26186896delT	uc003xeu.2	+						PPP2R2A_uc003xek.2_Intron|PPP2R2A_uc011laf.1_Intron	NM_002717	NP_002708			alpha isoform of regulatory subunit B55, protein						protein dephosphorylation|signal transduction	protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity			ovary(1)|kidney(1)	2		all_cancers(63;0.086)|Ovarian(32;2.61e-05)|all_epithelial(46;0.0514)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.000754)|Epithelial(17;3.02e-15)|all cancers(2;1.52e-13)|OV - Ovarian serous cystadenocarcinoma(2;1.89e-10)|Colorectal(74;0.155)														---	---	---	---
ADRA1A	148	broad.mit.edu	37	8	26636774	26636774	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26636774delT	uc003xfh.1	-						ADRA1A_uc003xfc.1_Intron|ADRA1A_uc010lul.1_Intron|ADRA1A_uc003xfd.1_Intron|ADRA1A_uc003xfe.1_Intron|ADRA1A_uc010lum.1_Intron|ADRA1A_uc003xff.1_Intron|ADRA1A_uc003xfg.1_Intron	NM_000680	NP_000671			alpha-1A-adrenergic receptor isoform 1						activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)													---	---	---	---
Unknown	0	broad.mit.edu	37	8	26730753	26730753	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26730753delA								ADRA1A (7831 upstream) : MIR548H-4 (175617 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	26746565	26746565	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26746565delT								ADRA1A (23643 upstream) : MIR548H-4 (159805 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	26910931	26910931	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26910931delA								MIR548H-4 (4451 upstream) : STMN4 (182885 downstream)																																			---	---	---	---
PTK2B	2185	broad.mit.edu	37	8	27184928	27184928	+	Intron	DEL	T	-	-	rs67333683		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27184928delT	uc003xfn.1	+						PTK2B_uc003xfo.1_Intron|PTK2B_uc003xfp.1_Intron|PTK2B_uc003xfq.1_Intron	NM_173174	NP_775266			PTK2B protein tyrosine kinase 2 beta isoform a						apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)														---	---	---	---
ESCO2	157570	broad.mit.edu	37	8	27646342	27646342	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27646342delT	uc003xgg.2	+						ESCO2_uc010luy.1_Intron	NM_001017420	NP_001017420			establishment of cohesion 1 homolog 2						cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding			central_nervous_system(1)	1		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|KIRC - Kidney renal clear cell carcinoma(542;0.0955)|Kidney(114;0.115)|Colorectal(74;0.132)										SC_Phocomelia_syndrome				---	---	---	---
PBK	55872	broad.mit.edu	37	8	27690542	27690542	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27690542delA	uc003xgi.2	-						PBK_uc011lap.1_Intron	NM_018492	NP_060962			PDZ binding kinase						mitosis		ATP binding|protein binding|protein serine/threonine kinase activity				0		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|KIRC - Kidney renal clear cell carcinoma(542;0.101)|Kidney(114;0.121)|Colorectal(74;0.141)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	27724130	27724130	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27724130delA								PBK (28558 upstream) : SCARA5 (3623 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	27870618	27870619	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27870618_27870619insG								SCARA5 (20420 upstream) : C8orf80 (8864 downstream)																																			---	---	---	---
ELP3	55140	broad.mit.edu	37	8	27997089	27997089	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27997089delT	uc003xgo.3	+						ELP3_uc003xgn.3_Intron|ELP3_uc011laq.1_Intron|ELP3_uc011lar.1_Intron|ELP3_uc011las.1_Intron|ELP3_uc011lat.1_Intron	NM_018091	NP_060561			elongation protein 3 homolog						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	histone acetyltransferase activity|iron-sulfur cluster binding|metal ion binding|phosphorylase kinase regulator activity|protein binding				0		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.151)|Colorectal(74;0.183)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	28069517	28069519	+	IGR	DEL	ACA	-	-	rs148764587		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28069517_28069519delACA								ELP3 (20850 upstream) : PNOC (105130 downstream)																																			---	---	---	---
INTS9	55756	broad.mit.edu	37	8	28726612	28726612	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28726612delA	uc003xha.2	-						INTS9_uc011lav.1_Intron|INTS9_uc011law.1_Intron|INTS9_uc011lax.1_Intron|INTS9_uc010lvc.2_Intron|INTS9_uc003xhb.2_Intron	NM_018250	NP_060720			integrator complex subunit 9 isoform 1						snRNA processing	integrator complex	protein binding			central_nervous_system(1)|pancreas(1)	2		Ovarian(32;0.0439)		KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.152)														---	---	---	---
HMBOX1	79618	broad.mit.edu	37	8	28768080	28768080	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28768080delT	uc003xhd.3	+						HMBOX1_uc010lvd.2_Intron|HMBOX1_uc003xhc.3_Intron|HMBOX1_uc010lve.2_Intron|HMBOX1_uc003xhe.2_Intron	NM_001135726	NP_001129198			homeobox containing 1						negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(32;0.0192)		KIRC - Kidney renal clear cell carcinoma(542;0.135)|Kidney(114;0.161)														---	---	---	---
HMBOX1	79618	broad.mit.edu	37	8	28851685	28851686	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28851685_28851686delAA	uc003xhd.3	+						HMBOX1_uc010lvd.2_Intron|HMBOX1_uc003xhc.3_Intron|HMBOX1_uc010lve.2_Intron|HMBOX1_uc003xhe.2_Intron|HMBOX1_uc011lay.1_Intron|HMBOX1_uc003xhf.2_Intron|HMBOX1_uc003xhg.2_Intron	NM_001135726	NP_001129198			homeobox containing 1						negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(32;0.0192)		KIRC - Kidney renal clear cell carcinoma(542;0.135)|Kidney(114;0.161)														---	---	---	---
KIF13B	23303	broad.mit.edu	37	8	28929681	28929681	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28929681delG	uc003xhh.3	-	39	4733	c.4674delC	c.(4672-4674)CCCfs	p.P1558fs	KIF13B_uc011laz.1_Frame_Shift_Del_p.P77fs	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1558					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	29244980	29244982	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29244980_29244982delAAA								DUSP4 (36795 upstream) : C8orf75 (333796 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	29280205	29280205	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29280205delT								DUSP4 (72020 upstream) : C8orf75 (298573 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	29280672	29280672	+	IGR	DEL	T	-	-	rs11340556		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29280672delT								DUSP4 (72487 upstream) : C8orf75 (298106 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	29534439	29534439	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29534439delA								DUSP4 (326254 upstream) : C8orf75 (44339 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	29610452	29610452	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29610452delT	uc003xho.2	+						uc003xhp.2_Intron					Homo sapiens, clone IMAGE:4861097, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	8	29664494	29664494	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29664494delA								C8orf75 (58869 upstream) : LOC286135 (114535 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	29681307	29681308	+	IGR	DEL	GA	-	-	rs58116029		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29681307_29681308delGA								C8orf75 (75682 upstream) : LOC286135 (97721 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	29843131	29843131	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29843131delT								LOC286135 (32010 upstream) : TMEM66 (77501 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	29949454	29949455	+	IGR	INS	-	CA	CA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29949454_29949455insCA								TMEM66 (8805 upstream) : LEPROTL1 (3467 downstream)																																			---	---	---	---
LEPROTL1	23484	broad.mit.edu	37	8	29980822	29980823	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29980822_29980823insG	uc003xhx.2	+							NM_001128208	NP_001121680			leptin receptor overlapping transcript-like 1							integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(542;0.094)|Kidney(114;0.113)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	30099807	30099807	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30099807delA								DCTN6 (58748 upstream) : RBPMS (142137 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	30106987	30106987	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30106987delA								DCTN6 (65928 upstream) : RBPMS (134957 downstream)																																			---	---	---	---
RBPMS	11030	broad.mit.edu	37	8	30295483	30295483	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30295483delA	uc003xic.1	+						RBPMS_uc003xid.1_Intron|RBPMS_uc003xie.1_Intron|RBPMS_uc011lba.1_Intron|RBPMS_uc003xib.2_Intron	NM_006867	NP_006858			RNA-binding protein with multiple splicing						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)														---	---	---	---
RBPMS	11030	broad.mit.edu	37	8	30370146	30370146	+	Intron	DEL	A	-	-	rs66461068		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30370146delA	uc003xic.1	+						RBPMS_uc003xid.1_Intron|RBPMS_uc003xie.1_Intron|RBPMS_uc003xif.1_Intron|RBPMS_uc011lba.1_Intron|RBPMS_uc003xib.2_Intron|RBPMS_uc010lvh.1_Intron	NM_006867	NP_006858			RNA-binding protein with multiple splicing						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)														---	---	---	---
GSR	2936	broad.mit.edu	37	8	30546501	30546502	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30546501_30546502insT	uc003xih.1	-							NM_000637	NP_000628			glutathione reductase precursor						cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)													---	---	---	---
GSR	2936	broad.mit.edu	37	8	30577730	30577730	+	Intron	DEL	A	-	-	rs79509602		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30577730delA	uc003xih.1	-							NM_000637	NP_000628			glutathione reductase precursor						cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)													---	---	---	---
PPP2CB	5516	broad.mit.edu	37	8	30662409	30662409	+	Intron	DEL	A	-	-	rs35237701		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30662409delA	uc003xik.2	-							NM_004156	NP_004147			protein phosphatase 2, catalytic subunit, beta						protein dephosphorylation	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex|spindle pole	metal ion binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.095)|Kidney(114;0.114)	Vitamin E(DB00163)													---	---	---	---
Unknown	0	broad.mit.edu	37	8	30774243	30774244	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30774243_30774244delTT								TEX15 (28021 upstream) : PURG (79077 downstream)																																			---	---	---	---
WRN	7486	broad.mit.edu	37	8	30948312	30948312	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30948312delT	uc003xio.3	+						WRN_uc010lvk.2_Intron	NM_000553	NP_000544			Werner syndrome protein						base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)				Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				---	---	---	---
WRN	7486	broad.mit.edu	37	8	30985600	30985601	+	Intron	DEL	AA	-	-	rs112773122		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30985600_30985601delAA	uc003xio.3	+						WRN_uc010lvk.2_Intron	NM_000553	NP_000544			Werner syndrome protein						base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)				Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	8	31222689	31222689	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:31222689delT								WRN (191413 upstream) : NRG1 (274579 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	31491413	31491413	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:31491413delT								WRN (460137 upstream) : NRG1 (5855 downstream)																																			---	---	---	---
NRG1	3084	broad.mit.edu	37	8	31598201	31598202	+	Intron	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:31598201_31598202delGA	uc003xip.2	+							NM_013962	NP_039256			neuregulin 1 isoform GGF2						activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)														---	---	---	---
NRG1	3084	broad.mit.edu	37	8	32525732	32525732	+	Intron	DEL	A	-	-	rs35691136		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:32525732delA	uc003xiv.2	+						NRG1_uc003xip.2_Intron|NRG1_uc003xir.2_Intron|NRG1_uc010lvl.2_Intron|NRG1_uc010lvm.2_Intron|NRG1_uc010lvn.2_Intron|NRG1_uc003xis.2_Intron|NRG1_uc011lbf.1_Intron|NRG1_uc010lvo.2_Intron|NRG1_uc003xiu.2_Intron|NRG1_uc003xiw.2_Intron|NRG1_uc003xit.2_Intron|NRG1_uc010lvr.2_Intron|NRG1_uc010lvs.2_Intron|NRG1_uc010lvp.2_Intron|NRG1_uc010lvq.2_Intron|NRG1_uc003xix.2_Intron|NRG1_uc003xiy.2_Intron|NRG1_uc010lvt.2_Intron	NM_013964	NP_039258			neuregulin 1 isoform HRG-alpha						activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)														---	---	---	---
NRG1	3084	broad.mit.edu	37	8	32574406	32574406	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:32574406delT	uc003xiv.2	+						NRG1_uc003xip.2_Intron|NRG1_uc003xir.2_Intron|NRG1_uc010lvl.2_Intron|NRG1_uc010lvm.2_Intron|NRG1_uc010lvn.2_Intron|NRG1_uc003xis.2_Intron|NRG1_uc011lbf.1_Intron|NRG1_uc010lvo.2_Intron|NRG1_uc003xiu.2_Intron|NRG1_uc003xiw.2_Intron|NRG1_uc003xit.2_Intron|NRG1_uc010lvr.2_Intron|NRG1_uc010lvs.2_Intron|NRG1_uc010lvp.2_Intron|NRG1_uc010lvq.2_Intron|NRG1_uc003xix.2_Intron|NRG1_uc003xiy.2_Intron|NRG1_uc010lvt.2_Intron	NM_013964	NP_039258			neuregulin 1 isoform HRG-alpha						activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)														---	---	---	---
NRG1	3084	broad.mit.edu	37	8	32612095	32612096	+	Intron	DEL	AA	-	-	rs76017751		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:32612095_32612096delAA	uc003xiv.2	+						NRG1_uc011lbf.1_Intron|NRG1_uc010lvo.2_Intron|NRG1_uc003xiu.2_Intron|NRG1_uc003xiw.2_Intron|NRG1_uc003xit.2_Intron|NRG1_uc010lvr.2_Intron|NRG1_uc010lvs.2_Intron|NRG1_uc010lvp.2_Intron|NRG1_uc010lvq.2_Intron|NRG1_uc011lbg.1_Intron|NRG1_uc011lbh.1_Intron|NRG1_uc003xja.2_Intron	NM_013964	NP_039258			neuregulin 1 isoform HRG-alpha						activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	32727248	32727248	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:32727248delT								NRG1 (104690 upstream) : FUT10 (501098 downstream)																																			---	---	---	---
FUT10	84750	broad.mit.edu	37	8	33262811	33262811	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:33262811delA	uc003xje.2	-						FUT10_uc003xjc.2_Intron|FUT10_uc003xjd.2_Intron|FUT10_uc011lbi.1_Intron|FUT10_uc003xjf.2_Intron|FUT10_uc003xjg.2_Intron|FUT10_uc003xjh.2_Intron	NM_032664	NP_116053			fucosyltransferase 10						embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)														---	---	---	---
FUT10	84750	broad.mit.edu	37	8	33300122	33300122	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:33300122delA	uc003xje.2	-						FUT10_uc003xjc.2_Intron|FUT10_uc003xjd.2_Intron|FUT10_uc011lbi.1_Intron|FUT10_uc003xjf.2_Intron|FUT10_uc003xjg.2_Intron|FUT10_uc003xjh.2_Intron	NM_032664	NP_116053			fucosyltransferase 10						embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	33402771	33402771	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:33402771delA								C8orf41 (32068 upstream) : RNF122 (2502 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	33646598	33646600	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:33646598_33646600delTTT								DUSP26 (189159 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	33906926	33906926	+	IGR	DEL	T	-	-	rs66685713		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:33906926delT								DUSP26 (449487 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	33973653	33973654	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:33973653_33973654delAG								DUSP26 (516214 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	33997545	33997545	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:33997545delA								DUSP26 (540106 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	34960795	34960795	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:34960795delA								None (None upstream) : UNC5D (132180 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	35088890	35088891	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:35088890_35088891delAG								None (None upstream) : UNC5D (4084 downstream)																																			---	---	---	---
UNC5D	137970	broad.mit.edu	37	8	35447762	35447763	+	Intron	DEL	AA	-	-	rs116461455	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:35447762_35447763delAA	uc003xjr.1	+						UNC5D_uc003xjs.1_Intron	NM_080872	NP_543148			unc-5 homolog D precursor						apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	35931496	35931496	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:35931496delT								UNC5D (279316 upstream) : KCNU1 (710346 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	35964648	35964648	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:35964648delA								UNC5D (312468 upstream) : KCNU1 (677194 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	36019578	36019578	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:36019578delT								UNC5D (367398 upstream) : KCNU1 (622264 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	36028305	36028305	+	IGR	DEL	T	-	-	rs77129507		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:36028305delT								UNC5D (376125 upstream) : KCNU1 (613537 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	36063905	36063906	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:36063905_36063906insT								UNC5D (411725 upstream) : KCNU1 (577936 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	36301596	36301597	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:36301596_36301597delTT								UNC5D (649416 upstream) : KCNU1 (340245 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	36335821	36335821	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:36335821delA								UNC5D (683641 upstream) : KCNU1 (306021 downstream)																																			---	---	---	---
KCNU1	157855	broad.mit.edu	37	8	36691034	36691034	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:36691034delT	uc010lvw.2	+						KCNU1_uc003xjw.2_Intron	NM_001031836	NP_001027006			potassium channel, subfamily U, member 1							voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	36888102	36888102	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:36888102delA								KCNU1 (94461 upstream) : ZNF703 (665199 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	37381802	37381807	+	IGR	DEL	AAGAAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37381802_37381807delAAGAAG								KCNU1 (588161 upstream) : ZNF703 (171494 downstream)																																			---	---	---	---
RAB11FIP1	80223	broad.mit.edu	37	8	37721866	37721866	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37721866delA	uc003xkm.1	-						RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Intron	NM_001002814	NP_001002814			RAB11 family interacting protein 1 isoform 3						protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)															---	---	---	---
RAB11FIP1	80223	broad.mit.edu	37	8	37753828	37753829	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37753828_37753829delAA	uc003xkm.1	-						RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron	NM_001002814	NP_001002814			RAB11 family interacting protein 1 isoform 3						protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)															---	---	---	---
ADRB3	155	broad.mit.edu	37	8	37824723	37824724	+	5'Flank	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37824723_37824724delTC	uc003xkr.1	-							NM_000025	NP_000016			adrenergic, beta-3-, receptor						carbohydrate metabolic process|energy reserve metabolic process|positive regulation of MAPKKK cascade	integral to plasma membrane|receptor complex	beta3-adrenergic receptor activity|protein homodimerization activity			lung(2)	2	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;1.37e-11)		Norepinephrine(DB00368)|Pindolol(DB00960)|Propranolol(DB00571)											OREG0018715	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	8	37832578	37832579	+	IGR	DEL	TT	-	-	rs111260524		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37832578_37832579delTT								ADRB3 (8394 upstream) : EIF4EBP1 (55441 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	37956801	37956802	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37956801_37956802delAA								EIF4EBP1 (38919 upstream) : ASH2L (6209 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	38073645	38073646	+	IGR	INS	-	T	T	rs138749827	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38073645_38073646insT								BAG4 (5108 upstream) : DDHD2 (15363 downstream)																																			---	---	---	---
DDHD2	23259	broad.mit.edu	37	8	38117826	38117826	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38117826delA	uc003xlb.2	+						DDHD2_uc003xlc.2_Intron|DDHD2_uc003xld.2_Intron	NM_015214	NP_056029			DDHD domain containing 2 isoform 1						lipid catabolic process	centrosome	hydrolase activity|metal ion binding			large_intestine(1)|ovary(1)	2	Colorectal(12;0.000442)	all_lung(54;0.0657)|Lung NSC(58;0.175)	BRCA - Breast invasive adenocarcinoma(5;3.76e-25)|COAD - Colon adenocarcinoma(9;0.0977)															---	---	---	---
LETM2	137994	broad.mit.edu	37	8	38246239	38246239	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38246239delA	uc003xlm.1	+						LETM2_uc003xlk.2_Intron|LETM2_uc011lbn.1_Intron|LETM2_uc003xll.1_Intron|LETM2_uc003xln.1_Intron|LETM2_uc003xlo.1_Intron	NM_144652	NP_653253			leucine zipper-EF-hand containing transmembrane							integral to membrane|mitochondrial inner membrane					0	all_cancers(2;6.77e-47)|all_epithelial(2;1.01e-50)|all_lung(3;1.25e-23)|Lung NSC(2;2.76e-23)|Colorectal(12;0.000442)|Esophageal squamous(3;0.00202)	all_lung(54;0.0657)|Hepatocellular(245;0.152)|Lung NSC(58;0.175)	Epithelial(3;1.17e-42)|all cancers(3;5.44e-38)|BRCA - Breast invasive adenocarcinoma(5;5.44e-27)|LUSC - Lung squamous cell carcinoma(2;7.12e-25)|Lung(2;4.49e-22)|COAD - Colon adenocarcinoma(9;0.114)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	38360607	38360608	+	IGR	INS	-	GA	GA	rs146011107	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38360607_38360608insGA								FGFR1 (34255 upstream) : C8orf86 (7744 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	38428860	38428860	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38428860delA								C8orf86 (42680 upstream) : RNF5P1 (28835 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	38501101	38501101	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38501101delA								RNF5P1 (42326 upstream) : TACC1 (84603 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	38549056	38549057	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38549056_38549057insT								RNF5P1 (90281 upstream) : TACC1 (36647 downstream)																																			---	---	---	---
TACC1	6867	broad.mit.edu	37	8	38683083	38683085	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38683083_38683085delTTT	uc010lwp.2	+						TACC1_uc011lby.1_Intron|TACC1_uc003xma.2_Intron|TACC1_uc003xlz.2_Intron|TACC1_uc003xmc.3_Intron|TACC1_uc011lbz.1_Intron|TACC1_uc003xmb.3_Intron|TACC1_uc003xme.1_Intron|TACC1_uc003xmd.1_Intron|TACC1_uc010lwo.1_Intron|TACC1_uc003xmf.3_Intron|TACC1_uc011lca.1_Intron|TACC1_uc011lcb.1_Intron|TACC1_uc011lcc.1_Intron|TACC1_uc011lcd.1_Intron|TACC1_uc003xmh.3_Intron|TACC1_uc010lwq.2_Intron	NM_006283	NP_006274			transforming, acidic coiled-coil containing						cell cycle|cell division	intermediate filament cytoskeleton|microtubule organizing center|nucleus	protein binding			ovary(1)	1		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.065)	LUSC - Lung squamous cell carcinoma(45;1.7e-09)|COAD - Colon adenocarcinoma(9;0.235)															---	---	---	---
ADAM32	203102	broad.mit.edu	37	8	39078484	39078484	+	Intron	DEL	C	-	-	rs141055306		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39078484delC	uc003xmt.3	+						ADAM32_uc011lch.1_Intron|ADAM32_uc003xmu.3_Intron|ADAM32_uc003xmv.2_5'UTR	NM_145004	NP_659441			a disintegrin and metalloprotease domain 32						proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)															---	---	---	---
ADAM32	203102	broad.mit.edu	37	8	39110817	39110817	+	Intron	DEL	A	-	-	rs4307305		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39110817delA	uc003xmt.3	+						ADAM32_uc011lch.1_Intron|ADAM32_uc003xmu.3_Intron|ADAM32_uc003xmv.2_Intron	NM_145004	NP_659441			a disintegrin and metalloprotease domain 32						proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)															---	---	---	---
ADAM32	203102	broad.mit.edu	37	8	39131820	39131820	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39131820delT	uc003xmt.3	+						ADAM32_uc011lch.1_Intron|ADAM32_uc003xmu.3_Intron|ADAM32_uc003xmv.2_Intron	NM_145004	NP_659441			a disintegrin and metalloprotease domain 32						proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)															---	---	---	---
ADAM5P	255926	broad.mit.edu	37	8	39210225	39210226	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39210225_39210226insG	uc003xmx.1	+						ADAM5P_uc003xmy.1_Intron|ADAM5P_uc003xmz.1_Intron|ADAM5P_uc010lwt.1_Intron|ADAM5P_uc003xna.2_Intron|ADAM5P_uc003xnb.2_Intron|ADAM5P_uc003xnc.2_Intron	NR_001448				Homo sapiens mRNA for tMDC II, isoform [a].												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	39588476	39588476	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39588476delT								ADAM18 (991 upstream) : ADAM2 (12780 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	40154303	40154303	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:40154303delT								C8orf4 (141482 upstream) : ZMAT4 (233813 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	41218149	41218149	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41218149delT								SFRP1 (51169 upstream) : GOLGA7 (129932 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	41227306	41227306	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41227306delA								SFRP1 (60326 upstream) : GOLGA7 (120775 downstream)																																			---	---	---	---
GOLGA7	51125	broad.mit.edu	37	8	41345571	41345572	+	5'Flank	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41345571_41345572delAC	uc003xnu.2	+						GOLGA7_uc003xnv.2_5'Flank|GOLGA7_uc003xnw.2_5'Flank	NM_016099	NP_057183			golgi autoantigen, golgin subfamily a, 7							Golgi membrane				breast(1)	1	Ovarian(28;0.014)|Colorectal(14;0.0234)|Lung SC(25;0.211)	all_lung(54;0.000771)|Lung NSC(58;0.0031)|Hepatocellular(245;0.014)|Esophageal squamous(32;0.0559)	Colorectal(10;0.0014)|OV - Ovarian serous cystadenocarcinoma(14;0.00596)|LUSC - Lung squamous cell carcinoma(45;0.0137)|COAD - Colon adenocarcinoma(11;0.0147)															---	---	---	---
GOLGA7	51125	broad.mit.edu	37	8	41363691	41363691	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41363691delT	uc003xnu.2	+						GOLGA7_uc003xnv.2_Intron|GOLGA7_uc003xnw.2_Intron	NM_016099	NP_057183			golgi autoantigen, golgin subfamily a, 7							Golgi membrane				breast(1)	1	Ovarian(28;0.014)|Colorectal(14;0.0234)|Lung SC(25;0.211)	all_lung(54;0.000771)|Lung NSC(58;0.0031)|Hepatocellular(245;0.014)|Esophageal squamous(32;0.0559)	Colorectal(10;0.0014)|OV - Ovarian serous cystadenocarcinoma(14;0.00596)|LUSC - Lung squamous cell carcinoma(45;0.0137)|COAD - Colon adenocarcinoma(11;0.0147)															---	---	---	---
GINS4	84296	broad.mit.edu	37	8	41392258	41392258	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41392258delT	uc003xnx.2	+						GINS4_uc003xny.2_Intron	NM_032336	NP_115712			GINS complex subunit 4						DNA strand elongation involved in DNA replication|S phase of mitotic cell cycle	cytoplasm|nucleoplasm				skin(1)	1	Ovarian(28;0.014)|Colorectal(14;0.0202)|Lung SC(25;0.211)	all_lung(54;0.00732)|Lung NSC(58;0.0207)|Hepatocellular(245;0.0462)|Esophageal squamous(32;0.0844)	Colorectal(10;0.0014)|OV - Ovarian serous cystadenocarcinoma(14;0.00329)|LUSC - Lung squamous cell carcinoma(45;0.0137)|COAD - Colon adenocarcinoma(11;0.0147)															---	---	---	---
ANK1	286	broad.mit.edu	37	8	41695388	41695388	+	Intron	DEL	A	-	-	rs74412962		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41695388delA	uc003xom.2	-							NM_001142446	NP_001135918			ankyrin 1 isoform 9						axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	41758137	41758139	+	IGR	DEL	TAG	-	-	rs146420929		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41758137_41758139delTAG								ANK1 (3857 upstream) : MYST3 (28859 downstream)																																			---	---	---	---
MYST3	7994	broad.mit.edu	37	8	41806989	41806989	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41806989delA	uc010lxb.2	-						MYST3_uc010lxc.2_Intron|MYST3_uc003xon.3_Intron|MYST3_uc010lxd.2_Intron	NM_001099412	NP_001092882			MYST histone acetyltransferase (monocytic						histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)															---	---	---	---
PLAT	5327	broad.mit.edu	37	8	42054354	42054356	+	Intron	DEL	AAA	-	-	rs3216302		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42054354_42054356delAAA	uc003xos.2	-						PLAT_uc003xot.2_Intron|PLAT_uc011lcm.1_Intron|PLAT_uc011lcn.1_Intron	NM_000930	NP_000921			plasminogen activator, tissue isoform 1						blood coagulation|fibrinolysis|negative regulation of proteolysis|protein modification process|proteolysis	cell surface|cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			breast(1)|skin(1)	2	all_cancers(6;3.84e-26)|all_epithelial(6;9.61e-28)|all_lung(13;7.2e-13)|Lung NSC(13;1.18e-11)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000378)|Lung NSC(58;0.00145)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00135)|Colorectal(10;0.00165)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)		Alteplase(DB00009)|Aminocaproic Acid(DB00513)|Anistreplase(DB00029)|Iloprost(DB01088)|Reteplase(DB00015)|Tenecteplase(DB00031)|Tranexamic Acid(DB00302)|Urokinase(DB00013)													---	---	---	---
SLC20A2	6575	broad.mit.edu	37	8	42350212	42350212	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42350212delT	uc010lxl.2	-						SLC20A2_uc010lxm.2_Intron|SLC20A2_uc003xpe.2_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-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42538760delA								C8orf40 (130621 upstream) : CHRNB3 (13802 downstream)																																			---	---	---	---
CHRNB3	1142	broad.mit.edu	37	8	42585903	42585903	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42585903delA	uc003xpi.1	+							NM_000749	NP_000740			cholinergic receptor, nicotinic, beta						synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	42673492	42673492	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42673492delA								CHRNA6 (49873 upstream) : THAP1 (18326 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	42701997	42701997	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42701997delA								THAP1 (3523 upstream) : RNF170 (2784 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	42885786	42885787	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42885786_42885787insA								HOOK3 (105 upstream) : FNTA (25655 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	42897504	42897504	+	IGR	DEL	A	-	-	rs74454191		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42897504delA								HOOK3 (11823 upstream) : FNTA (13938 downstream)																																			---	---	---	---
POTEA	340441	broad.mit.edu	37	8	43169400	43169400	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:43169400delA	uc003xpz.1	+						POTEA_uc003xqa.1_Intron	NM_001005365	NP_001005365			POTE ankyrin domain family, member A isoform 2											ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	43262265	43262265	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:43262265delT								POTEA (43937 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	43384565	43384566	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:43384565_43384566insT								POTEA (166237 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	43634298	43634298	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:43634298delA								POTEA (415970 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	43765847	43765847	+	IGR	DEL	T	-	-	rs75537175		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:43765847delT								POTEA (547519 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	47450093	47450093	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:47450093delT								None (None upstream) : BEYLA (302415 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	47677002	47677002	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:47677002delT								None (None upstream) : BEYLA (75506 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	47841485	47841485	+	IGR	DEL	C	-	-	rs66468368		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:47841485delC								BEYLA (74078 upstream) : KIAA0146 (332057 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	48108359	48108359	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48108359delA								BEYLA (340952 upstream) : KIAA0146 (65183 downstream)																																			---	---	---	---
KIAA0146	23514	broad.mit.edu	37	8	48389768	48389768	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48389768delT	uc003xqd.2	+						KIAA0146_uc011lcz.1_Intron|KIAA0146_uc011lda.1_Intron|KIAA0146_uc011ldb.1_Intron|KIAA0146_uc010lxs.2_Intron|KIAA0146_uc011ldc.1_Intron|KIAA0146_uc011ldd.1_Intron|KIAA0146_uc003xqe.2_Intron|KIAA0146_uc003xqf.2_Intron|KIAA0146_uc011lde.1_Intron|KIAA0146_uc010lxt.2_Intron	NM_001080394	NP_001073863			hypothetical protein LOC23514												0		Lung NSC(58;0.175)																---	---	---	---
KIAA0146	23514	broad.mit.edu	37	8	48607942	48607942	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48607942delA	uc003xqd.2	+						KIAA0146_uc011ldb.1_Intron|KIAA0146_uc010lxs.2_Intron|KIAA0146_uc011ldc.1_Intron|KIAA0146_uc011ldd.1_Intron|KIAA0146_uc003xqe.2_Intron|KIAA0146_uc003xqf.2_Intron|KIAA0146_uc011lde.1_Intron|KIAA0146_uc010lxt.2_Intron|KIAA0146_uc011ldf.1_Intron|KIAA0146_uc011ldg.1_Intron|KIAA0146_uc010lxv.1_Intron	NM_001080394	NP_001073863			hypothetical protein LOC23514												0		Lung NSC(58;0.175)																---	---	---	---
PRKDC	5591	broad.mit.edu	37	8	48719988	48719988	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48719988delT	uc003xqi.2	-						PRKDC_uc003xqj.2_Intron|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835			protein kinase, DNA-activated, catalytic						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					---	---	---	---
PRKDC	5591	broad.mit.edu	37	8	48731935	48731935	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48731935delA	uc003xqi.2	-						PRKDC_uc003xqj.2_Intron|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835			protein kinase, DNA-activated, catalytic						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					---	---	---	---
PRKDC	5591	broad.mit.edu	37	8	48808271	48808271	+	Intron	DEL	A	-	-	rs75948712		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48808271delA	uc003xqi.2	-						PRKDC_uc003xqj.2_Intron|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835			protein kinase, DNA-activated, catalytic						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					---	---	---	---
PRKDC	5591	broad.mit.edu	37	8	48850979	48850979	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48850979delA	uc003xqi.2	-						PRKDC_uc003xqj.2_Intron|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835			protein kinase, DNA-activated, catalytic						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					---	---	---	---
UBE2V2	7336	broad.mit.edu	37	8	48951043	48951043	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48951043delT	uc003xqm.2	+							NM_003350	NP_003341			ubiquitin-conjugating enzyme E2v2						cell proliferation|DNA double-strand break processing|protein polyubiquitination|regulation of DNA repair	cytoplasm|nucleus|UBC13-MMS2 complex	acid-amino acid ligase activity|protein binding				0		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00171)|all_lung(136;0.00196)											Direct_reversal_of_damage|Rad6_pathway					---	---	---	---
Unknown	0	broad.mit.edu	37	8	49008367	49008367	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:49008367delT								UBE2V2 (33915 upstream) : EFCAB1 (614984 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	49354255	49354256	+	IGR	INS	-	TG	TG	rs146428627	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:49354255_49354256insTG								UBE2V2 (379803 upstream) : EFCAB1 (269095 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	49389568	49389568	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:49389568delT								UBE2V2 (415116 upstream) : EFCAB1 (233783 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	49539092	49539093	+	IGR	DEL	GA	-	-	rs71227630		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:49539092_49539093delGA								UBE2V2 (564640 upstream) : EFCAB1 (84258 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	49800986	49800987	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:49800986_49800987insT								EFCAB1 (153116 upstream) : SNAI2 (29252 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	50277189	50277190	+	IGR	DEL	TT	-	-	rs12546467	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:50277189_50277190delTT								C8orf22 (288548 upstream) : SNTG1 (545159 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	50648875	50648876	+	IGR	INS	-	AAC	AAC	rs149577778	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:50648875_50648876insAAC								C8orf22 (660234 upstream) : SNTG1 (173473 downstream)																																			---	---	---	---
SNTG1	54212	broad.mit.edu	37	8	51018348	51018348	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:51018348delG	uc010lxy.1	+						SNTG1_uc003xqs.1_Intron|SNTG1_uc010lxz.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)																---	---	---	---
SNTG1	54212	broad.mit.edu	37	8	51373559	51373559	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:51373559delT	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)																---	---	---	---
SNTG1	54212	broad.mit.edu	37	8	51597569	51597569	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:51597569delA	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)																---	---	---	---
SNTG1	54212	broad.mit.edu	37	8	51652924	51652924	+	Intron	DEL	A	-	-	rs149930143		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:51652924delA	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)																---	---	---	---
SNTG1	54212	broad.mit.edu	37	8	51705154	51705154	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:51705154delA	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)																---	---	---	---
Unknown	0	broad.mit.edu	37	8	51766154	51766155	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:51766154_51766155insA								SNTG1 (60727 upstream) : PXDNL (465989 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	51928425	51928425	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:51928425delT								SNTG1 (222998 upstream) : PXDNL (303719 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	51976161	51976161	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:51976161delT								SNTG1 (270734 upstream) : PXDNL (255983 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	52109940	52109940	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52109940delT								SNTG1 (404513 upstream) : PXDNL (122204 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	52109946	52109952	+	IGR	DEL	TTGTGTG	-	-	rs72636526	byFrequency;by1000genomes;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52109946_52109952delTTGTGTG								SNTG1 (404519 upstream) : PXDNL (122192 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	52150905	52150905	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52150905delT								SNTG1 (445478 upstream) : PXDNL (81239 downstream)																																			---	---	---	---
PXDNL	137902	broad.mit.edu	37	8	52602135	52602136	+	Intron	DEL	TT	-	-	rs34938916		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52602135_52602136delTT	uc003xqu.3	-							NM_144651	NP_653252			peroxidasin homolog-like precursor						hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)																---	---	---	---
PXDNL	137902	broad.mit.edu	37	8	52708906	52708906	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52708906delA	uc003xqu.3	-							NM_144651	NP_653252			peroxidasin homolog-like precursor						hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)																---	---	---	---
Unknown	0	broad.mit.edu	37	8	53354225	53354225	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:53354225delA								ST18 (31786 upstream) : FAM150A (92373 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	53378120	53378120	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:53378120delA								ST18 (55681 upstream) : FAM150A (68478 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	53496966	53496967	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:53496966_53496967insT								FAM150A (18945 upstream) : RB1CC1 (38052 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	53511204	53511204	+	IGR	DEL	A	-	-	rs112930597		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:53511204delA								FAM150A (33183 upstream) : RB1CC1 (23815 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	54088746	54088746	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:54088746delT								NPBWR1 (235293 upstream) : OPRK1 (49530 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	54102886	54102886	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:54102886delA								NPBWR1 (249433 upstream) : OPRK1 (35390 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	54116119	54116119	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:54116119delA								NPBWR1 (262666 upstream) : OPRK1 (22157 downstream)																																			---	---	---	---
ATP6V1H	51606	broad.mit.edu	37	8	54658292	54658293	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:54658292_54658293delAA	uc003xrl.2	-						ATP6V1H_uc003xrk.2_Intron|ATP6V1H_uc003xrm.2_Intron|ATP6V1H_uc003xrn.2_Intron|ATP6V1H_uc011ldv.1_Intron|ATP6V1H_uc010lyd.2_Intron	NM_213620	NP_998785			ATPase, H+ transporting, lysosomal 50/57kDa, V1						ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|endocytosis|insulin receptor signaling pathway|interspecies interaction between organisms|regulation of defense response to virus by virus|transferrin transport|vacuolar acidification|viral reproduction	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase, V1 domain	enzyme regulator activity|protein binding|proton-transporting ATPase activity, rotational mechanism				0		all_epithelial(80;0.0487)|Lung NSC(129;0.109)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;2.79e-06)|Epithelial(17;0.000629)|all cancers(17;0.00359)															---	---	---	---
RGS20	8601	broad.mit.edu	37	8	54795718	54795719	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:54795718_54795719delTT	uc003xrp.2	+						RGS20_uc003xrq.2_Intron|RGS20_uc010lye.2_Intron|RGS20_uc010lyf.2_Intron|RGS20_uc003xrr.2_Intron|RGS20_uc003xrs.2_Intron|RGS20_uc003xrt.2_Intron	NM_170587	NP_733466			regulator of G-protein signaling 20 isoform a						negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|nucleus|plasma membrane	GTPase activator activity|protein binding|signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(7;1.37e-06)|Epithelial(17;0.000126)|all cancers(17;0.0009)															---	---	---	---
TCEA1	6917	broad.mit.edu	37	8	54897126	54897126	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:54897126delT	uc003xru.2	-						TCEA1_uc003xrv.2_Intron|TCEA1_uc011ldw.1_Intron|TCEA1_uc010lyg.2_5'Flank	NM_006756	NP_006747			transcription elongation factor A 1 isoform 1						positive regulation of viral transcription|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	nucleoplasm	DNA binding|translation elongation factor activity|zinc ion binding				0		Lung NSC(129;0.109)|all_epithelial(80;0.11)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;9.1e-07)|Epithelial(17;9.44e-05)|all cancers(17;0.000699)					T	PLAG1	salivary adenoma								---	---	---	---
Unknown	0	broad.mit.edu	37	8	55327179	55327179	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:55327179delT								MRPL15 (266105 upstream) : SOX17 (43316 downstream)																																			---	---	---	---
RP1	6101	broad.mit.edu	37	8	55612966	55612966	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:55612966delA	uc011ldy.1	+											SubName: Full=cDNA, FLJ79410, moderately similar to Oxygen-regulated protein 1;						axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	55884651	55884651	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:55884651delT								RP1 (202120 upstream) : XKR4 (130366 downstream)																																			---	---	---	---
XKR4	114786	broad.mit.edu	37	8	56267833	56267834	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:56267833_56267834delAC	uc003xsf.2	+							NM_052898	NP_443130			XK, Kell blood group complex subunit-related							integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)															---	---	---	---
LYN	4067	broad.mit.edu	37	8	56892782	56892782	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:56892782delT	uc003xsk.3	+						LYN_uc003xsl.3_Intron	NM_002350	NP_002341			Yamaguchi sarcoma viral (v-yes-1) oncogene						erythrocyte differentiation|interspecies interaction between organisms|leukocyte migration|platelet activation|positive regulation of cellular component movement|positive regulation of stress-activated protein kinase signaling cascade|positive regulation of tyrosine phosphorylation of STAT protein|response to DNA damage stimulus|T cell costimulation	cytosol|Golgi apparatus|membrane raft|nucleus|perinuclear region of cytoplasm	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity|receptor signaling protein tyrosine kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3		all_lung(136;0.0555)|Lung NSC(129;0.0726)|all_epithelial(80;0.0772)	Epithelial(17;0.000834)|all cancers(17;0.00598)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	56967619	56967619	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:56967619delT								LYN (43683 upstream) : RPS20 (13120 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	57205397	57205397	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:57205397delG								CHCHD7 (74223 upstream) : SDR16C5 (7173 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	58325120	58325120	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:58325120delA								C8orf71 (127832 upstream) : FAM110B (581993 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	58694959	58694959	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:58694959delA								C8orf71 (497671 upstream) : FAM110B (212154 downstream)																																			---	---	---	---
FAM110B	90362	broad.mit.edu	37	8	59050119	59050119	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:59050119delA	uc003xtj.1	+							NM_147189	NP_671722			hypothetical protein LOC90362							microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)																---	---	---	---
Unknown	0	broad.mit.edu	37	8	59230840	59230840	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:59230840delA								FAM110B (168563 upstream) : UBXN2B (92983 downstream)																																	OREG0018785	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	8	59375627	59375627	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:59375627delA								UBXN2B (11568 upstream) : CYP7A1 (27111 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	59586184	59586184	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:59586184delA								NSMAF (13780 upstream) : TOX (131793 downstream)																																			---	---	---	---
TOX	9760	broad.mit.edu	37	8	59843890	59843891	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:59843890_59843891delAA	uc003xtw.1	-							NM_014729	NP_055544			thymus high mobility group box protein TOX							nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)																---	---	---	---
Unknown	0	broad.mit.edu	37	8	60591268	60591268	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:60591268delT								TOX (559501 upstream) : CA8 (510155 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	60712314	60712314	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:60712314delA								TOX (680547 upstream) : CA8 (389109 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	60716529	60716529	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:60716529delT								TOX (684762 upstream) : CA8 (384894 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	60967557	60967558	+	IGR	INS	-	AG	AG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:60967557_60967558insAG								TOX (935790 upstream) : CA8 (133865 downstream)																																			---	---	---	---
CA8	767	broad.mit.edu	37	8	61131724	61131726	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:61131724_61131726delTTT	uc003xtz.1	-						CA8_uc003xua.1_Intron	NM_004056	NP_004047			carbonic anhydrase VIII						one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0		all_cancers(86;0.172)|all_epithelial(80;0.0383)|all_lung(136;0.0413)|Lung NSC(129;0.0474)																---	---	---	---
Unknown	0	broad.mit.edu	37	8	61276701	61276701	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:61276701delG								CA8 (82747 upstream) : RAB2A (152858 downstream)																																			---	---	---	---
RAB2A	5862	broad.mit.edu	37	8	61465739	61465739	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:61465739delG	uc003xud.1	+						RAB2A_uc011lef.1_Intron	NM_002865	NP_002856			RAB2A, member RAS oncogene family						ER to Golgi vesicle-mediated transport|protein transport|small GTPase mediated signal transduction	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|melanosome	GDP binding|GTP binding|GTPase activity				0			BRCA - Breast invasive adenocarcinoma(89;0.0805)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	61542717	61542718	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:61542717_61542718delTG								RAB2A (9088 upstream) : CHD7 (48621 downstream)																																			---	---	---	---
CHD7	55636	broad.mit.edu	37	8	61609177	61609177	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:61609177delT	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			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)															---	---	---	---
CHD7	55636	broad.mit.edu	37	8	61716900	61716900	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:61716900delT	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)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	62123512	62123512	+	IGR	DEL	A	-	-	rs78994226		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62123512delA								CHD7 (344049 upstream) : CLVS1 (77013 downstream)																																			---	---	---	---
CLVS1	157807	broad.mit.edu	37	8	62326966	62326967	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62326966_62326967delTT	uc003xuh.2	+						CLVS1_uc003xui.2_Intron|CLVS1_uc010lyp.2_Intron	NM_173519	NP_775790			retinaldehyde binding protein 1-like 1						lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5																		---	---	---	---
CLVS1	157807	broad.mit.edu	37	8	62412295	62412295	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62412295delT	uc003xuh.2	+	6					CLVS1_uc003xui.2_RNA|CLVS1_uc010lyp.2_3'UTR	NM_173519	NP_775790			retinaldehyde binding protein 1-like 1						lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	62632235	62632236	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62632235_62632236delAA								ASPH (5036 upstream) : NKAIN3 (529265 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	62636997	62636997	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62636997delA								ASPH (9798 upstream) : NKAIN3 (524504 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	62755342	62755343	+	IGR	INS	-	T	T	rs77984625		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62755342_62755343insT								ASPH (128143 upstream) : NKAIN3 (406158 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	62944230	62944231	+	IGR	INS	-	A	A	rs144635644	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62944230_62944231insA								ASPH (317031 upstream) : NKAIN3 (217270 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	63134880	63134880	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:63134880delA								ASPH (507681 upstream) : NKAIN3 (26621 downstream)																																			---	---	---	---
NKAIN3	286183	broad.mit.edu	37	8	63301442	63301443	+	Intron	DEL	TG	-	-	rs10554062		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:63301442_63301443delTG	uc010lyq.1	+							NM_173688	NP_775959			Na+/K+ transporting ATPase interacting 3							integral to membrane|plasma membrane					0	Breast(64;0.127)	Lung NSC(129;0.187)																---	---	---	---
NKAIN3	286183	broad.mit.edu	37	8	63499036	63499036	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:63499036delT	uc010lyq.1	+							NM_173688	NP_775959			Na+/K+ transporting ATPase interacting 3							integral to membrane|plasma membrane					0	Breast(64;0.127)	Lung NSC(129;0.187)																---	---	---	---
NKAIN3	286183	broad.mit.edu	37	8	63698718	63698718	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:63698718delA	uc010lyq.1	+							NM_173688	NP_775959			Na+/K+ transporting ATPase interacting 3							integral to membrane|plasma membrane					0	Breast(64;0.127)	Lung NSC(129;0.187)																---	---	---	---
NKAIN3	286183	broad.mit.edu	37	8	63885989	63885989	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:63885989delT	uc010lyq.1	+							NM_173688	NP_775959			Na+/K+ transporting ATPase interacting 3							integral to membrane|plasma membrane					0	Breast(64;0.127)	Lung NSC(129;0.187)																---	---	---	---
YTHDF3	253943	broad.mit.edu	37	8	64121636	64121636	+	Intron	DEL	G	-	-	rs34746721		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:64121636delG	uc003xuy.2	+						YTHDF3_uc010lys.2_Intron|YTHDF3_uc003xuz.2_Intron|YTHDF3_uc003xva.2_Intron|YTHDF3_uc011len.1_Intron	NM_152758	NP_689971			YTH domain family, member 3												0	Breast(64;0.0716)	all_cancers(86;0.169)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.146)	BRCA - Breast invasive adenocarcinoma(89;0.161)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	64300387	64300387	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:64300387delA	uc003xvb.1	-											Homo sapiens cDNA FLJ36051 fis, clone TESTI2018083.																														---	---	---	---
Unknown	0	broad.mit.edu	37	8	64736704	64736704	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:64736704delA								YTHDF3 (611359 upstream) : MIR124-2 (555002 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	64762973	64762973	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:64762973delT								YTHDF3 (637628 upstream) : MIR124-2 (528733 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	64859267	64859273	+	IGR	DEL	TTTTTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:64859267_64859273delTTTTTTT								YTHDF3 (733922 upstream) : MIR124-2 (432433 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	65098206	65098206	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:65098206delA								YTHDF3 (972861 upstream) : MIR124-2 (193500 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	65421400	65421401	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:65421400_65421401delAG								MIR124-2 (129586 upstream) : LOC401463 (65467 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	65501939	65501939	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:65501939delT								BHLHE22 (5754 upstream) : CYP7B1 (6590 downstream)																																			---	---	---	---
CYP7B1	9420	broad.mit.edu	37	8	65554402	65554402	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:65554402delA	uc003xvj.2	-							NM_004820	NP_004811			cytochrome P450, family 7, subfamily B,						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)																---	---	---	---
Unknown	0	broad.mit.edu	37	8	65865380	65865380	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:65865380delA								CYP7B1 (154032 upstream) : ARMC1 (649692 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	66339625	66339625	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:66339625delA								CYP7B1 (628277 upstream) : ARMC1 (175447 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	66347188	66347188	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:66347188delA								CYP7B1 (635840 upstream) : ARMC1 (167884 downstream)																																			---	---	---	---
PDE7A	5150	broad.mit.edu	37	8	66636440	66636440	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:66636440delA	uc003xvq.2	-						PDE7A_uc003xvr.2_Intron|PDE7A_uc003xvp.2_Intron	NM_002604	NP_002595			phosphodiesterase 7A isoform b							cell fraction|cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding				0			Epithelial(68;0.0509)|BRCA - Breast invasive adenocarcinoma(89;0.111)|all cancers(69;0.168)|OV - Ovarian serous cystadenocarcinoma(28;0.238)		Dyphylline(DB00651)|Ketotifen(DB00920)													---	---	---	---
DNAJC5B	85479	broad.mit.edu	37	8	66964201	66964201	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:66964201delT	uc003xvs.1	+						DNAJC5B_uc003xvt.1_Intron	NM_033105	NP_149096			DnaJ (Hsp40) homolog, subfamily C, member 5						protein folding	membrane	heat shock protein binding|unfolded protein binding				0		Lung NSC(129;0.114)|all_lung(136;0.188)	Epithelial(68;0.0213)|all cancers(69;0.0839)|BRCA - Breast invasive adenocarcinoma(89;0.0886)|OV - Ovarian serous cystadenocarcinoma(28;0.112)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	67022130	67022130	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67022130delT								DNAJC5B (9375 upstream) : TRIM55 (17148 downstream)																																			---	---	---	---
TRIM55	84675	broad.mit.edu	37	8	67062909	67062911	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67062909_67062911delTTT	uc003xvv.2	+						TRIM55_uc003xvu.2_Intron|TRIM55_uc003xvw.2_Intron|TRIM55_uc003xvx.2_Intron	NM_184085	NP_908973			tripartite motif-containing 55 isoform 1							cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	67096522	67096522	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67096522delT								CRH (5824 upstream) : RRS1 (244741 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	67136610	67136610	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67136610delA								CRH (45912 upstream) : RRS1 (204653 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	67237980	67237980	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67237980delG								CRH (147282 upstream) : RRS1 (103283 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	67301943	67301943	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67301943delG								CRH (211245 upstream) : RRS1 (39320 downstream)																																			---	---	---	---
SGK3	23678	broad.mit.edu	37	8	67626453	67626454	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67626453_67626454insT	uc003xwr.2	+						SGK3_uc003xwp.2_Intron	NM_001033578	NP_001028750			serum/glucocorticoid regulated kinase 3 isoform						cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)															---	---	---	---
SGK3	23678	broad.mit.edu	37	8	67734433	67734433	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67734433delA	uc003xwr.2	+						SGK3_uc003xwp.2_Intron|SGK3_uc003xwt.2_Intron|SGK3_uc003xwu.2_Intron	NM_001033578	NP_001028750			serum/glucocorticoid regulated kinase 3 isoform						cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)															---	---	---	---
SGK3	23678	broad.mit.edu	37	8	67750018	67750019	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67750018_67750019insA	uc003xwr.2	+						SGK3_uc003xwp.2_Intron|SGK3_uc003xwt.2_Intron|SGK3_uc003xwu.2_Intron	NM_001033578	NP_001028750			serum/glucocorticoid regulated kinase 3 isoform						cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)															---	---	---	---
SGK3	23678	broad.mit.edu	37	8	67752239	67752239	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67752239delT	uc003xwr.2	+	11	1042	c.743delT	c.(742-744)CTTfs	p.L248fs	SGK3_uc003xwp.2_Frame_Shift_Del_p.L242fs|SGK3_uc003xwt.2_Frame_Shift_Del_p.L248fs|SGK3_uc003xwu.2_Frame_Shift_Del_p.L248fs	NM_001033578	NP_001028750	Q96BR1	SGK3_HUMAN	serum/glucocorticoid regulated kinase 3 isoform	248	Protein kinase.				cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)															---	---	---	---
C8orf45	157777	broad.mit.edu	37	8	67781447	67781449	+	5'Flank	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67781447_67781449delTTT	uc003xwz.3	+						C8orf45_uc003xwv.2_5'Flank|C8orf45_uc011lev.1_5'Flank|C8orf45_uc011lew.1_5'Flank|C8orf45_uc011lex.1_5'Flank|C8orf45_uc003xwy.3_5'Flank	NM_173518	NP_775789			minichromosome maintenance complex						DNA replication		ATP binding|DNA binding			ovary(1)	1	Breast(64;0.186)		Epithelial(68;0.00384)|OV - Ovarian serous cystadenocarcinoma(28;0.00913)|all cancers(69;0.0175)|BRCA - Breast invasive adenocarcinoma(89;0.206)															---	---	---	---
C8orf45	157777	broad.mit.edu	37	8	67825196	67825196	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67825196delA	uc003xwz.3	+						C8orf45_uc011lew.1_Intron|C8orf45_uc011lex.1_Intron	NM_173518	NP_775789			minichromosome maintenance complex						DNA replication		ATP binding|DNA binding			ovary(1)	1	Breast(64;0.186)		Epithelial(68;0.00384)|OV - Ovarian serous cystadenocarcinoma(28;0.00913)|all cancers(69;0.0175)|BRCA - Breast invasive adenocarcinoma(89;0.206)															---	---	---	---
LRRC67	286187	broad.mit.edu	37	8	67915960	67915960	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67915960delT	uc003xxc.2	-							NM_001013626	NP_001013648			leucine rich repeat containing 67												0																		---	---	---	---
COPS5	10987	broad.mit.edu	37	8	67963608	67963608	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67963608delA	uc003xxe.2	-						COPS5_uc003xxd.2_Intron|COPS5_uc003xxf.2_Intron|COPS5_uc010lyu.1_Intron|COPS5_uc010lyv.1_Intron	NM_006837	NP_006828			COP9 signalosome subunit 5						cullin deneddylation|transcription from RNA polymerase II promoter	eukaryotic translation initiation factor 3 complex|signalosome	metal ion binding|metallopeptidase activity|protein binding|transcription coactivator activity|translation initiation factor activity			ovary(1)|skin(1)	2	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00389)|OV - Ovarian serous cystadenocarcinoma(28;0.00691)|all cancers(69;0.0205)|BRCA - Breast invasive adenocarcinoma(89;0.153)															---	---	---	---
CSPP1	79848	broad.mit.edu	37	8	68005725	68005725	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68005725delT	uc003xxi.2	+						CSPP1_uc003xxg.1_Intron|CSPP1_uc003xxh.1_Intron|CSPP1_uc003xxj.2_Intron|CSPP1_uc003xxk.2_Intron	NM_001077204	NP_001070672			centrosome spindle pole associated protein 1							centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)															---	---	---	---
CSPP1	79848	broad.mit.edu	37	8	68035110	68035113	+	Intron	DEL	TGTG	-	-	rs34484092		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68035110_68035113delTGTG	uc003xxi.2	+						CSPP1_uc003xxg.1_Intron|CSPP1_uc003xxh.1_Intron|CSPP1_uc003xxj.2_Intron|CSPP1_uc003xxk.2_Intron	NM_001077204	NP_001070672			centrosome spindle pole associated protein 1							centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)															---	---	---	---
CSPP1	79848	broad.mit.edu	37	8	68044403	68044403	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68044403delA	uc003xxi.2	+						CSPP1_uc003xxg.1_Intron|CSPP1_uc003xxh.1_Intron|CSPP1_uc003xxj.2_Intron|CSPP1_uc003xxk.2_Intron	NM_001077204	NP_001070672			centrosome spindle pole associated protein 1							centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)															---	---	---	---
CSPP1	79848	broad.mit.edu	37	8	68063952	68063952	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68063952delA	uc003xxi.2	+						CSPP1_uc003xxg.1_Intron|CSPP1_uc003xxh.1_Intron|CSPP1_uc003xxj.2_Intron|CSPP1_uc003xxk.2_Intron	NM_001077204	NP_001070672			centrosome spindle pole associated protein 1							centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)															---	---	---	---
CSPP1	79848	broad.mit.edu	37	8	68094553	68094554	+	Intron	DEL	TT	-	-	rs112406408		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68094553_68094554delTT	uc003xxi.2	+						ARFGEF1_uc003xxl.1_Intron|CSPP1_uc003xxj.2_Intron|CSPP1_uc003xxk.2_Intron|CSPP1_uc010lyw.2_Intron	NM_001077204	NP_001070672			centrosome spindle pole associated protein 1							centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)															---	---	---	---
ARFGEF1	10565	broad.mit.edu	37	8	68214710	68214710	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68214710delA	uc003xxo.1	-							NM_006421	NP_006412			brefeldin A-inhibited guanine						exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)															---	---	---	---
CPA6	57094	broad.mit.edu	37	8	68441398	68441398	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68441398delA	uc003xxq.3	-						CPA6_uc003xxr.3_Intron|CPA6_uc003xxs.2_Intron	NM_020361	NP_065094			carboxypeptidase A6 isoform 1 precursor						proteolysis	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2			Epithelial(68;0.04)|OV - Ovarian serous cystadenocarcinoma(28;0.0593)|all cancers(69;0.136)															---	---	---	---
CPA6	57094	broad.mit.edu	37	8	68623922	68623923	+	Intron	DEL	AC	-	-	rs113464680		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68623922_68623923delAC	uc003xxq.3	-						CPA6_uc003xxr.3_Intron|CPA6_uc003xxs.2_Intron	NM_020361	NP_065094			carboxypeptidase A6 isoform 1 precursor						proteolysis	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2			Epithelial(68;0.04)|OV - Ovarian serous cystadenocarcinoma(28;0.0593)|all cancers(69;0.136)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	68824013	68824013	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68824013delA								CPA6 (165393 upstream) : PREX2 (40335 downstream)																																			---	---	---	---
PREX2	80243	broad.mit.edu	37	8	68918116	68918119	+	Intron	DEL	GGTT	-	-	rs72301353		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68918116_68918119delGGTT	uc003xxv.1	+						PREX2_uc003xxu.1_Intron|PREX2_uc011lez.1_Intron	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																		---	---	---	---
PREX2	80243	broad.mit.edu	37	8	69005824	69005824	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:69005824delC	uc003xxv.1	+						PREX2_uc003xxu.1_Intron|PREX2_uc011lez.1_Intron	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																		---	---	---	---
PREX2	80243	broad.mit.edu	37	8	69112844	69112845	+	Intron	DEL	TT	-	-	rs67984783		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:69112844_69112845delTT	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																		---	---	---	---
C8orf34	116328	broad.mit.edu	37	8	69365846	69365846	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:69365846delT	uc010lyz.2	+						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)															---	---	---	---
C8orf34	116328	broad.mit.edu	37	8	69551371	69551372	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:69551371_69551372insC	uc010lyz.2	+						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)															---	---	---	---
C8orf34	116328	broad.mit.edu	37	8	69603530	69603530	+	Intron	DEL	T	-	-	rs76796772	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:69603530delT	uc010lyz.2	+						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)															---	---	---	---
C8orf34	116328	broad.mit.edu	37	8	69697038	69697039	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:69697038_69697039delTG	uc010lyz.2	+						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)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	70106416	70106417	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:70106416_70106417insA								C8orf34 (375160 upstream) : SULF1 (272442 downstream)																																			---	---	---	---
SLCO5A1	81796	broad.mit.edu	37	8	70627279	70627279	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:70627279delA	uc003xyl.2	-						SLCO5A1_uc010lzb.2_Intron|SLCO5A1_uc011lfa.1_Intron|SLCO5A1_uc003xyk.2_Intron|SLCO5A1_uc010lzc.2_Intron	NM_030958	NP_112220			solute carrier organic anion transporter family,							integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	70873111	70873111	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:70873111delT								SLCO5A1 (125812 upstream) : PRDM14 (90914 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	70990047	70990048	+	IGR	INS	-	TTTC	TTTC	rs141325911	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:70990047_70990048insTTTC								PRDM14 (6485 upstream) : NCOA2 (34219 downstream)																																			---	---	---	---
NCOA2	10499	broad.mit.edu	37	8	71273752	71273752	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:71273752delA	uc003xyn.1	-							NM_006540	NP_006531			nuclear receptor coactivator 2						cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)					T	RUNXBP2	AML								---	---	---	---
Unknown	0	broad.mit.edu	37	8	72078014	72078014	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:72078014delT								XKR9 (429838 upstream) : EYA1 (31656 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	72667618	72667619	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:72667618_72667619delTG								EYA1 (393151 upstream) : MSC (86158 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	72830793	72830793	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:72830793delT	uc011lff.1	+						uc003xyy.2_Intron					Homo sapiens cDNA FLJ41321 fis, clone BRAMY2045299.																														---	---	---	---
Unknown	0	broad.mit.edu	37	8	73101704	73101704	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:73101704delA								TRPA1 (113885 upstream) : KCNB2 (347922 downstream)																																			---	---	---	---
KCNB2	9312	broad.mit.edu	37	8	73520590	73520591	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:73520590_73520591insG	uc003xzb.2	+							NM_004770	NP_004761			potassium voltage-gated channel, Shab-related						regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)															---	---	---	---
KCNB2	9312	broad.mit.edu	37	8	73645226	73645226	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:73645226delA	uc003xzb.2	+							NM_004770	NP_004761			potassium voltage-gated channel, Shab-related						regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	73873108	73873108	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:73873108delA								KCNB2 (22526 upstream) : TERF1 (47989 downstream)																																			---	---	---	---
TERF1	7013	broad.mit.edu	37	8	73926356	73926357	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:73926356_73926357delGT	uc003xzd.2	+						TERF1_uc003xzc.2_Intron|TERF1_uc003xze.2_Intron	NM_017489	NP_059523			telomeric repeat binding factor 1 isoform 1						age-dependent telomere shortening|cell division|G2/M transition of mitotic cell cycle|induction of apoptosis|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of telomere maintenance via semi-conservative replication|negative regulation of telomere maintenance via telomerase|positive regulation of microtubule polymerization|positive regulation of mitosis|positive regulation of mitotic cell cycle|protein homooligomerization|regulation of transcription, DNA-dependent|telomere maintenance via telomerase|telomere maintenance via telomerase|telomere maintenance via telomere shortening	chromosome, telomeric region|cytoplasm|nuclear telomere cap complex|nucleoplasm|nucleus|spindle	caspase activator activity|DNA bending activity|double-stranded telomeric DNA binding|identical protein binding|microtubule binding|protein heterodimerization activity|protein homodimerization activity|telomerase inhibitor activity|telomeric DNA binding			ovary(1)|lung(1)|skin(1)	3	Breast(64;0.218)		Epithelial(68;0.0984)															---	---	---	---
STAU2	27067	broad.mit.edu	37	8	74338037	74338037	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:74338037delT	uc003xzm.2	-						STAU2_uc011lfg.1_Intron|STAU2_uc003xzn.2_Intron|STAU2_uc011lfh.1_Intron|uc003xzl.2_Intron	NM_014393	NP_055208			staufen homolog 2 isoform e						transport	endoplasmic reticulum|microtubule|nucleolus	double-stranded RNA binding				0	Breast(64;0.0138)		Epithelial(68;0.026)|BRCA - Breast invasive adenocarcinoma(89;0.0483)|all cancers(69;0.0972)															---	---	---	---
STAU2	27067	broad.mit.edu	37	8	74469174	74469174	+	Intron	DEL	A	-	-	rs139844794		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:74469174delA	uc003xzm.2	-						STAU2_uc011lfg.1_Intron|STAU2_uc003xzn.2_Intron|STAU2_uc011lfh.1_Intron|STAU2_uc003xzo.2_Intron|STAU2_uc003xzp.2_Intron|STAU2_uc011lfi.1_Intron|STAU2_uc003xzq.2_Intron|STAU2_uc010lzk.2_Intron|STAU2_uc010lzl.1_Intron	NM_014393	NP_055208			staufen homolog 2 isoform e						transport	endoplasmic reticulum|microtubule|nucleolus	double-stranded RNA binding				0	Breast(64;0.0138)		Epithelial(68;0.026)|BRCA - Breast invasive adenocarcinoma(89;0.0483)|all cancers(69;0.0972)															---	---	---	---
UBE2W	55284	broad.mit.edu	37	8	74746724	74746724	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:74746724delA	uc003xzv.2	-						UBE2W_uc003xzt.2_Intron|UBE2W_uc003xzu.2_Intron|UBE2W_uc003xzw.2_Intron	NM_018299	NP_060769			ubiquitin-conjugating enzyme E2W (putative)						protein K11-linked ubiquitination|protein monoubiquitination		ATP binding|protein binding|ubiquitin-protein ligase activity				0	Breast(64;0.0311)		Epithelial(68;0.0235)|all cancers(69;0.0687)|BRCA - Breast invasive adenocarcinoma(89;0.069)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	74853846	74853846	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:74853846delA								UBE2W (62736 upstream) : TCEB1 (4788 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	74990346	74990349	+	IGR	DEL	AAAA	-	-	rs112826949		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:74990346_74990349delAAAA								LY96 (49041 upstream) : JPH1 (156592 downstream)																																			---	---	---	---
JPH1	56704	broad.mit.edu	37	8	75171411	75171412	+	Intron	INS	-	A	A	rs35973773		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:75171411_75171412insA	uc003yae.2	-						JPH1_uc003yaf.2_Intron|JPH1_uc003yag.1_Intron	NM_020647	NP_065698			junctophilin 1						calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional membrane complex|junctional sarcoplasmic reticulum membrane|plasma membrane				ovary(1)	1	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)															---	---	---	---
JPH1	56704	broad.mit.edu	37	8	75230186	75230186	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:75230186delG	uc003yae.2	-						JPH1_uc003yaf.2_Intron|JPH1_uc003yag.1_Intron	NM_020647	NP_065698			junctophilin 1						calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional membrane complex|junctional sarcoplasmic reticulum membrane|plasma membrane				ovary(1)	1	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	75252026	75252026	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:75252026delT								JPH1 (18464 upstream) : GDAP1 (10592 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	75520648	75520648	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:75520648delA	uc003yaj.1	+											Homo sapiens cDNA FLJ39080 fis, clone NT2RP7018197.																														---	---	---	---
Unknown	0	broad.mit.edu	37	8	75578444	75578444	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:75578444delT	uc003yaj.1	+											Homo sapiens cDNA FLJ39080 fis, clone NT2RP7018197.																														---	---	---	---
Unknown	0	broad.mit.edu	37	8	75671658	75671658	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:75671658delT								MIR2052 (53676 upstream) : PI15 (65114 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	75686155	75686155	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:75686155delT								MIR2052 (68173 upstream) : PI15 (50617 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	75697506	75697506	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:75697506delT								MIR2052 (79524 upstream) : PI15 (39266 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	75970417	75970417	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:75970417delA								CRISPLD1 (23626 upstream) : HNF4G (349766 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	75996332	75996332	+	IGR	DEL	T	-	-	rs78391305		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:75996332delT								CRISPLD1 (49541 upstream) : HNF4G (323851 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	76099607	76099607	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:76099607delA								CRISPLD1 (152816 upstream) : HNF4G (220576 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	76225688	76225689	+	IGR	INS	-	A	A	rs145136772	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:76225688_76225689insA								CRISPLD1 (278897 upstream) : HNF4G (94494 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	76544396	76544396	+	IGR	DEL	A	-	-	rs2922756	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:76544396delA								HNF4G (65337 upstream) : LOC100192378 (978719 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	76753279	76753279	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:76753279delA								HNF4G (274220 upstream) : LOC100192378 (769836 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	76849158	76849159	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:76849158_76849159delAA								HNF4G (370099 upstream) : LOC100192378 (673956 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	77259787	77259787	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77259787delT								HNF4G (780728 upstream) : LOC100192378 (263328 downstream)																																			---	---	---	---
ZFHX4	79776	broad.mit.edu	37	8	77688510	77688510	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77688510delA	uc003yav.2	+						ZFHX4_uc003yau.1_Intron|ZFHX4_uc003yaw.1_Intron	NM_024721	NP_078997			zinc finger homeodomain 4							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)			---	---	---	---
Unknown	0	broad.mit.edu	37	8	77952322	77952323	+	IGR	DEL	GT	-	-	rs36014989		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77952322_77952323delGT								PEX2 (39798 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	78397793	78397794	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:78397793_78397794insA								PEX2 (485269 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	78836713	78836713	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:78836713delA								PEX2 (924189 upstream) : PKIA (591623 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	79092595	79092595	+	IGR	DEL	A	-	-	rs35085103		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:79092595delA								None (None upstream) : PKIA (335741 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	79199341	79199341	+	IGR	DEL	T	-	-	rs11333508		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:79199341delT								None (None upstream) : PKIA (228995 downstream)																																			---	---	---	---
PKIA	5569	broad.mit.edu	37	8	79502519	79502521	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:79502519_79502521delAAA	uc003yba.2	+						PKIA_uc003ybb.2_Intron|PKIA_uc010lzo.2_5'Flank	NM_006823	NP_006814			cAMP-dependent protein kinase inhibitor alpha								cAMP-dependent protein kinase inhibitor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3																		---	---	---	---
FAM164A	51101	broad.mit.edu	37	8	79603731	79603731	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:79603731delT	uc003ybd.2	+							NM_016010	NP_057094			hypothetical protein LOC51101											ovary(1)	1																		---	---	---	---
IL7	3574	broad.mit.edu	37	8	79684625	79684625	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:79684625delA	uc003ybg.2	-						IL7_uc003ybe.2_Intron|IL7_uc011lfm.1_Intron|IL7_uc003ybh.2_Intron|IL7_uc003ybi.3_Intron	NM_000880	NP_000871			interleukin 7 precursor						bone resorption|cell-cell signaling|humoral immune response|organ morphogenesis|positive regulation of B cell proliferation|positive regulation of T cell differentiation	extracellular space	cytokine activity|growth factor activity|interleukin-7 receptor binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	80136524	80136524	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:80136524delA								IL7 (418766 upstream) : STMN2 (386856 downstream)																																			---	---	---	---
TPD52	7163	broad.mit.edu	37	8	80988775	80988776	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:80988775_80988776delAG	uc003ybr.1	-						TPD52_uc010lzr.2_Intron|TPD52_uc010lzs.1_Intron|TPD52_uc003ybs.1_Intron|TPD52_uc003ybt.1_Intron	NM_001025252	NP_001020423			tumor protein D52 isoform 1						anatomical structure morphogenesis|B cell differentiation|secretion	endoplasmic reticulum|perinuclear region of cytoplasm	calcium ion binding|protein heterodimerization activity|protein homodimerization activity			ovary(1)	1	all_epithelial(4;1.13e-09)|Lung NSC(7;9.71e-07)|all_lung(9;3.75e-06)	Lung NSC(129;3.55e-06)|all_lung(136;1.53e-05)|Acute lymphoblastic leukemia(644;0.158)	BRCA - Breast invasive adenocarcinoma(6;0.00181)|Epithelial(68;0.0149)|all cancers(69;0.0612)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	81173486	81173486	+	IGR	DEL	T	-	-	rs9969433	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81173486delT								TPD52 (89650 upstream) : ZBTB10 (224368 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	81350240	81350240	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81350240delA								TPD52 (266404 upstream) : ZBTB10 (47614 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	81379036	81379036	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81379036delA								TPD52 (295200 upstream) : ZBTB10 (18818 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	81536131	81536132	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81536131_81536132delAG								ZBTB10 (101523 upstream) : ZNF704 (14637 downstream)																																			---	---	---	---
ZNF704	619279	broad.mit.edu	37	8	81575602	81575605	+	Intron	DEL	AAAA	-	-	rs113981733		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81575602_81575605delAAAA	uc003yby.1	-							NM_001033723	NP_001028895			zinc finger protein 704							intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)															---	---	---	---
PAG1	55824	broad.mit.edu	37	8	81979577	81979578	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81979577_81979578delAC	uc003ybz.2	-							NM_018440	NP_060910			phosphoprotein associated with glycosphingolipid						epidermal growth factor receptor signaling pathway|intracellular signal transduction|T cell receptor signaling pathway	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding|SH3/SH2 adaptor activity				0	Lung NSC(7;5.76e-06)|all_lung(9;2e-05)		BRCA - Breast invasive adenocarcinoma(6;0.0567)|Epithelial(68;0.0634)|all cancers(69;0.197)															---	---	---	---
FABP5	2171	broad.mit.edu	37	8	82196888	82196888	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:82196888delT	uc003yca.1	+	4						NM_001444	NP_001435			fatty acid binding protein 5						epidermis development	cytoplasm	fatty acid binding|protein binding|transporter activity				0	Lung NSC(7;3.57e-05)|all_lung(9;0.00011)		Epithelial(68;0.102)															---	---	---	---
IMPA1	3612	broad.mit.edu	37	8	82590407	82590408	+	Intron	DEL	TT	-	-	rs71889773		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:82590407_82590408delTT	uc003ych.2	-						IMPA1_uc011lfq.1_Intron|IMPA1_uc011lfr.1_Intron	NM_005536	NP_005527			inositol(myo)-1(or 4)-monophosphatase 1 isoform						inositol phosphate dephosphorylation|phosphatidylinositol biosynthetic process|signal transduction	cytoplasm	inositol-1(or 4)-monophosphatase activity|metal ion binding|protein homodimerization activity			skin(1)	1					Lithium(DB01356)													---	---	---	---
SNX16	64089	broad.mit.edu	37	8	82756642	82756642	+	5'Flank	DEL	A	-	-	rs12681314	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:82756642delA	uc011lft.1	-						SNX16_uc003ycn.2_5'Flank|SNX16_uc003yco.2_5'Flank	NM_022133	NP_071416			sorting nexin 16 isoform a						cell communication|early endosome to late endosome transport|endosome to lysosome transport|protein targeting to lysosome	early endosome membrane|extrinsic to endosome membrane|late endosome membrane|lysosome	identical protein binding|phosphatidylinositol binding			ovary(1)|pancreas(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	82983812	82983812	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:82983812delA								SNX16 (229291 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	83509041	83509042	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:83509041_83509042delTT								SNX16 (754520 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	83745213	83745213	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:83745213delT								SNX16 (990692 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	84255831	84255831	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:84255831delT								None (None upstream) : RALYL (839622 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	84292031	84292033	+	IGR	DEL	AAA	-	-	rs67080249		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:84292031_84292033delAAA								None (None upstream) : RALYL (803420 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	84368399	84368400	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:84368399_84368400insA								None (None upstream) : RALYL (727053 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	84642546	84642546	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:84642546delA								None (None upstream) : RALYL (452907 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	84767341	84767342	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:84767341_84767342insA								None (None upstream) : RALYL (328111 downstream)																																			---	---	---	---
LRRCC1	85444	broad.mit.edu	37	8	86026465	86026465	+	Intron	DEL	T	-	-	rs74586643		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:86026465delT	uc003ycw.2	+						LRRCC1_uc010lzz.1_Intron|LRRCC1_uc010maa.1_Intron|LRRCC1_uc003ycx.2_Intron|LRRCC1_uc003ycy.2_Intron	NM_033402	NP_208325			sodium channel associated protein 2 isoform a						cell division|mitosis	centriole|nucleus					0																		---	---	---	---
E2F5	1875	broad.mit.edu	37	8	86122533	86122533	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:86122533delT	uc003ycz.3	+						E2F5_uc003yda.3_Intron|E2F5_uc010mab.2_Intron|E2F5_uc003ydb.3_Intron	NM_001951	NP_001942			E2F transcription factor 5 isoform 1						G1 phase of mitotic cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1																		---	---	---	---
C8orf59	401466	broad.mit.edu	37	8	86129455	86129455	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:86129455delT	uc010mac.1	-						C8orf59_uc003ydd.2_Intron|C8orf59_uc010mad.1_Intron|C8orf59_uc003yde.2_Intron|C8orf59_uc011lfu.1_Intron	NM_001099670	NP_001093140			hypothetical protein LOC401466												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	86396695	86396695	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:86396695delT								CA2 (2974 upstream) : REXO1L1 (171869 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	87297158	87297158	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:87297158delA								SLC7A13 (54549 upstream) : WWP1 (57836 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	87351921	87351926	+	Intron	DEL	AAAAAA	-	-	rs76466574		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:87351921_87351926delAAAAAA	uc003yds.2	-											Homo sapiens cDNA clone IMAGE:5267578.																														---	---	---	---
Unknown	0	broad.mit.edu	37	8	87829178	87829178	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:87829178delT								CNGB3 (73277 upstream) : CNBD1 (49498 downstream)																																			---	---	---	---
CNBD1	168975	broad.mit.edu	37	8	88019759	88019759	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:88019759delT	uc003ydy.2	+							NM_173538	NP_775809			cyclic nucleotide binding domain containing 1											ovary(3)	3																		---	---	---	---
CNBD1	168975	broad.mit.edu	37	8	88107895	88107896	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:88107895_88107896delTT	uc003ydy.2	+							NM_173538	NP_775809			cyclic nucleotide binding domain containing 1											ovary(3)	3																		---	---	---	---
CNBD1	168975	broad.mit.edu	37	8	88352836	88352836	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:88352836delT	uc003ydy.2	+							NM_173538	NP_775809			cyclic nucleotide binding domain containing 1											ovary(3)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	88583376	88583376	+	IGR	DEL	T	-	-	rs139605613		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:88583376delT								CNBD1 (188421 upstream) : DCAF4L2 (299597 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	88820771	88820771	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:88820771delA								CNBD1 (425816 upstream) : DCAF4L2 (62202 downstream)																																			---	---	---	---
MMP16	4325	broad.mit.edu	37	8	89176538	89176538	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:89176538delA	uc003yeb.3	-						MMP16_uc003yec.2_Intron	NM_005941	NP_005932			matrix metalloproteinase 16 isoform 1						collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	89437263	89437264	+	IGR	INS	-	T	T	rs139332860	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:89437263_89437264insT								MMP16 (97546 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	89481209	89481209	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:89481209delA								MMP16 (141492 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	89504697	89504697	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:89504697delA								MMP16 (164980 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	89594669	89594670	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:89594669_89594670insT								MMP16 (254952 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	89686555	89686556	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:89686555_89686556delAA								MMP16 (346838 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	90514991	90514992	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:90514991_90514992delAA								None (None upstream) : RIPK2 (254983 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	90586045	90586045	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:90586045delA								None (None upstream) : RIPK2 (183930 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	90600121	90600121	+	IGR	DEL	A	-	-	rs113288679		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:90600121delA								None (None upstream) : RIPK2 (169854 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	90690506	90690507	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:90690506_90690507delAA								None (None upstream) : RIPK2 (79468 downstream)																																			---	---	---	---
NBN	4683	broad.mit.edu	37	8	90948043	90948043	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:90948043delA	uc003yej.1	-						NBN_uc003yei.1_Intron|NBN_uc011lgb.1_Intron	NM_002485	NP_002476			nibrin						cell cycle arrest|DNA damage response, signal transduction by p53 class mediator|DNA duplex unwinding|double-strand break repair via homologous recombination|meiosis|mitotic cell cycle G1/S transition checkpoint|mitotic cell cycle G2/M transition DNA damage checkpoint|positive regulation of kinase activity|positive regulation of protein autophosphorylation|regulation of DNA-dependent DNA replication initiation|telomere maintenance	Mre11 complex|nuclear chromosome, telomeric region|nuclear inclusion body|nucleolus|nucleoplasm	protein N-terminus binding|transcription factor binding			central_nervous_system(3)|kidney(3)|lung(1)	7			BRCA - Breast invasive adenocarcinoma(11;0.0344)										Direct_reversal_of_damage|Homologous_recombination	Nijmegen_Breakage_syndrome				---	---	---	---
DECR1	1666	broad.mit.edu	37	8	91053177	91053177	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:91053177delT	uc003yek.1	+						DECR1_uc011lgc.1_Intron|DECR1_uc011lgd.1_Intron	NM_001359	NP_001350			2,4-dienoyl CoA reductase 1 precursor						fatty acid beta-oxidation|protein homotetramerization	mitochondrial matrix|nucleus|plasma membrane	2,4-dienoyl-CoA reductase (NADPH) activity|NADPH binding|oxidoreductase activity, acting on NADH or NADPH				0			BRCA - Breast invasive adenocarcinoma(11;0.00953)															---	---	---	---
CALB1	793	broad.mit.edu	37	8	91083089	91083090	+	Intron	INS	-	GTGA	GTGA	rs139066421	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:91083089_91083090insGTGA	uc003yel.1	-						CALB1_uc011lge.1_Intron	NM_004929	NP_004920			calbindin 1							nucleus	calcium ion binding|vitamin D binding			pancreas(1)	1			BRCA - Breast invasive adenocarcinoma(11;0.00953)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	91122176	91122177	+	IGR	INS	-	TG	TG	rs146331809	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:91122176_91122177insTG								CALB1 (14489 upstream) : TMEM64 (512046 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	91201050	91201050	+	IGR	DEL	A	-	-	rs35424160		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:91201050delA								CALB1 (93363 upstream) : TMEM64 (433173 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	91242199	91242199	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:91242199delT								CALB1 (134512 upstream) : TMEM64 (392024 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	91291227	91291227	+	IGR	DEL	A	-	-	rs36123814		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:91291227delA								CALB1 (183540 upstream) : TMEM64 (342996 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	91366691	91366692	+	IGR	INS	-	AGTT	AGTT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:91366691_91366692insAGTT								CALB1 (259004 upstream) : TMEM64 (267531 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	91429924	91429924	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:91429924delA								CALB1 (322237 upstream) : TMEM64 (204299 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	91437990	91437990	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:91437990delA								CALB1 (330303 upstream) : TMEM64 (196233 downstream)																																			---	---	---	---
NECAB1	64168	broad.mit.edu	37	8	91884332	91884332	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:91884332delT	uc011lgg.1	+							NM_022351	NP_071746			N-terminal EF-hand calcium binding protein 1						antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity			central_nervous_system(1)	1			BRCA - Breast invasive adenocarcinoma(11;0.0499)															---	---	---	---
NECAB1	64168	broad.mit.edu	37	8	91925699	91925699	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:91925699delA	uc011lgg.1	+							NM_022351	NP_071746			N-terminal EF-hand calcium binding protein 1						antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity			central_nervous_system(1)	1			BRCA - Breast invasive adenocarcinoma(11;0.0499)															---	---	---	---
LRRC69	100130742	broad.mit.edu	37	8	92130234	92130235	+	Intron	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:92130234_92130235delGA	uc010mal.1	+						LRRC69_uc003yev.1_Intron|LRRC69_uc003yew.1_5'Flank	NM_001129890	NP_001123362			leucine rich repeat containing 69												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	92567485	92567485	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:92567485delT								SLC26A7 (157105 upstream) : RUNX1T1 (403667 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	92621634	92621634	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:92621634delT								SLC26A7 (211254 upstream) : RUNX1T1 (349518 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	92812514	92812514	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:92812514delT								SLC26A7 (402134 upstream) : RUNX1T1 (158638 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	92815350	92815351	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:92815350_92815351insA								SLC26A7 (404970 upstream) : RUNX1T1 (155801 downstream)																																			---	---	---	---
RUNX1T1	862	broad.mit.edu	37	8	93018805	93018805	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:93018805delT	uc003yfd.2	-						RUNX1T1_uc003yfc.1_Intron|RUNX1T1_uc003yfe.1_Intron|RUNX1T1_uc010mao.2_Intron|RUNX1T1_uc011lgi.1_Intron|RUNX1T1_uc003yfb.1_Intron|RUNX1T1_uc003yff.1_Intron	NM_175634	NP_783552			acute myelogenous leukemia 1 translocation 1						generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	93553714	93553714	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:93553714delA								RUNX1T1 (446008 upstream) : C8orf83 (342151 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	93766360	93766361	+	Intron	DEL	GC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:93766360_93766361delGC	uc003yfj.1	-											Homo sapiens cDNA FLJ46284 fis, clone TESTI4031818.																														---	---	---	---
Unknown	0	broad.mit.edu	37	8	93843733	93843733	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:93843733delA	uc003yfj.1	-											Homo sapiens cDNA FLJ46284 fis, clone TESTI4031818.																														---	---	---	---
Unknown	0	broad.mit.edu	37	8	93860505	93860505	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:93860505delT	uc003yfj.1	-											Homo sapiens cDNA FLJ46284 fis, clone TESTI4031818.																														---	---	---	---
Unknown	0	broad.mit.edu	37	8	94108917	94108919	+	IGR	DEL	TTT	-	-	rs76858846		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:94108917_94108919delTTT								C8orf83 (79016 upstream) : FAM92A1 (603854 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	94588757	94588757	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:94588757delA								C8orf83 (558856 upstream) : FAM92A1 (124016 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	94697425	94697425	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:94697425delA								C8orf83 (667524 upstream) : FAM92A1 (15348 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	94880719	94880719	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:94880719delT								TMEM67 (50373 upstream) : PDP1 (48364 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	94951240	94951240	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:94951240delT								PDP1 (12946 upstream) : CDH17 (188154 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	94969529	94969529	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:94969529delT								PDP1 (31235 upstream) : CDH17 (169865 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	95128750	95128751	+	IGR	INS	-	T	T	rs141538701	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95128750_95128751insT								PDP1 (190456 upstream) : CDH17 (10643 downstream)																																			---	---	---	---
RAD54B	25788	broad.mit.edu	37	8	95481054	95481055	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95481054_95481055insA	uc003ygk.2	-						RAD54B_uc003ygl.1_Intron|RAD54B_uc003ygn.1_Intron	NM_012415	NP_036547			RAD54 homolog B						double-strand break repair via homologous recombination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA translocase activity|protein binding			kidney(2)|lung(1)|skin(1)	4	Breast(36;4.5e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00217)										Direct_reversal_of_damage|Homologous_recombination					---	---	---	---
KIAA1429	25962	broad.mit.edu	37	8	95541687	95541687	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95541687delA	uc003ygo.1	-						KIAA1429_uc003ygp.2_Intron|KIAA1429_uc010maz.1_5'Flank	NM_015496	NP_056311			hypothetical protein LOC25962 isoform 1						mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)															---	---	---	---
C8orf38	137682	broad.mit.edu	37	8	95927056	95927056	+	Intron	DEL	A	-	-	rs112337363		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95927056delA	uc003yhf.2	+						C8orf38_uc003yhe.1_Intron					RecName: Full=UPF0551 protein C8orf38, mitochondrial; AltName: Full=Putative phytoene synthase; Flags: Precursor;						biosynthetic process	mitochondrion	transferase activity				0	Breast(36;3.32e-06)																	---	---	---	---
Unknown	0	broad.mit.edu	37	8	96252664	96252665	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:96252664_96252665insT								PLEKHF2 (83753 upstream) : C8orf37 (5570 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	96435612	96435612	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:96435612delT								C8orf37 (154175 upstream) : GDF6 (718948 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	96562574	96562574	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:96562574delA								C8orf37 (281137 upstream) : GDF6 (591986 downstream)																																			---	---	---	---
MTERFD1	51001	broad.mit.edu	37	8	97258728	97258728	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:97258728delT	uc003yhs.1	-						MTERFD1_uc003yhr.1_Intron|MTERFD1_uc010mbd.1_Intron	NM_015942	NP_057026			MTERF domain containing 1 precursor						negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion	transcription regulatory region DNA binding			ovary(1)	1	Breast(36;5.16e-05)																	---	---	---	---
Unknown	0	broad.mit.edu	37	8	97443071	97443071	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:97443071delT								PTDSS1 (96297 upstream) : SDC2 (62811 downstream)																																			---	---	---	---
SDC2	6383	broad.mit.edu	37	8	97547235	97547236	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:97547235_97547236delTT	uc003yhv.1	+							NM_002998	NP_002989			syndecan 2 precursor							integral to plasma membrane	cytoskeletal protein binding|PDZ domain binding			ovary(2)	2	Breast(36;3.41e-05)				Sargramostim(DB00020)													---	---	---	---
PGCP	10404	broad.mit.edu	37	8	97894182	97894182	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:97894182delA	uc003yhw.2	+						PGCP_uc010mbe.2_Intron	NM_016134	NP_057218			plasma glutamate carboxypeptidase precursor						peptide metabolic process|proteolysis	cytoplasm|extracellular space	metal ion binding|metallocarboxypeptidase activity			upper_aerodigestive_tract(1)	1	Breast(36;1.86e-05)																	---	---	---	---
Unknown	0	broad.mit.edu	37	8	98302484	98302484	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98302484delA								TSPYL5 (12308 upstream) : MTDH (353923 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	98319503	98319503	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98319503delA								TSPYL5 (29327 upstream) : MTDH (336904 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	98467535	98467535	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98467535delA								TSPYL5 (177359 upstream) : MTDH (188872 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	98581001	98581001	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98581001delA								TSPYL5 (290825 upstream) : MTDH (75406 downstream)																																			---	---	---	---
MTDH	92140	broad.mit.edu	37	8	98709916	98709916	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98709916delT	uc003yhz.2	+						MTDH_uc010mbf.2_Intron	NM_178812	NP_848927			metadherin						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)															---	---	---	---
MTDH	92140	broad.mit.edu	37	8	98720091	98720091	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98720091delA	uc003yhz.2	+						MTDH_uc010mbf.2_Intron	NM_178812	NP_848927			metadherin						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)															---	---	---	---
MTDH	92140	broad.mit.edu	37	8	98727056	98727057	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98727056_98727057delTT	uc003yhz.2	+						MTDH_uc010mbf.2_Intron	NM_178812	NP_848927			metadherin						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)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	98771568	98771568	+	IGR	DEL	A	-	-	rs75318684		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98771568delA								MTDH (29081 upstream) : LAPTM4B (16241 downstream)																																			---	---	---	---
POP1	10940	broad.mit.edu	37	8	99164192	99164193	+	Intron	INS	-	CTCAAGT	CTCAAGT	rs144580482	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:99164192_99164193insCTCAAGT	uc003yij.3	+						POP1_uc011lgv.1_Intron|POP1_uc003yik.2_Intron	NM_001145860	NP_001139332			processing of precursor 1						tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)															---	---	---	---
NIPAL2	79815	broad.mit.edu	37	8	99220161	99220161	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:99220161delT	uc003yil.1	-						NIPAL2_uc011lgw.1_Intron|NIPAL2_uc003yim.1_Intron	NM_024759	NP_079035			NIPA-like domain containing 2							integral to membrane					0																		---	---	---	---
NIPAL2	79815	broad.mit.edu	37	8	99245491	99245491	+	Intron	DEL	A	-	-	rs76973624	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:99245491delA	uc003yil.1	-						NIPAL2_uc011lgw.1_Intron|NIPAL2_uc003yim.1_Intron	NM_024759	NP_079035			NIPA-like domain containing 2							integral to membrane					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	99343423	99343423	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:99343423delT								NIPAL2 (36802 upstream) : KCNS2 (95827 downstream)																																			---	---	---	---
STK3	6788	broad.mit.edu	37	8	99575244	99575245	+	Intron	INS	-	A	A	rs34350283		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:99575244_99575245insA	uc003yip.2	-						STK3_uc003yio.2_Intron|STK3_uc010mbm.1_Intron	NM_006281	NP_006272			serine/threonine kinase 3						apoptosis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of apoptosis	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein dimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	Breast(36;2.4e-06)	Breast(495;0.106)	OV - Ovarian serous cystadenocarcinoma(57;0.0382)	KIRC - Kidney renal clear cell carcinoma(542;9.44e-06)														---	---	---	---
STK3	6788	broad.mit.edu	37	8	99676499	99676499	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:99676499delA	uc003yip.2	-						STK3_uc003yio.2_Intron|STK3_uc010mbm.1_Intron	NM_006281	NP_006272			serine/threonine kinase 3						apoptosis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of apoptosis	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein dimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	Breast(36;2.4e-06)	Breast(495;0.106)	OV - Ovarian serous cystadenocarcinoma(57;0.0382)	KIRC - Kidney renal clear cell carcinoma(542;9.44e-06)														---	---	---	---
STK3	6788	broad.mit.edu	37	8	99879800	99879800	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:99879800delA	uc003yio.2	-							NM_006281	NP_006272			serine/threonine kinase 3						apoptosis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of apoptosis	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein dimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	Breast(36;2.4e-06)	Breast(495;0.106)	OV - Ovarian serous cystadenocarcinoma(57;0.0382)	KIRC - Kidney renal clear cell carcinoma(542;9.44e-06)														---	---	---	---
VPS13B	157680	broad.mit.edu	37	8	100032092	100032093	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:100032092_100032093insT	uc003yiv.2	+						VPS13B_uc003yiw.2_Intron|VPS13B_uc003yit.2_Intron|VPS13B_uc003yiu.1_Intron|VPS13B_uc003yis.2_Intron|VPS13B_uc011lgy.1_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)															---	---	---	---
VPS13B	157680	broad.mit.edu	37	8	100172217	100172217	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:100172217delT	uc003yiv.2	+						VPS13B_uc003yiw.2_Intron|VPS13B_uc003yit.2_Intron|VPS13B_uc003yiu.1_Intron|VPS13B_uc003yix.1_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)															---	---	---	---
VPS13B	157680	broad.mit.edu	37	8	100239813	100239813	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:100239813delT	uc003yiv.2	+						VPS13B_uc003yiw.2_Intron|VPS13B_uc003yiu.1_Intron|VPS13B_uc003yix.1_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)															---	---	---	---
VPS13B	157680	broad.mit.edu	37	8	100315345	100315345	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:100315345delA	uc003yiv.2	+						VPS13B_uc003yiw.2_Intron|VPS13B_uc003yiu.1_Intron|VPS13B_uc003yix.1_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)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	100943350	100943351	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:100943350_100943351delTT								COX6C (37455 upstream) : RGS22 (29925 downstream)																																			---	---	---	---
SPAG1	6674	broad.mit.edu	37	8	101189915	101189916	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101189915_101189916insA	uc003yjh.1	+						SPAG1_uc003yjg.1_Intron|SPAG1_uc003yji.1_Intron	NM_172218	NP_757367			sperm associated antigen 1						single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	101360403	101360403	+	IGR	DEL	T	-	-	rs34530297		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101360403delT								RNF19A (38076 upstream) : ANKRD46 (161584 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	101386622	101386622	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101386622delT								RNF19A (64295 upstream) : ANKRD46 (135365 downstream)																																			---	---	---	---
ANKRD46	157567	broad.mit.edu	37	8	101523665	101523666	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101523665_101523666delTG	uc003yjm.2	-							NM_198401	NP_940683			ankyrin repeat domain 46							integral to membrane					0	all_cancers(14;5.07e-05)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000353)|all_lung(17;0.000998)		Epithelial(11;2.61e-11)|all cancers(13;5.03e-09)|OV - Ovarian serous cystadenocarcinoma(57;4.49e-06)|STAD - Stomach adenocarcinoma(118;0.0957)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	101686822	101686822	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101686822delT								SNX31 (24929 upstream) : PABPC1 (28322 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	101856706	101856706	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101856706delT								PABPC1 (122391 upstream) : YWHAZ (74098 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	102434347	102434349	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:102434347_102434349delAAA								NACAP1 (49412 upstream) : GRHL2 (70319 downstream)																																			---	---	---	---
GRHL2	79977	broad.mit.edu	37	8	102564070	102564070	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:102564070delT	uc010mbu.2	+						GRHL2_uc011lhi.1_Intron	NM_024915	NP_079191			transcription factor CP2-like 3							cytoplasm|nucleus	DNA binding			ovary(2)|skin(1)	3	all_cancers(14;4.39e-08)|all_epithelial(15;4.09e-10)|Lung NSC(17;7.11e-06)|all_lung(17;1.44e-05)		Epithelial(11;5.81e-09)|all cancers(13;3.81e-07)|OV - Ovarian serous cystadenocarcinoma(57;0.000213)															---	---	---	---
NCALD	83988	broad.mit.edu	37	8	102740365	102740365	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:102740365delA	uc003yke.2	-						NCALD_uc003ykf.2_Intron|NCALD_uc003ykg.2_Intron|NCALD_uc003ykh.2_Intron|NCALD_uc003yki.2_Intron|NCALD_uc003ykj.2_Intron|NCALD_uc003ykk.2_Intron|NCALD_uc003ykl.2_Intron	NM_032041	NP_114430			neurocalcin delta						synaptic transmission|vesicle-mediated transport	clathrin coat of trans-Golgi network vesicle|cytosol	actin binding|calcium ion binding|clathrin binding|tubulin binding				0	all_cancers(14;8.94e-08)|all_epithelial(15;7.03e-10)|Lung NSC(17;1.36e-05)|all_lung(17;2.7e-05)		all cancers(13;1.09e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000699)															---	---	---	---
NCALD	83988	broad.mit.edu	37	8	102980069	102980070	+	Intron	DEL	AC	-	-	rs72380627		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:102980069_102980070delAC	uc003ykf.2	-						NCALD_uc003ykg.2_Intron|NCALD_uc003ykh.2_Intron|NCALD_uc003yki.2_Intron|NCALD_uc003ykj.2_Intron|NCALD_uc003ykk.2_Intron|NCALD_uc003ykl.2_Intron	NM_001040628	NP_001035718			neurocalcin delta						synaptic transmission|vesicle-mediated transport	clathrin coat of trans-Golgi network vesicle|cytosol	actin binding|calcium ion binding|clathrin binding|tubulin binding				0	all_cancers(14;8.94e-08)|all_epithelial(15;7.03e-10)|Lung NSC(17;1.36e-05)|all_lung(17;2.7e-05)		all cancers(13;1.09e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000699)															---	---	---	---
RRM2B	50484	broad.mit.edu	37	8	103225972	103225972	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:103225972delA	uc003ykn.2	-						RRM2B_uc003yko.2_Intron|RRM2B_uc010mbv.1_Intron|RRM2B_uc010mbw.1_Intron|RRM2B_uc010mbx.1_Intron|RRM2B_uc010mby.1_Intron	NM_015713	NP_056528			ribonucleotide reductase M2 B (TP53 inducible)						deoxyribonucleoside diphosphate metabolic process|DNA repair|nucleobase, nucleoside and nucleotide interconversion	nucleoplasm	ribonucleoside-diphosphate reductase activity|transition metal ion binding			ovary(2)	2	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;0.000728)										Direct_reversal_of_damage|Modulation_of_nucleotide_pools					---	---	---	---
UBR5	51366	broad.mit.edu	37	8	103282218	103282218	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:103282218delA	uc003ykr.1	-						UBR5_uc003yks.1_Intron|UBR5_uc003ykq.2_5'Flank	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)															---	---	---	---
UBR5	51366	broad.mit.edu	37	8	103289349	103289349	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:103289349delT	uc003ykr.1	-	45	6393	c.6360delA	c.(6358-6360)AAAfs	p.K2120fs	UBR5_uc003yks.1_Frame_Shift_Del_p.K2120fs	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	2120					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	103495558	103495558	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:103495558delT								UBR5 (71063 upstream) : ODF1 (68290 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	103692346	103692347	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:103692346_103692347delTT								KLF10 (24363 upstream) : AZIN1 (146190 downstream)																																			---	---	---	---
AZIN1	51582	broad.mit.edu	37	8	103846502	103846502	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:103846502delA	uc003ykx.2	-						AZIN1_uc003yky.2_Intron	NM_015878	NP_056962			ornithine decarboxylase antizyme inhibitor						polyamine biosynthetic process|regulation of cellular amino acid metabolic process	cytosol	catalytic activity|protein binding				0	Lung NSC(17;0.000143)|all_lung(17;0.000294)		OV - Ovarian serous cystadenocarcinoma(57;0.000196)|STAD - Stomach adenocarcinoma(118;0.0414)															---	---	---	---
AZIN1	51582	broad.mit.edu	37	8	103854346	103854346	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:103854346delA	uc003ykx.2	-						AZIN1_uc003yky.2_Intron	NM_015878	NP_056962			ornithine decarboxylase antizyme inhibitor						polyamine biosynthetic process|regulation of cellular amino acid metabolic process	cytosol	catalytic activity|protein binding				0	Lung NSC(17;0.000143)|all_lung(17;0.000294)		OV - Ovarian serous cystadenocarcinoma(57;0.000196)|STAD - Stomach adenocarcinoma(118;0.0414)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	103963545	103963545	+	IGR	DEL	A	-	-	rs72222713		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:103963545delA								AZIN1 (87148 upstream) : ATP6V1C1 (69703 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	104091400	104091400	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:104091400delT								ATP6V1C1 (6116 upstream) : C8orf56 (53792 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	104263829	104263830	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:104263829_104263830insA	uc003ylf.2	-											Homo sapiens cDNA FLJ43745 fis, clone TESTI2019648.																														---	---	---	---
RIMS2	9699	broad.mit.edu	37	8	104538845	104538845	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:104538845delA	uc003ylp.2	+							NM_001100117	NP_001093587			regulating synaptic membrane exocytosis 2						intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)												HNSCC(12;0.0054)			---	---	---	---
RIMS2	9699	broad.mit.edu	37	8	104613527	104613530	+	Intron	DEL	CTCT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:104613527_104613530delCTCT	uc003ylp.2	+							NM_001100117	NP_001093587			regulating synaptic membrane exocytosis 2						intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)												HNSCC(12;0.0054)			---	---	---	---
RIMS2	9699	broad.mit.edu	37	8	104733883	104733883	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:104733883delT	uc003ylp.2	+							NM_001100117	NP_001093587			regulating synaptic membrane exocytosis 2						intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)												HNSCC(12;0.0054)			---	---	---	---
RIMS2	9699	broad.mit.edu	37	8	104946928	104946931	+	Intron	DEL	TTTT	-	-	rs71809877		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:104946928_104946931delTTTT	uc003yls.2	+						RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Intron|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron|RIMS2_uc003ylt.2_Intron	NM_014677	NP_055492			regulating synaptic membrane exocytosis 2						intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)												HNSCC(12;0.0054)			---	---	---	---
RIMS2	9699	broad.mit.edu	37	8	104998453	104998453	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:104998453delT	uc003yls.2	+						RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Intron|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492			regulating synaptic membrane exocytosis 2						intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)												HNSCC(12;0.0054)			---	---	---	---
RIMS2	9699	broad.mit.edu	37	8	105010355	105010355	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:105010355delT	uc003yls.2	+						RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Intron|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492			regulating synaptic membrane exocytosis 2						intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)												HNSCC(12;0.0054)			---	---	---	---
RIMS2	9699	broad.mit.edu	37	8	105048808	105048808	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:105048808delA	uc003yls.2	+						RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Intron|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492			regulating synaptic membrane exocytosis 2						intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)												HNSCC(12;0.0054)			---	---	---	---
LRP12	29967	broad.mit.edu	37	8	105544601	105544602	+	Intron	INS	-	AA	AA	rs34023849		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:105544601_105544602insAA	uc003yma.2	-						LRP12_uc003ymb.2_Intron|LRP12_uc003ymc.3_Intron	NM_013437	NP_038465			low density lipoprotein-related protein 12						endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)															---	---	---	---
LRP12	29967	broad.mit.edu	37	8	105593972	105593972	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:105593972delA	uc003yma.2	-						LRP12_uc003ymb.2_Intron|LRP12_uc003ymc.3_Intron	NM_013437	NP_038465			low density lipoprotein-related protein 12						endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	105704162	105704163	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:105704162_105704163delAG								LRP12 (102942 upstream) : ZFPM2 (626984 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	105884993	105884994	+	IGR	DEL	AT	-	-	rs35062075		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:105884993_105884994delAT								LRP12 (283773 upstream) : ZFPM2 (446153 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	105912449	105912449	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:105912449delT								LRP12 (311229 upstream) : ZFPM2 (418698 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	107064415	107064415	+	IGR	DEL	A	-	-	rs35500176		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:107064415delA								ZFPM2 (247650 upstream) : OXR1 (218058 downstream)																																			---	---	---	---
OXR1	55074	broad.mit.edu	37	8	107432959	107432960	+	Intron	DEL	TG	-	-	rs72232956		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:107432959_107432960delTG	uc003ymf.2	+							NM_018002	NP_060472			oxidation resistance 1 isoform 1						cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)															---	---	---	---
OXR1	55074	broad.mit.edu	37	8	107533747	107533748	+	Intron	INS	-	TGT	TGT	rs149789886	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:107533747_107533748insTGT	uc011lht.1	+						OXR1_uc003ymf.2_Intron	NM_018002	NP_060472			oxidation resistance 1 isoform 1						cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)															---	---	---	---
OXR1	55074	broad.mit.edu	37	8	107599500	107599500	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:107599500delT	uc011lht.1	+						OXR1_uc003ymf.2_Intron	NM_018002	NP_060472			oxidation resistance 1 isoform 1						cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)															---	---	---	---
OXR1	55074	broad.mit.edu	37	8	107691426	107691426	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:107691426delT	uc011lht.1	+						OXR1_uc003ymf.2_Intron|OXR1_uc011lhu.1_Intron|OXR1_uc010mcg.2_Intron|OXR1_uc003ymg.1_Intron|OXR1_uc003ymi.1_Intron	NM_018002	NP_060472			oxidation resistance 1 isoform 1						cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	108513589	108513589	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:108513589delT								ANGPT1 (3335 upstream) : RSPO2 (397956 downstream)																																			---	---	---	---
RSPO2	340419	broad.mit.edu	37	8	109054809	109054809	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:109054809delA	uc003yms.2	-						RSPO2_uc003ymq.2_Intron|RSPO2_uc003ymr.2_Intron	NM_178565	NP_848660			R-spondin family, member 2 precursor						Wnt receptor signaling pathway	extracellular region	heparin binding			skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	109210926	109210926	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:109210926delT								RSPO2 (115013 upstream) : EIF3E (3047 downstream)																																			---	---	---	---
EIF3E	3646	broad.mit.edu	37	8	109233395	109233395	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:109233395delA	uc003ymu.2	-						EIF3E_uc003ymt.2_Intron|EIF3E_uc003ymv.2_Intron|EIF3E_uc010mci.1_Intron	NM_001568	NP_001559			eukaryotic translation initiation factor 3,						negative regulation of translational initiation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|eukaryotic translation initiation factor 3 complex|PML body	protein N-terminus binding			ovary(2)|kidney(1)	3			OV - Ovarian serous cystadenocarcinoma(57;6.84e-10)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	109410028	109410028	+	IGR	DEL	A	-	-	rs36110124		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:109410028delA								EIF3E (149069 upstream) : TTC35 (45825 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	109587217	109587217	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:109587217delA								TTC35 (88081 upstream) : TMEM74 (31863 downstream)																																			---	---	---	---
TMEM74	157753	broad.mit.edu	37	8	109677244	109677244	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:109677244delT	uc003ymx.2	-											Homo sapiens cDNA FLJ30668 fis, clone FCBBF1000675.						autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(57;3.08e-10)															---	---	---	---
TMEM74	157753	broad.mit.edu	37	8	109780444	109780444	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:109780444delT	uc003ymx.2	-											Homo sapiens cDNA FLJ30668 fis, clone FCBBF1000675.						autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(57;3.08e-10)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	109872305	109872305	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:109872305delT								TMEM74 (72535 upstream) : TRHR (227434 downstream)																																			---	---	---	---
NUDCD1	84955	broad.mit.edu	37	8	110264682	110264682	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110264682delA	uc003ynb.3	-						NUDCD1_uc003yna.2_Intron|NUDCD1_uc010mcl.2_Intron	NM_032869	NP_116258			NudC domain containing 1 isoform 1											ovary(1)|breast(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;1.56e-12)															---	---	---	---
NUDCD1	84955	broad.mit.edu	37	8	110289694	110289694	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110289694delA	uc003ynb.3	-						NUDCD1_uc003yna.2_Intron|NUDCD1_uc010mcl.2_Intron|NUDCD1_uc010mcm.1_Intron	NM_032869	NP_116258			NudC domain containing 1 isoform 1											ovary(1)|breast(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;1.56e-12)															---	---	---	---
SYBU	55638	broad.mit.edu	37	8	110602233	110602233	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110602233delA	uc003ynj.3	-						SYBU_uc003yni.3_Intron|SYBU_uc003ynk.3_Intron|SYBU_uc010mco.2_Intron|SYBU_uc003ynl.3_Intron|SYBU_uc010mcp.2_Intron|SYBU_uc010mcq.2_Intron|SYBU_uc003yno.3_Intron|SYBU_uc010mcr.2_Intron|SYBU_uc003ynm.3_Intron|SYBU_uc003ynn.3_Intron|SYBU_uc010mcs.2_Intron|SYBU_uc010mct.2_Intron|SYBU_uc010mcu.2_Intron|SYBU_uc003ynp.3_Intron|SYBU_uc010mcv.2_Intron|SYBU_uc011lhw.1_Intron	NM_001099754	NP_001093224			Golgi-localized syntaphilin-related protein							cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1																		---	---	---	---
SYBU	55638	broad.mit.edu	37	8	110602640	110602641	+	Intron	DEL	TT	-	-	rs35140889		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110602640_110602641delTT	uc003ynj.3	-						SYBU_uc003yni.3_Intron|SYBU_uc003ynk.3_Intron|SYBU_uc010mco.2_Intron|SYBU_uc003ynl.3_Intron|SYBU_uc010mcp.2_Intron|SYBU_uc010mcq.2_Intron|SYBU_uc003yno.3_Intron|SYBU_uc010mcr.2_Intron|SYBU_uc003ynm.3_Intron|SYBU_uc003ynn.3_Intron|SYBU_uc010mcs.2_Intron|SYBU_uc010mct.2_Intron|SYBU_uc010mcu.2_Intron|SYBU_uc003ynp.3_Intron|SYBU_uc010mcv.2_Intron|SYBU_uc011lhw.1_Intron	NM_001099754	NP_001093224			Golgi-localized syntaphilin-related protein							cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	110737328	110737328	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110737328delA								SYBU (33308 upstream) : KCNV1 (241907 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	111261723	111261724	+	IGR	INS	-	A	A	rs138604528	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:111261723_111261724insA								KCNV1 (273647 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	111332832	111332832	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:111332832delA								KCNV1 (344756 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	111402645	111402648	+	IGR	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:111402645_111402648delAAAA								KCNV1 (414569 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	111566576	111566576	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:111566576delA								KCNV1 (578500 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	111756499	111756499	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:111756499delA								KCNV1 (768423 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	111773032	111773032	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:111773032delG								KCNV1 (784956 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	112309474	112309475	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:112309474_112309475delAA								None (None upstream) : CSMD3 (925686 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	112638635	112638635	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:112638635delT								None (None upstream) : CSMD3 (596526 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	112692737	112692737	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:112692737delA								None (None upstream) : CSMD3 (542424 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	112930015	112930015	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:112930015delT								None (None upstream) : CSMD3 (305146 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	112944979	112944980	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:112944979_112944980delTT								None (None upstream) : CSMD3 (290181 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	112960673	112960673	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:112960673delA								None (None upstream) : CSMD3 (274488 downstream)																																			---	---	---	---
CSMD3	114788	broad.mit.edu	37	8	113273752	113273753	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113273752_113273753delTG	uc003ynu.2	-						CSMD3_uc003yns.2_Intron|CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756			CUB and Sushi multiple domains 3 isoform 1							integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63															HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			---	---	---	---
CSMD3	114788	broad.mit.edu	37	8	113349243	113349243	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113349243delT	uc003ynu.2	-						CSMD3_uc003yns.2_Intron|CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron|CSMD3_uc003ynw.1_Intron	NM_198123	NP_937756			CUB and Sushi multiple domains 3 isoform 1							integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63															HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			---	---	---	---
CSMD3	114788	broad.mit.edu	37	8	113443125	113443126	+	Intron	INS	-	TGTG	TGTG	rs141420644	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113443125_113443126insTGTG	uc003ynu.2	-						CSMD3_uc003yns.2_Intron|CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756			CUB and Sushi multiple domains 3 isoform 1							integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63															HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			---	---	---	---
CSMD3	114788	broad.mit.edu	37	8	113560016	113560017	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113560016_113560017delAG	uc003ynu.2	-						CSMD3_uc003yns.2_Intron|CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756			CUB and Sushi multiple domains 3 isoform 1							integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63															HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			---	---	---	---
CSMD3	114788	broad.mit.edu	37	8	113732555	113732556	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113732555_113732556delTT	uc003ynu.2	-						CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756			CUB and Sushi multiple domains 3 isoform 1							integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63															HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			---	---	---	---
CSMD3	114788	broad.mit.edu	37	8	113854006	113854006	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113854006delA	uc003ynu.2	-						CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756			CUB and Sushi multiple domains 3 isoform 1							integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63															HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			---	---	---	---
CSMD3	114788	broad.mit.edu	37	8	113863993	113863994	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113863993_113863994delAA	uc003ynu.2	-						CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756			CUB and Sushi multiple domains 3 isoform 1							integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63															HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			---	---	---	---
CSMD3	114788	broad.mit.edu	37	8	114012054	114012054	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:114012054delA	uc003ynu.2	-						CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756			CUB and Sushi multiple domains 3 isoform 1							integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63															HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			---	---	---	---
CSMD3	114788	broad.mit.edu	37	8	114174204	114174205	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:114174204_114174205insT	uc003ynu.2	-						CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron|CSMD3_uc010mcx.1_Intron	NM_198123	NP_937756			CUB and Sushi multiple domains 3 isoform 1							integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63															HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			---	---	---	---
CSMD3	114788	broad.mit.edu	37	8	114301223	114301224	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:114301223_114301224insA	uc003ynu.2	-						CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron|CSMD3_uc010mcx.1_Intron	NM_198123	NP_937756			CUB and Sushi multiple domains 3 isoform 1							integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63															HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			---	---	---	---
Unknown	0	broad.mit.edu	37	8	114588290	114588290	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:114588290delT								CSMD3 (139048 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	115006289	115006289	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:115006289delT								CSMD3 (557047 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	115091602	115091602	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:115091602delA								CSMD3 (642360 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	115374928	115374928	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:115374928delA								CSMD3 (925686 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	115525034	115525034	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:115525034delA								None (None upstream) : TRPS1 (895691 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	115707891	115707892	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:115707891_115707892delGA								None (None upstream) : TRPS1 (712833 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	115790376	115790376	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:115790376delA								None (None upstream) : TRPS1 (630349 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	116010907	116010908	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:116010907_116010908delTT								None (None upstream) : TRPS1 (409817 downstream)																																			---	---	---	---
TRPS1	7227	broad.mit.edu	37	8	116495596	116495596	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:116495596delA	uc003ynz.2	-						TRPS1_uc011lhy.1_Intron|TRPS1_uc003yny.2_Intron|TRPS1_uc010mcy.2_Intron	NM_014112	NP_054831			zinc finger transcription factor TRPS1						negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)											Langer-Giedion_syndrome				---	---	---	---
TRPS1	7227	broad.mit.edu	37	8	116582936	116582937	+	Intron	INS	-	CACT	CACT	rs140531529	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:116582936_116582937insCACT	uc003ynz.2	-						TRPS1_uc011lhy.1_Intron|TRPS1_uc003yny.2_Intron|TRPS1_uc010mcy.2_Intron	NM_014112	NP_054831			zinc finger transcription factor TRPS1						negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)											Langer-Giedion_syndrome				---	---	---	---
TRPS1	7227	broad.mit.edu	37	8	116603189	116603190	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:116603189_116603190delAA	uc003ynz.2	-						TRPS1_uc011lhy.1_Intron|TRPS1_uc003yny.2_Intron|TRPS1_uc010mcy.2_Intron	NM_014112	NP_054831			zinc finger transcription factor TRPS1						negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)											Langer-Giedion_syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	8	117298333	117298333	+	IGR	DEL	T	-	-	rs113174382		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:117298333delT								TRPS1 (617105 upstream) : EIF3H (358723 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	117411968	117411968	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:117411968delA								TRPS1 (730740 upstream) : EIF3H (245088 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	117569595	117569596	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:117569595_117569596insA								TRPS1 (888367 upstream) : EIF3H (87460 downstream)																																			---	---	---	---
EIF3H	8667	broad.mit.edu	37	8	117711374	117711375	+	Intron	DEL	AA	-	-	rs78888875		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:117711374_117711375delAA	uc003yoa.2	-						EIF3H_uc003yob.2_Intron|EIF3H_uc011lhz.1_Intron	NM_003756	NP_003747			eukaryotic translation initiation factor 3,						regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(3)	3	all_cancers(13;3.98e-22)|Lung NSC(37;0.000183)|Ovarian(258;0.0172)																	---	---	---	---
RAD21	5885	broad.mit.edu	37	8	117866427	117866428	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:117866427_117866428delTT	uc003yod.2	-							NM_006265	NP_006256			RAD21 homolog						apoptosis|cell division|chromosome segregation|double-strand break repair|mitotic metaphase/anaphase transition|mitotic prometaphase|protein localization to chromatin|reciprocal meiotic recombination|regulation of transcription from RNA polymerase II promoter	chromosome, centromeric region|cohesin complex|nuclear chromosome|nucleoplasm	protein binding			lung(1)|skin(1)	2	all_cancers(13;1.21e-21)|Lung NSC(37;0.000134)|Ovarian(258;0.0172)																	---	---	---	---
Unknown	0	broad.mit.edu	37	8	117900703	117900703	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:117900703delT								RAD21 (13598 upstream) : C8orf85 (49761 downstream)																																			---	---	---	---
SLC30A8	169026	broad.mit.edu	37	8	118036100	118036100	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:118036100delA	uc010mcz.2	+						SLC30A8_uc011lia.1_Intron|SLC30A8_uc003yog.2_Intron	NM_173851	NP_776250			solute carrier family 30 member 8						insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	118258432	118258432	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:118258432delT								SLC30A8 (69480 upstream) : MED30 (274533 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	118341744	118341744	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:118341744delA								SLC30A8 (152792 upstream) : MED30 (191221 downstream)																																	OREG0018937	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	8	118808897	118808897	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:118808897delT								MED30 (256398 upstream) : EXT1 (2705 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	118810645	118810645	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:118810645delT								MED30 (258146 upstream) : EXT1 (957 downstream)																																			---	---	---	---
EXT1	2131	broad.mit.edu	37	8	118876694	118876694	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:118876694delA	uc003yok.1	-							NM_000127	NP_000118			exostosin 1						glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)					Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				---	---	---	---
EXT1	2131	broad.mit.edu	37	8	118882747	118882748	+	Intron	INS	-	ATCT	ATCT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:118882747_118882748insATCT	uc003yok.1	-							NM_000127	NP_000118			exostosin 1						glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)					Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				---	---	---	---
EXT1	2131	broad.mit.edu	37	8	118996689	118996689	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:118996689delA	uc003yok.1	-							NM_000127	NP_000118			exostosin 1						glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)					Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				---	---	---	---
SAMD12	401474	broad.mit.edu	37	8	119208741	119208741	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:119208741delA	uc010mda.1	-	5					SAMD12_uc010mdb.1_RNA	NM_001101676	NP_001095146			sterile alpha motif domain containing 12 isoform											ovary(1)	1	all_cancers(13;3.91e-25)|Lung NSC(37;1.13e-07)|Ovarian(258;0.0249)		STAD - Stomach adenocarcinoma(47;0.00391)															---	---	---	---
SAMD12	401474	broad.mit.edu	37	8	119411112	119411112	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:119411112delT	uc003yom.2	-						SAMD12_uc010mda.1_Intron|SAMD12_uc010mdb.1_Intron	NM_207506	NP_997389			sterile alpha motif domain containing 12 isoform											ovary(1)	1	all_cancers(13;3.91e-25)|Lung NSC(37;1.13e-07)|Ovarian(258;0.0249)		STAD - Stomach adenocarcinoma(47;0.00391)															---	---	---	---
SAMD12	401474	broad.mit.edu	37	8	119419328	119419328	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:119419328delA	uc003yom.2	-						SAMD12_uc010mda.1_Intron|SAMD12_uc010mdb.1_Intron	NM_207506	NP_997389			sterile alpha motif domain containing 12 isoform											ovary(1)	1	all_cancers(13;3.91e-25)|Lung NSC(37;1.13e-07)|Ovarian(258;0.0249)		STAD - Stomach adenocarcinoma(47;0.00391)															---	---	---	---
SAMD12	401474	broad.mit.edu	37	8	119559579	119559579	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:119559579delT	uc003yom.2	-						SAMD12_uc010mda.1_Intron|SAMD12_uc010mdb.1_Intron	NM_207506	NP_997389			sterile alpha motif domain containing 12 isoform											ovary(1)	1	all_cancers(13;3.91e-25)|Lung NSC(37;1.13e-07)|Ovarian(258;0.0249)		STAD - Stomach adenocarcinoma(47;0.00391)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	119641714	119641714	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:119641714delA								SAMD12 (7480 upstream) : TNFRSF11B (294083 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	119778987	119778987	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:119778987delA								SAMD12 (144753 upstream) : TNFRSF11B (156810 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	120282515	120282515	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:120282515delA								MAL2 (24604 upstream) : NOV (146037 downstream)																																			---	---	---	---
TAF2	6873	broad.mit.edu	37	8	120818648	120818648	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:120818648delA	uc003you.2	-							NM_003184	NP_003175			TBP-associated factor 2						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)															---	---	---	---
SNTB1	6641	broad.mit.edu	37	8	121600636	121600639	+	Intron	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:121600636_121600639delAAAA	uc010mdg.2	-						SNTB1_uc003ype.2_Intron	NM_021021	NP_066301			basic beta 1 syntrophin						muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	121923693	121923693	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:121923693delT								SNTB1 (99384 upstream) : HAS2 (701578 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	121979865	121979865	+	IGR	DEL	T	-	-	rs34290384		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:121979865delT								SNTB1 (155556 upstream) : HAS2 (645406 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	122020537	122020538	+	IGR	INS	-	CT	CT	rs112065769		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:122020537_122020538insCT								SNTB1 (196228 upstream) : HAS2 (604733 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	122087642	122087642	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:122087642delA								SNTB1 (263333 upstream) : HAS2 (537629 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	122146511	122146511	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:122146511delT								SNTB1 (322202 upstream) : HAS2 (478760 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	122253618	122253618	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:122253618delA								SNTB1 (429309 upstream) : HAS2 (371653 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	122720496	122720496	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:122720496delA								HAS2AS (63563 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	122743651	122743652	+	IGR	INS	-	T	T	rs143598412	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:122743651_122743652insT								HAS2AS (86718 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	123030709	123030709	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:123030709delT	uc003ypj.2	-											Homo sapiens, clone IMAGE:5466006, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	8	123713978	123713978	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:123713978delT								None (None upstream) : ZHX2 (79923 downstream)																																			---	---	---	---
ZHX2	22882	broad.mit.edu	37	8	123848211	123848211	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:123848211delT	uc003ypk.1	+							NM_014943	NP_055758			zinc fingers and homeoboxes 2							cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	124081443	124081443	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124081443delA								DERL1 (26795 upstream) : WDR67 (3477 downstream)																																			---	---	---	---
WDR67	93594	broad.mit.edu	37	8	124106125	124106125	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124106125delT	uc003ypp.1	+						WDR67_uc011lig.1_Intron|WDR67_uc011lih.1_Intron|WDR67_uc003ypq.1_Intron|WDR67_uc003ypo.1_Intron|WDR67_uc003ypr.2_Intron	NM_145647	NP_663622			WD repeat domain 67 isoform 1							centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	124458776	124458777	+	IGR	INS	-	GTGTCTGTACA	GTGTCTGTACA	rs148204274	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124458776_124458777insGTGTCTGTACA								WDYHV1 (4516 upstream) : FBXO32 (56582 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	124479452	124479452	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124479452delT								WDYHV1 (25192 upstream) : FBXO32 (35907 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	124483159	124483159	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124483159delT								WDYHV1 (28899 upstream) : FBXO32 (32200 downstream)																																			---	---	---	---
KLHL38	340359	broad.mit.edu	37	8	124662549	124662549	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124662549delA	uc003yqs.1	-							NM_001081675	NP_001075144			kelch-like 38												0																		---	---	---	---
ANXA13	312	broad.mit.edu	37	8	124748127	124748127	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124748127delA	uc003yqu.2	-						ANXA13_uc003yqt.2_Intron	NM_004306	NP_004297			annexin A13 isoform a						cell differentiation	plasma membrane	calcium ion binding|calcium-dependent phospholipid binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(37;2.06e-11)|Ovarian(258;0.00579)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00288)															---	---	---	---
FAM91A1	157769	broad.mit.edu	37	8	124786185	124786186	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124786185_124786186insT	uc003yqv.2	+						FAM91A1_uc011lik.1_Intron|FAM91A1_uc011lil.1_Intron	NM_144963	NP_659400			hypothetical protein LOC157769											ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)															---	---	---	---
FAM91A1	157769	broad.mit.edu	37	8	124795594	124795597	+	Intron	DEL	TAAT	-	-	rs67181219		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124795594_124795597delTAAT	uc003yqv.2	+						FAM91A1_uc011lik.1_Intron|FAM91A1_uc011lil.1_Intron	NM_144963	NP_659400			hypothetical protein LOC157769											ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)															---	---	---	---
FER1L6	654463	broad.mit.edu	37	8	124959485	124959486	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124959485_124959486delAA	uc003yqw.2	+							NM_001039112	NP_001034201			fer-1-like 6							integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)															---	---	---	---
FER1L6	654463	broad.mit.edu	37	8	124961593	124961593	+	Intron	DEL	A	-	-	rs34449042		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124961593delA	uc003yqw.2	+							NM_001039112	NP_001034201			fer-1-like 6							integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)															---	---	---	---
NDUFB9	4715	broad.mit.edu	37	8	125560134	125560134	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125560134delA	uc003yrg.3	+						NDUFB9_uc011lim.1_Intron	NM_005005	NP_004996			NADH dehydrogenase (ubiquinone) 1 beta						mitochondrial electron transport, NADH to ubiquinone|sensory perception of sound|transport	mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			ovary(1)|skin(1)	2	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)		NADH(DB00157)													---	---	---	---
MTSS1	9788	broad.mit.edu	37	8	125660951	125660951	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125660951delC	uc003yrk.2	-						MTSS1_uc003yrj.2_Intron|MTSS1_uc003yrl.2_Intron	NM_014751	NP_055566			metastasis suppressor 1						actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	125822862	125822865	+	IGR	DEL	AAAA	-	-	rs80056591		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125822862_125822865delAAAA								MTSS1 (82132 upstream) : LOC157381 (129019 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	125979291	125979291	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125979291delT								LOC157381 (15954 upstream) : ZNF572 (6248 downstream)																																			---	---	---	---
KIAA0196	9897	broad.mit.edu	37	8	126046746	126046747	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:126046746_126046747insA	uc003yrt.2	-						KIAA0196_uc011lir.1_Intron|KIAA0196_uc003yru.1_Intron	NM_014846	NP_055661			strumpellin						cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)															---	---	---	---
KIAA0196	9897	broad.mit.edu	37	8	126059687	126059688	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:126059687_126059688delTT	uc003yrt.2	-						KIAA0196_uc011lir.1_Intron|KIAA0196_uc003yru.1_Intron	NM_014846	NP_055661			strumpellin						cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)															---	---	---	---
NSMCE2	286053	broad.mit.edu	37	8	126317126	126317126	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:126317126delA	uc003yrw.2	+							NM_173685	NP_775956			non-SMC element 2, MMS21 homolog						DNA recombination|DNA repair	nucleus	ligase activity|zinc ion binding			breast(1)	1	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)															---	---	---	---
NSMCE2	286053	broad.mit.edu	37	8	126345402	126345402	+	Intron	DEL	T	-	-	rs34480931		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:126345402delT	uc003yrw.2	+							NM_173685	NP_775956			non-SMC element 2, MMS21 homolog						DNA recombination|DNA repair	nucleus	ligase activity|zinc ion binding			breast(1)	1	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	126608843	126608844	+	IGR	INS	-	TCCA	TCCA	rs147654632	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:126608843_126608844insTCCA								TRIB1 (158201 upstream) : FAM84B (955843 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	126779778	126779778	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:126779778delT								TRIB1 (329136 upstream) : FAM84B (784909 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	127051378	127051378	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:127051378delT								TRIB1 (600736 upstream) : FAM84B (513309 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	127234368	127234368	+	IGR	DEL	T	-	-	rs34773237		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:127234368delT								TRIB1 (783726 upstream) : FAM84B (330319 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	127283948	127283948	+	IGR	DEL	A	-	-	rs78870981		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:127283948delA								TRIB1 (833306 upstream) : FAM84B (280739 downstream)																																			---	---	---	---
FAM84B	157638	broad.mit.edu	37	8	127570050	127570050	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:127570050delC	uc003yrz.1	-							NM_174911	NP_777571			family with sequence similarity 84, member B							cytoplasm|plasma membrane	protein binding				0	Ovarian(5;9.43e-05)|Esophageal squamous(12;0.0012)|Hepatocellular(40;0.128)|Myeloproliferative disorder(2;0.135)		STAD - Stomach adenocarcinoma(47;0.000556)|Colorectal(2;0.0102)|Lung(2;0.0136)|READ - Rectum adenocarcinoma(2;0.0723)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	127619475	127619475	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:127619475delA								FAM84B (49009 upstream) : LOC727677 (682587 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	127672078	127672078	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:127672078delT								FAM84B (101612 upstream) : LOC727677 (629984 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	127744454	127744454	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:127744454delT								FAM84B (173988 upstream) : LOC727677 (557608 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	128185806	128185807	+	IGR	DEL	CA	-	-	rs10571907		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:128185806_128185807delCA								FAM84B (615340 upstream) : LOC727677 (116255 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	128220167	128220168	+	RNA	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:128220167_128220168delTC	uc003ysa.1	-	2		c.2074_2075delGA								Homo sapiens cDNA FLJ43320 fis, clone NT2RI2024935.																														---	---	---	---
Unknown	0	broad.mit.edu	37	8	128272219	128272220	+	IGR	INS	-	G	G	rs140279519	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:128272219_128272220insG								FAM84B (701753 upstream) : LOC727677 (29842 downstream)																																			---	---	---	---
LOC727677	727677	broad.mit.edu	37	8	128481962	128481962	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:128481962delT	uc003yse.1	-						LOC727677_uc011liv.1_Intron					Homo sapiens isolate DGPc1_8_exons1-2-3-4-5 unknown mRNA, alternatively spliced.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	128529642	128529643	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:128529642_128529643delGA								LOC727677 (35258 upstream) : MYC (218122 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	128637760	128637761	+	IGR	DEL	TC	-	-	rs66492924		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:128637760_128637761delTC								LOC727677 (143376 upstream) : MYC (110004 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	128685297	128685297	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:128685297delT								LOC727677 (190913 upstream) : MYC (62468 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	128687285	128687285	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:128687285delA								LOC727677 (192901 upstream) : MYC (60480 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	128762362	128762365	+	IGR	DEL	TCTT	-	-	rs57636287		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:128762362_128762365delTCTT								MYC (8684 upstream) : PVT1 (44414 downstream)																																			---	---	---	---
PVT1	5820	broad.mit.edu	37	8	129101913	129101914	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:129101913_129101914insG	uc010mdq.2	+						PVT1_uc003ysl.2_Intron	NR_003367				Homo sapiens Pvt1 oncogene (non-protein coding), mRNA (cDNA clone IMAGE:5517530), with apparent retained intron.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	129696068	129696068	+	IGR	DEL	A	-	-	rs35593572		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:129696068delA								MIR1208 (533634 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	130465542	130465542	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:130465542delT								None (None upstream) : GSDMC (294901 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	130487439	130487439	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:130487439delT								None (None upstream) : GSDMC (273004 downstream)																																			---	---	---	---
ASAP1	50807	broad.mit.edu	37	8	131077140	131077161	+	Intron	DEL	TGTGTGTGTGTGTGTGTGTGTG	-	-	rs56705405		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131077140_131077161delTGTGTGTGTGTGTGTGTGTGTG	uc003yta.1	-						ASAP1_uc003ysz.1_Intron|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																		---	---	---	---
ASAP1	50807	broad.mit.edu	37	8	131128819	131128819	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131128819delA	uc003yta.1	-						ASAP1_uc003ysz.1_Intron|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																		---	---	---	---
ASAP1	50807	broad.mit.edu	37	8	131140419	131140419	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131140419delA	uc003yta.1	-						ASAP1_uc003ysz.1_Intron|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																		---	---	---	---
ASAP1	50807	broad.mit.edu	37	8	131279348	131279348	+	Intron	DEL	C	-	-	rs11285770		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131279348delC	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																		---	---	---	---
ADCY8	114	broad.mit.edu	37	8	131848982	131848982	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131848982delT	uc003ytd.3	-						ADCY8_uc010mds.2_Intron	NM_001115	NP_001106			adenylate cyclase 8						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)			---	---	---	---
Unknown	0	broad.mit.edu	37	8	132196209	132196209	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:132196209delT								ADCY8 (143374 upstream) : EFR3A (720150 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	132270934	132270934	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:132270934delT								ADCY8 (218099 upstream) : EFR3A (645425 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	132394621	132394623	+	IGR	DEL	TAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:132394621_132394623delTAA								ADCY8 (341786 upstream) : EFR3A (521736 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	132759209	132759209	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:132759209delA								ADCY8 (706374 upstream) : EFR3A (157150 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	132828390	132828390	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:132828390delT								ADCY8 (775555 upstream) : EFR3A (87969 downstream)																																			---	---	---	---
LRRC6	23639	broad.mit.edu	37	8	133622165	133622165	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133622165delT	uc003ytk.2	-						LRRC6_uc003ytl.2_Intron	NM_012472	NP_036604			leucine rich repeat containing 6							cytoplasm				ovary(1)|kidney(1)	2	Ovarian(258;0.00352)|Esophageal squamous(12;0.00507)|all_neural(3;0.0052)|Medulloblastoma(3;0.0922)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)															---	---	---	---
PHF20L1	51105	broad.mit.edu	37	8	133836264	133836264	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133836264delA	uc003ytt.2	+	13	1920	c.1595delA	c.(1594-1596)GAAfs	p.E532fs	PHF20L1_uc003yts.2_Frame_Shift_Del_p.E532fs|PHF20L1_uc011lja.1_Frame_Shift_Del_p.E506fs|PHF20L1_uc003ytu.1_RNA	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	532	Lys-rich.						nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)															---	---	---	---
TG	7038	broad.mit.edu	37	8	133937832	133937832	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133937832delT	uc003ytw.2	+						TG_uc010mdw.2_Intron|TG_uc011ljb.1_Intron|TG_uc003ytx.1_Intron	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	8	134384873	134384874	+	IGR	DEL	TG	-	-	rs10109598	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:134384873_134384874delTG								NDRG1 (75326 upstream) : ST3GAL1 (82217 downstream)																																			---	---	---	---
ST3GAL1	6482	broad.mit.edu	37	8	134482663	134482664	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:134482663_134482664delAA	uc003yuk.2	-						ST3GAL1_uc003yum.2_Intron	NM_173344	NP_775479			ST3 beta-galactoside alpha-2,3-sialyltransferase						protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)															---	---	---	---
ST3GAL1	6482	broad.mit.edu	37	8	134540426	134540426	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:134540426delA	uc003yuk.2	-						ST3GAL1_uc003yum.2_Intron	NM_173344	NP_775479			ST3 beta-galactoside alpha-2,3-sialyltransferase						protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	134727338	134727379	+	IGR	DEL	TCCTTCCTCCCTCCCTTCCTTCCTCCCTTCCTTCCTTCCTTC	-	-	rs71293266	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:134727338_134727379delTCCTTCCTCCCTCCCTTCCTTCCTCCCTTCCTTCCTTCCTTC								ST3GAL1 (143155 upstream) : ZFAT (762654 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	135185112	135185113	+	IGR	DEL	TT	-	-	rs72069712		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:135185112_135185113delTT								ST3GAL1 (600929 upstream) : ZFAT (304920 downstream)																																			---	---	---	---
ZFAT	57623	broad.mit.edu	37	8	135609433	135609433	+	Intron	DEL	T	-	-	rs78713603		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:135609433delT	uc003yup.2	-						ZFAT_uc003yun.2_Intron|ZFAT_uc003yuo.2_Intron|ZFAT_uc010meh.2_Intron|ZFAT_uc010mei.2_Intron|ZFAT_uc003yuq.2_Intron|ZFAT_uc010mej.2_Intron|ZFATAS_uc003yus.1_5'Flank	NM_020863	NP_065914			zinc finger protein 406 isoform ZFAT-1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)															---	---	---	---
ZFAT	57623	broad.mit.edu	37	8	135698793	135698793	+	Intron	DEL	A	-	-	rs76131775		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:135698793delA	uc003yup.2	-						ZFAT_uc003yun.2_Intron|ZFAT_uc003yuo.2_Intron|ZFAT_uc010meh.2_Intron|ZFAT_uc010mei.2_Intron|ZFAT_uc003yuq.2_Intron|ZFAT_uc010mej.2_Intron|ZFAT_uc003yur.2_Intron	NM_020863	NP_065914			zinc finger protein 406 isoform ZFAT-1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)															---	---	---	---
ZFAT	57623	broad.mit.edu	37	8	135703421	135703421	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:135703421delC	uc003yup.2	-						ZFAT_uc003yun.2_Intron|ZFAT_uc003yuo.2_Intron|ZFAT_uc010meh.2_Intron|ZFAT_uc010mei.2_Intron|ZFAT_uc003yuq.2_Intron|ZFAT_uc010mej.2_Intron|ZFAT_uc003yur.2_Intron	NM_020863	NP_065914			zinc finger protein 406 isoform ZFAT-1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)													OREG0019008	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	8	135999038	135999038	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:135999038delA								MIR30D (181850 upstream) : LOC286094 (247336 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	136848189	136848189	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:136848189delT								KHDRBS3 (188343 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	136931866	136931866	+	IGR	DEL	A	-	-	rs35178981		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:136931866delA								KHDRBS3 (272020 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	137118553	137118553	+	IGR	DEL	T	-	-	rs78424340		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:137118553delT								KHDRBS3 (458707 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	137154107	137154107	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:137154107delT								KHDRBS3 (494261 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	137287355	137287355	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:137287355delT								KHDRBS3 (627509 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	137462274	137462275	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:137462274_137462275delAA								KHDRBS3 (802428 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	137559368	137559368	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:137559368delT								KHDRBS3 (899522 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	137584506	137584506	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:137584506delT								KHDRBS3 (924660 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	138261505	138261505	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138261505delA								None (None upstream) : FAM135B (880763 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	138342149	138342149	+	IGR	DEL	A	-	-	rs35791565		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138342149delA								None (None upstream) : FAM135B (800119 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	138455712	138455712	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138455712delT								None (None upstream) : FAM135B (686556 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	138466939	138466939	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138466939delA								None (None upstream) : FAM135B (675329 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	138483307	138483308	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138483307_138483308insT								None (None upstream) : FAM135B (658960 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	138503477	138503477	+	IGR	DEL	T	-	-	rs112169780		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138503477delT								None (None upstream) : FAM135B (638791 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	138516400	138516401	+	IGR	DEL	CC	-	-	rs113724354		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138516400_138516401delCC								None (None upstream) : FAM135B (625867 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	138534430	138534430	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138534430delT								None (None upstream) : FAM135B (607838 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	138535752	138535752	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138535752delT								None (None upstream) : FAM135B (606516 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	138551600	138551600	+	IGR	DEL	T	-	-	rs67493243		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138551600delT								None (None upstream) : FAM135B (590668 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	138759617	138759617	+	IGR	DEL	C	-	-	rs144383275		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138759617delC								None (None upstream) : FAM135B (382651 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	138921678	138921679	+	IGR	INS	-	AC	AC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138921678_138921679insAC								None (None upstream) : FAM135B (220589 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	138981355	138981358	+	IGR	DEL	AAAT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138981355_138981358delAAAT								None (None upstream) : FAM135B (160910 downstream)																																			---	---	---	---
FAM135B	51059	broad.mit.edu	37	8	139158943	139158943	+	Intron	DEL	A	-	-	rs144312649	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139158943delA	uc003yuy.2	-						FAM135B_uc003yux.2_Intron|FAM135B_uc003yuz.2_Intron|FAM135B_uc003yva.2_Intron|FAM135B_uc003yvb.2_Intron	NM_015912	NP_056996			hypothetical protein LOC51059											ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)												HNSCC(54;0.14)			---	---	---	---
FAM135B	51059	broad.mit.edu	37	8	139207877	139207878	+	Intron	DEL	AC	-	-	rs34987954		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139207877_139207878delAC	uc003yuy.2	-						FAM135B_uc003yux.2_Intron|FAM135B_uc003yuz.2_Intron	NM_015912	NP_056996			hypothetical protein LOC51059											ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)												HNSCC(54;0.14)			---	---	---	---
COL22A1	169044	broad.mit.edu	37	8	139907884	139907884	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139907884delA	uc003yvd.2	-							NM_152888	NP_690848			collagen, type XXII, alpha 1						cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)												HNSCC(7;0.00092)			---	---	---	---
Unknown	0	broad.mit.edu	37	8	140011076	140011076	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:140011076delA								COL22A1 (84840 upstream) : KCNK9 (602006 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	140051988	140051988	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:140051988delA								COL22A1 (125752 upstream) : KCNK9 (561094 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	140317061	140317063	+	IGR	DEL	TTT	-	-	rs78305202		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:140317061_140317063delTTT								COL22A1 (390825 upstream) : KCNK9 (296019 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	140584465	140584465	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:140584465delA								COL22A1 (658229 upstream) : KCNK9 (28617 downstream)																																			---	---	---	---
TRAPPC9	83696	broad.mit.edu	37	8	141005194	141005195	+	Intron	DEL	AA	-	-	rs78398691		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:141005194_141005195delAA	uc003yvj.2	-						TRAPPC9_uc003yvh.2_Intron|TRAPPC9_uc010mel.1_Intron|TRAPPC9_uc003yvi.1_Intron	NM_001160372	NP_001153844			trafficking protein particle complex 9 isoform						cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2																		---	---	---	---
TRAPPC9	83696	broad.mit.edu	37	8	141120236	141120240	+	Intron	DEL	GCTCT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:141120236_141120240delGCTCT	uc003yvj.2	-						TRAPPC9_uc003yvh.2_Intron|TRAPPC9_uc010mel.1_Intron|TRAPPC9_uc003yvi.1_Intron	NM_001160372	NP_001153844			trafficking protein particle complex 9 isoform						cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2																		---	---	---	---
TRAPPC9	83696	broad.mit.edu	37	8	141350087	141350089	+	Intron	DEL	GTG	-	-	rs149867762		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:141350087_141350089delGTG	uc003yvj.2	-						TRAPPC9_uc003yvh.2_Intron|TRAPPC9_uc003yvi.1_Intron	NM_001160372	NP_001153844			trafficking protein particle complex 9 isoform						cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2																		---	---	---	---
PTK2	5747	broad.mit.edu	37	8	141703163	141703164	+	Intron	DEL	AA	-	-	rs7812725	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:141703163_141703164delAA	uc003yvu.2	-						PTK2_uc011ljp.1_Intron|PTK2_uc003yvo.2_Intron|PTK2_uc011ljq.1_Intron|PTK2_uc003yvp.2_Intron|PTK2_uc003yvq.2_Intron|PTK2_uc003yvr.2_Intron|PTK2_uc003yvs.2_Intron|PTK2_uc003yvt.2_Intron|PTK2_uc003yvv.2_Intron|PTK2_uc011ljr.1_Intron	NM_153831	NP_722560			PTK2 protein tyrosine kinase 2 isoform a						axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)															---	---	---	---
PTK2	5747	broad.mit.edu	37	8	141729275	141729275	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:141729275delA	uc003yvu.2	-						PTK2_uc011ljp.1_5'Flank|PTK2_uc003yvo.2_Intron|PTK2_uc011ljq.1_Intron|PTK2_uc003yvp.2_Intron|PTK2_uc003yvq.2_Intron|PTK2_uc003yvr.2_Intron|PTK2_uc003yvs.2_Intron|PTK2_uc003yvt.2_Intron|PTK2_uc003yvv.2_Intron|PTK2_uc011ljr.1_Intron	NM_153831	NP_722560			PTK2 protein tyrosine kinase 2 isoform a						axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)															---	---	---	---
PTK2	5747	broad.mit.edu	37	8	141999109	141999109	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:141999109delA	uc003yvu.2	-						PTK2_uc003yvt.2_Intron|PTK2_uc003yvv.2_Intron|PTK2_uc011ljr.1_Intron	NM_153831	NP_722560			PTK2 protein tyrosine kinase 2 isoform a						axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	142304054	142304054	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142304054delA								SLC45A4 (39829 upstream) : LOC731779 (46594 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	142358580	142358583	+	IGR	DEL	ACAC	-	-	rs36167236		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142358580_142358583delACAC								LOC731779 (3861 upstream) : GPR20 (8006 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	142847874	142847874	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142847874delG								FLJ43860 (330544 upstream) : MIR1302-7 (19729 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	143085379	143085380	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:143085379_143085380delTT								MIR1302-7 (217705 upstream) : NCRNA00051 (194337 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	143110067	143110067	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:143110067delA								MIR1302-7 (242393 upstream) : NCRNA00051 (169650 downstream)																																			---	---	---	---
BAI1	575	broad.mit.edu	37	8	143624814	143624814	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:143624814delC	uc003ywm.2	+							NM_001702	NP_001693			brain-specific angiogenesis inhibitor 1						axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)																	---	---	---	---
Unknown	0	broad.mit.edu	37	8	144209233	144209234	+	IGR	INS	-	GGGGCATGGG	GGGGCATGGG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144209233_144209234insGGGGCATGGG								C8orf31 (73513 upstream) : LY6H (30098 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	144264075	144264076	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144264075_144264076delGT								LY6H (22022 upstream) : GPIHBP1 (30992 downstream)																																			---	---	---	---
TOP1MT	116447	broad.mit.edu	37	8	144405926	144405927	+	Intron	INS	-	CA	CA	rs151304467	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144405926_144405927insCA	uc003yxz.2	-						TOP1MT_uc011lkd.1_Intron|TOP1MT_uc011lke.1_Intron|TOP1MT_uc010mfb.2_Intron|TOP1MT_uc011lkf.1_Intron|TOP1MT_uc010mfd.1_Intron	NM_052963	NP_443195			mitochondrial topoisomerase I precursor						DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)													---	---	---	---
TOP1MT	116447	broad.mit.edu	37	8	144435589	144435589	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144435589delA	uc011lkd.1	-						TOP1MT_uc011lke.1_Intron|uc003yya.2_Intron	NM_052963	NP_443195			mitochondrial topoisomerase I precursor						DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)													---	---	---	---
Unknown	0	broad.mit.edu	37	8	144752514	144752516	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144752514_144752516delTTT								ZNF623 (16614 upstream) : ZNF707 (14106 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	144839830	144839831	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144839830_144839831delTT								FAM83H (23916 upstream) : SCRIB (33259 downstream)																																			---	---	---	---
HEATR7A	727957	broad.mit.edu	37	8	145268835	145268835	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145268835delT	uc003zbk.3	+						HEATR7A_uc011lla.1_Intron|HEATR7A_uc010mft.2_Intron	NM_032450	NP_115826			HEAT repeat containing 7A isoform 1								binding				0																		---	---	---	---
SCRT1	83482	broad.mit.edu	37	8	145560022	145560022	+	5'Flank	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145560022delC	uc003zbw.1	-							NM_031309	NP_112599			scratch							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;1.35e-39)|all cancers(56;1.37e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)															---	---	---	---
MFSD3	113655	broad.mit.edu	37	8	145735725	145735725	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145735725delC	uc003zdi.1	+							NM_138431	NP_612440			major facilitator superfamily domain containing						transmembrane transport	integral to membrane				central_nervous_system(2)	2	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)															---	---	---	---
ARHGAP39	80728	broad.mit.edu	37	8	145840716	145840716	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145840716delA	uc003zdt.1	-						ARHGAP39_uc011llk.1_Intron|ARHGAP39_uc003zds.1_5'Flank	NM_025251	NP_079527			KIAA1688 protein						axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0																		---	---	---	---
CBWD1	55871	broad.mit.edu	37	9	128601	128601	+	Intron	DEL	A	-	-	rs2152661	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:128601delA	uc003zga.3	-						CBWD1_uc010mgs.2_Intron|CBWD1_uc003zgb.3_Intron|CBWD1_uc003zgc.3_Intron|CBWD1_uc011llr.1_Intron	NM_018491	NP_060961			COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)														---	---	---	---
KANK1	23189	broad.mit.edu	37	9	544478	544478	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:544478delA	uc003zgl.1	+						KANK1_uc003zgm.2_Intron|KANK1_uc003zgn.1_Intron|KANK1_uc003zgo.1_5'Flank	NM_015158	NP_055973			KN motif and ankyrin repeat domains 1 isoform a						negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)														---	---	---	---
KANK1	23189	broad.mit.edu	37	9	630954	630955	+	Intron	INS	-	A	A	rs146533692	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:630954_630955insA	uc003zgl.1	+						KANK1_uc003zgm.2_Intron|KANK1_uc003zgn.1_Intron|KANK1_uc003zgo.1_Intron|KANK1_uc003zgp.1_Intron	NM_015158	NP_055973			KN motif and ankyrin repeat domains 1 isoform a						negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	775720	775720	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:775720delA								KANK1 (29616 upstream) : DMRT1 (65970 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	1104613	1104613	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:1104613delT								DMRT2 (47060 upstream) : SMARCA2 (910729 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	1171446	1171447	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:1171446_1171447delTG								DMRT2 (113893 upstream) : SMARCA2 (843895 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	1275412	1275413	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:1275412_1275413delAA								DMRT2 (217859 upstream) : SMARCA2 (739929 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	1605490	1605490	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:1605490delT								DMRT2 (547937 upstream) : SMARCA2 (409852 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	1852520	1852520	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:1852520delA								DMRT2 (794967 upstream) : SMARCA2 (162822 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	2791968	2791969	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:2791968_2791969insG								KCNV2 (62211 upstream) : KIAA0020 (12186 downstream)																																			---	---	---	---
KIAA0020	9933	broad.mit.edu	37	9	2804171	2804171	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:2804171delA	uc003zhp.1	-	18					KIAA0020_uc010mhc.1_3'UTR|KIAA0020_uc003zhq.1_3'UTR	NM_014878	NP_055693			KIAA0020 protein							endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)														---	---	---	---
KIAA0020	9933	broad.mit.edu	37	9	2846748	2846749	+	5'Flank	DEL	AA	-	-	rs80303803		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:2846748_2846749delAA	uc003zhp.1	-						KIAA0020_uc010mhc.1_5'Flank|KIAA0020_uc003zhq.1_5'Flank	NM_014878	NP_055693			KIAA0020 protein							endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	2862303	2862303	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:2862303delT								KIAA0020 (18173 upstream) : RFX3 (362346 downstream)																																			---	---	---	---
RFX3	5991	broad.mit.edu	37	9	3443101	3443101	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:3443101delA	uc003zhr.2	-						RFX3_uc010mhd.2_Intron|RFX3_uc003zhs.1_Intron|RFX3_uc003zht.1_Intron|RFX3_uc010mhe.1_Intron	NM_134428	NP_602304			regulatory factor X3 isoform b						cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)														---	---	---	---
GLIS3	169792	broad.mit.edu	37	9	4056709	4056710	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:4056709_4056710delAC	uc003zhw.1	-						GLIS3_uc003zhx.1_Intron|GLIS3_uc003zhy.1_Intron|GLIS3_uc003zhz.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)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	4304972	4304972	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:4304972delC								GLIS3 (4937 upstream) : SLC1A1 (185472 downstream)																																			---	---	---	---
C9orf68	55064	broad.mit.edu	37	9	4612012	4612013	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:4612012_4612013delTT	uc011llz.1	-						C9orf68_uc003zik.2_Intron|C9orf68_uc003zil.2_Intron|C9orf68_uc010mhj.2_Intron|C9orf68_uc011lly.1_Intron	NM_001039395	NP_001034484			hypothetical protein LOC55064												0		Breast(48;0.0456)		GBM - Glioblastoma multiforme(50;0.0222)														---	---	---	---
CDC37L1	55664	broad.mit.edu	37	9	4695493	4695493	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:4695493delT	uc003zio.2	+							NM_017913	NP_060383			cell division cycle 37 homolog (S.							cytoplasm					0	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.0318)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	4753072	4753073	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:4753072_4753073delAA								AK3 (11029 upstream) : RCL1 (39761 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	4779266	4779266	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:4779266delA								AK3 (37223 upstream) : RCL1 (13568 downstream)																																			---	---	---	---
RCL1	10171	broad.mit.edu	37	9	4803727	4803728	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:4803727_4803728delAA	uc003zis.2	+						RCL1_uc003zit.2_Intron|RCL1_uc010mhk.1_Intron	NM_005772	NP_005763			RNA terminal phosphate cyclase-like 1						ribosome biogenesis|RNA processing	nucleolus	RNA-3'-phosphate cyclase activity				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0206)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0244)														---	---	---	---
JAK2	3717	broad.mit.edu	37	9	4989294	4989294	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:4989294delT	uc010mhm.2	+						JAK2_uc003ziw.2_Intron	NM_004972	NP_004963			Janus kinase 2						actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)			1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				---	---	---	---
C9orf46	55848	broad.mit.edu	37	9	5441479	5441479	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:5441479delA	uc003zjd.2	-							NM_018465	NP_060935			hypothetical protein LOC55848							integral to membrane				ovary(1)	1	all_hematologic(13;0.158)	Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.00106)|Lung(218;0.125)														---	---	---	---
KIAA2026	158358	broad.mit.edu	37	9	5933891	5933891	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:5933891delA	uc003zjq.3	-						KIAA2026_uc010mht.2_Intron	NM_001017969	NP_001017969			hypothetical protein LOC158358											ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)														---	---	---	---
KIAA2026	158358	broad.mit.edu	37	9	5968044	5968044	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:5968044delT	uc003zjq.3	-	3	2403	c.2187delA	c.(2185-2187)AAAfs	p.K729fs		NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	729	Lys-rich.									ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)														---	---	---	---
KIAA2026	158358	broad.mit.edu	37	9	5988333	5988333	+	Intron	DEL	C	-	-	rs2291055	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:5988333delC	uc003zjq.3	-							NM_001017969	NP_001017969			hypothetical protein LOC158358											ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)														---	---	---	---
GLDC	2731	broad.mit.edu	37	9	6599185	6599185	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:6599185delA	uc003zkc.2	-							NM_000170	NP_000161			glycine dehydrogenase (decarboxylating)						glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)													---	---	---	---
KDM4C	23081	broad.mit.edu	37	9	6866185	6866186	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:6866185_6866186delTT	uc003zkh.2	+						KDM4C_uc010mhu.2_Intron|KDM4C_uc010mhw.2_Intron|KDM4C_uc011lmi.1_Intron|KDM4C_uc011lmj.1_Intron|KDM4C_uc003zkg.2_Intron|KDM4C_uc011lmk.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																		---	---	---	---
KDM4C	23081	broad.mit.edu	37	9	6927305	6927305	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:6927305delT	uc003zkh.2	+						KDM4C_uc010mhu.2_Intron|KDM4C_uc011lmi.1_Intron|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																		---	---	---	---
KDM4C	23081	broad.mit.edu	37	9	6975726	6975727	+	Intron	INS	-	AG	AG	rs143572153	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:6975726_6975727insAG	uc003zkh.2	+						KDM4C_uc010mhu.2_Intron|KDM4C_uc011lmi.1_Intron|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																		---	---	---	---
KDM4C	23081	broad.mit.edu	37	9	7128278	7128278	+	Intron	DEL	A	-	-	rs73403349	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	7212270	7212271	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:7212270_7212271delAG								KDM4C (36623 upstream) : C9orf123 (584222 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	7214577	7214578	+	IGR	INS	-	A	A	rs148047313	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:7214577_7214578insA								KDM4C (38930 upstream) : C9orf123 (581915 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	7809580	7809580	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:7809580delA								C9orf123 (9781 upstream) : PTPRD (504667 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	7873596	7873596	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:7873596delA								C9orf123 (73797 upstream) : PTPRD (440651 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	7960734	7960735	+	IGR	INS	-	AC	AC	rs137906009	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:7960734_7960735insAC								C9orf123 (160935 upstream) : PTPRD (353512 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	8117196	8117198	+	IGR	DEL	TTG	-	-	rs71500950		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:8117196_8117198delTTG								C9orf123 (317397 upstream) : PTPRD (197049 downstream)																																			---	---	---	---
PTPRD	5789	broad.mit.edu	37	9	8526506	8526506	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:8526506delA	uc003zkk.2	-						PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830			protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)											TSP Lung(15;0.13)			---	---	---	---
PTPRD	5789	broad.mit.edu	37	9	8727642	8727646	+	Intron	DEL	TTTTG	-	-	rs139992060	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:8727642_8727646delTTTTG	uc003zkk.2	-						PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron|PTPRD_uc003zkt.1_Intron	NM_002839	NP_002830			protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)											TSP Lung(15;0.13)			---	---	---	---
PTPRD	5789	broad.mit.edu	37	9	8962204	8962204	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:8962204delA	uc003zkk.2	-						PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron|PTPRD_uc003zkt.1_Intron	NM_002839	NP_002830			protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)											TSP Lung(15;0.13)			---	---	---	---
PTPRD	5789	broad.mit.edu	37	9	9091314	9091314	+	Intron	DEL	A	-	-	rs324467	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:9091314delA	uc003zkk.2	-						PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron|PTPRD_uc003zkt.1_Intron	NM_002839	NP_002830			protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)											TSP Lung(15;0.13)			---	---	---	---
PTPRD	5789	broad.mit.edu	37	9	9377918	9377918	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:9377918delT	uc003zkk.2	-						PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron|PTPRD_uc003zkt.1_Intron	NM_002839	NP_002830			protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)											TSP Lung(15;0.13)			---	---	---	---
PTPRD	5789	broad.mit.edu	37	9	9404457	9404457	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:9404457delG	uc003zkk.2	-						PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron|PTPRD_uc003zkt.1_Intron	NM_002839	NP_002830			protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)											TSP Lung(15;0.13)			---	---	---	---
PTPRD	5789	broad.mit.edu	37	9	9492249	9492249	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:9492249delA	uc003zkk.2	-						PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron|PTPRD_uc003zkt.1_Intron	NM_002839	NP_002830			protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)											TSP Lung(15;0.13)			---	---	---	---
PTPRD	5789	broad.mit.edu	37	9	9944700	9944700	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:9944700delT	uc003zkk.2	-						PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron|PTPRD_uc003zkt.1_Intron	NM_002839	NP_002830			protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)											TSP Lung(15;0.13)			---	---	---	---
PTPRD	5789	broad.mit.edu	37	9	10139289	10139289	+	Intron	DEL	A	-	-	rs138777742		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:10139289delA	uc003zkk.2	-						PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron|PTPRD_uc003zkt.1_Intron	NM_002839	NP_002830			protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)											TSP Lung(15;0.13)			---	---	---	---
PTPRD	5789	broad.mit.edu	37	9	10202482	10202482	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:10202482delA	uc003zkk.2	-						PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron|PTPRD_uc003zkt.1_Intron	NM_002839	NP_002830			protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)											TSP Lung(15;0.13)			---	---	---	---
PTPRD	5789	broad.mit.edu	37	9	10268682	10268682	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:10268682delT	uc003zkk.2	-						PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron|PTPRD_uc003zkt.1_Intron	NM_002839	NP_002830			protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)											TSP Lung(15;0.13)			---	---	---	---
PTPRD	5789	broad.mit.edu	37	9	10291646	10291646	+	Intron	DEL	A	-	-	rs77766055		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:10291646delA	uc003zkk.2	-						PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron|PTPRD_uc003zkt.1_Intron	NM_002839	NP_002830			protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)											TSP Lung(15;0.13)			---	---	---	---
PTPRD	5789	broad.mit.edu	37	9	10319615	10319616	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:10319615_10319616insT	uc003zkk.2	-						PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron|PTPRD_uc003zkt.1_Intron	NM_002839	NP_002830			protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)											TSP Lung(15;0.13)			---	---	---	---
PTPRD	5789	broad.mit.edu	37	9	10575933	10575933	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:10575933delT	uc003zkk.2	-						PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron|PTPRD_uc003zkt.1_Intron	NM_002839	NP_002830			protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)											TSP Lung(15;0.13)			---	---	---	---
Unknown	0	broad.mit.edu	37	9	10903625	10903626	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:10903625_10903626insA								PTPRD (290902 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	11031476	11031476	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:11031476delT								PTPRD (418753 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	11319473	11319473	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:11319473delT								PTPRD (706750 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	11520041	11520042	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:11520041_11520042delAA								PTPRD (907318 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	12436821	12436822	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:12436821_12436822delGT								None (None upstream) : TYRP1 (256564 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	12636605	12636605	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:12636605delA								None (None upstream) : TYRP1 (56781 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	12678691	12678691	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:12678691delT								None (None upstream) : TYRP1 (14695 downstream)																																			---	---	---	---
MPDZ	8777	broad.mit.edu	37	9	13223880	13223880	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:13223880delA	uc010mia.1	-						MPDZ_uc010mhy.2_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)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	13397475	13397475	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:13397475delT								MPDZ (117912 upstream) : NFIB (684373 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	13589699	13589699	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:13589699delA								MPDZ (310136 upstream) : NFIB (492149 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	13923470	13923470	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:13923470delG								MPDZ (643907 upstream) : NFIB (158378 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	14020576	14020576	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:14020576delT								MPDZ (741013 upstream) : NFIB (61272 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	14058809	14058810	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:14058809_14058810delAA								MPDZ (779246 upstream) : NFIB (23038 downstream)																																			---	---	---	---
NFIB	4781	broad.mit.edu	37	9	14179853	14179853	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:14179853delA	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								---	---	---	---
Unknown	0	broad.mit.edu	37	9	14480339	14480339	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:14480339delA								NFIB (166394 upstream) : ZDHHC21 (75142 downstream)																																			---	---	---	---
FREM1	158326	broad.mit.edu	37	9	14784200	14784201	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:14784200_14784201insT	uc003zlm.2	-						FREM1_uc010mic.2_Intron	NM_144966	NP_659403			FRAS1 related extracellular matrix 1 precursor						cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	14980995	14980996	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:14980995_14980996delTG								FREM1 (70002 upstream) : LOC389705 (12329 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	15017688	15017689	+	Intron	INS	-	T	T	rs150778914	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15017688_15017689insT	uc003zln.1	-						LOC389705_uc010mid.1_Intron					Homo sapiens cDNA FLJ46077 fis, clone TESTI2003768, weakly  similar to Chloride channel protein 3.																														---	---	---	---
TTC39B	158219	broad.mit.edu	37	9	15252647	15252647	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15252647delA	uc003zlr.1	-						TTC39B_uc011lmp.1_5'Flank|TTC39B_uc010mie.1_Intron|TTC39B_uc011lmq.1_Intron|TTC39B_uc011lmr.1_Intron|TTC39B_uc010mif.1_Intron|TTC39B_uc010mig.1_Intron|TTC39B_uc011lms.1_Intron	NM_152574	NP_689787			tetratricopeptide repeat domain 39B								binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	15381706	15381706	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15381706delA								TTC39B (74462 upstream) : SNAPC3 (41076 downstream)																																			---	---	---	---
C9orf93	203238	broad.mit.edu	37	9	15570291	15570291	+	Intron	DEL	T	-	-	rs142904416		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15570291delT	uc003zmd.2	+						C9orf93_uc010mih.1_Intron|C9orf93_uc003zme.2_Intron|C9orf93_uc011lmu.1_Intron|C9orf93_uc003zmc.2_Intron	NM_173550	NP_775821			hypothetical protein LOC203238												0				GBM - Glioblastoma multiforme(50;4.84e-07)														---	---	---	---
C9orf93	203238	broad.mit.edu	37	9	15570384	15570384	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15570384delT	uc003zmd.2	+						C9orf93_uc010mih.1_Intron|C9orf93_uc003zme.2_Intron|C9orf93_uc011lmu.1_Intron|C9orf93_uc003zmc.2_Intron	NM_173550	NP_775821			hypothetical protein LOC203238												0				GBM - Glioblastoma multiforme(50;4.84e-07)														---	---	---	---
C9orf93	203238	broad.mit.edu	37	9	15703470	15703470	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15703470delT	uc003zmd.2	+						C9orf93_uc010mih.1_Intron|C9orf93_uc003zme.2_Intron|C9orf93_uc011lmu.1_Intron	NM_173550	NP_775821			hypothetical protein LOC203238												0				GBM - Glioblastoma multiforme(50;4.84e-07)														---	---	---	---
C9orf93	203238	broad.mit.edu	37	9	15736356	15736356	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15736356delT	uc003zmd.2	+						C9orf93_uc010mih.1_Intron|C9orf93_uc003zme.2_Intron|C9orf93_uc011lmu.1_Intron	NM_173550	NP_775821			hypothetical protein LOC203238												0				GBM - Glioblastoma multiforme(50;4.84e-07)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	15985255	15985255	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15985255delT								C9orf93 (13360 upstream) : BNC2 (424247 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	15999208	15999208	+	IGR	DEL	A	-	-	rs114476865	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15999208delA								C9orf93 (27313 upstream) : BNC2 (410294 downstream)																																			---	---	---	---
BNC2	54796	broad.mit.edu	37	9	16793488	16793489	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:16793488_16793489insT	uc003zml.2	-						BNC2_uc011lmw.1_Intron|BNC2_uc003zmm.2_Intron|BNC2_uc003zmq.1_Intron|BNC2_uc003zmr.1_Intron|BNC2_uc003zmp.1_Intron|BNC2_uc010mij.1_Intron|BNC2_uc003zmu.1_Intron|BNC2_uc010mim.1_Intron|BNC2_uc010min.1_Intron	NM_017637	NP_060107			basonuclin 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	17002262	17002262	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:17002262delA								BNC2 (131476 upstream) : CNTLN (132776 downstream)																																			---	---	---	---
CNTLN	54875	broad.mit.edu	37	9	17473916	17473916	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:17473916delT	uc003zmz.2	+						CNTLN_uc003zmy.2_Intron|CNTLN_uc010mio.2_Intron	NM_017738	NP_060208			centlein isoform 1							centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)														---	---	---	---
CNTLN	54875	broad.mit.edu	37	9	17478528	17478528	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:17478528delT	uc003zmz.2	+						CNTLN_uc003zmy.2_Intron|CNTLN_uc010mio.2_Intron	NM_017738	NP_060208			centlein isoform 1							centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	17574747	17574747	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:17574747delA								CNTLN (70832 upstream) : SH3GL2 (4206 downstream)																																			---	---	---	---
SH3GL2	6456	broad.mit.edu	37	9	17715397	17715397	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:17715397delT	uc003zna.2	+							NM_003026	NP_003017			SH3-domain GRB2-like 2						axon guidance|central nervous system development|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	cytosol|Golgi membrane|plasma membrane	identical protein binding|lipid binding			skin(1)	1				GBM - Glioblastoma multiforme(50;2.71e-10)|Lung(42;0.203)														---	---	---	---
SH3GL2	6456	broad.mit.edu	37	9	17788560	17788560	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:17788560delA	uc003zna.2	+						SH3GL2_uc011lmx.1_Intron|SH3GL2_uc011lmy.1_Intron	NM_003026	NP_003017			SH3-domain GRB2-like 2						axon guidance|central nervous system development|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	cytosol|Golgi membrane|plasma membrane	identical protein binding|lipid binding			skin(1)	1				GBM - Glioblastoma multiforme(50;2.71e-10)|Lung(42;0.203)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	18388608	18388608	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:18388608delT								SH3GL2 (591488 upstream) : ADAMTSL1 (85496 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	18394165	18394166	+	IGR	INS	-	TG	TG	rs149145634	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:18394165_18394166insTG								SH3GL2 (597045 upstream) : ADAMTSL1 (79938 downstream)																																			---	---	---	---
ADAMTSL1	92949	broad.mit.edu	37	9	18702765	18702767	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:18702765_18702767delTTT	uc003zne.3	+							NM_001040272	NP_001035362			ADAMTS-like 1 isoform 4 precursor							proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)														---	---	---	---
ADAMTSL1	92949	broad.mit.edu	37	9	18867635	18867635	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:18867635delT	uc003zne.3	+						ADAMTSL1_uc003znf.3_Intron	NM_001040272	NP_001035362			ADAMTS-like 1 isoform 4 precursor							proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)														---	---	---	---
FAM154A	158297	broad.mit.edu	37	9	19032742	19032742	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19032742delA	uc003zni.1	-						FAM154A_uc010mip.1_Intron	NM_153707	NP_714918			hypothetical protein LOC158297											pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.53e-16)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	19184300	19184300	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19184300delA								PLIN2 (56727 upstream) : DENND4C (106402 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	19264304	19264306	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19264304_19264306delTTT								PLIN2 (136731 upstream) : DENND4C (26396 downstream)																																			---	---	---	---
DENND4C	55667	broad.mit.edu	37	9	19347902	19347902	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19347902delA	uc003znq.2	+						DENND4C_uc011lnc.1_Intron|DENND4C_uc011lnd.1_Intron|DENND4C_uc003znr.2_Intron|DENND4C_uc003zns.2_Intron|DENND4C_uc003znt.2_Intron	NM_017925	NP_060395			DENN/MADD domain containing 4C							integral to membrane				ovary(1)|skin(1)	2																		---	---	---	---
RPS6	6194	broad.mit.edu	37	9	19382188	19382188	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19382188delT	uc003znv.1	-						RPS6_uc003znu.1_5'Flank|RPS6_uc003znw.1_5'Flank	NM_001010	NP_001001			ribosomal protein S6						endocrine pancreas development|glucose homeostasis|insulin receptor signaling pathway|positive regulation of apoptosis|rRNA processing|TOR signaling cascade|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding			ovary(1)	1		Colorectal(97;3.46e-05)|Myeloproliferative disorder(762;0.0255)		Lung(42;0.161)|LUSC - Lung squamous cell carcinoma(42;0.234)														---	---	---	---
MLLT3	4300	broad.mit.edu	37	9	20614471	20614471	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:20614471delA	uc003zoe.2	-						MLLT3_uc011lne.1_Intron|MLLT3_uc011lnf.1_Intron|MLLT3_uc003zof.2_Intron|MLLT3_uc011lng.1_Intron	NM_004529	NP_004520			myeloid/lymphoid or mixed-lineage leukemia						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)				T	MLL	ALL								---	---	---	---
KIAA1797	54914	broad.mit.edu	37	9	20758261	20758261	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:20758261delT	uc003zog.1	+							NM_017794	NP_060264			hypothetical protein LOC54914							integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	21114785	21114785	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:21114785delA								IFNB1 (36842 upstream) : IFNW1 (25846 downstream)																																			---	---	---	---
CDKN2BAS	100048912	broad.mit.edu	37	9	22057809	22057809	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:22057809delA	uc010miw.1	+						CDKN2BAS_uc010mix.1_Intron|CDKN2BAS_uc003zpm.2_Intron					Homo sapiens hypothetical methylthioadenosine phosphorylase fusion protein mRNA, complete cds.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	22192790	22192791	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:22192790_22192791delAA								CDKN2BAS (71699 upstream) : DMRTA1 (254049 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	22766172	22766172	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:22766172delT	uc003zpq.1	+											Homo sapiens cDNA FLJ35282 fis, clone PROST2007328.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	22846925	22846925	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:22846925delC								DMRTA1 (394453 upstream) : ELAVL2 (843180 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	23043360	23043360	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:23043360delA								DMRTA1 (590888 upstream) : ELAVL2 (646745 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	23317357	23317357	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:23317357delT								DMRTA1 (864885 upstream) : ELAVL2 (372748 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	23430344	23430344	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:23430344delT								DMRTA1 (977872 upstream) : ELAVL2 (259761 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	23590387	23590388	+	Intron	DEL	AG	-	-	rs111285899		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:23590387_23590388delAG	uc003zpr.2	-											Homo sapiens mRNA; cDNA DKFZp781D1719 (from clone DKFZp781D1719).																														---	---	---	---
ELAVL2	1993	broad.mit.edu	37	9	23724873	23724873	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:23724873delT	uc003zpu.2	-						ELAVL2_uc003zps.2_Intron|ELAVL2_uc003zpt.2_Intron|ELAVL2_uc003zpv.2_Intron|ELAVL2_uc003zpw.2_Intron	NM_004432	NP_004423			ELAV (embryonic lethal, abnormal vision,						regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	23838204	23838204	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:23838204delT								ELAVL2 (12141 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	24096992	24096992	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:24096992delT								ELAVL2 (270929 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	24176809	24176809	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:24176809delT								ELAVL2 (350746 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	24573346	24573346	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:24573346delA								ELAVL2 (747283 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	25011902	25011902	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:25011902delA								None (None upstream) : TUSC1 (664492 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	25140401	25140401	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:25140401delA								None (None upstream) : TUSC1 (535993 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	25302883	25302883	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:25302883delA								None (None upstream) : TUSC1 (373511 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	25741409	25741410	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:25741409_25741410delTT								TUSC1 (62553 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	25893013	25893013	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:25893013delA								TUSC1 (214157 upstream) : C9orf82 (947671 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	26297174	26297174	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:26297174delT								TUSC1 (618318 upstream) : C9orf82 (543510 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	26385157	26385157	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:26385157delA								TUSC1 (706301 upstream) : C9orf82 (455527 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	26525957	26525957	+	IGR	DEL	A	-	-	rs75457060		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:26525957delA								TUSC1 (847101 upstream) : C9orf82 (314727 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	26722386	26722387	+	IGR	DEL	AT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:26722386_26722387delAT								None (None upstream) : C9orf82 (118297 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	26805255	26805256	+	IGR	INS	-	TATT	TATT	rs148791594	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:26805255_26805256insTATT								None (None upstream) : C9orf82 (35428 downstream)																																			---	---	---	---
NCRNA00032	158035	broad.mit.edu	37	9	27256046	27256046	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:27256046delA	uc010mjd.1	-							NR_026687				Homo sapiens C9orf14 mRNA, complete sequence, alternatively spliced.												0																		---	---	---	---
LINGO2	158038	broad.mit.edu	37	9	27999177	27999177	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:27999177delA	uc003zqu.1	-						LINGO2_uc010mjf.1_Intron|LINGO2_uc003zqv.1_Intron	NM_152570	NP_689783			leucine rich repeat and Ig domain containing 2							integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)														---	---	---	---
LINGO2	158038	broad.mit.edu	37	9	28442148	28442148	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:28442148delA	uc010mjf.1	-						LINGO2_uc003zqv.1_Intron	NM_152570	NP_689783			leucine rich repeat and Ig domain containing 2							integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)														---	---	---	---
LINGO2	158038	broad.mit.edu	37	9	28718177	28718178	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:28718177_28718178delAA	uc003zqv.1	-							NM_152570	NP_689783			leucine rich repeat and Ig domain containing 2							integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	29375119	29375119	+	IGR	DEL	A	-	-	rs113523447		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:29375119delA								MIR873 (486166 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	29687712	29687712	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:29687712delT								MIR873 (798759 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	29882981	29882981	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:29882981delA								MIR873 (994028 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	30240138	30240139	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:30240138_30240139delAA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	30340388	30340388	+	IGR	DEL	A	-	-	rs111264617		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:30340388delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	30381152	30381153	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:30381152_30381153insT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	30733753	30733753	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:30733753delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	30968536	30968536	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:30968536delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	31068375	31068376	+	IGR	INS	-	AA	AA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:31068375_31068376insAA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	31274421	31274421	+	IGR	DEL	T	-	-	rs116096539	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:31274421delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	31398313	31398313	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:31398313delT								None (None upstream) : ACO1 (986288 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	31477654	31477654	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:31477654delT								None (None upstream) : ACO1 (906947 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	31560985	31560987	+	IGR	DEL	AAA	-	-	rs78908623		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:31560985_31560987delAAA								None (None upstream) : ACO1 (823614 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	31970045	31970045	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:31970045delT								None (None upstream) : ACO1 (414556 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	32022773	32022773	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:32022773delT								None (None upstream) : ACO1 (361828 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	32129105	32129105	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:32129105delC								None (None upstream) : ACO1 (255496 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	32183372	32183373	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:32183372_32183373delAG								None (None upstream) : ACO1 (201228 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	32540304	32540305	+	IGR	INS	-	AC	AC	rs57313247		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:32540304_32540305insAC								DDX58 (13982 upstream) : TOPORS (238 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	32540305	32540306	+	IGR	INS	-	C	C	rs57313247	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:32540305_32540306insC								DDX58 (13983 upstream) : TOPORS (237 downstream)																																			---	---	---	---
TOPORS	10210	broad.mit.edu	37	9	32544122	32544122	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:32544122delT	uc003zrb.2	-	3	568	c.401delA	c.(400-402)AACfs	p.N134fs	TOPORS_uc003zrc.2_Frame_Shift_Del_p.N67fs	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	134	E3 ubiquitin-protein ligase activity.|Required for DNA-binding.|RING-type.				DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	32609628	32609629	+	IGR	DEL	AA	-	-	rs79677081		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:32609628_32609629delAA								NDUFB6 (36446 upstream) : TAF1L (19823 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	32718414	32718414	+	IGR	DEL	C	-	-	rs71504294		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:32718414delC								TAF1L (82747 upstream) : TMEM215 (65083 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	32809217	32809217	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:32809217delT								TMEM215 (20020 upstream) : APTX (163392 downstream)																																			---	---	---	---
DNAJA1	3301	broad.mit.edu	37	9	33036114	33036114	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:33036114delG	uc003zsd.1	+						DNAJA1_uc011lnt.1_Intron|DNAJA1_uc003zse.1_Intron	NM_001539	NP_001530			DnaJ (Hsp40) homolog, subfamily A, member 1						protein folding|response to heat|response to unfolded protein	membrane	ATP binding|heat shock protein binding|low-density lipoprotein particle receptor binding|metal ion binding|unfolded protein binding				0			LUSC - Lung squamous cell carcinoma(29;0.0227)	GBM - Glioblastoma multiforme(74;0.102)														---	---	---	---
SMU1	55234	broad.mit.edu	37	9	33042145	33042146	+	3'UTR	INS	-	C	C	rs144058971	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:33042145_33042146insC	uc003zsf.1	-	12					SMU1_uc010mjo.1_3'UTR|SMU1_uc010mjp.1_3'UTR|SMU1_uc011lnu.1_3'UTR	NM_018225	NP_060695			smu-1 suppressor of mec-8 and unc-52 homolog							cytoplasm|nucleus				ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0227)	GBM - Glioblastoma multiforme(74;0.11)														---	---	---	---
SMU1	55234	broad.mit.edu	37	9	33053318	33053318	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:33053318delT	uc003zsf.1	-						SMU1_uc010mjo.1_Intron|SMU1_uc010mjp.1_Intron|SMU1_uc011lnu.1_Intron	NM_018225	NP_060695			smu-1 suppressor of mec-8 and unc-52 homolog							cytoplasm|nucleus				ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0227)	GBM - Glioblastoma multiforme(74;0.11)														---	---	---	---
SMU1	55234	broad.mit.edu	37	9	33074301	33074301	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:33074301delT	uc003zsf.1	-						SMU1_uc010mjo.1_Intron|SMU1_uc010mjp.1_Intron|SMU1_uc011lnu.1_Intron	NM_018225	NP_060695			smu-1 suppressor of mec-8 and unc-52 homolog							cytoplasm|nucleus				ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0227)	GBM - Glioblastoma multiforme(74;0.11)														---	---	---	---
B4GALT1	2683	broad.mit.edu	37	9	33120193	33120194	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:33120193_33120194delAA	uc003zsg.2	-							NM_001497	NP_001488			UDP-Gal:betaGlcNAc beta 1,4-						oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	basolateral plasma membrane|brush border membrane|desmosome|external side of plasma membrane|extracellular region|glycocalyx|Golgi cisterna membrane|Golgi trans cisterna|integral to membrane	alpha-tubulin binding|beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|beta-tubulin binding|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity|protein binding|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(29;0.0084)	GBM - Glioblastoma multiforme(74;0.121)	N-Acetyl-D-glucosamine(DB00141)													---	---	---	---
B4GALT1	2683	broad.mit.edu	37	9	33139464	33139465	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:33139464_33139465insT	uc003zsg.2	-							NM_001497	NP_001488			UDP-Gal:betaGlcNAc beta 1,4-						oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	basolateral plasma membrane|brush border membrane|desmosome|external side of plasma membrane|extracellular region|glycocalyx|Golgi cisterna membrane|Golgi trans cisterna|integral to membrane	alpha-tubulin binding|beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|beta-tubulin binding|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity|protein binding|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(29;0.0084)	GBM - Glioblastoma multiforme(74;0.121)	N-Acetyl-D-glucosamine(DB00141)													---	---	---	---
SUGT1P1	441394	broad.mit.edu	37	9	33450674	33450675	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:33450674_33450675delAC	uc010mjq.1	-							NR_003667				Homo sapiens suppressor of G2 allele of SKP1 pseudogene (S. cerevisiae) (SUGT1P), non-coding RNA.												0																		---	---	---	---
NOL6	65083	broad.mit.edu	37	9	33464277	33464277	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:33464277delC	uc003zsz.2	-						SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zsy.2_Intron|NOL6_uc003zta.2_Intron|NOL6_uc010mjv.2_Intron|NOL6_uc011lob.1_Intron|NOL6_uc003ztb.1_Intron	NM_022917	NP_075068			nucleolar protein family 6 alpha isoform						rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)														---	---	---	---
UBAP2	55833	broad.mit.edu	37	9	33943903	33943903	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:33943903delA	uc003ztq.1	-						UBAP2_uc011loc.1_Intron|UBAP2_uc011lod.1_Intron|UBAP2_uc011loe.1_Intron|UBAP2_uc011lof.1_Intron|UBAP2_uc011log.1_Intron|UBAP2_uc003ztr.2_Intron|UBAP2_uc003zts.2_Intron	NM_018449	NP_060919			ubiquitin associated protein 2											ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)														---	---	---	---
UBAP2	55833	broad.mit.edu	37	9	34024985	34024985	+	Intron	DEL	A	-	-	rs11409074		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:34024985delA	uc003ztq.1	-						UBAP2_uc011loc.1_Intron|UBAP2_uc011lod.1_Intron|UBAP2_uc011loe.1_Intron|UBAP2_uc011lof.1_Intron|UBAP2_uc011log.1_Intron|UBAP2_uc003ztr.2_Intron	NM_018449	NP_060919			ubiquitin associated protein 2											ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)														---	---	---	---
UBAP2	55833	broad.mit.edu	37	9	34043067	34043067	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:34043067delA	uc003ztq.1	-						UBAP2_uc011loc.1_Intron|UBAP2_uc011lod.1_Intron|UBAP2_uc011loe.1_Intron|UBAP2_uc011lof.1_Intron|UBAP2_uc011log.1_Intron|UBAP2_uc003ztr.2_Intron	NM_018449	NP_060919			ubiquitin associated protein 2											ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)														---	---	---	---
KIF24	347240	broad.mit.edu	37	9	34223921	34223922	+	Intron	INS	-	T	T	rs144735597	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:34223921_34223922insT	uc010mkb.2	-						UBAP1_uc010mka.1_Intron|UBAP1_uc003ztx.2_Intron|UBAP1_uc003zty.2_Intron|UBAP1_uc011loi.1_Intron|UBAP1_uc011loj.1_Intron|UBAP1_uc003ztz.2_Intron	NM_194313	NP_919289			kinesin family member 24						microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)															---	---	---	---
KIF24	347240	broad.mit.edu	37	9	34320657	34320660	+	Intron	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:34320657_34320660delAAAA	uc003zua.3	-						KIF24_uc010mkb.2_Intron	NM_194313	NP_919289			kinesin family member 24						microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)															---	---	---	---
C9orf24	84688	broad.mit.edu	37	9	34391495	34391495	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:34391495delT	uc003zuh.1	-							NM_032596	NP_115985			testes development-related NYD-SP22 isoform 1											ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.123)														---	---	---	---
SIGMAR1	10280	broad.mit.edu	37	9	34636896	34636896	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:34636896delC	uc003zvb.2	-						SIGMAR1_uc003zva.3_Intron|SIGMAR1_uc003zuz.2_Intron|SIGMAR1_uc003zvc.2_Intron|SIGMAR1_uc003zvd.2_Intron|SIGMAR1_uc011loo.1_Intron	NM_005866	NP_005857			sigma non-opioid intracellular receptor 1						ergosterol biosynthetic process|lipid transport	cell junction|endoplasmic reticulum membrane|growth cone|integral to plasma membrane|lipid particle|nuclear inner membrane|nuclear outer membrane	C-8 sterol isomerase activity|drug binding				0					Dextromethorphan(DB00514)													---	---	---	---
Unknown	0	broad.mit.edu	37	9	34744872	34744872	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:34744872delA								C9orf144B (15337 upstream) : C9orf144 (85393 downstream)																																			---	---	---	---
UNC13B	10497	broad.mit.edu	37	9	35263667	35263667	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35263667delC	uc003zwq.2	+						UNC13B_uc010mkl.1_Intron|UNC13B_uc003zwr.2_Intron	NM_006377	NP_006368			UNC13 (C. elegans)-like						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)															---	---	---	---
UNC13B	10497	broad.mit.edu	37	9	35331988	35331988	+	Intron	DEL	T	-	-	rs111856770		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35331988delT	uc003zwq.2	+						UNC13B_uc010mkl.1_Intron|UNC13B_uc003zwr.2_Intron	NM_006377	NP_006368			UNC13 (C. elegans)-like						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)															---	---	---	---
CD72	971	broad.mit.edu	37	9	35632925	35632925	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35632925delT	uc010mkw.1	-											Homo sapiens mRNA for CD72 antigen variant protein.						axon guidance|cell adhesion	integral to plasma membrane	receptor binding|sugar binding|transmembrane receptor activity				0			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	35677613	35677613	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35677613delA	uc003zxo.3	+						C9orf100_uc003zxl.2_5'Flank|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)															---	---	---	---
Unknown	0	broad.mit.edu	37	9	35948409	35948420	+	IGR	DEL	TGTGTGTGTGTG	-	-	rs71880202		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35948409_35948420delTGTGTGTGTGTG								LOC158376 (36792 upstream) : OR2S2 (8686 downstream)																																			---	---	---	---
RECK	8434	broad.mit.edu	37	9	36060651	36060651	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:36060651delT	uc003zyv.2	+						RECK_uc010mld.2_Intron|RECK_uc003zyu.3_Intron|RECK_uc003zyw.2_Intron|RECK_uc010mle.1_Intron|RECK_uc003zyx.2_Intron	NM_021111	NP_066934			RECK protein precursor							anchored to membrane|peripheral to membrane of membrane fraction|plasma membrane	metalloendopeptidase inhibitor activity|serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)	3			LUSC - Lung squamous cell carcinoma(32;0.112)|STAD - Stomach adenocarcinoma(86;0.228)															---	---	---	---
RECK	8434	broad.mit.edu	37	9	36092866	36092866	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:36092866delA	uc003zyv.2	+						RECK_uc003zyw.2_Intron|RECK_uc003zyx.2_Intron	NM_021111	NP_066934			RECK protein precursor							anchored to membrane|peripheral to membrane of membrane fraction|plasma membrane	metalloendopeptidase inhibitor activity|serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)	3			LUSC - Lung squamous cell carcinoma(32;0.112)|STAD - Stomach adenocarcinoma(86;0.228)															---	---	---	---
RECK	8434	broad.mit.edu	37	9	36123173	36123173	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:36123173delT	uc003zyv.2	+	21					RECK_uc003zyw.2_3'UTR|RECK_uc003zyx.2_RNA	NM_021111	NP_066934			RECK protein precursor							anchored to membrane|peripheral to membrane of membrane fraction|plasma membrane	metalloendopeptidase inhibitor activity|serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)	3			LUSC - Lung squamous cell carcinoma(32;0.112)|STAD - Stomach adenocarcinoma(86;0.228)															---	---	---	---
CLTA	1211	broad.mit.edu	37	9	36278712	36278712	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:36278712delT	uc003zzf.1	+						GNE_uc010mli.2_5'Flank|GNE_uc010mlj.2_5'Flank	NM_001833				clathrin, light polypeptide A isoform a						axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol	structural molecule activity			central_nervous_system(1)	1			STAD - Stomach adenocarcinoma(86;0.228)															---	---	---	---
RNF38	152006	broad.mit.edu	37	9	36353341	36353342	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:36353341_36353342delAA	uc003zzh.2	-						RNF38_uc003zzi.2_Intron|RNF38_uc003zzj.2_Intron|RNF38_uc003zzk.2_Intron|RNF38_uc003zzl.2_Intron|RNF38_uc003zzm.2_Intron	NM_022781	NP_073618			ring finger protein 38 isoform 1								zinc ion binding			central_nervous_system(1)	1			STAD - Stomach adenocarcinoma(86;0.228)															---	---	---	---
Unknown	0	broad.mit.edu	37	9	36546235	36546235	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:36546235delA								RNF38 (145040 upstream) : MELK (26670 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	36834415	36834416	+	IGR	DEL	GT	-	-	rs72153075		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:36834415_36834416delGT								MELK (156737 upstream) : PAX5 (4115 downstream)																																			---	---	---	---
PAX5	5079	broad.mit.edu	37	9	37033597	37033598	+	Intron	DEL	AC	-	-	rs71854997		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:37033597_37033598delAC	uc003zzo.1	-						PAX5_uc011lpw.1_Intron|PAX5_uc011lpx.1_Intron|PAX5_uc011lpy.1_Intron|PAX5_uc010mls.1_Intron|PAX5_uc011lpz.1_Intron|PAX5_uc011lqa.1_Intron|PAX5_uc010mlq.1_Intron|PAX5_uc011lqb.1_Intron|PAX5_uc010mlo.1_Intron|PAX5_uc010mlp.1_Intron|PAX5_uc011lqc.1_Intron|PAX5_uc010mlr.1_Intron	NM_016734	NP_057953			paired box 5						cell differentiation|humoral immune response|nervous system development|organ morphogenesis|spermatogenesis|transcription from RNA polymerase II promoter	nucleus	DNA binding	p.?(8)	PAX5/JAK2(18)	haematopoietic_and_lymphoid_tissue(142)|lung(3)|central_nervous_system(2)	147		all_cancers(2;3.46e-10)|Acute lymphoblastic leukemia(2;7.09e-56)|all_hematologic(2;6.65e-44)		GBM - Glioblastoma multiforme(29;0.0108)				T|Mis|D|F|S	IGH@|ETV6|PML|FOXP1|ZNF521|ELN	NHL|ALL|B-ALL								---	---	---	---
Unknown	0	broad.mit.edu	37	9	37041794	37041795	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:37041794_37041795delTT								PAX5 (7318 upstream) : ZCCHC7 (78674 downstream)																																			---	---	---	---
ZCCHC7	84186	broad.mit.edu	37	9	37284174	37284176	+	Intron	DEL	AAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:37284174_37284176delAAG	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	37397057	37397057	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:37397057delA								ZCCHC7 (38914 upstream) : GRHPR (25624 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	38120892	38120892	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:38120892delA								SHB (51682 upstream) : ALDH1B1 (271810 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	38200975	38200975	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:38200975delC								SHB (131765 upstream) : ALDH1B1 (191727 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	38643838	38643838	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:38643838delA								C9orf122 (20563 upstream) : CNTNAP3 (428928 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	38692945	38692946	+	IGR	INS	-	CTGA	CTGA	rs149427459	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:38692945_38692946insCTGA								C9orf122 (69670 upstream) : CNTNAP3 (379820 downstream)																																			---	---	---	---
CNTNAP3	79937	broad.mit.edu	37	9	39095039	39095042	+	Intron	DEL	TCTT	-	-	rs147539595		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:39095039_39095042delTCTT	uc004abi.2	-						CNTNAP3_uc004abj.2_Intron|CNTNAP3_uc011lqr.1_Intron|CNTNAP3_uc004abk.1_Intron	NM_033655	NP_387504			cell recognition molecule CASPR3 precursor						cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)														---	---	---	---
CNTNAP3	79937	broad.mit.edu	37	9	39146773	39146774	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:39146773_39146774insT	uc004abi.2	-						CNTNAP3_uc004abj.2_Intron|CNTNAP3_uc011lqr.1_Intron|CNTNAP3_uc004abk.1_Intron|CNTNAP3_uc011lqs.1_Intron|CNTNAP3_uc004abl.1_Intron	NM_033655	NP_387504			cell recognition molecule CASPR3 precursor						cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	40053887	40053887	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:40053887delA								FAM74A1 (146647 upstream) : FAM75A3 (646404 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	41637291	41637291	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:41637291delT								FAM75A5 (309927 upstream) : MGC21881 (311225 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	43314564	43314564	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:43314564delA								LOC642929 (169080 upstream) : FAM75A6 (309940 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	43315091	43315091	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:43315091delT								LOC642929 (169607 upstream) : FAM75A6 (309413 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	43513065	43513065	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:43513065delT								LOC642929 (367581 upstream) : FAM75A6 (111439 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	43689512	43689513	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:43689512_43689513insA	uc004acz.1	+											Homo sapiens cDNA FLJ30083 fis, clone BGGI12001097, weakly similar to Homo sapiens contactin associated protein (Caspr) mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	43720030	43720030	+	Intron	DEL	T	-	-	rs77805259		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:43720030delT	uc004acz.1	+											Homo sapiens cDNA FLJ30083 fis, clone BGGI12001097, weakly similar to Homo sapiens contactin associated protein (Caspr) mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	43823712	43823712	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:43823712delA	uc004acz.1	+											Homo sapiens cDNA FLJ30083 fis, clone BGGI12001097, weakly similar to Homo sapiens contactin associated protein (Caspr) mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	43940281	43940281	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:43940281delA								FAM75A6 (309551 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	44148815	44148815	+	IGR	DEL	A	-	-	rs117159039		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:44148815delA								FAM75A6 (518085 upstream) : FAM27C (841421 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	44211381	44211381	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:44211381delA								FAM75A6 (580651 upstream) : FAM27C (778855 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	44742109	44742110	+	IGR	INS	-	TG	TG	rs145005151	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:44742109_44742110insTG								None (None upstream) : FAM27C (248126 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	44759534	44759534	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:44759534delA								None (None upstream) : FAM27C (230702 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	44846434	44846435	+	IGR	DEL	TT	-	-	rs113471965		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:44846434_44846435delTT								None (None upstream) : FAM27C (143801 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	44867421	44867421	+	IGR	DEL	T	-	-	rs35246046		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:44867421delT								None (None upstream) : FAM27C (122815 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	45030096	45030097	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:45030096_45030097delAA								FAM27C (38605 upstream) : FAM27A (696932 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	65636817	65636817	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:65636817delA								FAM74A4 (142431 upstream) : LOC442421 (859653 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	66254365	66254366	+	IGR	INS	-	T	T	rs150354878		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66254365_66254366insT								FAM74A4 (759979 upstream) : LOC442421 (242104 downstream)																																			---	---	---	---
LOC442421	442421	broad.mit.edu	37	9	66496434	66496434	+	5'Flank	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66496434delC	uc004aee.1	+						LOC442421_uc004aed.1_5'Flank					Homo sapiens hypothetical LOC442421, mRNA (cDNA clone IMAGE:40031134).												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	66535070	66535070	+	Intron	DEL	A	-	-	rs11353150		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66535070delA	uc010mnh.1	-						uc004aef.2_Intron					Homo sapiens cDNA FLJ20444 fis, clone KAT05128.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	66774039	66774039	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66774039delG								LOC442421 (271012 upstream) : AQP7P1 (480228 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	66842729	66842730	+	IGR	DEL	CA	-	-	rs150223912		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66842729_66842730delCA								LOC442421 (339702 upstream) : AQP7P1 (411537 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	66857640	66857641	+	IGR	INS	-	G	G	rs141032437		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66857640_66857641insG								LOC442421 (354613 upstream) : AQP7P1 (396626 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	68353990	68353991	+	IGR	INS	-	TT	TT	rs142814378	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68353990_68353991insTT								FAM27B (559801 upstream) : MIR1299 (648248 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	68385894	68385894	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68385894delC								FAM27B (591705 upstream) : MIR1299 (616345 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	68469943	68469943	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68469943delC								FAM27B (675754 upstream) : MIR1299 (532296 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	68480277	68480277	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68480277delA								FAM27B (686088 upstream) : MIR1299 (521962 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	69001402	69001403	+	IGR	INS	-	T	T	rs142560516		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:69001402_69001403insT								None (None upstream) : MIR1299 (836 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	69174075	69174075	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:69174075delA								PGM5P2 (26221 upstream) : LOC440896 (139 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	69430249	69430249	+	Intron	DEL	A	-	-	rs115788493	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:69430249delA	uc010mnx.1	+							NM_001098806	NP_001092276			coiled-coil domain containing 29																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	69804005	69804006	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:69804005_69804006insT								LOC100133920 (139056 upstream) : FOXD4L5 (371703 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	69822586	69822586	+	IGR	DEL	A	-	-	rs112416161		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:69822586delA								LOC100133920 (157637 upstream) : FOXD4L5 (353123 downstream)																																			---	---	---	---
PIP5K1B	8395	broad.mit.edu	37	9	71487972	71487972	+	Intron	DEL	A	-	-	rs34817292		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:71487972delA	uc004agu.2	+						PIP5K1B_uc011lrq.1_Intron|PIP5K1B_uc004agv.2_Intron	NM_003558	NP_003549			phosphatidylinositol-4-phosphate 5-kinase, type							endomembrane system|membrane|uropod	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|protein binding			stomach(1)	1				Lung(182;0.133)														---	---	---	---
PIP5K1B	8395	broad.mit.edu	37	9	71523354	71523355	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:71523354_71523355delAA	uc004agu.2	+						PIP5K1B_uc011lrq.1_Intron|PIP5K1B_uc004agv.2_Intron	NM_003558	NP_003549			phosphatidylinositol-4-phosphate 5-kinase, type							endomembrane system|membrane|uropod	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|protein binding			stomach(1)	1				Lung(182;0.133)														---	---	---	---
FAM189A2	9413	broad.mit.edu	37	9	71992928	71992929	+	Intron	INS	-	TC	TC	rs146036167	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:71992928_71992929insTC	uc010mon.1	+						FAM189A2_uc004ahg.2_Intron|FAM189A2_uc010moo.1_Intron	NM_001127608	NP_001121080			chromosome 9 open reading frame 61 precursor							integral to membrane					0																		---	---	---	---
PTAR1	375743	broad.mit.edu	37	9	72368644	72368644	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:72368644delA	uc004ahj.3	-						PTAR1_uc004ahi.2_Intron	NM_001099666	NP_001093136			protein prenyltransferase alpha subunit repeat						protein prenylation		protein prenyltransferase activity			central_nervous_system(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	72572006	72572006	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:72572006delA								C9orf135 (50859 upstream) : MAMDC2 (86491 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	72642683	72642683	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:72642683delT								C9orf135 (121536 upstream) : MAMDC2 (15814 downstream)																																			---	---	---	---
SMC5	23137	broad.mit.edu	37	9	72958064	72958065	+	Intron	DEL	TT	-	-	rs71681650		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:72958064_72958065delTT	uc004ahr.2	+							NM_015110	NP_055925			SMC5 protein						DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
TRPM3	80036	broad.mit.edu	37	9	73444355	73444355	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:73444355delA	uc004aid.2	-						TRPM3_uc004ahu.2_Intron|TRPM3_uc004ahv.2_Intron|TRPM3_uc004ahw.2_Intron|TRPM3_uc004ahx.2_Intron|TRPM3_uc004ahy.2_Intron|TRPM3_uc004ahz.2_Intron|TRPM3_uc004aia.2_Intron|TRPM3_uc004aib.2_Intron|TRPM3_uc004aic.2_Intron|TRPM3_uc010mor.2_Intron|TRPM3_uc004aie.2_Intron|TRPM3_uc004aif.2_Intron|TRPM3_uc004aig.2_Intron|TRPM3_uc004aii.2_Intron	NM_001007471	NP_001007472			transient receptor potential cation channel,							integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9																		---	---	---	---
TRPM3	80036	broad.mit.edu	37	9	73595287	73595288	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:73595287_73595288delAG	uc004aid.2	-						TRPM3_uc004aic.2_Intron|TRPM3_uc010mor.2_Intron|TRPM3_uc004aii.2_Intron	NM_001007471	NP_001007472			transient receptor potential cation channel,							integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9																		---	---	---	---
TRPM3	80036	broad.mit.edu	37	9	73739223	73739226	+	5'Flank	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:73739223_73739226delAAAA	uc004aid.2	-						TRPM3_uc004aic.2_5'Flank|TRPM3_uc010mor.2_5'Flank|TRPM3_uc004aii.2_Intron	NM_001007471	NP_001007472			transient receptor potential cation channel,							integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9																		---	---	---	---
TRPM3	80036	broad.mit.edu	37	9	74056144	74056144	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:74056144delT	uc004aii.2	-							NM_206948	NP_996831			transient receptor potential cation channel,							integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9																		---	---	---	---
TMEM2	23670	broad.mit.edu	37	9	74312859	74312860	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:74312859_74312860insT	uc011lsa.1	-						TMEM2_uc011lrz.1_Intron|TMEM2_uc010mos.2_Intron|TMEM2_uc011lsb.1_Intron|TMEM2_uc004aik.2_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)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	74930016	74930017	+	Intron	DEL	TT	-	-	rs68099803		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:74930016_74930017delTT	uc004aiu.1	+											Homo sapiens cDNA FLJ37891 fis, clone BRTHA2003436.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	75046606	75046606	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:75046606delT								ZFAND5 (66443 upstream) : TMC1 (90111 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	75111753	75111753	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:75111753delT								ZFAND5 (131590 upstream) : TMC1 (24964 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	75117925	75117926	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:75117925_75117926delTT								ZFAND5 (137762 upstream) : TMC1 (18791 downstream)																																			---	---	---	---
TMC1	117531	broad.mit.edu	37	9	75371587	75371587	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:75371587delT	uc004aiz.1	+						TMC1_uc010moz.1_Intron|TMC1_uc004aja.1_Intron|TMC1_uc004ajb.1_Intron|TMC1_uc004ajc.1_Intron|TMC1_uc010mpa.1_Intron	NM_138691	NP_619636			transmembrane channel-like 1						sensory perception of sound	integral to membrane				ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	76921325	76921326	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:76921325_76921326insA								None (None upstream) : RORB (190926 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	76933816	76933816	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:76933816delT								None (None upstream) : RORB (178436 downstream)																																			---	---	---	---
RORB	6096	broad.mit.edu	37	9	77242714	77242714	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:77242714delA	uc004aji.2	+						RORB_uc004ajh.2_Intron	NM_006914	NP_008845			RAR-related orphan receptor B						eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	77314233	77314233	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:77314233delA								RORB (12118 upstream) : TRPM6 (23178 downstream)																																			---	---	---	---
TRPM6	140803	broad.mit.edu	37	9	77454350	77454350	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:77454350delA	uc004ajl.1	-						TRPM6_uc004ajk.1_Intron|TRPM6_uc010mpb.1_Intron|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajn.1_Intron	NM_017662	NP_060132			transient receptor potential cation channel,						response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	78203211	78203213	+	IGR	DEL	GAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:78203211_78203213delGAG								OSTF1 (441098 upstream) : PCSK5 (302347 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	78868165	78868166	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:78868165_78868166delTT								PCSK5 (59827 upstream) : RFK (132267 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	78889460	78889460	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:78889460delT								PCSK5 (81122 upstream) : RFK (110973 downstream)																																			---	---	---	---
GCNT1	2650	broad.mit.edu	37	9	79034574	79034574	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79034574delA	uc010mpf.2	+							NM_001490	NP_001481			beta-1,3-galactosyl-O-glycosyl-glycoprotein						protein O-linked glycosylation	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity				0																		---	---	---	---
GCNT1	2650	broad.mit.edu	37	9	79082409	79082410	+	Intron	INS	-	A	A	rs79494437	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79082409_79082410insA	uc010mpf.2	+						GCNT1_uc010mpg.2_Intron|GCNT1_uc010mph.2_Intron|GCNT1_uc004akf.3_Intron	NM_001490	NP_001481			beta-1,3-galactosyl-O-glycosyl-glycoprotein						protein O-linked glycosylation	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity				0																		---	---	---	---
GCNT1	2650	broad.mit.edu	37	9	79111517	79111518	+	Intron	DEL	TT	-	-	rs68078881		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79111517_79111518delTT	uc010mpf.2	+						GCNT1_uc010mpg.2_Intron|GCNT1_uc010mph.2_Intron|GCNT1_uc004akf.3_Intron|GCNT1_uc010mpi.2_Intron	NM_001490	NP_001481			beta-1,3-galactosyl-O-glycosyl-glycoprotein						protein O-linked glycosylation	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	79211456	79211457	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79211456_79211457delAA								GCNT1 (89126 upstream) : PRUNE2 (14836 downstream)																																			---	---	---	---
PRUNE2	158471	broad.mit.edu	37	9	79242012	79242012	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79242012delT	uc010mpk.2	-						PRUNE2_uc011lsk.1_Intron|PRUNE2_uc011lsl.1_Intron|PRUNE2_uc011lsm.1_Intron|PRUNE2_uc004akj.3_Intron	NM_015225	NP_056040			prune homolog 2						apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0																		---	---	---	---
VPS13A	23230	broad.mit.edu	37	9	79842990	79842991	+	Intron	INS	-	TA	TA	rs34249411		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79842990_79842991insTA	uc004akr.2	+						VPS13A_uc004akp.3_Intron|VPS13A_uc004akq.3_Intron|VPS13A_uc004aks.2_Intron	NM_033305	NP_150648			vacuolar protein sorting 13A isoform A						Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10																		---	---	---	---
VPS13A	23230	broad.mit.edu	37	9	79852901	79852901	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79852901delT	uc004akr.2	+						VPS13A_uc004akp.3_Intron|VPS13A_uc004akq.3_Intron|VPS13A_uc004aks.2_Intron	NM_033305	NP_150648			vacuolar protein sorting 13A isoform A						Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10																		---	---	---	---
VPS13A	23230	broad.mit.edu	37	9	79940485	79940485	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79940485delT	uc004akr.2	+						VPS13A_uc004akp.3_Intron|VPS13A_uc004akq.3_Intron|VPS13A_uc004aks.2_Intron|VPS13A_uc004akt.2_Intron	NM_033305	NP_150648			vacuolar protein sorting 13A isoform A						Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10																		---	---	---	---
VPS13A	23230	broad.mit.edu	37	9	79996812	79996812	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79996812delT	uc004akr.2	+						VPS13A_uc004akp.3_Intron|VPS13A_uc004akq.3_Intron|VPS13A_uc004aks.2_Intron	NM_033305	NP_150648			vacuolar protein sorting 13A isoform A						Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10																		---	---	---	---
VPS13A	23230	broad.mit.edu	37	9	80000000	80000000	+	Intron	DEL	A	-	-	rs78198903	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:80000000delA	uc004akr.2	+						VPS13A_uc004akq.3_3'UTR|VPS13A_uc004aks.2_Intron	NM_033305	NP_150648			vacuolar protein sorting 13A isoform A						Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10																		---	---	---	---
GNA14	9630	broad.mit.edu	37	9	80240978	80240978	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:80240978delA	uc004aku.2	-							NM_004297	NP_004288			G alpha 14						activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(2)	2																		---	---	---	---
GNAQ	2776	broad.mit.edu	37	9	80602326	80602327	+	Intron	DEL	AT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:80602326_80602327delAT	uc004akw.2	-							NM_002072	NP_002063			guanine nucleotide binding protein (G protein),						activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|glutamate signaling pathway|negative regulation of protein kinase activity|platelet activation|protein ADP-ribosylation|protein stabilization|regulation of action potential|regulation of catenin import into nucleus	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activator activity|GTPase activity|signal transducer activity			eye(136)|skin(44)|meninges(11)|ovary(1)|kidney(1)	193								Mis		uveal melanoma								---	---	---	---
CEP78	84131	broad.mit.edu	37	9	80849337	80849337	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:80849337delT	uc004akx.2	+						CEP78_uc004aky.3_5'Flank|CEP78_uc010mpp.2_5'Flank|CEP78_uc011lsp.1_5'Flank	NM_032171	NP_115547			centrosomal protein 78kDa isoform b						G2/M transition of mitotic cell cycle	centrosome|cytosol				ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	81003909	81003909	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:81003909delA								PSAT1 (58902 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	81428235	81428235	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:81428235delA								PSAT1 (483228 upstream) : TLE4 (758643 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	81539034	81539034	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:81539034delA								PSAT1 (594027 upstream) : TLE4 (647844 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	81768953	81768953	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:81768953delA								PSAT1 (823946 upstream) : TLE4 (417925 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	82063824	82063825	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:82063824_82063825delAA								None (None upstream) : TLE4 (123053 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	82827282	82827283	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:82827282_82827283insA								TLE4 (485625 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	82844266	82844275	+	IGR	DEL	TTTTTTTTGT	-	-	rs151071933	by1000genomes;byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:82844266_82844275delTTTTTTTTGT								TLE4 (502609 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	82848258	82848258	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:82848258delG								TLE4 (506601 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	82879041	82879042	+	IGR	DEL	AA	-	-	rs35545087		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:82879041_82879042delAA								TLE4 (537384 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	82995437	82995437	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:82995437delT								TLE4 (653780 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	83232439	83232439	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:83232439delT								TLE4 (890782 upstream) : TLE1 (966161 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	83606938	83606938	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:83606938delT								None (None upstream) : TLE1 (591662 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	83993109	83993109	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:83993109delA								None (None upstream) : TLE1 (205491 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	84030430	84030431	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:84030430_84030431insA								None (None upstream) : TLE1 (168169 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	84389054	84389054	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:84389054delT	uc004amd.2	+											Homo sapiens cDNA clone IMAGE:4813482.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	84772429	84772429	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:84772429delA								FLJ46321 (162259 upstream) : RASEF (824888 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	85193285	85193285	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:85193285delT								FLJ46321 (583115 upstream) : RASEF (404032 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	85273225	85273226	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:85273225_85273226insA								FLJ46321 (663055 upstream) : RASEF (324091 downstream)																																			---	---	---	---
RASEF	158158	broad.mit.edu	37	9	85674185	85674188	+	Intron	DEL	ACAC	-	-	rs72425094		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:85674185_85674188delACAC	uc004amo.1	-						RASEF_uc004amp.1_Intron	NM_152573	NP_689786			RAS and EF-hand domain containing						protein transport|small GTPase mediated signal transduction	perinuclear region of cytoplasm	calcium ion binding|GTP binding			upper_aerodigestive_tract(1)|lung(1)|breast(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	86187064	86187065	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86187064_86187065delGT								FRMD3 (33716 upstream) : C9orf103 (50901 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	86211265	86211265	+	IGR	DEL	A	-	-	rs66573960		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86211265delA								FRMD3 (57917 upstream) : C9orf103 (26701 downstream)																																			---	---	---	---
C9orf103	414328	broad.mit.edu	37	9	86253019	86253019	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86253019delA	uc004amu.1	+						C9orf103_uc004amt.1_Intron|C9orf103_uc010mpv.1_Intron	NM_001001551	NP_001001551			gluconokinase-like protein						carbohydrate metabolic process	cytoplasm	ATP binding|gluconokinase activity|shikimate kinase activity				0																		---	---	---	---
KIF27	55582	broad.mit.edu	37	9	86468880	86468880	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86468880delT	uc004ana.2	-						KIF27_uc010mpw.2_Intron|KIF27_uc010mpx.2_Intron	NM_017576	NP_060046			kinesin family member 27						cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5																		---	---	---	---
C9orf64	84267	broad.mit.edu	37	9	86559615	86559615	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86559615delT	uc004anb.2	-						C9orf64_uc004anc.2_Intron	NM_032307	NP_115683			hypothetical protein LOC84267												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	87043096	87043097	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:87043096_87043097delAA								SLC28A3 (59683 upstream) : NTRK2 (240369 downstream)																																			---	---	---	---
NTRK2	4915	broad.mit.edu	37	9	87520191	87520192	+	Intron	DEL	GT	-	-	rs143519327		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:87520191_87520192delGT	uc004aoa.1	+						NTRK2_uc004any.1_Intron|NTRK2_uc004anz.1_Intron	NM_001018064	NP_001018074			neurotrophic tyrosine kinase, receptor, type 2						activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development	integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein tyrosine kinase activity			lung(11)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|liver(1)	16															TSP Lung(25;0.17)			---	---	---	---
Unknown	0	broad.mit.edu	37	9	87721949	87721949	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:87721949delT								NTRK2 (83444 upstream) : AGTPBP1 (439506 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	87752113	87752113	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:87752113delA								NTRK2 (113608 upstream) : AGTPBP1 (409342 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	87777263	87777263	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:87777263delT								NTRK2 (138758 upstream) : AGTPBP1 (384192 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	87867053	87867053	+	IGR	DEL	T	-	-	rs33991454		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:87867053delT								NTRK2 (228548 upstream) : AGTPBP1 (294402 downstream)																																			---	---	---	---
AGTPBP1	23287	broad.mit.edu	37	9	88268090	88268090	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:88268090delG	uc011ltd.1	-						AGTPBP1_uc011ltc.1_Intron|AGTPBP1_uc010mqc.2_Intron|AGTPBP1_uc011lte.1_Intron	NM_015239	NP_056054			ATP/GTP binding protein 1						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																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	88410713	88410713	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:88410713delT								AGTPBP1 (53769 upstream) : NAA35 (145344 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	88435421	88435421	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:88435421delT	uc004aog.1	+						uc004aoh.1_Intron					Homo sapiens cDNA FLJ42532 fis, clone BRACE3003004.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	88469643	88469643	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:88469643delA								AGTPBP1 (112699 upstream) : NAA35 (86414 downstream)																																			---	---	---	---
NAA35	60560	broad.mit.edu	37	9	88576799	88576799	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:88576799delT	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																		---	---	---	---
GOLM1	51280	broad.mit.edu	37	9	88664063	88664063	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:88664063delT	uc004aol.2	-						GOLM1_uc010mqd.1_Intron|GOLM1_uc004aom.2_Intron	NM_016548	NP_057632			golgi membrane protein 1							Golgi apparatus|integral to plasma membrane					0																		---	---	---	---
GOLM1	51280	broad.mit.edu	37	9	88821875	88821875	+	Intron	DEL	T	-	-	rs11427464		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:88821875delT	uc010mqd.1	-											Homo sapiens golgi membrane protein GP73 mRNA, complete cds.							Golgi apparatus|integral to plasma membrane					0																		---	---	---	---
ZCCHC6	79670	broad.mit.edu	37	9	88919729	88919729	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:88919729delT	uc004aoq.2	-						ZCCHC6_uc010mqe.2_Intron|ZCCHC6_uc011ltf.1_Intron|ZCCHC6_uc004aor.2_Intron|ZCCHC6_uc004aos.2_Intron|ZCCHC6_uc004aot.2_Intron|ZCCHC6_uc004aou.2_Intron	NM_024617	NP_078893			zinc finger, CCHC domain containing 6						RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	89022830	89022831	+	IGR	INS	-	T	T	rs145714086	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:89022830_89022831insT								ZCCHC6 (53452 upstream) : GAS1 (536448 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	89043747	89043747	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:89043747delT								ZCCHC6 (74369 upstream) : GAS1 (515532 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	89467777	89467795	+	IGR	DEL	TTTAGCTTCAAGGGGCACA	-	-	rs140944301		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:89467777_89467795delTTTAGCTTCAAGGGGCACA								ZCCHC6 (498399 upstream) : GAS1 (91484 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	89696804	89696804	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:89696804delT								LOC440173 (39763 upstream) : C9orf170 (66755 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	89736234	89736235	+	IGR	DEL	TT	-	-	rs76790224		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:89736234_89736235delTT								LOC440173 (79193 upstream) : C9orf170 (27324 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	89941651	89941651	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:89941651delT								C9orf170 (167010 upstream) : DAPK1 (171007 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	89950960	89950960	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:89950960delA								C9orf170 (176319 upstream) : DAPK1 (161698 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	90084091	90084092	+	IGR	INS	-	A	A	rs146737921	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90084091_90084092insA								C9orf170 (309450 upstream) : DAPK1 (28566 downstream)																																			---	---	---	---
DAPK1	1612	broad.mit.edu	37	9	90208668	90208668	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90208668delT	uc004apc.2	+						DAPK1_uc004ape.2_Intron|DAPK1_uc004apd.2_Intron|DAPK1_uc011ltg.1_Intron|DAPK1_uc011lth.1_Intron	NM_004938	NP_004929			death-associated protein kinase 1						apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2														Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				---	---	---	---
Unknown	0	broad.mit.edu	37	9	90336062	90336062	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90336062delT								DAPK1 (12514 upstream) : CTSL1 (4912 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	90692538	90692538	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90692538delC								CDK20 (102871 upstream) : SPIN1 (310302 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	90791486	90791487	+	IGR	INS	-	TGTG	TGTG	rs148232960	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90791486_90791487insTGTG								CDK20 (201819 upstream) : SPIN1 (211353 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	90858265	90858266	+	IGR	INS	-	G	G	rs143538524	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90858265_90858266insG								CDK20 (268598 upstream) : SPIN1 (144574 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	90879319	90879319	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90879319delA								CDK20 (289652 upstream) : SPIN1 (123521 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	90900002	90900003	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90900002_90900003delAA								CDK20 (310335 upstream) : SPIN1 (102837 downstream)																																			---	---	---	---
SPIN1	10927	broad.mit.edu	37	9	91057188	91057188	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:91057188delT	uc010mqj.2	+						SPIN1_uc004apy.2_Intron|SPIN1_uc004apz.2_Intron|SPIN1_uc010mqk.2_Intron	NM_006717	NP_006708			spindlin						cell cycle|gamete generation|multicellular organismal development	nucleus	methylated histone residue binding				0																		---	---	---	---
SPIN1	10927	broad.mit.edu	37	9	91086744	91086745	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:91086744_91086745delTT	uc010mqj.2	+						SPIN1_uc004apy.2_Intron|SPIN1_uc004apz.2_Intron|SPIN1_uc010mqk.2_Intron	NM_006717	NP_006708			spindlin						cell cycle|gamete generation|multicellular organismal development	nucleus	methylated histone residue binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	91305421	91305422	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:91305421_91305422insT								LOC286238 (38346 upstream) : C9orf47 (300356 downstream)																																			---	---	---	---
SHC3	53358	broad.mit.edu	37	9	91716262	91716262	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:91716262delA	uc004aqg.2	-							NM_016848	NP_058544			src homology 2 domain-containing transforming						central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4																		---	---	---	---
SECISBP2	79048	broad.mit.edu	37	9	91953185	91953185	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:91953185delT	uc004aqj.1	+						SECISBP2_uc010mqn.1_Intron|SECISBP2_uc004aqi.1_Intron|SECISBP2_uc011ltk.1_Intron|SECISBP2_uc004aqk.1_Intron|SECISBP2_uc010mqo.1_Intron|SECISBP2_uc011ltl.1_Intron	NM_024077	NP_076982			SECIS binding protein 2						translation	nucleus	mRNA 3'-UTR binding			ovary(2)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	92151421	92151421	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:92151421delT								SEMA4D (38533 upstream) : GADD45G (68506 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	92160961	92160961	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:92160961delT								SEMA4D (48073 upstream) : GADD45G (58966 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	92184674	92184674	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:92184674delA								SEMA4D (71786 upstream) : GADD45G (35253 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	92883901	92883901	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:92883901delT								LOC100129066 (549227 upstream) : DIRAS2 (488213 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	92887686	92887687	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:92887686_92887687delCA								LOC100129066 (553012 upstream) : DIRAS2 (484427 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	92931779	92931779	+	IGR	DEL	A	-	-	rs112177245	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:92931779delA								LOC100129066 (597105 upstream) : DIRAS2 (440335 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	93102905	93102905	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:93102905delG								LOC100129066 (768231 upstream) : DIRAS2 (269209 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	93151086	93151086	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:93151086delA								LOC100129066 (816412 upstream) : DIRAS2 (221028 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	93340310	93340310	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:93340310delT	uc004aqt.1	-											Homo sapiens cDNA FLJ46333 fis, clone TESTI4045701.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	93463883	93463884	+	IGR	INS	-	CAAT	CAAT	rs113331716		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:93463883_93463884insCAAT								DIRAS2 (58775 upstream) : SYK (100128 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	93541507	93541507	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:93541507delA								DIRAS2 (136399 upstream) : SYK (22505 downstream)																																			---	---	---	---
SYK	6850	broad.mit.edu	37	9	93603740	93603741	+	Intron	INS	-	TG	TG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:93603740_93603741insTG	uc004aqz.2	+						SYK_uc004aqy.2_Intron|SYK_uc004ara.2_Intron|SYK_uc004arb.2_Intron|SYK_uc004arc.2_Intron|SYK_uc011ltr.1_5'Flank|SYK_uc011lts.1_5'Flank|SYK_uc011ltt.1_5'Flank	NM_003177	NP_003168			spleen tyrosine kinase isoform 1						cell proliferation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|neutrophil chemotaxis|organ morphogenesis|platelet activation|protein complex assembly	cytosol|T cell receptor complex	ATP binding|integrin binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5								T	ETV6|ITK	MDS|peripheral T-cell lymphoma								---	---	---	---
SYK	6850	broad.mit.edu	37	9	93649003	93649004	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:93649003_93649004insA	uc004aqz.2	+						SYK_uc004ara.2_Intron|SYK_uc004arb.2_Intron|SYK_uc004arc.2_Intron|SYK_uc011ltr.1_Intron|SYK_uc011lts.1_Intron|SYK_uc011ltt.1_Intron	NM_003177	NP_003168			spleen tyrosine kinase isoform 1						cell proliferation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|neutrophil chemotaxis|organ morphogenesis|platelet activation|protein complex assembly	cytosol|T cell receptor complex	ATP binding|integrin binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5								T	ETV6|ITK	MDS|peripheral T-cell lymphoma								---	---	---	---
AUH	549	broad.mit.edu	37	9	94059881	94059881	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:94059881delT	uc004arf.3	-						AUH_uc004arg.3_Intron|AUH_uc011ltu.1_Intron	NM_001698	NP_001689			AU RNA binding protein/enoyl-Coenzyme A						branched chain family amino acid catabolic process|mRNA catabolic process	mitochondrial matrix	enoyl-CoA hydratase activity|methylglutaconyl-CoA hydratase activity|mRNA 3'-UTR binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	94299864	94299865	+	IGR	DEL	AA	-	-	rs34715524		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:94299864_94299865delAA								NFIL3 (113720 upstream) : ROR2 (25508 downstream)																																			---	---	---	---
ROR2	4920	broad.mit.edu	37	9	94363862	94363863	+	Intron	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:94363862_94363863delTC	uc004ari.1	-							NM_004560	NP_004551			receptor tyrosine kinase-like orphan receptor 2						negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20																		---	---	---	---
ROR2	4920	broad.mit.edu	37	9	94397646	94397647	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:94397646_94397647delAA	uc004ari.1	-							NM_004560	NP_004551			receptor tyrosine kinase-like orphan receptor 2						negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20																		---	---	---	---
ROR2	4920	broad.mit.edu	37	9	94447463	94447463	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:94447463delA	uc004ari.1	-							NM_004560	NP_004551			receptor tyrosine kinase-like orphan receptor 2						negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	94759474	94759474	+	IGR	DEL	T	-	-	rs7870397	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:94759474delT								ROR2 (47030 upstream) : SPTLC1 (33946 downstream)																																			---	---	---	---
SPTLC1	10558	broad.mit.edu	37	9	94842112	94842112	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:94842112delT	uc004arl.1	-						SPTLC1_uc011ltv.1_Intron|SPTLC1_uc004arm.1_Intron|SPTLC1_uc004arn.1_Intron	NM_006415	NP_006406			serine palmitoyltransferase subunit 1 isoform a							integral to membrane|SPOTS complex	protein binding|pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups			ovary(1)|breast(1)	2					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)													---	---	---	---
Unknown	0	broad.mit.edu	37	9	94922972	94922973	+	IGR	DEL	AC	-	-	rs58710196		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:94922972_94922973delAC								C9orf44 (1082 upstream) : IARS (49652 downstream)																																			---	---	---	---
IARS	3376	broad.mit.edu	37	9	95005263	95005263	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95005263delA	uc004art.1	-						IARS_uc004ars.1_Intron|IARS_uc004aru.3_Intron|IARS_uc010mqr.2_Intron|IARS_uc010mqt.2_Intron	NM_013417	NP_038203			isoleucine tRNA synthetase						isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)											OREG0019313	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
IARS	3376	broad.mit.edu	37	9	95033363	95033364	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95033363_95033364insA	uc004art.1	-						IARS_uc004ars.1_Intron|IARS_uc004aru.3_Intron|IARS_uc010mqr.2_Intron|IARS_uc010mqt.2_Intron	NM_013417	NP_038203			isoleucine tRNA synthetase						isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)													---	---	---	---
OGN	4969	broad.mit.edu	37	9	95160827	95160827	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95160827delT	uc004asa.2	-						CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|OGN_uc004asb.2_Intron|OGN_uc011ltx.1_Intron	NM_014057	NP_054776			osteoglycin preproprotein							extracellular space|proteinaceous extracellular matrix	growth factor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	95540487	95540489	+	IGR	DEL	TTT	-	-	rs147746781		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95540487_95540489delTTT								BICD2 (13404 upstream) : ANKRD19 (31404 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	95558570	95558570	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95558570delA								BICD2 (31487 upstream) : ANKRD19 (13323 downstream)																																			---	---	---	---
ANKRD19	138649	broad.mit.edu	37	9	95581695	95581695	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95581695delA	uc011lua.1	+						ANKRD19_uc004ass.2_Intron|ANKRD19_uc004asr.3_Intron					SubName: Full=ANKRD19 protein; SubName: Full=cDNA FLJ77364, highly similar to Homo sapiens ankyrin repeat domain 19 (ANKRD19), mRNA; SubName: Full=Ankyrin repeat domain 19, isoform CRA_a;												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	95680254	95680254	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95680254delA								ANKRD19 (29281 upstream) : FGD3 (29347 downstream)																																			---	---	---	---
FAM120A	23196	broad.mit.edu	37	9	96288794	96288794	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96288794delT	uc004atw.2	+						FAM120A_uc004atv.2_Intron|FAM120A_uc004atx.2_Intron|FAM120A_uc004aty.2_Intron|FAM120A_uc004atz.2_Intron|FAM120A_uc010mrf.1_Intron	NM_014612	NP_055427			oxidative stress-associated Src activator							cytoplasm|plasma membrane	RNA binding				0																		---	---	---	---
PHF2	5253	broad.mit.edu	37	9	96422612	96422612	+	Frame_Shift_Del	DEL	A	-	-	rs76832193		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96422612delA	uc004aub.2	+	12	1615	c.1468delA	c.(1468-1470)AAAfs	p.K490fs	PHF2_uc011lug.1_Frame_Shift_Del_p.K373fs|PHF2_uc004auc.2_5'Flank	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	490	Pro-rich.|Lys-rich.				liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	96523268	96523268	+	IGR	DEL	G	-	-	rs9299412	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96523268delG								PHF2 (81401 upstream) : BARX1 (190643 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	96728181	96728181	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96728181delA								BARX1 (10573 upstream) : PTPDC1 (64895 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	96946625	96946626	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96946625_96946626delGT	uc004auk.2	-											Homo sapiens cDNA clone IMAGE:5265295.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	96964993	96964993	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96964993delT	uc004auk.2	-											Homo sapiens cDNA clone IMAGE:5265295.																														---	---	---	---
FANCC	2176	broad.mit.edu	37	9	97934432	97934432	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:97934432delA	uc004avh.2	-						FANCC_uc004avi.3_Intron|FANCC_uc010mrm.1_Intron|FANCC_uc011lul.1_Intron	NM_000136	NP_000127			Fanconi anemia, complementation group C						protein complex assembly	cytosol|nucleoplasm	protein binding			kidney(1)	1		Acute lymphoblastic leukemia(62;0.138)						D|Mis|N|F|S			AML|leukemia		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				---	---	---	---
FANCC	2176	broad.mit.edu	37	9	98008298	98008298	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:98008298delT	uc004avh.2	-						FANCC_uc004avi.3_Intron|FANCC_uc010mrm.1_Intron|FANCC_uc011lul.1_Intron	NM_000136	NP_000127			Fanconi anemia, complementation group C						protein complex assembly	cytosol|nucleoplasm	protein binding			kidney(1)	1		Acute lymphoblastic leukemia(62;0.138)						D|Mis|N|F|S			AML|leukemia		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				---	---	---	---
FANCC	2176	broad.mit.edu	37	9	98009495	98009496	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:98009495_98009496delGT	uc004avh.2	-						FANCC_uc004avi.3_Intron|FANCC_uc010mrm.1_Intron|FANCC_uc011lul.1_Intron	NM_000136	NP_000127			Fanconi anemia, complementation group C						protein complex assembly	cytosol|nucleoplasm	protein binding			kidney(1)	1		Acute lymphoblastic leukemia(62;0.138)						D|Mis|N|F|S			AML|leukemia		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				---	---	---	---
PTCH1	5727	broad.mit.edu	37	9	98208011	98208011	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:98208011delA	uc004avk.3	-	24					PTCH1_uc010mrn.2_3'UTR|PTCH1_uc010mro.2_3'UTR|PTCH1_uc010mrp.2_3'UTR|PTCH1_uc010mrq.2_3'UTR|PTCH1_uc004avl.3_3'UTR|PTCH1_uc010mrr.2_3'UTR|PTCH1_uc004avm.3_3'UTR	NM_000264	NP_000255			patched isoform L						embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)												Basal_Cell_Nevus_syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	9	98352054	98352054	+	IGR	DEL	A	-	-	rs115174885	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:98352054delA								PTCH1 (72807 upstream) : C9orf130 (216318 downstream)																																			---	---	---	---
C9orf130	100128782	broad.mit.edu	37	9	98624697	98624698	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:98624697_98624698delTT	uc004avp.3	-						C9orf130_uc004avr.2_Intron	NR_023390				Homo sapiens cDNA FLJ34818 fis, clone NT2NE2008077.												0																		---	---	---	---
C9orf102	375748	broad.mit.edu	37	9	98640096	98640097	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:98640096_98640097delAG	uc004avt.3	+						C9orf102_uc010mrx.1_Intron|C9orf102_uc011lum.1_Intron|C9orf102_uc010mry.1_Intron|C9orf102_uc010mrz.2_Intron|C9orf130_uc004avp.3_5'Flank|C9orf130_uc004avr.2_5'Flank|C9orf130_uc004avs.2_5'Flank	NM_001010895	NP_001010895			RAD26L hypothetical protein						DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)																---	---	---	---
Unknown	0	broad.mit.edu	37	9	98910246	98910246	+	IGR	DEL	A	-	-	rs139074595		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:98910246delA								NCRNA00092 (126209 upstream) : HSD17B3 (87343 downstream)																																			---	---	---	---
HSD17B3	3293	broad.mit.edu	37	9	99008685	99008685	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:99008685delT	uc004awa.1	-						HSD17B3_uc010msc.1_Intron	NM_000197	NP_000188			estradiol 17 beta-dehydrogenase 3						androgen biosynthetic process|male genitalia development	endoplasmic reticulum membrane|microsome	binding|testosterone 17-beta-dehydrogenase (NAD+) activity|testosterone 17-beta-dehydrogenase (NADP+) activity				0		Acute lymphoblastic leukemia(62;0.0171)|all_hematologic(171;0.214)			NADH(DB00157)													---	---	---	---
CDC14B	8555	broad.mit.edu	37	9	99341867	99341870	+	Intron	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:99341867_99341870delAAAA	uc004awj.2	-						CDC14B_uc004awk.2_Intron|CDC14B_uc004awl.2_Intron	NM_033331	NP_201588			CDC14 homolog B isoform 2						activation of anaphase-promoting complex activity|DNA repair|G2/M transition DNA damage checkpoint	nucleolus|nucleoplasm	protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)																---	---	---	---
CDC14B	8555	broad.mit.edu	37	9	99342204	99342204	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:99342204delT	uc004awj.2	-						CDC14B_uc004awk.2_Intron|CDC14B_uc004awl.2_Intron	NM_033331	NP_201588			CDC14 homolog B isoform 2						activation of anaphase-promoting complex activity|DNA repair|G2/M transition DNA damage checkpoint	nucleolus|nucleoplasm	protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)																---	---	---	---
Unknown	0	broad.mit.edu	37	9	99390874	99390874	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:99390874delA								CDC14B (8762 upstream) : C9orf21 (12660 downstream)																																			---	---	---	---
ZNF510	22869	broad.mit.edu	37	9	99528926	99528926	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:99528926delA	uc004awn.1	-						ZNF510_uc004awo.1_Intron	NM_014930	NP_055745			zinc finger protein 510						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)																---	---	---	---
Unknown	0	broad.mit.edu	37	9	99573240	99573249	+	IGR	DEL	AAAAAAAAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:99573240_99573249delAAAAAAAAAA								ZNF510 (32902 upstream) : ZNF782 (6024 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	99987128	99987128	+	Intron	DEL	C	-	-	rs76905900		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:99987128delC	uc010msl.1	-											Homo sapiens cDNA, FLJ99517.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	100504504	100504504	+	IGR	DEL	G	-	-	rs112447332		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100504504delG								XPA (44813 upstream) : FOXE1 (111033 downstream)																																			---	---	---	---
TRIM14	9830	broad.mit.edu	37	9	100840358	100840358	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100840358delT	uc004ayd.2	-						NANS_uc004ayb.2_Intron|NANS_uc004ayc.2_Intron|NANS_uc004aye.1_5'Flank	NM_033220	NP_150089			tripartite motif protein TRIM14 isoform alpha							cytoplasm|intracellular	zinc ion binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.0559)																---	---	---	---
GABBR2	9568	broad.mit.edu	37	9	101201382	101201383	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:101201382_101201383delAA	uc004ays.2	-							NM_005458	NP_005449			G protein-coupled receptor 51 precursor						negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)													---	---	---	---
GABBR2	9568	broad.mit.edu	37	9	101293066	101293066	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:101293066delA	uc004ays.2	-							NM_005458	NP_005449			G protein-coupled receptor 51 precursor						negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)													---	---	---	---
Unknown	0	broad.mit.edu	37	9	102413410	102413411	+	Intron	INS	-	AA	AA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:102413410_102413411insAA	uc004bad.1	-											Homo sapiens cDNA FLJ32889 fis, clone TESTI2004560.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	102647913	102647913	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:102647913delT								NR4A3 (18740 upstream) : STX17 (21002 downstream)																																			---	---	---	---
ERP44	23071	broad.mit.edu	37	9	102814604	102814604	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:102814604delA	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																		---	---	---	---
TEX10	54881	broad.mit.edu	37	9	103090306	103090306	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:103090306delA	uc004bas.2	-						TEX10_uc011lvf.1_Intron|TEX10_uc011lvg.1_Intron	NM_017746	NP_060216			testis expressed 10 isoform 1							integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)														---	---	---	---
TEX10	54881	broad.mit.edu	37	9	103110140	103110140	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:103110140delA	uc004bas.2	-						TEX10_uc011lvf.1_5'Flank|TEX10_uc011lvg.1_Intron|TEX10_uc011lvh.1_Intron|TEX10_uc004bat.2_Intron	NM_017746	NP_060216			testis expressed 10 isoform 1							integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)														---	---	---	---
TMEFF1	8577	broad.mit.edu	37	9	103275154	103275154	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:103275154delT	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	103424777	103424777	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:103424777delT								MURC (74606 upstream) : LPPR1 (366254 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	103478125	103478126	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:103478125_103478126delTG								MURC (127954 upstream) : LPPR1 (312905 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	104176911	104176911	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:104176911delA								ZNF189 (3969 upstream) : ALDOB (5931 downstream)																																			---	---	---	---
ALDOB	229	broad.mit.edu	37	9	104198101	104198101	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:104198101delT	uc004bbk.2	-							NM_000035	NP_000026			aldolase B, fructose-bisphosphate						fructose 1,6-bisphosphate metabolic process|fructose catabolic process|gluconeogenesis|glycolysis|NADH oxidation|positive regulation of ATPase activity|vacuolar proton-transporting V-type ATPase complex assembly	centriolar satellite|cytosol	ATPase binding|cytoskeletal protein binding|fructose binding|fructose-bisphosphate aldolase activity|identical protein binding			skin(1)	1		Acute lymphoblastic leukemia(62;0.0559)																---	---	---	---
Unknown	0	broad.mit.edu	37	9	104254733	104254733	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:104254733delT								C9orf125 (5258 upstream) : RNF20 (41400 downstream)																																			---	---	---	---
RNF20	56254	broad.mit.edu	37	9	104303004	104303004	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:104303004delA	uc004bbn.2	+							NM_019592	NP_062538			ring finger protein 20						histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)														---	---	---	---
GRIN3A	116443	broad.mit.edu	37	9	104409742	104409743	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:104409742_104409743delTT	uc004bbp.1	-						GRIN3A_uc004bbq.1_Intron	NM_133445	NP_597702			glutamate receptor, ionotropic,						response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)													---	---	---	---
Unknown	0	broad.mit.edu	37	9	105322873	105322874	+	IGR	DEL	TG	-	-	rs113801779		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:105322873_105322874delTG								GRIN3A (822011 upstream) : CYLC2 (434719 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	105585312	105585313	+	IGR	DEL	TT	-	-	rs5899515		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:105585312_105585313delTT								None (None upstream) : CYLC2 (172280 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	105591668	105591669	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:105591668_105591669insA								None (None upstream) : CYLC2 (165924 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	105723358	105723358	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:105723358delA								None (None upstream) : CYLC2 (34235 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	105783994	105783994	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:105783994delT								CYLC2 (3224 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	106437829	106437829	+	IGR	DEL	C	-	-	rs35454206		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:106437829delC								CYLC2 (657059 upstream) : SMC2 (418712 downstream)																																			---	---	---	---
SMC2	10592	broad.mit.edu	37	9	106886561	106886561	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:106886561delT	uc004bbv.2	+						SMC2_uc004bbw.2_Intron|SMC2_uc011lvl.1_Intron|SMC2_uc004bbx.2_Intron	NM_001042551	NP_001036016			structural maintenance of chromosomes 2						cell division|mitotic chromosome condensation|symbiosis, encompassing mutualism through parasitism	condensin complex|cytoplasm|nuclear chromosome	ATP binding|protein heterodimerization activity			ovary(4)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|breast(1)	9																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	107375425	107375425	+	IGR	DEL	A	-	-	rs34764399		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:107375425delA								OR13C2 (7517 upstream) : OR13C9 (4105 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	107888527	107888527	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:107888527delA								ABCA1 (198091 upstream) : SLC44A1 (118402 downstream)																																			---	---	---	---
SLC44A1	23446	broad.mit.edu	37	9	108197445	108197446	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:108197445_108197446delAA	uc004bco.1	+							NM_080546	NP_536856			CDW92 antigen							integral to membrane|mitochondrial outer membrane|plasma membrane	choline transmembrane transporter activity			breast(3)|ovary(1)	4					Choline(DB00122)													---	---	---	---
Unknown	0	broad.mit.edu	37	9	108409576	108409576	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:108409576delT								FKTN (6178 upstream) : TAL2 (15162 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	109182156	109182156	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:109182156delT								TMEM38B (644712 upstream) : ZNF462 (443222 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	109384187	109384188	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:109384187_109384188insA	uc004bcy.1	+											Homo sapiens cDNA FLJ36044 fis, clone TESTI2017584.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	109514567	109514567	+	IGR	DEL	A	-	-	rs33989060		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:109514567delA								TMEM38B (977123 upstream) : ZNF462 (110811 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	109898991	109898991	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:109898991delT								ZNF462 (125202 upstream) : RAD23B (146553 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	110344609	110344609	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:110344609delT								KLF4 (92562 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	110430132	110430132	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:110430132delC								KLF4 (178085 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	110625514	110625514	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:110625514delT								KLF4 (373467 upstream) : ACTL7B (991357 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	110869855	110869857	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:110869855_110869857delAAA								KLF4 (617808 upstream) : ACTL7B (747014 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	110904687	110904687	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:110904687delA								KLF4 (652640 upstream) : ACTL7B (712184 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	111020263	111020264	+	IGR	DEL	AA	-	-	rs71885873		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:111020263_111020264delAA								KLF4 (768216 upstream) : ACTL7B (596607 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	111031836	111031836	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:111031836delA								KLF4 (779789 upstream) : ACTL7B (585035 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	111517497	111517497	+	IGR	DEL	A	-	-	rs66509750		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:111517497delA								None (None upstream) : ACTL7B (99374 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	111519481	111519482	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:111519481_111519482delAA								None (None upstream) : ACTL7B (97389 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	111593771	111593771	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:111593771delA								None (None upstream) : ACTL7B (23100 downstream)																																			---	---	---	---
IKBKAP	8518	broad.mit.edu	37	9	111646281	111646282	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:111646281_111646282delAA	uc004bdm.3	-						IKBKAP_uc004bdl.2_Intron|IKBKAP_uc011lwc.1_Intron|IKBKAP_uc010mtq.2_Intron|IKBKAP_uc004bdk.2_Intron|IKBKAP_uc010mtp.2_Intron	NM_003640	NP_003631			inhibitor of kappa light polypeptide gene						immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7																		---	---	---	---
IKBKAP	8518	broad.mit.edu	37	9	111664865	111664865	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:111664865delT	uc004bdm.3	-						IKBKAP_uc004bdl.2_Intron|IKBKAP_uc011lwc.1_Intron|IKBKAP_uc010mtq.2_Intron	NM_003640	NP_003631			inhibitor of kappa light polypeptide gene						immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7																		---	---	---	---
IKBKAP	8518	broad.mit.edu	37	9	111665955	111665955	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:111665955delA	uc004bdm.3	-						IKBKAP_uc004bdl.2_Intron|IKBKAP_uc011lwc.1_Intron|IKBKAP_uc010mtq.2_Intron	NM_003640	NP_003631			inhibitor of kappa light polypeptide gene						immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7																		---	---	---	---
EPB41L4B	54566	broad.mit.edu	37	9	111985715	111985718	+	Intron	DEL	AAAA	-	-	rs148239136		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:111985715_111985718delAAAA	uc004bdz.1	-							NM_019114	NP_061987			erythrocyte membrane protein band 4.1 like 4B							cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
EPB41L4B	54566	broad.mit.edu	37	9	112028657	112028657	+	Intron	DEL	A	-	-	rs75188678		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112028657delA	uc004bdz.1	-						EPB41L4B_uc004bea.2_Intron	NM_019114	NP_061987			erythrocyte membrane protein band 4.1 like 4B							cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
EPB41L4B	54566	broad.mit.edu	37	9	112038590	112038591	+	Intron	INS	-	G	G	rs145004154	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112038590_112038591insG	uc004bdz.1	-						EPB41L4B_uc004bea.2_Intron	NM_019114	NP_061987			erythrocyte membrane protein band 4.1 like 4B							cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	112128270	112128270	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112128270delT								EPB41L4B (45249 upstream) : PTPN3 (9704 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	112283450	112283450	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112283450delT								PTPN3 (22857 upstream) : PALM2 (119622 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	112328104	112328104	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112328104delC								PTPN3 (67511 upstream) : PALM2 (74968 downstream)																																			---	---	---	---
PALM2-AKAP2	445815	broad.mit.edu	37	9	112853684	112853685	+	Intron	DEL	GT	-	-	rs79380092		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112853684_112853685delGT	uc004bei.2	+						PALM2-AKAP2_uc004bek.3_Intron|PALM2-AKAP2_uc004bej.3_Intron|PALM2-AKAP2_uc004bel.1_Intron|AKAP2_uc011lwi.1_Intron|AKAP2_uc004bem.2_Intron|PALM2-AKAP2_uc010mtw.1_Intron	NM_001136562	NP_001130034			A kinase (PRKA) anchor protein 2 isoform 2								enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6																		---	---	---	---
SVEP1	79987	broad.mit.edu	37	9	113261281	113261281	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:113261281delA	uc010mtz.2	-						SVEP1_uc010mua.1_Intron|SVEP1_uc004beu.2_Intron	NM_153366	NP_699197			polydom						cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7																		---	---	---	---
LPAR1	1902	broad.mit.edu	37	9	113681167	113681167	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:113681167delT	uc004bfa.2	-						LPAR1_uc011lwm.1_Intron|LPAR1_uc004bfb.2_Intron|LPAR1_uc004bfc.2_Intron|LPAR1_uc011lwn.1_Intron|LPAR1_uc011lwo.1_Intron|LPAR1_uc010mub.2_Intron	NM_057159	NP_476500			lysophosphatidic acid receptor 1						positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	113837778	113837779	+	IGR	INS	-	AC	AC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:113837778_113837779insAC								LPAR1 (36252 upstream) : OR2K2 (251985 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	113936870	113936870	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:113936870delT								LPAR1 (135344 upstream) : OR2K2 (152894 downstream)																																			---	---	---	---
KIAA0368	23392	broad.mit.edu	37	9	114170786	114170786	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114170786delA	uc004bfe.1	-							NM_001080398	NP_001073867			KIAA0368 protein												0																		---	---	---	---
C9orf84	158401	broad.mit.edu	37	9	114520878	114520878	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114520878delA	uc004bfr.2	-						C9orf84_uc011lwt.1_Intron|C9orf84_uc004bfs.1_Intron|C9orf84_uc004bfq.2_Intron|C9orf84_uc010mug.2_Intron	NM_173521	NP_775792			hypothetical protein LOC158401 isoform 1											ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	114570286	114570286	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114570286delA								C9orf84 (13063 upstream) : UGCG (88920 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	114595569	114595569	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114595569delC								C9orf84 (38346 upstream) : UGCG (63637 downstream)																																			---	---	---	---
UGCG	7357	broad.mit.edu	37	9	114685398	114685398	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114685398delT	uc004bft.2	+							NM_003358	NP_003349			ceramide glucosyltransferase						epidermis development|glucosylceramide biosynthetic process	Golgi membrane|integral to membrane|membrane fraction	ceramide glucosyltransferase activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(323;0.0433)	Miglustat(DB00419)													---	---	---	---
Unknown	0	broad.mit.edu	37	9	114753907	114753907	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114753907delT								UGCG (58476 upstream) : SUSD1 (49155 downstream)																																			---	---	---	---
ROD1	9991	broad.mit.edu	37	9	115051699	115051699	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:115051699delA	uc004bfw.2	-						ROD1_uc004bfv.2_Intron|ROD1_uc004bfx.2_Intron|ROD1_uc011lwu.1_Intron|ROD1_uc004bfy.2_Intron|ROD1_uc004bfz.2_Intron	NM_005156	NP_005147			ROD1 regulator of differentiation 1 isoform 1						anatomical structure morphogenesis|mRNA processing	nucleus	nucleotide binding|RNA binding			skin(1)	1																		---	---	---	---
ROD1	9991	broad.mit.edu	37	9	115073477	115073478	+	Intron	DEL	TT	-	-	rs10817314	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:115073477_115073478delTT	uc004bfw.2	-						ROD1_uc004bfv.2_Intron|ROD1_uc004bfx.2_Intron|ROD1_uc011lwu.1_Intron|ROD1_uc004bfy.2_Intron|ROD1_uc004bfz.2_Intron	NM_005156	NP_005147			ROD1 regulator of differentiation 1 isoform 1						anatomical structure morphogenesis|mRNA processing	nucleus	nucleotide binding|RNA binding			skin(1)	1																		---	---	---	---
HSDL2	84263	broad.mit.edu	37	9	115169697	115169698	+	Intron	INS	-	T	T	rs149237565	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:115169697_115169698insT	uc004bga.1	+						HSDL2_uc011lwv.1_Intron|HSDL2_uc004bgb.1_Intron|HSDL2_uc004bgc.1_Intron|HSDL2_uc011lww.1_Intron	NM_032303	NP_115679			hydroxysteroid dehydrogenase like 2							peroxisome	oxidoreductase activity|sterol binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	115422854	115422854	+	IGR	DEL	C	-	-	rs7028901	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:115422854delC								KIAA1958 (148 upstream) : C9orf80 (25939 downstream)																																			---	---	---	---
PRPF4	9128	broad.mit.edu	37	9	116054494	116054494	+	3'UTR	DEL	A	-	-	rs78376128		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116054494delA	uc004bgx.2	+	14					PRPF4_uc004bgy.2_3'UTR	NM_004697	NP_004688			PRP4 pre-mRNA processing factor 4 homolog							Cajal body|nuclear speck|spliceosomal complex|U4/U6 snRNP	protein binding			ovary(2)|pancreas(1)	3																		---	---	---	---
BSPRY	54836	broad.mit.edu	37	9	116127598	116127598	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116127598delT	uc004bhg.3	+						BSPRY_uc010muw.2_Intron	NM_017688	NP_060158			B-box and SPRY domain containing						calcium ion transport	cytoplasm|membrane	zinc ion binding			breast(1)	1																		---	---	---	---
ZNF618	114991	broad.mit.edu	37	9	116807064	116807064	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116807064delT	uc004bid.2	+						ZNF618_uc004bic.2_Intron|ZNF618_uc011lxi.1_Intron|ZNF618_uc011lxj.1_Intron|ZNF618_uc010mvb.2_Intron	NM_133374	NP_588615			zinc finger protein 618						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
KIF12	113220	broad.mit.edu	37	9	116861604	116861605	+	5'Flank	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116861604_116861605insC	uc004bif.2	-						KIF12_uc004big.2_5'Flank	NM_138424	NP_612433			kinesin family member 12						microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0																		---	---	---	---
COL27A1	85301	broad.mit.edu	37	9	116944657	116944657	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116944657delA	uc011lxl.1	+						COL27A1_uc004bii.2_Intron|COL27A1_uc010mvd.1_Intron	NM_032888	NP_116277			collagen, type XXVII, alpha 1 precursor						cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4																		---	---	---	---
COL27A1	85301	broad.mit.edu	37	9	116989592	116989592	+	Intron	DEL	T	-	-	rs145253231		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116989592delT	uc011lxl.1	+						COL27A1_uc004bii.2_Intron	NM_032888	NP_116277			collagen, type XXVII, alpha 1 precursor						cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4																		---	---	---	---
DFNB31	25861	broad.mit.edu	37	9	117187770	117187770	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117187770delT	uc004biz.3	-						DFNB31_uc004bix.2_5'UTR|DFNB31_uc004biy.3_Intron|DFNB31_uc004bja.3_Intron	NM_015404	NP_056219			CASK-interacting protein CIP98 isoform 1						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																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	117445456	117445456	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117445456delT								C9orf91 (36760 upstream) : TNFSF15 (106157 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	117479295	117479295	+	IGR	DEL	T	-	-	rs10718133		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117479295delT								C9orf91 (70599 upstream) : TNFSF15 (72318 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	117511468	117511468	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117511468delT								C9orf91 (102772 upstream) : TNFSF15 (40145 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	117771128	117771128	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117771128delA								TNFSF8 (78358 upstream) : TNC (11678 downstream)																																			---	---	---	---
TNC	3371	broad.mit.edu	37	9	117803101	117803101	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117803101delT	uc004bjj.3	-						TNC_uc010mvf.2_Intron	NM_002160	NP_002151			tenascin C precursor						cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	118199756	118199756	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:118199756delT								DEC1 (34833 upstream) : C9orf27 (450790 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	118233270	118233270	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:118233270delA								DEC1 (68347 upstream) : C9orf27 (417276 downstream)																																			---	---	---	---
PAPPA	5069	broad.mit.edu	37	9	119124536	119124536	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:119124536delA	uc004bjn.2	+						PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572			pregnancy-associated plasma protein A						cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	119179004	119179004	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:119179004delA								PAPPA (14405 upstream) : ASTN2 (8503 downstream)																																			---	---	---	---
ASTN2	23245	broad.mit.edu	37	9	119998037	119998037	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:119998037delT	uc004bjs.1	-						ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjt.1_Intron	NM_198187	NP_937830			astrotactin 2 isoform c							integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9																		---	---	---	---
ASTN2	23245	broad.mit.edu	37	9	120148073	120148073	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:120148073delA	uc004bjs.1	-						ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjt.1_Intron	NM_198187	NP_937830			astrotactin 2 isoform c							integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	120673927	120673927	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:120673927delA								TLR4 (194163 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	121418519	121418519	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:121418519delT								TLR4 (938755 upstream) : DBC1 (510389 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	121564894	121564898	+	IGR	DEL	AAAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:121564894_121564898delAAAAA								None (None upstream) : DBC1 (364010 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	121641240	121641240	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:121641240delT								None (None upstream) : DBC1 (287668 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	121706494	121706494	+	IGR	DEL	T	-	-	rs11303418		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:121706494delT								None (None upstream) : DBC1 (222414 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	121737942	121737942	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:121737942delT								None (None upstream) : DBC1 (190966 downstream)																																			---	---	---	---
DBC1	1620	broad.mit.edu	37	9	122001353	122001354	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:122001353_122001354insA	uc004bkc.2	-						DBC1_uc004bkd.2_Intron	NM_014618	NP_055433			deleted in bladder cancer 1 precursor						cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	122371665	122371666	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:122371665_122371666insG								DBC1 (239926 upstream) : MIR147 (635591 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	122413995	122413996	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:122413995_122413996delAA								DBC1 (282256 upstream) : MIR147 (593261 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	122454568	122454568	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:122454568delT								DBC1 (322829 upstream) : MIR147 (552689 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	123007117	123007117	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:123007117delA								DBC1 (875378 upstream) : MIR147 (140 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	123074563	123074564	+	IGR	INS	-	AG	AG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:123074563_123074564insAG								MIR147 (67235 upstream) : CDK5RAP2 (76584 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	123359627	123359627	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:123359627delT								CDK5RAP2 (17190 upstream) : MEGF9 (3464 downstream)																																			---	---	---	---
CEP110	11064	broad.mit.edu	37	9	123877234	123877234	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:123877234delT	uc004bkx.1	+						CEP110_uc004bky.1_Intron	NM_007018	NP_008949			centrosomal protein 110kDa						cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0																		---	---	---	---
RAB14	51552	broad.mit.edu	37	9	123940968	123940968	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:123940968delA	uc004blc.2	-	8						NM_016322	NP_057406			GTPase Rab14						embryo development|fibroblast growth factor receptor signaling pathway|Golgi to endosome transport|neurotransmitter secretion|protein transport|small GTPase mediated signal transduction	cytosol|early endosome membrane|Golgi membrane|Golgi stack|late endosome|lysosome|membrane fraction|nuclear outer membrane-endoplasmic reticulum membrane network|perinuclear region of cytoplasm|rough endoplasmic reticulum|trans-Golgi network transport vesicle	GDP binding|GTP binding|GTPase activity				0																		---	---	---	---
GSN	2934	broad.mit.edu	37	9	123989671	123989672	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:123989671_123989672delAA	uc004bld.1	+							NM_198252	NP_937895			gelsolin isoform b						actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	124870175	124870175	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:124870175delG								TTLL11 (14290 upstream) : NDUFA8 (36165 downstream)																																			---	---	---	---
MRRF	92399	broad.mit.edu	37	9	125084029	125084029	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125084029delT	uc004bmb.2	+						MRRF_uc004bmc.2_Intron|MRRF_uc010mwa.2_Intron|MRRF_uc011lyr.1_Intron|MRRF_uc004bmd.2_Intron|MRRF_uc004bme.2_Intron	NM_138777	NP_620132			mitochondrial ribosome recycling factor isoform						ribosome disassembly|translation	mitochondrion	sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3																		---	---	---	---
PTGS1	5742	broad.mit.edu	37	9	125152240	125152240	+	Intron	DEL	A	-	-	rs10306173	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125152240delA	uc004bmg.1	+						PTGS1_uc011lys.1_Intron|PTGS1_uc010mwb.1_Intron|PTGS1_uc004bmf.1_Intron|PTGS1_uc004bmh.1_Intron|PTGS1_uc011lyt.1_Intron	NM_000962	NP_000953			prostaglandin-endoperoxide synthase 1 isoform 1						cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)													---	---	---	---
Unknown	0	broad.mit.edu	37	9	125191507	125191507	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125191507delT								PTGS1 (33526 upstream) : OR1J2 (39333 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	125520727	125520728	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125520727_125520728delTT								OR1L6 (7667 upstream) : OR5C1 (30484 downstream)																																			---	---	---	---
RABGAP1	23637	broad.mit.edu	37	9	125782455	125782455	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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																		---	---	---	---
DENND1A	57706	broad.mit.edu	37	9	126203007	126203007	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:126203007delA	uc004bnz.1	-						DENND1A_uc011lzl.1_Intron|DENND1A_uc004bny.1_Intron|DENND1A_uc011lzm.1_Intron|DENND1A_uc004boa.1_Intron|DENND1A_uc004bob.1_Intron|DENND1A_uc004boc.2_Intron|DENND1A_uc010mwh.1_5'Flank	NM_020946	NP_065997			DENN/MADD domain containing 1A isoform 1							cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2																		---	---	---	---
DENND1A	57706	broad.mit.edu	37	9	126210080	126210083	+	Intron	DEL	AAAC	-	-	rs4838060	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:126210080_126210083delAAAC	uc004bnz.1	-						DENND1A_uc011lzl.1_Intron|DENND1A_uc004bny.1_Intron|DENND1A_uc011lzm.1_Intron|DENND1A_uc004boa.1_Intron|DENND1A_uc004bob.1_Intron|DENND1A_uc004boc.2_Intron	NM_020946	NP_065997			DENN/MADD domain containing 1A isoform 1							cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2																		---	---	---	---
DENND1A	57706	broad.mit.edu	37	9	126213202	126213202	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:126213202delA	uc004bnz.1	-						DENND1A_uc011lzl.1_Intron|DENND1A_uc004bny.1_Intron|DENND1A_uc011lzm.1_Intron|DENND1A_uc004boa.1_Intron|DENND1A_uc004bob.1_Intron|DENND1A_uc004boc.2_Intron	NM_020946	NP_065997			DENN/MADD domain containing 1A isoform 1							cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	126835776	126835777	+	IGR	INS	-	C	C	rs148403636	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:126835776_126835777insC								LHX2 (40334 upstream) : NEK6 (184109 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	126938997	126938997	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:126938997delT								LHX2 (143555 upstream) : NEK6 (80889 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	127200073	127200075	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:127200073_127200075delAAA								PSMB7 (22352 upstream) : GPR144 (13348 downstream)																																			---	---	---	---
NR6A1	2649	broad.mit.edu	37	9	127288844	127288845	+	Intron	DEL	AA	-	-	rs111378093		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:127288844_127288845delAA	uc004bor.1	-						NR6A1_uc004boq.1_Intron|NR6A1_uc010mwq.1_Intron	NM_033334	NP_201591			nuclear receptor subfamily 6, group A, member 1						cell proliferation|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	transcription factor complex	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3																		---	---	---	---
NR6A1	2649	broad.mit.edu	37	9	127290981	127290981	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:127290981delA	uc004bor.1	-						NR6A1_uc004boq.1_Intron|NR6A1_uc010mwq.1_Intron	NM_033334	NP_201591			nuclear receptor subfamily 6, group A, member 1						cell proliferation|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	transcription factor complex	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3																		---	---	---	---
SCAI	286205	broad.mit.edu	37	9	127739160	127739160	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:127739160delT	uc004bpe.2	-						SCAI_uc004bpd.2_Intron|SCAI_uc010mwu.2_Intron	NM_001144877	NP_001138349			suppressor of cancer cell invasion isoform 2						negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|integral to membrane|nucleus	protein binding|transcription corepressor activity			ovary(2)|breast(2)|central_nervous_system(1)	5																		---	---	---	---
SCAI	286205	broad.mit.edu	37	9	127794839	127794839	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:127794839delA	uc004bpe.2	-						SCAI_uc004bpd.2_Intron|SCAI_uc010mwu.2_Intron	NM_001144877	NP_001138349			suppressor of cancer cell invasion isoform 2						negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|integral to membrane|nucleus	protein binding|transcription corepressor activity			ovary(2)|breast(2)|central_nervous_system(1)	5																		---	---	---	---
PPP6C	5537	broad.mit.edu	37	9	127911822	127911822	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:127911822delA	uc004bpg.3	-	7					PPP6C_uc010mwv.2_3'UTR|PPP6C_uc010mww.2_3'UTR|PPP6C_uc011lzr.1_3'UTR	NM_002721	NP_002712			protein phosphatase 6, catalytic subunit isoform						G1/S transition of mitotic cell cycle|protein dephosphorylation	cytosol	metal ion binding|protein binding|protein serine/threonine phosphatase activity			ovary(1)|skin(1)	2																		---	---	---	---
RABEPK	10244	broad.mit.edu	37	9	127995785	127995785	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:127995785delT	uc004bpi.2	+						RABEPK_uc004bpj.2_Intron|RABEPK_uc004bpk.2_Intron|RABEPK_uc004bpl.1_Intron|RABEPK_uc004bpm.2_Intron	NM_005833	NP_005824			Rab9 effector protein with kelch motifs						receptor-mediated endocytosis|vesicle docking involved in exocytosis	endosome membrane|plasma membrane				ovary(1)	1																		---	---	---	---
GAPVD1	26130	broad.mit.edu	37	9	128041115	128041115	+	Intron	DEL	A	-	-	rs5900648		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:128041115delA	uc010mwx.2	+						GAPVD1_uc004bpo.2_Intron|GAPVD1_uc011lzs.1_Intron|GAPVD1_uc004bpp.2_Intron|GAPVD1_uc004bpq.2_Intron	NM_015635	NP_056450			GTPase activating protein and VPS9 domains 1						endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
GAPVD1	26130	broad.mit.edu	37	9	128066330	128066331	+	Intron	INS	-	T	T	rs35479564		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:128066330_128066331insT	uc010mwx.2	+						GAPVD1_uc004bpo.2_Intron|GAPVD1_uc011lzs.1_Intron|GAPVD1_uc004bpp.2_Intron|GAPVD1_uc004bpq.2_Intron|GAPVD1_uc004bpr.2_Intron|GAPVD1_uc004bps.2_Intron|GAPVD1_uc010mwy.1_Intron	NM_015635	NP_056450			GTPase activating protein and VPS9 domains 1						endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
PBX3	5090	broad.mit.edu	37	9	128564954	128564954	+	Intron	DEL	T	-	-	rs34242809		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:128564954delT	uc004bqb.2	+						PBX3_uc004bqc.2_Intron|PBX3_uc004bqd.2_Intron|PBX3_uc011lzw.1_Intron	NM_006195	NP_006186			pre-B-cell leukemia homeobox 3 isoform 1						anterior compartment pattern formation|posterior compartment specification		sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	128781513	128781513	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:128781513delA								PBX3 (51860 upstream) : FAM125B (307615 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	128912351	128912351	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:128912351delT								PBX3 (182698 upstream) : FAM125B (176777 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	129055487	129055488	+	IGR	DEL	AG	-	-	rs34006137		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:129055487_129055488delAG								PBX3 (325834 upstream) : FAM125B (33640 downstream)																																			---	---	---	---
FAM125B	89853	broad.mit.edu	37	9	129144016	129144016	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:129144016delT	uc004bqh.1	+						FAM125B_uc004bqg.1_Intron|FAM125B_uc011lzy.1_Intron|FAM125B_uc010mxd.2_Intron|FAM125B_uc011lzz.1_Intron	NM_033446	NP_258257			hypothetical protein LOC89853 isoform 1						protein transport	late endosome membrane					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	129520469	129520469	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:129520469delT								LMX1B (57158 upstream) : ZBTB43 (46816 downstream)																																			---	---	---	---
RALGPS1	9649	broad.mit.edu	37	9	129966450	129966450	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:129966450delT	uc004bqo.1	+						RALGPS1_uc011mac.1_Intron|RALGPS1_uc004bqq.3_Intron	NM_014636	NP_055451			Ral GEF with PH domain and SH3 binding motif 1						small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity			ovary(1)	1																		---	---	---	---
RALGPS1	9649	broad.mit.edu	37	9	129976471	129976471	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:129976471delA	uc004bqo.1	+						RALGPS1_uc011mac.1_Intron|RALGPS1_uc004bqq.3_Intron	NM_014636	NP_055451			Ral GEF with PH domain and SH3 binding motif 1						small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity			ovary(1)	1																		---	---	---	---
LRSAM1	90678	broad.mit.edu	37	9	130253463	130253463	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130253463delA	uc004brb.1	+						LRSAM1_uc010mxk.1_Intron|LRSAM1_uc004brc.1_Intron|LRSAM1_uc004brd.1_Intron|LRSAM1_uc004bre.1_Intron	NM_001005373	NP_001005373			leucine rich repeat and sterile alpha motif						negative regulation of endocytosis|non-lytic virus budding|protein autoubiquitination|protein catabolic process|protein polyubiquitination|protein transport|ubiquitin-dependent endocytosis	cytoplasm|extracellular region|membrane part	hormone activity|ubiquitin-protein ligase activity|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	130356718	130356718	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130356718delA								FAM129B (15450 upstream) : STXBP1 (17768 downstream)																																			---	---	---	---
STXBP1	6812	broad.mit.edu	37	9	130384988	130384990	+	Intron	DEL	TTT	-	-	rs72581160		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130384988_130384990delTTT	uc004brl.2	+						STXBP1_uc004brk.2_Intron	NM_001032221	NP_001027392			syntaxin binding protein 1 isoform b						axon target recognition|energy reserve metabolic process|glutamate secretion|negative regulation of synaptic transmission, GABAergic|neurotransmitter secretion|platelet aggregation|platelet degranulation|protein transport|regulation of insulin secretion|regulation of synaptic vesicle priming|synaptic vesicle maturation|vesicle docking involved in exocytosis	cytosol|mitochondrion|plasma membrane|platelet alpha granule|protein complex	identical protein binding|syntaxin-1 binding|syntaxin-2 binding			skin(1)	1																		---	---	---	---
TTC16	158248	broad.mit.edu	37	9	130483231	130483233	+	Intron	DEL	TCT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130483231_130483233delTCT	uc004brq.1	+						PTRH1_uc011mah.1_Intron|TTC16_uc011mai.1_Intron|TTC16_uc004brr.1_Intron|TTC16_uc010mxn.1_Intron	NM_144965	NP_659402			tetratricopeptide repeat domain 16								binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	130623454	130623454	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130623454delT								ENG (6407 upstream) : AK1 (5307 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	130764617	130764619	+	IGR	DEL	AAA	-	-	rs11323171		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130764617_130764619delAAA								FAM102A (22122 upstream) : NAIF1 (58894 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	130822148	130822148	+	IGR	DEL	T	-	-	rs112678729		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130822148delT								FAM102A (79653 upstream) : NAIF1 (1365 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	131210218	131210218	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131210218delT								CERCAM (10591 upstream) : ODF2 (7248 downstream)																																			---	---	---	---
SPTAN1	6709	broad.mit.edu	37	9	131360554	131360555	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131360554_131360555delTT	uc004bvl.3	+						SPTAN1_uc011mbg.1_Intron|SPTAN1_uc011mbh.1_Intron|SPTAN1_uc004bvm.3_Intron|SPTAN1_uc004bvn.3_Intron	NM_003127	NP_003118			spectrin, alpha, non-erythrocytic 1						actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10																		---	---	---	---
SET	6418	broad.mit.edu	37	9	131448309	131448309	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131448309delA	uc004bvt.3	+							NM_001122821	NP_001116293			SET translocation (myeloid leukemia-associated)						DNA replication|mRNA metabolic process|negative regulation of histone acetylation|negative regulation of neuron apoptosis|negative regulation of transcription, DNA-dependent|nucleocytoplasmic transport|nucleosome assembly|nucleosome disassembly	cytosol|endoplasmic reticulum|nucleoplasm|perinuclear region of cytoplasm|protein complex	histone binding|protein phosphatase inhibitor activity|protein phosphatase type 2A regulator activity				0		Myeloproliferative disorder(178;0.204)		GBM - Glioblastoma multiforme(294;3.1e-09)				T	NUP214	AML								---	---	---	---
Unknown	0	broad.mit.edu	37	9	131489508	131489508	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131489508delT								ZDHHC12 (3100 upstream) : ZER1 (2559 downstream)																																			---	---	---	---
ZER1	10444	broad.mit.edu	37	9	131536134	131536135	+	5'Flank	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131536134_131536135delAA	uc004bwa.1	-							NM_006336	NP_006327			zyg-11 homolog B (C. elegans)-like						ATP hydrolysis coupled proton transport|regulation of ubiquitin-protein ligase activity	Cul2-RING ubiquitin ligase complex|vacuolar proton-transporting V-type ATPase, V1 domain	protein binding|proton-transporting ATPase activity, rotational mechanism|ubiquitin-protein ligase activity			ovary(1)	1																		---	---	---	---
NUP188	23511	broad.mit.edu	37	9	131748704	131748704	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131748704delT	uc004bws.1	+						NUP188_uc004bwu.2_Intron	NM_015354	NP_056169			nucleoporin 188kDa						carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7																		---	---	---	---
PPP2R4	5524	broad.mit.edu	37	9	131897672	131897672	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131897672delA	uc004bxm.1	+						PPP2R4_uc004bxl.1_Intron|PPP2R4_uc011mbo.1_Intron|PPP2R4_uc010myr.1_Intron|PPP2R4_uc004bxn.1_Intron|PPP2R4_uc004bxo.1_Intron|PPP2R4_uc011mbp.1_Intron|PPP2R4_uc011mbq.1_Intron|PPP2R4_uc010mys.1_Intron	NM_178001	NP_821068			protein phosphatase 2A, regulatory subunit B'						ATP catabolic process|negative regulation of phosphoprotein phosphatase activity|negative regulation of protein dephosphorylation|positive regulation of apoptosis|positive regulation of phosphoprotein phosphatase activity|positive regulation of protein dephosphorylation	calcium channel complex|cytoplasm|nucleus|protein phosphatase type 2A complex|soluble fraction	ATP binding|peptidyl-prolyl cis-trans isomerase activity|protein heterodimerization activity|protein homodimerization activity|protein phosphatase 2A binding|protein phosphatase type 2A regulator activity|protein tyrosine phosphatase activator activity|receptor binding			ovary(1)|lung(1)|pancreas(1)	3		Medulloblastoma(224;0.235)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	132248217	132248217	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:132248217delT	uc004bxv.2	+											Homo sapiens cDNA FLJ35367 fis, clone SKMUS2001323.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	132326998	132326998	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:132326998delA								C9orf106 (242116 upstream) : C9orf50 (47508 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	132531232	132531232	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:132531232delA								PTGES (15888 upstream) : TOR1B (34200 downstream)																																			---	---	---	---
FNBP1	23048	broad.mit.edu	37	9	132684340	132684343	+	Intron	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:132684340_132684343delAAAA	uc004byw.1	-						FNBP1_uc011mbv.1_Intron|FNBP1_uc011mbw.1_Intron|FNBP1_uc004bza.2_Intron|FNBP1_uc004byz.1_Intron|FNBP1_uc011mbu.1_5'Flank|FNBP1_uc004byx.1_Intron|FNBP1_uc004byy.1_Intron	NM_015033	NP_055848			formin binding protein 1						endocytosis	cell cortex|cytoplasmic membrane-bounded vesicle|cytoskeleton|lysosome|plasma membrane	identical protein binding|lipid binding				0		Ovarian(14;0.000536)		GBM - Glioblastoma multiforme(294;0.0378)				T	MLL	AML								---	---	---	---
NCS1	23413	broad.mit.edu	37	9	132950862	132950862	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:132950862delT	uc004bzi.2	+							NM_014286	NP_055101			frequenin homolog isoform 1						negative regulation of calcium ion transport via voltage-gated calcium channel activity|regulation of neuron projection development	cell junction|Golgi cisterna membrane|perinuclear region of cytoplasm|postsynaptic density|postsynaptic membrane	calcium ion binding|protein binding				0																		---	---	---	---
EXOSC2	23404	broad.mit.edu	37	9	133576062	133576062	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:133576062delA	uc004bzu.2	+						EXOSC2_uc011mbz.1_Intron|EXOSC2_uc011mca.1_Intron	NM_014285	NP_055100			exosome component 2						exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|positive regulation of cell growth|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	3'-5'-exoribonuclease activity|7S RNA binding|protein binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(13;0.0588)		OV - Ovarian serous cystadenocarcinoma(145;0.000324)												OREG0019548	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
ABL1	25	broad.mit.edu	37	9	133728066	133728066	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:133728066delA	uc004bzw.2	+						ABL1_uc004bzv.2_Intron	NM_005157	NP_005148			c-abl oncogene 1, receptor tyrosine kinase						actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								---	---	---	---
Unknown	0	broad.mit.edu	37	9	133830753	133830764	+	IGR	DEL	CACTACCATCAG	-	-	rs56118180		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:133830753_133830764delCACTACCATCAG								FIBCD1 (16298 upstream) : LAMC3 (53740 downstream)																																			---	---	---	---
BAT2L1	84726	broad.mit.edu	37	9	134324751	134324751	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:134324751delT	uc004can.3	+						BAT2L1_uc010mzj.1_Intron	NM_013318	NP_037450			HLA-B associated transcript 2-like								protein binding				0																		---	---	---	---
BAT2L1	84726	broad.mit.edu	37	9	134337440	134337440	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:134337440delT	uc004can.3	+						BAT2L1_uc010mzj.1_Intron	NM_013318	NP_037450			HLA-B associated transcript 2-like								protein binding				0																		---	---	---	---
NTNG2	84628	broad.mit.edu	37	9	135062929	135062930	+	Intron	DEL	AC	-	-	rs36156688		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135062929_135062930delAC	uc004cbh.2	+							NM_032536	NP_115925			netrin G2 precursor						axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)														---	---	---	---
NTNG2	84628	broad.mit.edu	37	9	135095752	135095752	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135095752delT	uc004cbh.2	+							NM_032536	NP_115925			netrin G2 precursor						axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)														---	---	---	---
SETX	23064	broad.mit.edu	37	9	135206570	135206570	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135206570delA	uc004cbk.2	-						SETX_uc004cbj.2_5'Flank|SETX_uc010mzt.2_5'Flank	NM_015046	NP_055861			senataxin						cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)														---	---	---	---
TTF1	7270	broad.mit.edu	37	9	135263730	135263730	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)														---	---	---	---
C9orf98	158067	broad.mit.edu	37	9	135704222	135704222	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135704222delA	uc004cbu.1	-						C9orf98_uc010mzx.1_Intron|C9orf98_uc004cbv.1_Intron	NM_152572	NP_689785			putative adenylate kinase-like protein C9orf98							cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity				0				OV - Ovarian serous cystadenocarcinoma(145;4.89e-06)|Epithelial(140;0.00016)														---	---	---	---
TSC1	7248	broad.mit.edu	37	9	135790578	135790578	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135790578delA	uc004cca.2	-						TSC1_uc004ccb.3_Intron|TSC1_uc011mcq.1_Intron|TSC1_uc011mcr.1_Intron|TSC1_uc011mcs.1_Intron|TSC1_uc004ccc.1_Intron|TSC1_uc004ccd.2_Intron|TSC1_uc004cce.1_Intron	NM_000368	NP_000359			tuberous sclerosis 1 protein isoform 1						activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding	p.?(1)		lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)				D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				---	---	---	---
Unknown	0	broad.mit.edu	37	9	136479307	136479307	+	IGR	DEL	G	-	-	rs11319845		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136479307delG								FAM163B (33962 upstream) : DBH (22178 downstream)																																			---	---	---	---
VAV2	7410	broad.mit.edu	37	9	136697682	136697683	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136697682_136697683delTT	uc004ces.2	-						VAV2_uc004cer.2_Intron	NM_001134398	NP_001127870			vav 2 guanine nucleotide exchange factor isoform						angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	137394262	137394283	+	IGR	DEL	CTGCCTCCCTGCTGCCTCTCCA	-	-	rs13287928		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137394262_137394283delCTGCCTCCCTGCTGCCTCTCCA								RXRA (61831 upstream) : COL5A1 (139369 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	137460734	137460735	+	IGR	INS	-	TGTG	TGTG	rs145908982	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137460734_137460735insTGTG								RXRA (128303 upstream) : COL5A1 (72917 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	137739280	137739281	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137739280_137739281delGT	uc004cff.2	-											Homo sapiens cDNA clone IMAGE:5468304, partial cds.																														---	---	---	---
FCN1	2219	broad.mit.edu	37	9	137805308	137805308	+	Intron	DEL	G	-	-	rs11297508		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137805308delG	uc004cfi.2	-							NM_002003	NP_001994			ficolin 1 precursor						opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	137842146	137842146	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137842146delC								FCN1 (32337 upstream) : OLFM1 (124943 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	138362212	138362213	+	Intron	INS	-	T	T	rs145255735	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138362212_138362213insT	uc004cfp.3	-											Homo sapiens cDNA clone IMAGE:5295490.																														---	---	---	---
Unknown	0	broad.mit.edu	37	9	138450215	138450215	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138450215delT								OBP2A (8401 upstream) : PAEP (3389 downstream)																																			---	---	---	---
NACC2	138151	broad.mit.edu	37	9	138916350	138916353	+	Intron	DEL	TGTG	-	-	rs35455166		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138916350_138916353delTGTG	uc004cgw.2	-						NACC2_uc010nbh.2_Intron	NM_144653	NP_653254			BTB (POZ) domain containing 14A						negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|protein homooligomerization	nuclear body					0																		---	---	---	---
NPDC1	56654	broad.mit.edu	37	9	139941765	139941765	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139941765delA	uc004ckt.2	-						NPDC1_uc004ckr.2_5'Flank|NPDC1_uc004cku.2_5'Flank	NM_015392	NP_056207			neural proliferation, differentiation and							integral to membrane					0	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0821)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.96e-05)|Epithelial(140;0.000486)														---	---	---	---
GRIN1	2902	broad.mit.edu	37	9	140058756	140058757	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140058756_140058757insC	uc004clk.2	+						GRIN1_uc004cli.1_3'UTR|GRIN1_uc004clj.1_3'UTR|GRIN1_uc004cll.2_Intron|GRIN1_uc004clm.2_Intron|GRIN1_uc004cln.2_Intron|GRIN1_uc004clo.2_Intron	NM_007327	NP_015566			NMDA receptor 1 isoform NR1-3 precursor						ionotropic glutamate receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|regulation of excitatory postsynaptic membrane potential|response to ethanol|visual learning	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane|synaptic vesicle|synaptosome	calcium ion binding|calmodulin binding|extracellular-glutamate-gated ion channel activity|glutamate binding|glycine binding			skin(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;6.87e-05)|Epithelial(140;0.00095)	L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)													---	---	---	---
SLC34A3	142680	broad.mit.edu	37	9	140126104	140126104	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140126104delC	uc004cmf.1	+						SLC34A3_uc004cmc.1_Intron|SLC34A3_uc004cmd.1_Intron|SLC34A3_uc011met.1_5'Flank	NM_080877	NP_543153			solute carrier family 34 (sodium phosphate),						cellular phosphate ion homeostasis	apical plasma membrane|integral to membrane	sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)														---	---	---	---
COBRA1	25920	broad.mit.edu	37	9	140148742	140148742	+	5'Flank	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140148742delG	uc004cmm.3	+							NM_015456	NP_056271			cofactor of BRCA1						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)														---	---	---	---
EXD3	54932	broad.mit.edu	37	9	140268130	140268132	+	Intron	DEL	TTT	-	-	rs66959515		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140268130_140268132delTTT	uc004cmp.2	-						C9orf167_uc011mew.1_Intron|EXD3_uc010ncg.1_Intron|EXD3_uc004cmr.2_Intron|EXD3_uc004cms.2_Intron	NM_017820	NP_060290			exonuclease 3'-5' domain containing 3						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0																		---	---	---	---
PNPLA7	375775	broad.mit.edu	37	9	140396079	140396079	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140396079delC	uc004cnf.2	-						C9orf167_uc011mew.1_Intron|PNPLA7_uc011mfa.1_Intron|PNPLA7_uc010ncj.1_Intron	NM_152286	NP_689499			patatin-like phospholipase domain containing 7						lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)														---	---	---	---
PNPLA7	375775	broad.mit.edu	37	9	140434112	140434112	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140434112delA	uc004cnf.2	-						PNPLA7_uc010ncj.1_Intron	NM_152286	NP_689499			patatin-like phospholipase domain containing 7						lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)														---	---	---	---
EHMT1	79813	broad.mit.edu	37	9	140571341	140571341	+	Intron	DEL	T	-	-	rs35944506		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140571341delT	uc011mfc.1	+						EHMT1_uc004coa.2_Intron|EHMT1_uc004cob.1_Intron	NM_024757	NP_079033			euchromatic histone-lysine N-methyltransferase 1						DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)														---	---	---	---
EHMT1	79813	broad.mit.edu	37	9	140593390	140593391	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140593390_140593391delAA	uc011mfc.1	+						EHMT1_uc004coa.2_Intron|EHMT1_uc004cob.1_Intron	NM_024757	NP_079033			euchromatic histone-lysine N-methyltransferase 1						DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	140754566	140754566	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140754566delT								MIR602 (21598 upstream) : CACNA1B (17675 downstream)																																			---	---	---	---
CACNA1B	774	broad.mit.edu	37	9	140842956	140842956	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140842956delT	uc004cog.2	+							NM_000718	NP_000709			calcium channel, voltage-dependent, N type,						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)													---	---	---	---
CACNA1B	774	broad.mit.edu	37	9	140843630	140843633	+	Intron	DEL	AGTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140843630_140843633delAGTG	uc004cog.2	+							NM_000718	NP_000709			calcium channel, voltage-dependent, N type,						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)													---	---	---	---
CACNA1B	774	broad.mit.edu	37	9	140908672	140908673	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140908672_140908673delGT	uc004cog.2	+						CACNA1B_uc011mfd.1_Intron	NM_000718	NP_000709			calcium channel, voltage-dependent, N type,						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)													---	---	---	---
Unknown	0	broad.mit.edu	37	10	130388	130389	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:130388_130389delCA								TUBB8 (34884 upstream) : ZMYND11 (50035 downstream)																																			---	---	---	---
ZMYND11	10771	broad.mit.edu	37	10	280922	280923	+	Intron	INS	-	TG	TG	rs142933999	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:280922_280923insTG	uc010pzt.1	+						ZMYND11_uc001ifk.2_Intron|ZMYND11_uc010pzu.1_Intron|ZMYND11_uc010pzv.1_Intron|ZMYND11_uc010pzw.1_Intron|ZMYND11_uc001ifm.2_Intron|ZMYND11_uc010pzx.1_Intron|ZMYND11_uc001ifn.2_Intron|ZMYND11_uc009xhg.2_Intron|ZMYND11_uc009xhh.2_Intron|ZMYND11_uc010pzy.1_Intron	NM_006624	NP_006615			zinc finger, MYND domain containing 11 isoform						cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)														---	---	---	---
DIP2C	22982	broad.mit.edu	37	10	411317	411317	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:411317delT	uc001ifp.2	-						DIP2C_uc009xhi.1_Intron|DIP2C_uc010pzz.1_Intron	NM_014974	NP_055789			DIP2 disco-interacting protein 2 homolog C							nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)														---	---	---	---
DIP2C	22982	broad.mit.edu	37	10	530902	530902	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:530902delA	uc001ifp.2	-						DIP2C_uc009xhk.1_5'UTR	NM_014974	NP_055789			DIP2 disco-interacting protein 2 homolog C							nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)														---	---	---	---
DIP2C	22982	broad.mit.edu	37	10	691708	691709	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:691708_691709insG	uc001ifp.2	-							NM_014974	NP_055789			DIP2 disco-interacting protein 2 homolog C							nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)														---	---	---	---
LARP4B	23185	broad.mit.edu	37	10	878623	878624	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:878623_878624insA	uc001ifs.1	-							NM_015155	NP_055970			La ribonucleoprotein domain family, member 4B								nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
GTPBP4	23560	broad.mit.edu	37	10	1048643	1048643	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1048643delT	uc001ift.2	+						GTPBP4_uc010qac.1_Intron|GTPBP4_uc001ifu.2_Intron|GTPBP4_uc010qad.1_Intron|GTPBP4_uc010qae.1_Intron	NM_012341	NP_036473			G protein-binding protein CRFG						negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)														---	---	---	---
IDI1	3422	broad.mit.edu	37	10	1095602	1095602	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1095602delT	uc001iga.2	-						IDI1_uc001igb.2_5'Flank|IDI1_uc001igc.2_Intron|uc001igd.2_RNA	NM_004508	NP_004499			isopentenyl-diphosphate delta isomerase						carotenoid biosynthetic process|cholesterol biosynthetic process	cytosol|peroxisome	hydrolase activity|isopentenyl-diphosphate delta-isomerase activity|metal ion binding				0		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.221)	Epithelial(11;0.0972)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	1181431	1181431	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1181431delG								WDR37 (3194 upstream) : NCRNA00200 (24277 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	1186498	1186498	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1186498delT								WDR37 (8261 upstream) : NCRNA00200 (19210 downstream)																																			---	---	---	---
ADARB2	105	broad.mit.edu	37	10	1694178	1694178	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1694178delT	uc009xhq.2	-							NM_018702	NP_061172			adenosine deaminase, RNA-specific, B2						mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)														---	---	---	---
ADARB2	105	broad.mit.edu	37	10	1715509	1715512	+	Intron	DEL	TGTG	-	-	rs72130466		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1715509_1715512delTGTG	uc009xhq.2	-							NM_018702	NP_061172			adenosine deaminase, RNA-specific, B2						mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	1959828	1959828	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1959828delT								ADARB2 (180110 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	1977483	1977483	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1977483delT								ADARB2 (197765 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	2013537	2013537	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:2013537delA								ADARB2 (233819 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	2379355	2379356	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:2379355_2379356delGT								ADARB2 (599637 upstream) : PFKP (730396 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	2488831	2488831	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:2488831delT								ADARB2 (709113 upstream) : PFKP (620921 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	2493437	2493437	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:2493437delT								ADARB2 (713719 upstream) : PFKP (616315 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	2814812	2814812	+	IGR	DEL	T	-	-	rs67774972		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:2814812delT								None (None upstream) : PFKP (294940 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	3009895	3009896	+	IGR	INS	-	GT	GT	rs148225429	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:3009895_3009896insGT								None (None upstream) : PFKP (99856 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	3076447	3076447	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:3076447delA								None (None upstream) : PFKP (33305 downstream)																																			---	---	---	---
PFKP	5214	broad.mit.edu	37	10	3142249	3142250	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:3142249_3142250delGT	uc001igp.2	+						PFKP_uc001igq.2_Intron|PFKP_uc009xhr.2_Intron	NM_002627	NP_002618			phosphofructokinase, platelet						glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	3757799	3757801	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:3757799_3757801delTTT	uc001igy.1	+											Homo sapiens cDNA clone IMAGE:5278070.																														---	---	---	---
Unknown	0	broad.mit.edu	37	10	4203976	4203977	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:4203976_4203977delGA								KLF6 (376503 upstream) : LOC100216001 (417467 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	4238879	4238879	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:4238879delA								KLF6 (411406 upstream) : LOC100216001 (382565 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	4299195	4299195	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:4299195delT								KLF6 (471722 upstream) : LOC100216001 (322249 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	4525429	4525429	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:4525429delT								KLF6 (697956 upstream) : LOC100216001 (96015 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	4534388	4534389	+	IGR	DEL	AT	-	-	rs141427260		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:4534388_4534389delAT								KLF6 (706915 upstream) : LOC100216001 (87055 downstream)																																			---	---	---	---
AKR1C1	1645	broad.mit.edu	37	10	5006253	5006253	+	Intron	DEL	A	-	-	rs10664133		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5006253delA	uc001iho.2	+						AKR1E2_uc001ihl.1_Intron|AKR1C2_uc010qan.1_Intron|AKR1C3_uc001ihr.2_Intron|AKR1C1_uc009xhx.2_Intron|AKR1C1_uc001ihq.2_Intron	NM_001353	NP_001344			aldo-keto reductase family 1, member C1						bile acid and bile salt transport|bile acid metabolic process|cholesterol homeostasis|intestinal cholesterol absorption|protein homooligomerization|response to organophosphorus|xenobiotic metabolic process	cytosol	17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity|aldo-keto reductase (NADP) activity|androsterone dehydrogenase (B-specific) activity|bile acid binding|indanol dehydrogenase activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity			ovary(2)	2					NADH(DB00157)													---	---	---	---
AKR1C3	8644	broad.mit.edu	37	10	5129905	5129905	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5129905delT	uc001ihr.2	+						AKR1C3_uc010qap.1_Intron	NM_003739	NP_003730			aldo-keto reductase family 1, member C3						prostaglandin metabolic process	cytoplasm	aldo-keto reductase (NADP) activity|androsterone dehydrogenase (A-specific) activity|indanol dehydrogenase activity|prostaglandin-F synthase activity|testosterone 17-beta-dehydrogenase (NAD+) activity|testosterone 17-beta-dehydrogenase (NADP+) activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity			skin(1)	1					Dimethyl sulfoxide(DB01093)|NADH(DB00157)													---	---	---	---
AKR1CL1	340811	broad.mit.edu	37	10	5225284	5225284	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5225284delA	uc009xhz.2	-							NR_027916				Homo sapiens cDNA FLJ16347 fis, clone TESTI2036288, moderately similar to PROSTAGLANDIN-F SYNTHASE 1 (EC 1.1.1.188).												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	5350890	5350890	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5350890delA								AKR1C4 (89980 upstream) : UCN3 (56086 downstream)																																			---	---	---	---
UCN3	114131	broad.mit.edu	37	10	5412923	5412924	+	Intron	INS	-	TA	TA	rs138555105	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5412923_5412924insTA	uc001ihx.1	+							NM_053049	NP_444277			urocortin 3 preproprotein							extracellular region	hormone activity				0																		---	---	---	---
TUBAL3	79861	broad.mit.edu	37	10	5443947	5443947	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5443947delA	uc001ihy.2	-						TUBAL3_uc001ihz.2_Intron	NM_024803	NP_079079			tubulin, alpha-like 3						microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	5538159	5538162	+	IGR	DEL	AAAA	-	-	rs72236871		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5538159_5538162delAAAA								NET1 (37735 upstream) : CALML5 (2496 downstream)																																			---	---	---	---
PFKFB3	5209	broad.mit.edu	37	10	6210952	6210953	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:6210952_6210953delCT	uc010qaw.1	+						PFKFB3_uc001ijd.2_Intron|PFKFB3_uc009xii.2_Intron	NM_001145443	NP_001138915			6-phosphofructo-2-kinase/fructose-2,						fructose 2,6-bisphosphate metabolic process|glycolysis	cytosol	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	6378294	6378297	+	IGR	DEL	CTTT	-	-	rs34664452		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:6378294_6378297delCTTT								PFKFB3 (100789 upstream) : PRKCQ (90808 downstream)																																			---	---	---	---
PRKCQ	5588	broad.mit.edu	37	10	6528954	6528954	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:6528954delA	uc001ijj.1	-						PRKCQ_uc009xim.1_Intron|PRKCQ_uc001iji.1_Intron|PRKCQ_uc009xin.1_Intron|PRKCQ_uc010qax.1_Intron	NM_006257	NP_006248			protein kinase C, theta						axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	6735067	6735068	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:6735067_6735068delGT								PRKCQ (112829 upstream) : SFMBT2 (469181 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	6807964	6807964	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:6807964delT								PRKCQ (185726 upstream) : SFMBT2 (396285 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	7063587	7063587	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7063587delA								PRKCQ (441349 upstream) : SFMBT2 (140662 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	7463278	7463278	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7463278delA								SFMBT2 (9828 upstream) : ITIH5 (138358 downstream)																																			---	---	---	---
ITIH5	80760	broad.mit.edu	37	10	7609702	7609702	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7609702delA	uc001ijq.2	-						ITIH5_uc001ijp.2_Intron	NM_030569	NP_085046			inter-alpha trypsin inhibitor heavy chain						hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4																		---	---	---	---
ITIH5	80760	broad.mit.edu	37	10	7679010	7679010	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7679010delA	uc001ijq.2	-						ITIH5_uc001ijr.1_Intron	NM_030569	NP_085046			inter-alpha trypsin inhibitor heavy chain						hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4																		---	---	---	---
KIN	22944	broad.mit.edu	37	10	7816627	7816628	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7816627_7816628delAA	uc001ijt.2	-						KIN_uc010qaz.1_Intron|KIN_uc009xip.2_Intron|KIN_uc010qba.1_Intron	NM_012311	NP_036443			HsKin17 protein						DNA recombination|DNA repair|DNA replication|interspecies interaction between organisms|mRNA processing	cytoplasm|nuclear matrix	double-stranded DNA binding|RNA binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3																		---	---	---	---
TAF3	83860	broad.mit.edu	37	10	8036011	8036011	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:8036011delC	uc010qbd.1	+							NM_031923	NP_114129			RNA polymerase II transcription factor TAFII140						maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1																		---	---	---	---
GATA3	2625	broad.mit.edu	37	10	8116242	8116242	+	3'UTR	DEL	A	-	-	rs71676158		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:8116242delA	uc001ika.2	+	6					GATA3_uc001ijz.2_3'UTR	NM_002051	NP_002042			GATA binding protein 3 isoform 2						aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22								F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						---	---	---	---
Unknown	0	broad.mit.edu	37	10	8551178	8551179	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:8551178_8551179delAG								GATA3 (434016 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	8858303	8858303	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:8858303delT								GATA3 (741141 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	8980565	8980565	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:8980565delA								GATA3 (863403 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	9076014	9076014	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:9076014delA								GATA3 (958852 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	9267874	9267875	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:9267874_9267875delAA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	9369764	9369764	+	IGR	DEL	T	-	-	rs113704862		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:9369764delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	9382140	9382141	+	IGR	DEL	AA	-	-	rs150337303		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:9382140_9382141delAA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	9845349	9845349	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:9845349delA								None (None upstream) : SFTA1P (981053 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	9862600	9862600	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:9862600delA								None (None upstream) : SFTA1P (963802 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	9971353	9971353	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:9971353delC								None (None upstream) : SFTA1P (855049 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	10003599	10003599	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:10003599delA								None (None upstream) : SFTA1P (822803 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	10472464	10472464	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:10472464delA								None (None upstream) : SFTA1P (353938 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	10548186	10548186	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:10548186delT								None (None upstream) : SFTA1P (278216 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	10850745	10850745	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:10850745delG								SFTA1P (13868 upstream) : LOC254312 (126159 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	10958024	10958025	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:10958024_10958025delAG								SFTA1P (121147 upstream) : LOC254312 (18879 downstream)																																			---	---	---	---
CELF2	10659	broad.mit.edu	37	10	11064500	11064500	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:11064500delT	uc001iki.3	+						CELF2_uc010qbi.1_Intron|CELF2_uc010qbj.1_Intron|CELF2_uc001ikk.2_Intron|CELF2_uc001ikl.3_Intron	NM_001025077	NP_001020248			CUG triplet repeat, RNA binding protein 2						mRNA processing|regulation of heart contraction	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding				0																		---	---	---	---
CELF2	10659	broad.mit.edu	37	10	11281671	11281671	+	Intron	DEL	T	-	-	rs111326473		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:11281671delT	uc001iki.3	+						CELF2_uc010qbi.1_Intron|CELF2_uc010qbj.1_Intron|CELF2_uc001ikk.2_Intron|CELF2_uc001ikl.3_Intron|CELF2_uc010qbk.1_Intron|CELF2_uc010qbl.1_Intron|CELF2_uc010qbm.1_Intron|CELF2_uc001iko.3_Intron|CELF2_uc001ikp.3_Intron|CELF2_uc010qbn.1_Intron|CELF2_uc009xiw.1_Intron|CELF2_uc010qbo.1_Intron|CELF2_uc010qbp.1_Intron	NM_001025077	NP_001020248			CUG triplet repeat, RNA binding protein 2						mRNA processing|regulation of heart contraction	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding				0																		---	---	---	---
CELF2	10659	broad.mit.edu	37	10	11325868	11325869	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:11325868_11325869delTG	uc001iki.3	+						CELF2_uc010qbi.1_Intron|CELF2_uc010qbj.1_Intron|CELF2_uc001ikk.2_Intron|CELF2_uc001ikl.3_Intron|CELF2_uc010qbk.1_Intron|CELF2_uc010qbl.1_Intron|CELF2_uc010qbm.1_Intron|CELF2_uc001iko.3_Intron|CELF2_uc001ikp.3_Intron|CELF2_uc010qbn.1_Intron|CELF2_uc010qbo.1_Intron|CELF2_uc010qbp.1_Intron	NM_001025077	NP_001020248			CUG triplet repeat, RNA binding protein 2						mRNA processing|regulation of heart contraction	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	11737397	11737398	+	IGR	INS	-	A	A	rs151050449	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:11737397_11737398insA								USP6NL (83718 upstream) : ECHDC3 (46958 downstream)																																			---	---	---	---
ECHDC3	79746	broad.mit.edu	37	10	11797323	11797328	+	Intron	DEL	AAAAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:11797323_11797328delAAAAAA	uc001ikw.3	+						ECHDC3_uc009xix.2_Intron	NM_024693	NP_078969			enoyl Coenzyme A hydratase domain containing 3							mitochondrion	catalytic activity				0																		---	---	---	---
C10orf47	254427	broad.mit.edu	37	10	11905378	11905378	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:11905378delA	uc001ikx.2	+						uc001iky.1_Intron	NM_153256	NP_694988			hypothetical protein LOC254427											central_nervous_system(1)	1																		---	---	---	---
UPF2	26019	broad.mit.edu	37	10	11969708	11969708	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:11969708delT	uc001ila.2	-						UPF2_uc001ilb.2_Intron|UPF2_uc001ilc.2_Intron	NM_080599	NP_542166			UPF2 regulator of nonsense transcripts homolog						mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)																---	---	---	---
UPF2	26019	broad.mit.edu	37	10	11983564	11983564	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:11983564delA	uc001ila.2	-						UPF2_uc001ilb.2_Intron|UPF2_uc001ilc.2_Intron	NM_080599	NP_542166			UPF2 regulator of nonsense transcripts homolog						mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	exon-exon junction complex|perinuclear region of cytoplasm	identical protein binding|RNA binding			central_nervous_system(2)|ovary(1)	3		Renal(717;0.228)																---	---	---	---
CDC123	8872	broad.mit.edu	37	10	12278599	12278601	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:12278599_12278601delAAA	uc001ill.2	+						CDC123_uc001ilm.2_Intron	NM_006023	NP_006014			cell division cycle 123						cell cycle arrest|cell division|positive regulation of cell proliferation|regulation of mitotic cell cycle	cytoplasm				central_nervous_system(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	12337060	12337060	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:12337060delA								CDC123 (44473 upstream) : CAMK1D (54523 downstream)																																			---	---	---	---
CAMK1D	57118	broad.mit.edu	37	10	12523517	12523517	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:12523517delT	uc001ilo.2	+						CAMK1D_uc001iln.2_Intron	NM_153498	NP_705718			calcium/calmodulin-dependent protein kinase ID							calcium- and calmodulin-dependent protein kinase complex|cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)|stomach(1)	2				GBM - Glioblastoma multiforme(1;3.16e-05)														---	---	---	---
CCDC3	83643	broad.mit.edu	37	10	12940430	12940431	+	Frame_Shift_Ins	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:12940430_12940431insG	uc001ilq.1	-	3	932_933	c.798_799insC	c.(796-801)CCCTACfs	p.P266fs	CCDC3_uc009xjb.1_RNA|CCDC3_uc001ilr.2_RNA|CCDC3_uc009xjc.1_RNA	NM_031455	NP_113643	Q9BQI4	CCDC3_HUMAN	coiled-coil domain containing 3 precursor	266_267						endoplasmic reticulum|extracellular region				ovary(1)	1		Ovarian(717;0.0822)	BRCA - Breast invasive adenocarcinoma(52;0.163)															---	---	---	---
CCDC3	83643	broad.mit.edu	37	10	13092963	13092964	+	Intron	INS	-	T	T	rs112412413	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:13092963_13092964insT	uc001ilr.2	-						CCDC3_uc009xjb.1_5'Flank|CCDC3_uc009xjc.1_Intron|uc009xjd.1_Intron					Homo sapiens MSTP151 (MST151) mRNA, complete cds.							endoplasmic reticulum|extracellular region				ovary(1)	1		Ovarian(717;0.0822)	BRCA - Breast invasive adenocarcinoma(52;0.163)															---	---	---	---
Unknown	0	broad.mit.edu	37	10	13347717	13347717	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:13347717delA								PHYH (3305 upstream) : SEPHS1 (12366 downstream)																																			---	---	---	---
FRMD4A	55691	broad.mit.edu	37	10	13950267	13950268	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:13950267_13950268delAG	uc001ims.2	-						FRMD4A_uc009xjf.1_Intron|FRMD4A_uc001imt.1_Intron|FRMD4A_uc001imu.1_Intron	NM_018027	NP_060497			FERM domain containing 4A							cytoplasm|cytoskeleton	binding			ovary(1)|skin(1)|pancreas(1)	3																		---	---	---	---
FRMD4A	55691	broad.mit.edu	37	10	14039625	14039627	+	Intron	DEL	TTT	-	-	rs56680372		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:14039625_14039627delTTT	uc001ims.2	-						FRMD4A_uc009xjf.1_Intron|FRMD4A_uc001imu.1_Intron	NM_018027	NP_060497			FERM domain containing 4A							cytoplasm|cytoskeleton	binding			ovary(1)|skin(1)|pancreas(1)	3																		---	---	---	---
FAM107B	83641	broad.mit.edu	37	10	14612102	14612102	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:14612102delA	uc001ina.1	-						FAM107B_uc010qbu.1_Intron|FAM107B_uc009xjg.1_Intron|FAM107B_uc001imy.1_Intron|FAM107B_uc001imz.1_Intron	NM_031453	NP_113641			hypothetical protein LOC83641											breast(4)	4																		---	---	---	---
CDNF	441549	broad.mit.edu	37	10	14870843	14870844	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:14870843_14870844delAA	uc001inb.1	-						CDNF_uc010qbv.1_Intron|CDNF_uc001inc.1_Intron	NM_001029954	NP_001025125			arginine-rich, mutated in early stage							extracellular region	growth factor activity				0																		---	---	---	---
HSPA14	51182	broad.mit.edu	37	10	14911302	14911302	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:14911302delT	uc001inf.2	+							NM_016299	NP_057383			heat shock 70kDa protein 14 isoform 1						'de novo' cotranslational protein folding	cytosol	ATP binding|protein binding			ovary(2)|breast(2)|lung(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	15463739	15463739	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:15463739delT								FAM171A1 (50681 upstream) : ITGA8 (95349 downstream)																																			---	---	---	---
ITGA8	8516	broad.mit.edu	37	10	15720671	15720671	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:15720671delA	uc001ioc.1	-						ITGA8_uc010qcb.1_Intron	NM_003638	NP_003629			integrin, alpha 8 precursor						cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6																		---	---	---	---
ITGA8	8516	broad.mit.edu	37	10	15748454	15748454	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:15748454delT	uc001ioc.1	-						ITGA8_uc010qcb.1_Intron	NM_003638	NP_003629			integrin, alpha 8 precursor						cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	15768244	15768264	+	IGR	DEL	AGGAAGGAAAGGAGGGAAAGA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:15768244_15768264delAGGAAGGAAAGGAGGGAAAGA								ITGA8 (6474 upstream) : FAM188A (51911 downstream)																																			---	---	---	---
FAM188A	80013	broad.mit.edu	37	10	15838525	15838525	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:15838525delT	uc001iod.1	-						FAM188A_uc001ioe.1_Intron|FAM188A_uc001iof.1_Intron	NM_024948	NP_079224			chromosome 10 open reading frame 97						apoptosis	nucleus	calcium ion binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	16437945	16437945	+	IGR	DEL	G	-	-	rs5783500		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:16437945delG								FAM188A (535426 upstream) : PTER (41022 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	16454651	16454652	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:16454651_16454652delAA								FAM188A (552132 upstream) : PTER (24315 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	16454904	16454906	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:16454904_16454906delTTT								FAM188A (552385 upstream) : PTER (24061 downstream)																																			---	---	---	---
RSU1	6251	broad.mit.edu	37	10	16711373	16711373	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:16711373delC	uc001iok.2	-						RSU1_uc001iol.2_Intron|RSU1_uc001iom.2_Intron	NM_152724	NP_689937			ras suppressor protein 1 isoform 2						cell junction assembly|signal transduction	cytosol	protein binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(1;7.54e-08)														---	---	---	---
CUBN	8029	broad.mit.edu	37	10	16873086	16873086	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:16873086delA	uc001ioo.2	-							NM_001081	NP_001072			cubilin precursor						cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)													---	---	---	---
TRDMT1	1787	broad.mit.edu	37	10	17221043	17221043	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17221043delA	uc001iop.2	-						TRDMT1_uc001ioq.2_Intron|TRDMT1_uc001ior.2_Intron|TRDMT1_uc001ios.2_Intron|TRDMT1_uc009xjt.2_Intron|TRDMT1_uc010qcd.1_Intron	NM_004412	NP_004403			tRNA aspartic acid methyltransferase 1 isoform						tRNA processing	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|RNA binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	17306012	17306012	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17306012delA								VIM (26420 upstream) : ST8SIA6 (56665 downstream)																																			---	---	---	---
ST8SIA6	338596	broad.mit.edu	37	10	17489468	17489468	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17489468delA	uc001ipd.2	-						ST8SIA6_uc010qce.1_Intron	NM_001004470	NP_001004470			ST8 alpha-N-acetyl-neuraminide						post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1																		---	---	---	---
MRC1	4360	broad.mit.edu	37	10	18183324	18183324	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18183324delT	uc001ipm.2	+							NM_002438	NP_002429			mannose receptor C type 1 precursor						receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0																		---	---	---	---
CACNB2	783	broad.mit.edu	37	10	18594676	18594676	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18594676delG	uc001ipr.2	+						CACNB2_uc009xjz.1_Intron|CACNB2_uc001ips.2_Intron|CACNB2_uc001ipt.2_Intron|CACNB2_uc010qcl.1_Intron|CACNB2_uc001ipu.2_Intron|CACNB2_uc001ipv.2_Intron|CACNB2_uc009xka.1_Intron|CACNB2_uc001ipw.2_Intron|CACNB2_uc001ipx.2_Intron	NM_201596	NP_963890			calcium channel, voltage-dependent, beta 2						axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)													---	---	---	---
CACNB2	783	broad.mit.edu	37	10	18809518	18809518	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18809518delT	uc001ipr.2	+						CACNB2_uc009xjz.1_Intron|CACNB2_uc001ips.2_Intron|CACNB2_uc001ipt.2_Intron|CACNB2_uc010qcl.1_Intron|CACNB2_uc001ipu.2_Intron|CACNB2_uc001ipv.2_Intron|CACNB2_uc009xka.1_Intron|CACNB2_uc001ipw.2_Intron|CACNB2_uc001ipx.2_Intron|CACNB2_uc001ipz.2_Intron|CACNB2_uc001ipy.2_Intron|CACNB2_uc010qco.1_Intron|CACNB2_uc001iqa.2_Intron|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890			calcium channel, voltage-dependent, beta 2						axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)													---	---	---	---
NSUN6	221078	broad.mit.edu	37	10	18843859	18843860	+	Intron	INS	-	GAATG	GAATG	rs149444692	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18843859_18843860insGAATG	uc010qcp.1	-							NM_182543	NP_872349			NOL1/NOP2/Sun domain family, member 6								methyltransferase activity|RNA binding			ovary(2)	2																		---	---	---	---
NSUN6	221078	broad.mit.edu	37	10	18885265	18885265	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18885265delA	uc010qcp.1	-							NM_182543	NP_872349			NOL1/NOP2/Sun domain family, member 6								methyltransferase activity|RNA binding			ovary(2)	2																		---	---	---	---
NSUN6	221078	broad.mit.edu	37	10	18891754	18891754	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18891754delT	uc010qcp.1	-							NM_182543	NP_872349			NOL1/NOP2/Sun domain family, member 6								methyltransferase activity|RNA binding			ovary(2)	2																		---	---	---	---
NSUN6	221078	broad.mit.edu	37	10	18931155	18931155	+	Intron	DEL	A	-	-	rs10829067	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18931155delA	uc010qcp.1	-							NM_182543	NP_872349			NOL1/NOP2/Sun domain family, member 6								methyltransferase activity|RNA binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	19313303	19313304	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:19313303_19313304insA								ARL5B (346363 upstream) : PLXDC2 (792068 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	19458521	19458521	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:19458521delA								ARL5B (491581 upstream) : PLXDC2 (646851 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	19567372	19567373	+	IGR	INS	-	TCCA	TCCA	rs150208541	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:19567372_19567373insTCCA								ARL5B (600432 upstream) : PLXDC2 (537999 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	19828836	19828849	+	Intron	DEL	CGTGCGCGCACACA	-	-	rs139946156	by1000genomes;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:19828836_19828849delCGTGCGCGCACACA	uc010qcq.1	+											SubName: Full=cDNA FLJ60310;																														---	---	---	---
Unknown	0	broad.mit.edu	37	10	19926229	19926229	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:19926229delA	uc010qcr.1	+											Homo sapiens cDNA FLJ60310 complete cds.																														---	---	---	---
Unknown	0	broad.mit.edu	37	10	19932216	19932216	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:19932216delA	uc010qcr.1	+											Homo sapiens cDNA FLJ60310 complete cds.																														---	---	---	---
PLXDC2	84898	broad.mit.edu	37	10	20203979	20203979	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:20203979delT	uc001iqg.1	+						PLXDC2_uc001iqh.1_Intron	NM_032812	NP_116201			plexin domain containing 2 precursor							integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
PLXDC2	84898	broad.mit.edu	37	10	20432100	20432100	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:20432100delT	uc001iqg.1	+						PLXDC2_uc001iqh.1_Intron|PLXDC2_uc009xkc.1_5'Flank	NM_032812	NP_116201			plexin domain containing 2 precursor							integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
PLXDC2	84898	broad.mit.edu	37	10	20436538	20436538	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:20436538delA	uc001iqg.1	+						PLXDC2_uc001iqh.1_Intron|PLXDC2_uc009xkc.1_Intron	NM_032812	NP_116201			plexin domain containing 2 precursor							integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	20979691	20979691	+	IGR	DEL	T	-	-	rs144045614	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:20979691delT								PLXDC2 (410576 upstream) : NEBL (89214 downstream)																																			---	---	---	---
NEBL	10529	broad.mit.edu	37	10	21108514	21108514	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:21108514delT	uc001iqi.2	-						NEBL_uc001iqj.2_Intron|NEBL_uc001iqk.2_Intron|NEBL_uc001iql.1_Intron	NM_006393	NP_006384			nebulette sarcomeric isoform						regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2																		---	---	---	---
NEBL	10529	broad.mit.edu	37	10	21132501	21132501	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:21132501delT	uc001iqi.2	-						NEBL_uc001iqj.2_Intron|NEBL_uc001iqk.2_Intron|NEBL_uc001iql.1_5'Flank	NM_006393	NP_006384			nebulette sarcomeric isoform						regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2																		---	---	---	---
NEBL	10529	broad.mit.edu	37	10	21406171	21406173	+	Intron	DEL	GAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:21406171_21406173delGAA	uc001iqk.2	-							NM_213569	NP_998734			nebulette non-muscle isoform						regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	21594713	21594713	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:21594713delT								NEBL (131597 upstream) : C10orf114 (188709 downstream)																																			---	---	---	---
MLLT10	8028	broad.mit.edu	37	10	21875206	21875208	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:21875206_21875208delTTT	uc001iqs.2	+						MLLT10_uc001iqt.2_Intron|MLLT10_uc001iqv.2_Intron|MLLT10_uc001iqy.2_Intron|MLLT10_uc009xke.1_Intron|MLLT10_uc001iqw.1_Intron|MLLT10_uc001iqx.1_Intron|MLLT10_uc009xkf.1_Intron	NM_004641	NP_004632			myeloid/lymphoid or mixed-lineage leukemia						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								---	---	---	---
MLLT10	8028	broad.mit.edu	37	10	21977574	21977574	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:21977574delA	uc001iqs.2	+						MLLT10_uc001iqt.2_Intron|MLLT10_uc001iqv.2_Intron|MLLT10_uc001iqy.2_Intron|MLLT10_uc001ira.2_Intron|MLLT10_uc001irb.2_Intron	NM_004641	NP_004632			myeloid/lymphoid or mixed-lineage leukemia						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								---	---	---	---
DNAJC1	64215	broad.mit.edu	37	10	22087147	22087147	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:22087147delA	uc001irc.2	-						DNAJC1_uc001ird.2_Intron	NM_022365	NP_071760			DnaJ (Hsp40) homolog, subfamily C, member 1						negative regulation of proteolysis|regulation of protein secretion|regulation of transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	ATPase activator activity|DNA binding|heat shock protein binding|unfolded protein binding			lung(1)	1		Breast(68;0.00869)|Prostate(175;0.0181)|Lung SC(717;0.0262)																---	---	---	---
Unknown	0	broad.mit.edu	37	10	22435135	22435135	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:22435135delA								DNAJC1 (142485 upstream) : COMMD3 (170164 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	22459020	22459020	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:22459020delA								DNAJC1 (166370 upstream) : COMMD3 (146279 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	22462360	22462360	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:22462360delT								DNAJC1 (169710 upstream) : COMMD3 (142939 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	22561736	22561736	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:22561736delT								DNAJC1 (269086 upstream) : COMMD3 (43563 downstream)																																			---	---	---	---
SPAG6	9576	broad.mit.edu	37	10	22663705	22663705	+	Intron	DEL	A	-	-	rs77373542		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:22663705delA	uc001iri.2	+						SPAG6_uc001irj.2_Intron|SPAG6_uc010qct.1_Intron|SPAG6_uc009xkh.2_Intron	NM_012443	NP_036575			sperm associated antigen 6 isoform 1						cell projection organization|spermatid development	axoneme|cilium|cytoplasm|flagellum|microtubule	binding			breast(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	23639712	23639712	+	IGR	DEL	T	-	-	rs34672440		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:23639712delT								C10orf67 (5940 upstream) : OTUD1 (88486 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	23919792	23919792	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:23919792delA								OTUD1 (188484 upstream) : KIAA1217 (63883 downstream)																																			---	---	---	---
KIAA1217	56243	broad.mit.edu	37	10	24196221	24196222	+	Intron	INS	-	TG	TG	rs146002283	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:24196221_24196222insTG	uc001irs.2	+							NM_001098500	NP_001091970			sickle tail isoform 2						embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7																		---	---	---	---
KIAA1217	56243	broad.mit.edu	37	10	24345451	24345451	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:24345451delA	uc001irs.2	+							NM_001098500	NP_001091970			sickle tail isoform 2						embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7																		---	---	---	---
KIAA1217	56243	broad.mit.edu	37	10	24519023	24519023	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:24519023delT	uc001iru.3	+						KIAA1217_uc001irs.2_Intron|KIAA1217_uc001irt.3_Intron|KIAA1217_uc010qcy.1_Intron|KIAA1217_uc010qcz.1_Intron	NM_019590	NP_062536			sickle tail isoform 1						embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7																		---	---	---	---
KIAA1217	56243	broad.mit.edu	37	10	24624224	24624226	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:24624224_24624226delTTT	uc001iru.3	+						KIAA1217_uc001irs.2_Intron|KIAA1217_uc001irt.3_Intron|KIAA1217_uc010qcy.1_Intron|KIAA1217_uc010qcz.1_Intron|KIAA1217_uc001irv.1_Intron|KIAA1217_uc010qda.1_Intron	NM_019590	NP_062536			sickle tail isoform 1						embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7																		---	---	---	---
KIAA1217	56243	broad.mit.edu	37	10	24654329	24654330	+	Intron	DEL	TG	-	-	rs146786395		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:24654329_24654330delTG	uc001iru.3	+						KIAA1217_uc001irs.2_Intron|KIAA1217_uc001irt.3_Intron|KIAA1217_uc010qcy.1_Intron|KIAA1217_uc010qcz.1_Intron|KIAA1217_uc001irv.1_Intron|KIAA1217_uc010qda.1_Intron	NM_019590	NP_062536			sickle tail isoform 1						embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7																		---	---	---	---
KIAA1217	56243	broad.mit.edu	37	10	24654330	24654330	+	Intron	DEL	G	-	-	rs146309928		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:24654330delG	uc001iru.3	+						KIAA1217_uc001irs.2_Intron|KIAA1217_uc001irt.3_Intron|KIAA1217_uc010qcy.1_Intron|KIAA1217_uc010qcz.1_Intron|KIAA1217_uc001irv.1_Intron|KIAA1217_uc010qda.1_Intron	NM_019590	NP_062536			sickle tail isoform 1						embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7																		---	---	---	---
ARHGAP21	57584	broad.mit.edu	37	10	24967036	24967036	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:24967036delA	uc001isb.2	-						ARHGAP21_uc009xkl.1_Intron|ARHGAP21_uc001isc.1_Intron|ARHGAP21_uc001isd.1_Intron	NM_020824	NP_065875			Rho GTPase activating protein 21						signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	25103140	25103141	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:25103140_25103141delTT								ARHGAP21 (90543 upstream) : PRTFDC1 (34413 downstream)																																			---	---	---	---
PRTFDC1	56952	broad.mit.edu	37	10	25168276	25168277	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:25168276_25168277delTT	uc001ise.1	-						PRTFDC1_uc010qdd.1_Intron|PRTFDC1_uc001isf.1_Intron|PRTFDC1_uc009xkm.1_Intron	NM_020200	NP_064585			phosphoribosyl transferase domain containing 1						adenine salvage|central nervous system neuron development|cerebral cortex neuron differentiation|cytolysis|dendrite morphogenesis|GMP salvage|grooming behavior|hypoxanthine metabolic process|IMP salvage|lymphocyte proliferation|positive regulation of dopamine metabolic process|purine ribonucleoside salvage|response to amphetamine|striatum development	cytosol	hypoxanthine phosphoribosyltransferase activity|magnesium ion binding|nucleotide binding|protein homodimerization activity			ovary(1)	1																		---	---	---	---
GPR158	57512	broad.mit.edu	37	10	25475846	25475846	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:25475846delC	uc001isj.2	+							NM_020752	NP_065803			G protein-coupled receptor 158 precursor							integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8																		---	---	---	---
GPR158	57512	broad.mit.edu	37	10	25732672	25732672	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:25732672delT	uc001isj.2	+							NM_020752	NP_065803			G protein-coupled receptor 158 precursor							integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	25922886	25922886	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:25922886delA								GPR158 (31731 upstream) : MYO3A (300116 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	26099219	26099219	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:26099219delT								GPR158 (208064 upstream) : MYO3A (123783 downstream)																																			---	---	---	---
MYO3A	53904	broad.mit.edu	37	10	26473576	26473576	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:26473576delA	uc001isn.2	+						MYO3A_uc009xkp.1_Intron|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129			myosin IIIA						protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18																		---	---	---	---
GAD2	2572	broad.mit.edu	37	10	26512616	26512617	+	Intron	DEL	GT	-	-	rs112861572		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:26512616_26512617delGT	uc001isp.2	+						GAD2_uc001isq.2_Intron	NM_001134366	NP_001127838			glutamate decarboxylase 2						glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)													---	---	---	---
GAD2	2572	broad.mit.edu	37	10	26551780	26551781	+	Intron	DEL	TT	-	-	rs113356091		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:26551780_26551781delTT	uc001isp.2	+						GAD2_uc001isq.2_Intron	NM_001134366	NP_001127838			glutamate decarboxylase 2						glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)													---	---	---	---
APBB1IP	54518	broad.mit.edu	37	10	26738283	26738283	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:26738283delT	uc001iss.2	+						APBB1IP_uc001isr.2_Intron|APBB1IP_uc009xks.1_Intron	NM_019043	NP_061916			amyloid beta (A4) precursor protein-binding,						blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7																		---	---	---	---
APBB1IP	54518	broad.mit.edu	37	10	26855854	26855854	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:26855854delA	uc001iss.2	+							NM_019043	NP_061916			amyloid beta (A4) precursor protein-binding,						blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	27191588	27191588	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:27191588delA								ABI1 (41629 upstream) : NCRNA00202 (28547 downstream)																																			---	---	---	---
ANKRD26	22852	broad.mit.edu	37	10	27355175	27355175	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:27355175delT	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																		---	---	---	---
ANKRD26	22852	broad.mit.edu	37	10	27356351	27356352	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:27356351_27356352delTT	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	28075849	28075850	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:28075849_28075850delTT								MKX (41071 upstream) : ARMC4 (25249 downstream)																																			---	---	---	---
MPP7	143098	broad.mit.edu	37	10	28418702	28418703	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:28418702_28418703insA	uc001iua.1	-						MPP7_uc009xkz.1_Intron|MPP7_uc001iub.1_Intron|MPP7_uc009xla.2_Intron|MPP7_uc010qdv.1_Intron	NM_173496	NP_775767			palmitoylated membrane protein 7						establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1																		---	---	---	---
MPP7	143098	broad.mit.edu	37	10	28545442	28545442	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:28545442delA	uc001iua.1	-						MPP7_uc001iub.1_Intron|MPP7_uc009xla.2_Intron|MPP7_uc010qdv.1_Intron	NM_173496	NP_775767			palmitoylated membrane protein 7						establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	28664675	28664675	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:28664675delT								MPP7 (72680 upstream) : WAC (156752 downstream)																																			---	---	---	---
WAC	51322	broad.mit.edu	37	10	28839298	28839300	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:28839298_28839300delTTT	uc001iuf.2	+						WAC_uc001iud.2_Intron|WAC_uc001iue.2_Intron|WAC_uc009xlb.2_Intron|WAC_uc001iug.2_Intron|WAC_uc001iuh.2_Intron	NM_016628	NP_057712			WW domain-containing adapter with a coiled-coil						cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2																		---	---	---	---
WAC	51322	broad.mit.edu	37	10	28874474	28874474	+	Intron	DEL	T	-	-	rs112475517		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:28874474delT	uc001iuf.2	+						WAC_uc001iud.2_Intron|WAC_uc001iue.2_Intron|WAC_uc009xlb.2_Intron|WAC_uc001iug.2_Intron|WAC_uc001iuh.2_Intron	NM_016628	NP_057712			WW domain-containing adapter with a coiled-coil						cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	28986770	28986770	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:28986770delT								BAMBI (14902 upstream) : LYZL1 (591220 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	29187879	29187880	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:29187879_29187880delTT								BAMBI (216011 upstream) : LYZL1 (390110 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	29267831	29267831	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:29267831delT								BAMBI (295963 upstream) : LYZL1 (310159 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	29346406	29346406	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:29346406delT								BAMBI (374538 upstream) : LYZL1 (231584 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	29400537	29400537	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:29400537delG								BAMBI (428669 upstream) : LYZL1 (177453 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	29554935	29554936	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:29554935_29554936insA								BAMBI (583067 upstream) : LYZL1 (23054 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	30029028	30029029	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:30029028_30029029delTG								SVIL (3164 upstream) : KIAA1462 (272700 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	30169382	30169382	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:30169382delT								SVIL (143518 upstream) : KIAA1462 (132347 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	30542147	30542147	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:30542147delT								KIAA1462 (137727 upstream) : MTPAP (56584 downstream)																																			---	---	---	---
MTPAP	55149	broad.mit.edu	37	10	30603084	30603084	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:30603084delT	uc001iva.3	-						MTPAP_uc001ivb.3_Intron	NM_018109	NP_060579			PAP associated domain containing 1 precursor						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																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	30704681	30704681	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:30704681delA								MTPAP (41304 upstream) : MAP3K8 (18185 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	31001488	31001488	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:31001488delA	uc010qdx.1	+	9	1472	c.930delA	c.(928-930)GGAfs	p.G310fs						SubName: Full=cDNA FLJ59642, highly similar to Supervillin;																														---	---	---	---
Unknown	0	broad.mit.edu	37	10	31017928	31017929	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:31017928_31017929delTT								LYZL2 (99281 upstream) : ZNF438 (115638 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	31327292	31327292	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:31327292delA								ZNF438 (6426 upstream) : LOC220930 (278166 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	31394197	31394197	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:31394197delA								ZNF438 (73331 upstream) : LOC220930 (211261 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	31913511	31913511	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:31913511delA								ZEB1 (95384 upstream) : ARHGAP12 (181714 downstream)																																			---	---	---	---
ARHGAP12	94134	broad.mit.edu	37	10	32135828	32135833	+	Intron	DEL	TTTTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:32135828_32135833delTTTTTT	uc001ivz.1	-						ARHGAP12_uc001ivy.1_Intron|ARHGAP12_uc009xls.2_Intron|ARHGAP12_uc001iwb.1_Intron|ARHGAP12_uc001iwc.1_Intron|ARHGAP12_uc009xlq.1_Intron|ARHGAP12_uc001iwd.1_Intron|ARHGAP12_uc009xlr.1_Intron	NM_018287	NP_060757			Rho GTPase activating protein 12						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0		Prostate(175;0.0199)																---	---	---	---
Unknown	0	broad.mit.edu	37	10	32279848	32279848	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:32279848delA								ARHGAP12 (62078 upstream) : KIF5B (18092 downstream)																																			---	---	---	---
KIF5B	3799	broad.mit.edu	37	10	32310912	32310912	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:32310912delA	uc001iwe.3	-							NM_004521	NP_004512			kinesin family member 5B						stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)																---	---	---	---
Unknown	0	broad.mit.edu	37	10	32407688	32407688	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:32407688delA								KIF5B (62317 upstream) : EPC1 (150171 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	32713476	32713476	+	IGR	DEL	T	-	-	rs146368444		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:32713476delT								EPC1 (45809 upstream) : CCDC7 (21565 downstream)																																			---	---	---	---
C10orf68	79741	broad.mit.edu	37	10	33157243	33157244	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:33157243_33157244insT	uc001iwn.3	+						C10orf68_uc001iwl.1_Intron|C10orf68_uc001iwm.1_Intron|C10orf68_uc010qei.1_Intron|C10orf68_uc001iwo.3_Intron	NM_024688	NP_078964			chromosome 10 open reading frame 68											skin(2)|ovary(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	33374666	33374666	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:33374666delA								ITGB1 (127373 upstream) : NRP1 (91754 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	33413489	33413489	+	IGR	DEL	T	-	-	rs112720840		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:33413489delT								ITGB1 (166196 upstream) : NRP1 (52931 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	33416373	33416375	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:33416373_33416375delAAA								ITGB1 (169080 upstream) : NRP1 (50045 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	33696788	33696788	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:33696788delA								NRP1 (72782 upstream) : PARD3 (703310 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	34084793	34084793	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34084793delT								NRP1 (460787 upstream) : PARD3 (315305 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	34148677	34148677	+	IGR	DEL	T	-	-	rs5784372		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34148677delT								NRP1 (524671 upstream) : PARD3 (251421 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	34153682	34153682	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34153682delA								NRP1 (529676 upstream) : PARD3 (246416 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	34230781	34230781	+	IGR	DEL	A	-	-	rs113187497		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34230781delA								NRP1 (606775 upstream) : PARD3 (169317 downstream)																																			---	---	---	---
PARD3	56288	broad.mit.edu	37	10	34450182	34450183	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34450182_34450183insG	uc010qej.1	-						PARD3_uc010qek.1_Intron|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Intron|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Intron	NM_019619	NP_062565			partitioning-defective protein 3 homolog						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)																---	---	---	---
PARD3	56288	broad.mit.edu	37	10	34455556	34455556	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34455556delA	uc010qej.1	-						PARD3_uc010qek.1_Intron|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Intron|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Intron	NM_019619	NP_062565			partitioning-defective protein 3 homolog						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)																---	---	---	---
PARD3	56288	broad.mit.edu	37	10	34456435	34456435	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34456435delA	uc010qej.1	-						PARD3_uc010qek.1_Intron|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Intron|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Intron	NM_019619	NP_062565			partitioning-defective protein 3 homolog						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)																---	---	---	---
PARD3	56288	broad.mit.edu	37	10	34536010	34536010	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34536010delA	uc010qej.1	-						PARD3_uc010qek.1_Intron|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Intron|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Intron	NM_019619	NP_062565			partitioning-defective protein 3 homolog						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)																---	---	---	---
PARD3	56288	broad.mit.edu	37	10	34625332	34625332	+	Intron	DEL	A	-	-	rs112315019		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34625332delA	uc010qej.1	-						PARD3_uc010qek.1_Intron|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Intron|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Intron|PARD3_uc001ixo.1_Intron|PARD3_uc001ixp.1_Intron|PARD3_uc001ixq.1_Intron|PARD3_uc001ixr.1_Intron|PARD3_uc001ixt.1_Intron|PARD3_uc001ixu.1_Intron|PARD3_uc001ixs.1_Intron	NM_019619	NP_062565			partitioning-defective protein 3 homolog						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)																---	---	---	---
PARD3	56288	broad.mit.edu	37	10	34655475	34655475	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34655475delA	uc010qej.1	-						PARD3_uc010qek.1_Intron|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Intron|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Intron|PARD3_uc001ixo.1_Intron|PARD3_uc001ixp.1_Intron|PARD3_uc001ixq.1_Intron|PARD3_uc001ixr.1_Intron|PARD3_uc001ixt.1_Intron|PARD3_uc001ixu.1_Intron|PARD3_uc001ixs.1_Intron	NM_019619	NP_062565			partitioning-defective protein 3 homolog						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)																---	---	---	---
PARD3	56288	broad.mit.edu	37	10	34676732	34676732	+	Intron	DEL	T	-	-	rs11323020		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34676732delT	uc010qej.1	-						PARD3_uc010qek.1_Intron|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Intron|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Intron|PARD3_uc001ixo.1_Intron|PARD3_uc001ixp.1_Intron|PARD3_uc001ixq.1_Intron|PARD3_uc001ixr.1_Intron|PARD3_uc001ixt.1_Intron|PARD3_uc001ixu.1_Intron	NM_019619	NP_062565			partitioning-defective protein 3 homolog						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)																---	---	---	---
PARD3	56288	broad.mit.edu	37	10	34964520	34964521	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34964520_34964521delTT	uc010qej.1	-						PARD3_uc010qek.1_Intron|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Intron|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Intron|PARD3_uc001ixq.1_Intron|PARD3_uc001ixr.1_Intron|PARD3_uc001ixu.1_Intron	NM_019619	NP_062565			partitioning-defective protein 3 homolog						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)																---	---	---	---
PARD3	56288	broad.mit.edu	37	10	35031216	35031216	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:35031216delG	uc010qej.1	-						PARD3_uc010qek.1_Intron|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Intron|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Intron|PARD3_uc001ixq.1_Intron|PARD3_uc001ixr.1_Intron|PARD3_uc001ixu.1_Intron	NM_019619	NP_062565			partitioning-defective protein 3 homolog						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)																---	---	---	---
PARD3	56288	broad.mit.edu	37	10	35032413	35032413	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:35032413delC	uc010qej.1	-						PARD3_uc010qek.1_Intron|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Intron|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Intron|PARD3_uc001ixq.1_Intron|PARD3_uc001ixr.1_Intron|PARD3_uc001ixu.1_Intron	NM_019619	NP_062565			partitioning-defective protein 3 homolog						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)																---	---	---	---
Unknown	0	broad.mit.edu	37	10	35278618	35278618	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:35278618delA								PARD3 (174695 upstream) : CUL2 (20190 downstream)																																			---	---	---	---
CUL2	8453	broad.mit.edu	37	10	35320659	35320659	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:35320659delT	uc001ixv.2	-						CUL2_uc009xma.2_Intron|CUL2_uc010qer.1_Intron|CUL2_uc001ixw.2_Intron|CUL2_uc010qes.1_Intron	NM_003591	NP_003582			cullin 2						cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding			ovary(3)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	36460319	36460319	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:36460319delA								FZD8 (529957 upstream) : ANKRD30A (954466 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	36604090	36604091	+	IGR	INS	-	A	A	rs1219580	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:36604090_36604091insA								FZD8 (673728 upstream) : ANKRD30A (810694 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	37008430	37008431	+	IGR	INS	-	A	A	rs141220490	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:37008430_37008431insA								None (None upstream) : ANKRD30A (406354 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	37339827	37339827	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:37339827delA								None (None upstream) : ANKRD30A (74958 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	37814378	37814380	+	IGR	DEL	AAC	-	-	rs144518390		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:37814378_37814380delAAC								ANKRD30A (292883 upstream) : ZNF248 (276067 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	38024209	38024210	+	IGR	INS	-	GCTC	GCTC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:38024209_38024210insGCTC								ANKRD30A (502714 upstream) : ZNF248 (66237 downstream)																																			---	---	---	---
ZNF248	57209	broad.mit.edu	37	10	38114826	38114827	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:38114826_38114827delAA	uc009xmc.2	-						ZNF248_uc001izb.2_Intron					SubName: Full=ZNF248 protein; SubName: Full=Zinc finger protein 248; SubName: Full=Zinc finger protein 248, isoform CRA_b;						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
ZNF248	57209	broad.mit.edu	37	10	38145401	38145401	+	5'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:38145401delA	uc001izd.1	-	2					ZNF248_uc009xmc.2_Intron|ZNF248_uc001izb.2_Intron|ZNF248_uc001izc.2_5'UTR|ZNF248_uc010qeu.1_5'UTR	NM_021045	NP_066383			zinc finger protein 248						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
ZNF33A	7581	broad.mit.edu	37	10	38333006	38333006	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:38333006delT	uc001izh.2	+						ZNF33A_uc001izg.2_Intron|ZNF33A_uc010qev.1_Intron|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905			zinc finger protein 33A isoform b							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3																		---	---	---	---
ZNF33A	7581	broad.mit.edu	37	10	38352456	38352457	+	Intron	INS	-	GTT	GTT	rs148205116	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:38352456_38352457insGTT	uc001izi.1	+											SubName: Full=ZNF33B protein;							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	38364733	38364733	+	IGR	DEL	A	-	-	rs143777001	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:38364733delA								ZNF33A (10707 upstream) : ZNF37A (18542 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	38974473	38974473	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:38974473delA								LOC399744 (233393 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	38987961	38987964	+	IGR	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:38987961_38987964delAAAA								LOC399744 (246881 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	39086301	39086305	+	IGR	DEL	CATTA	-	-	rs12765260		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:39086301_39086305delCATTA								LOC399744 (345221 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	39109808	39109812	+	IGR	DEL	ATAAT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:39109808_39109812delATAAT								LOC399744 (368728 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	42428813	42428813	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42428813delG								None (None upstream) : LOC441666 (398502 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	42806898	42806899	+	IGR	INS	-	ATTCC	ATTCC	rs80134185		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42806898_42806899insATTCC								None (None upstream) : LOC441666 (20416 downstream)																																			---	---	---	---
LOC84856	84856	broad.mit.edu	37	10	42972018	42972018	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42972018delT	uc001izy.2	+						LOC84856_uc009xmf.2_Intron|LOC84856_uc001izz.1_Intron	NR_026827				Homo sapiens cDNA FLJ33470 fis, clone BRAMY2002044.												0																		---	---	---	---
ZNF33B	7582	broad.mit.edu	37	10	43072233	43072234	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:43072233_43072234insA	uc001jad.2	-											Homo sapiens C2H2-type zinc finger protein mRNA, partial cds.							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	44135283	44135283	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:44135283delT	uc001jba.2	+											Homo sapiens chromosome 10 open reading frame 44, mRNA (cDNA clone IMAGE:4837462).																														---	---	---	---
Unknown	0	broad.mit.edu	37	10	44392166	44392166	+	IGR	DEL	A	-	-	rs34468444		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:44392166delA								HNRNPA3P1 (106301 upstream) : CXCL12 (473441 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	44821337	44821337	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:44821337delA								HNRNPA3P1 (535472 upstream) : CXCL12 (44270 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	44893108	44893108	+	IGR	DEL	A	-	-	rs139604138		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:44893108delA								CXCL12 (12566 upstream) : TMEM72 (513656 downstream)																																			---	---	---	---
ALOX5	240	broad.mit.edu	37	10	45926080	45926080	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:45926080delA	uc001jce.2	+						ALOX5_uc009xmt.2_Intron|ALOX5_uc010qfg.1_Intron	NM_000698	NP_000689			arachidonate 5-lipoxygenase						hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	cytosol|nuclear envelope lumen|nuclear matrix|nuclear membrane	arachidonate 5-lipoxygenase activity|iron ion binding|lipoxygenase activity|protein binding			ovary(1)|pancreas(1)	2		Lung SC(717;0.0257)			Diethylcarbamazine(DB00711)|Hydrocortisone(DB00741)|Leflunomide(DB01097)|Masoprocol(DB00179)|Meclofenamic acid(DB00939)|Minocycline(DB01017)|Montelukast(DB00471)|Quinacrine(DB01103)|Vitamin E(DB00163)|Zileuton(DB00744)													---	---	---	---
MARCH8	220972	broad.mit.edu	37	10	46080763	46080763	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:46080763delA	uc001jcj.1	-						MARCH8_uc001jck.1_Intron	NM_001002265	NP_001002265			cellular modulator of immune recognition isoform							cytoplasmic vesicle membrane|early endosome membrane|integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding				0																		---	---	---	---
ANXA8	653145	broad.mit.edu	37	10	47030122	47030122	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47030122delA	uc001jed.3	-											Homo sapiens cDNA FLJ58071 complete cds, highly similar to Annexin A8.						blood coagulation		calcium ion binding|calcium-dependent phospholipid binding			central_nervous_system(3)	3																		---	---	---	---
ANXA8	653145	broad.mit.edu	37	10	47035176	47035177	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47035176_47035177insT	uc001jed.3	-											Homo sapiens cDNA FLJ58071 complete cds, highly similar to Annexin A8.						blood coagulation		calcium ion binding|calcium-dependent phospholipid binding			central_nervous_system(3)	3																		---	---	---	---
ANXA8	653145	broad.mit.edu	37	10	47094138	47094139	+	Intron	DEL	TC	-	-	rs59550043	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47094138_47094139delTC	uc001jed.3	-											Homo sapiens cDNA FLJ58071 complete cds, highly similar to Annexin A8.						blood coagulation		calcium ion binding|calcium-dependent phospholipid binding			central_nervous_system(3)	3																		---	---	---	---
ANXA8	653145	broad.mit.edu	37	10	47129045	47129045	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47129045delA	uc001jed.3	-						uc001jef.2_Intron					Homo sapiens cDNA FLJ58071 complete cds, highly similar to Annexin A8.						blood coagulation		calcium ion binding|calcium-dependent phospholipid binding			central_nervous_system(3)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	47313882	47313882	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47313882delT								LOC642826 (70380 upstream) : FAM35B2 (65838 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	47350790	47350792	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47350790_47350792delTTT								LOC642826 (107288 upstream) : FAM35B2 (28928 downstream)																																			---	---	---	---
FRMPD2	143162	broad.mit.edu	37	10	49420620	49420620	+	Intron	DEL	T	-	-	rs71977457		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:49420620delT	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)														---	---	---	---
FRMPD2	143162	broad.mit.edu	37	10	49465225	49465226	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:49465225_49465226insT	uc001jgi.2	-						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)														---	---	---	---
ARHGAP22	58504	broad.mit.edu	37	10	49821098	49821099	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:49821098_49821099insT	uc010qgm.1	-						ARHGAP22_uc001jgv.2_Intron	NM_021226	NP_067049			Rho GTPase activating protein 2						angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol|nucleus	GTPase activator activity			ovary(1)	1																		---	---	---	---
C10orf72	196740	broad.mit.edu	37	10	50256688	50256689	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50256688_50256689delAA	uc001jhf.2	-							NM_001031746	NP_001026916			hypothetical protein LOC196740 isoform 1							integral to membrane|plasma membrane					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	50469306	50469308	+	IGR	DEL	AAA	-	-	rs35333438		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50469306_50469308delAAA								C10orf128 (72899 upstream) : C10orf71 (37879 downstream)																																			---	---	---	---
ERCC6	2074	broad.mit.edu	37	10	50667486	50667487	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50667486_50667487delAA	uc001jhs.3	-						ERCC6_uc009xod.2_Intron|ERCC6_uc010qgr.1_Intron|ERCC6_uc001jhr.3_Intron	NM_000124	NP_000115			excision repair cross-complementing rodent						base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16													Direct_reversal_of_damage|NER					---	---	---	---
CHAT	1103	broad.mit.edu	37	10	50845087	50845087	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50845087delT	uc001jhz.2	+						CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_Intron|CHAT_uc001jhy.1_Intron|CHAT_uc001jia.2_Intron|CHAT_uc010qgs.1_Intron	NM_020549	NP_065574			choline acetyltransferase isoform 2						neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)													---	---	---	---
Unknown	0	broad.mit.edu	37	10	50977975	50977975	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50977975delA								OGDHL (7550 upstream) : PARG (48352 downstream)																																			---	---	---	---
AGAP6	414189	broad.mit.edu	37	10	51746343	51746344	+	5'Flank	INS	-	ATC	ATC	rs77477584		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:51746343_51746344insATC	uc001jix.3	+							NM_001077665	NP_001071133			ArfGAP with GTPase domain, ankyrin repeat and PH						regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			skin(1)	1																		---	---	---	---
AGAP6	414189	broad.mit.edu	37	10	51768242	51768242	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:51768242delT	uc001jix.3	+							NM_001077665	NP_001071133			ArfGAP with GTPase domain, ankyrin repeat and PH						regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			skin(1)	1																		---	---	---	---
FAM21A	387680	broad.mit.edu	37	10	51885800	51885800	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:51885800delT	uc001jjb.2	+						FAM21A_uc001jja.1_Intron|FAM21A_uc010qhi.1_Intron|FAM21A_uc010qhj.1_Intron|FAM21B_uc009xoq.2_Intron	NM_001005751	NP_001005751			hypothetical protein LOC387680						retrograde transport, endosome to Golgi	early endosome membrane|WASH complex				ovary(1)	1																		---	---	---	---
SGMS1	259230	broad.mit.edu	37	10	52253466	52253466	+	Intron	DEL	A	-	-	rs145224963		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:52253466delA	uc001jje.2	-						SGMS1_uc010qhk.1_Intron|SGMS1_uc009xot.1_Intron|SGMS1_uc009xou.1_Intron	NM_147156	NP_671512			sphingomyelin synthase 1						apoptosis|cell growth|sphingomyelin biosynthetic process	endoplasmic reticulum|Golgi trans cisterna|integral to Golgi membrane|nucleus|plasma membrane	ceramide cholinephosphotransferase activity|kinase activity|sphingomyelin synthase activity			ovary(1)|kidney(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	52466425	52466425	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:52466425delT								SGMS1 (81502 upstream) : ASAH2B (33271 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	52467957	52467958	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:52467957_52467958delTT								SGMS1 (83034 upstream) : ASAH2B (31738 downstream)																																			---	---	---	---
PRKG1	5592	broad.mit.edu	37	10	52774291	52774291	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:52774291delT	uc001jjm.2	+						PRKG1_uc010qhp.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)														---	---	---	---
PRKG1	5592	broad.mit.edu	37	10	53170762	53170762	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:53170762delT	uc001jjm.2	+						PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_Intron|PRKG1_uc010qhp.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)														---	---	---	---
PRKG1	5592	broad.mit.edu	37	10	53287930	53287930	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:53287930delA	uc001jjm.2	+						PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_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)														---	---	---	---
PRKG1	5592	broad.mit.edu	37	10	53365003	53365003	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:53365003delG	uc001jjm.2	+						PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_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)														---	---	---	---
PRKG1	5592	broad.mit.edu	37	10	53978668	53978668	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:53978668delC	uc001jjm.2	+						PRKG1_uc001jjo.2_Intron|PRKG1_uc009xow.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)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	54289812	54289812	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:54289812delA								DKK1 (212396 upstream) : MBL2 (235329 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	54612461	54612461	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:54612461delA								MBL2 (81001 upstream) : PCDH15 (950074 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	55291454	55291454	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:55291454delA								MBL2 (759994 upstream) : PCDH15 (271081 downstream)																																			---	---	---	---
PCDH15	65217	broad.mit.edu	37	10	55583392	55583393	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:55583392_55583393insT	uc001jju.1	-						PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Intron|PCDH15_uc010qhw.1_Intron|PCDH15_uc010qhx.1_Intron|PCDH15_uc010qhy.1_Intron|PCDH15_uc010qhz.1_Intron|PCDH15_uc010qia.1_Intron|PCDH15_uc010qib.1_Intron	NM_033056	NP_149045			protocadherin 15 isoform CD1-4 precursor						equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)													HNSCC(58;0.16)			---	---	---	---
PCDH15	65217	broad.mit.edu	37	10	55649297	55649297	+	Intron	DEL	A	-	-	rs113275569		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:55649297delA	uc001jju.1	-						PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Intron|PCDH15_uc010qhw.1_Intron|PCDH15_uc010qhx.1_Intron|PCDH15_uc010qhy.1_Intron|PCDH15_uc010qhz.1_Intron|PCDH15_uc010qia.1_Intron|PCDH15_uc010qib.1_Intron	NM_033056	NP_149045			protocadherin 15 isoform CD1-4 precursor						equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)													HNSCC(58;0.16)			---	---	---	---
PCDH15	65217	broad.mit.edu	37	10	55717588	55717588	+	Intron	DEL	A	-	-	rs34769133		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:55717588delA	uc001jju.1	-						PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Intron|PCDH15_uc010qhw.1_Intron|PCDH15_uc010qhx.1_Intron|PCDH15_uc010qhy.1_Intron|PCDH15_uc010qhz.1_Intron|PCDH15_uc010qia.1_Intron|PCDH15_uc010qib.1_Intron	NM_033056	NP_149045			protocadherin 15 isoform CD1-4 precursor						equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)													HNSCC(58;0.16)			---	---	---	---
PCDH15	65217	broad.mit.edu	37	10	56441455	56441455	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:56441455delT	uc001jju.1	-						PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Intron|PCDH15_uc010qhw.1_Intron|PCDH15_uc010qhx.1_Intron|PCDH15_uc010qhy.1_Intron|PCDH15_uc010qhz.1_Intron|PCDH15_uc010qia.1_Intron|PCDH15_uc010qib.1_Intron|PCDH15_uc001jjw.2_Intron	NM_033056	NP_149045			protocadherin 15 isoform CD1-4 precursor						equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)													HNSCC(58;0.16)			---	---	---	---
PCDH15	65217	broad.mit.edu	37	10	56580920	56580921	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:56580920_56580921insT	uc001jjv.1	-							NM_001142770	NP_001136242			protocadherin 15 isoform CD2-2 precursor						equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)													HNSCC(58;0.16)			---	---	---	---
PCDH15	65217	broad.mit.edu	37	10	56870406	56870406	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:56870406delA	uc001jjv.1	-							NM_001142770	NP_001136242			protocadherin 15 isoform CD2-2 precursor						equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)													HNSCC(58;0.16)			---	---	---	---
PCDH15	65217	broad.mit.edu	37	10	57022745	57022745	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:57022745delC	uc001jjv.1	-							NM_001142770	NP_001136242			protocadherin 15 isoform CD2-2 precursor						equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)													HNSCC(58;0.16)			---	---	---	---
PCDH15	65217	broad.mit.edu	37	10	57135517	57135517	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:57135517delT	uc001jjv.1	-							NM_001142770	NP_001136242			protocadherin 15 isoform CD2-2 precursor						equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)													HNSCC(58;0.16)			---	---	---	---
Unknown	0	broad.mit.edu	37	10	57448864	57448864	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:57448864delT								PCDH15 (61162 upstream) : ZWINT (668335 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	57808083	57808083	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:57808083delT								PCDH15 (420381 upstream) : ZWINT (309116 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	57864636	57864636	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:57864636delT								PCDH15 (476934 upstream) : ZWINT (252563 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	57903572	57903572	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:57903572delT								PCDH15 (515870 upstream) : ZWINT (213627 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	58724077	58724077	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:58724077delA								ZWINT (603043 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	58875124	58875124	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:58875124delA								ZWINT (754090 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	59279004	59279005	+	IGR	INS	-	T	T	rs145717067	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:59279004_59279005insT								None (None upstream) : IPMK (676613 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	59378419	59378419	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:59378419delA								None (None upstream) : IPMK (577199 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	60157510	60157511	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:60157510_60157511delTG								TFAM (1614 upstream) : BICC1 (115393 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	60598288	60598288	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:60598288delT								BICC1 (9443 upstream) : PHYHIPL (338060 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	60649982	60649983	+	IGR	INS	-	T	T	rs142219678	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:60649982_60649983insT								BICC1 (61137 upstream) : PHYHIPL (286365 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	61148043	61148048	+	IGR	DEL	GAGAGA	-	-	rs35944579		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:61148043_61148048delGAGAGA								FAM13C (25382 upstream) : SLC16A9 (262474 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	61232443	61232443	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:61232443delA								FAM13C (109782 upstream) : SLC16A9 (178079 downstream)																																			---	---	---	---
SLC16A9	220963	broad.mit.edu	37	10	61472076	61472076	+	5'Flank	DEL	A	-	-	rs75160703		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:61472076delA	uc010qig.1	-							NM_194298	NP_919274			solute carrier family 16 (monocarboxylic acid						urate metabolic process	integral to membrane|plasma membrane	symporter activity			skin(2)|ovary(1)	3																		---	---	---	---
CCDC6	8030	broad.mit.edu	37	10	61610118	61610119	+	Intron	INS	-	ACG	ACG	rs113393654		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:61610118_61610119insACG	uc001jks.3	-							NM_005436	NP_005427			coiled-coil domain containing 6							cytoplasm|cytoskeleton	SH3 domain binding|structural constituent of cytoskeleton			ovary(3)|breast(1)	4				Kidney(211;0.0597)														---	---	---	---
ANK3	288	broad.mit.edu	37	10	61892225	61892225	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:61892225delG	uc001jky.2	-						ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jla.1_Intron|ANK3_uc001jlb.1_Intron	NM_020987	NP_066267			ankyrin 3 isoform 1						establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	62578657	62578657	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:62578657delT								CDK1 (24053 upstream) : RHOBTB1 (50543 downstream)																																			---	---	---	---
RHOBTB1	9886	broad.mit.edu	37	10	62693462	62693462	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:62693462delA	uc001jli.2	-						RHOBTB1_uc001jlh.2_Intron|RHOBTB1_uc001jlj.2_Intron|RHOBTB1_uc001jlk.2_Intron|RHOBTB1_uc009xpe.1_Intron|RHOBTB1_uc001jlm.2_Intron	NM_014836	NP_055651			Rho-related BTB domain containing 1						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			upper_aerodigestive_tract(1)	1	Prostate(12;0.0112)																	---	---	---	---
TMEM26	219623	broad.mit.edu	37	10	63200842	63200842	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:63200842delT	uc001jlo.2	-						TMEM26_uc010qij.1_Intron|TMEM26_uc001jlq.2_Intron	NM_178505	NP_848600			transmembrane protein 26							integral to membrane					0	Prostate(12;0.0112)																	---	---	---	---
ZNF365	22891	broad.mit.edu	37	10	64342213	64342213	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:64342213delT	uc001jmd.1	+						ZNF365_uc001jmc.2_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	64460612	64460613	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:64460612_64460613delTG								ZNF365 (28841 upstream) : ADO (103903 downstream)																																			---	---	---	---
JMJD1C	221037	broad.mit.edu	37	10	64999212	64999212	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:64999212delT	uc001jmn.2	-						JMJD1C_uc001jml.2_Intron|JMJD1C_uc001jmm.2_Intron|JMJD1C_uc010qiq.1_Intron|JMJD1C_uc009xpi.2_Intron|JMJD1C_uc009xpj.1_Intron|JMJD1C_uc001jmp.1_Intron	NM_032776	NP_116165			jumonji domain containing 1C isoform a						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)																	---	---	---	---
JMJD1C	221037	broad.mit.edu	37	10	65114920	65114920	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:65114920delT	uc001jmn.2	-						JMJD1C_uc009xpi.2_Intron	NM_032776	NP_116165			jumonji domain containing 1C isoform a						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)																	---	---	---	---
JMJD1C	221037	broad.mit.edu	37	10	65139703	65139703	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:65139703delT	uc001jmn.2	-						JMJD1C_uc009xpi.2_Intron	NM_032776	NP_116165			jumonji domain containing 1C isoform a						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)																	---	---	---	---
Unknown	0	broad.mit.edu	37	10	65502541	65502542	+	IGR	DEL	AA	-	-	rs5785591		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:65502541_65502542delAA								REEP3 (120570 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	65562917	65562917	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:65562917delA								REEP3 (180946 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	65967500	65967500	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:65967500delT								REEP3 (585529 upstream) : ANXA2P3 (617785 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	65978196	65978197	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:65978196_65978197delAA								REEP3 (596225 upstream) : ANXA2P3 (607088 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	66571921	66571922	+	IGR	DEL	AT	-	-	rs34944214		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:66571921_66571922delAT								None (None upstream) : ANXA2P3 (13363 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	66732591	66732592	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:66732591_66732592delAC								ANXA2P3 (145957 upstream) : CTNNA3 (947133 downstream)																																			---	---	---	---
CTNNA3	29119	broad.mit.edu	37	10	67692887	67692887	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:67692887delA	uc009xpn.1	-						CTNNA3_uc001jmw.2_Intron	NM_001127384	NP_001120856			catenin, alpha 3						cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8																		---	---	---	---
CTNNA3	29119	broad.mit.edu	37	10	67710156	67710156	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:67710156delT	uc009xpn.1	-						CTNNA3_uc001jmw.2_Intron	NM_001127384	NP_001120856			catenin, alpha 3						cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8																		---	---	---	---
CTNNA3	29119	broad.mit.edu	37	10	68008330	68008330	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:68008330delA	uc009xpn.1	-						CTNNA3_uc001jmw.2_Intron	NM_001127384	NP_001120856			catenin, alpha 3						cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8																		---	---	---	---
SIRT1	23411	broad.mit.edu	37	10	69668900	69668900	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:69668900delT	uc001jnd.2	+						SIRT1_uc010qis.1_Intron|SIRT1_uc009xpp.2_Intron|SIRT1_uc001jne.2_Intron	NM_012238	NP_036370			sirtuin 1 isoform a						apoptosis|cell aging|cellular response to hydrogen peroxide|cellular response to starvation|chromatin silencing at rDNA|DNA repair|DNA replication|establishment of chromatin silencing|histone H3 deacetylation|interspecies interaction between organisms|maintenance of chromatin silencing|muscle organ development|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of fat cell differentiation|negative regulation of helicase activity|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine acetylation|peptidyl-lysine deacetylation|positive regulation of anti-apoptosis|positive regulation of chromatin silencing|positive regulation of DNA repair|regulation of apoptosis|regulation of cell proliferation|regulation of endodeoxyribonuclease activity|regulation of protein import into nucleus, translocation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|rRNA processing|transcription, DNA-dependent|triglyceride mobilization|white fat cell differentiation	chromatin silencing complex|cytoplasm|nuclear euchromatin|nuclear heterochromatin|nuclear inner membrane|nucleolus|PML body|rDNA heterochromatin	bHLH transcription factor binding|histone binding|HLH domain binding|identical protein binding|mitogen-activated protein kinase binding|NAD+ binding|NAD-dependent histone deacetylase activity (H3-K9 specific)|p53 binding|protein C-terminus binding|transcription corepressor activity|zinc ion binding				0																		---	---	---	---
MYPN	84665	broad.mit.edu	37	10	69957323	69957323	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:69957323delT	uc001jnm.3	+						MYPN_uc001jnn.3_Intron|MYPN_uc001jno.3_Intron|MYPN_uc009xpt.2_Intron|MYPN_uc010qit.1_Intron|MYPN_uc010qiu.1_Intron	NM_032578	NP_115967			myopalladin							nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5																		---	---	---	---
SLC25A16	8034	broad.mit.edu	37	10	70259764	70259764	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:70259764delA	uc001joi.2	-						SLC25A16_uc010qix.1_Intron|SLC25A16_uc010qiy.1_Intron|SLC25A16_uc001joj.2_Intron	NM_152707	NP_689920			solute carrier family 25, member 16						coenzyme biosynthetic process|pantothenate metabolic process	integral to membrane|mitochondrial inner membrane	binding|solute:solute antiporter activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	71299123	71299123	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:71299123delA								TSPAN15 (31700 upstream) : NEUROG3 (32669 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	71935117	71935118	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:71935117_71935118delTT								SAR1A (4832 upstream) : PPA1 (27468 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	72734340	72734341	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:72734340_72734341insG								PCBD1 (85799 upstream) : UNC5B (237957 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	73065832	73065834	+	IGR	DEL	TCC	-	-	rs111662156	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:73065832_73065834delTCC								UNC5B (3197 upstream) : SLC29A3 (13176 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	73618715	73618715	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:73618715delT								PSAP (7633 upstream) : CHST3 (105405 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	73645171	73645171	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:73645171delT								PSAP (34089 upstream) : CHST3 (78949 downstream)																																			---	---	---	---
CBARA1	10367	broad.mit.edu	37	10	74155045	74155045	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:74155045delA	uc001jtb.1	-						CBARA1_uc010qjw.1_Intron|CBARA1_uc010qjx.1_Intron|CBARA1_uc009xqo.1_Intron	NM_006077	NP_006068			calcium binding atopy-related autoantigen 1						calcium ion import|defense response|elevation of mitochondrial calcium ion concentration	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	74395117	74395120	+	IGR	DEL	CACA	-	-	rs10540817		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:74395117_74395120delCACA								CBARA1 (9218 upstream) : CCDC109A (56769 downstream)																																			---	---	---	---
CCDC109A	90550	broad.mit.edu	37	10	74585394	74585395	+	Intron	DEL	AG	-	-	rs140672222		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:74585394_74585395delAG	uc001jtc.2	+						CCDC109A_uc009xqp.1_Intron|CCDC109A_uc009xqq.1_Intron|CCDC109A_uc010qjy.1_Intron|CCDC109A_uc009xqr.2_Intron|CCDC109A_uc001jtd.2_Intron	NM_138357	NP_612366			coiled-coil domain containing 109A						elevation of mitochondrial calcium ion concentration|mitochondrial calcium ion transport|protein complex oligomerization	integral to membrane|mitochondrial inner membrane	protein binding				0	Prostate(51;0.0198)																	---	---	---	---
OIT3	170392	broad.mit.edu	37	10	74653469	74653469	+	5'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)																	---	---	---	---
ECD	11319	broad.mit.edu	37	10	74914335	74914335	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:74914335delA	uc001jtn.2	-						ECD_uc009xqx.2_Intron|ECD_uc009xqy.2_Intron|ECD_uc001jto.2_Intron	NM_007265	NP_009196			suppressor of S. cerevisiae gcr2 isoform 1						regulation of glycolysis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	transcription coactivator activity			pancreas(1)	1	Prostate(51;0.0119)																	---	---	---	---
TTC18	118491	broad.mit.edu	37	10	75067060	75067060	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75067060delA	uc009xrc.2	-						TTC18_uc001jty.2_Intron|TTC18_uc009xrd.1_Intron	NM_145170	NP_660153			tetratricopeptide repeat domain 18								binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)																	---	---	---	---
USP54	159195	broad.mit.edu	37	10	75350945	75350945	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75350945delT	uc010qkl.1	-							NM_152586	NP_689799			ubiquitin specific peptidase 54						ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)																	---	---	---	---
AGAP5	729092	broad.mit.edu	37	10	75436242	75436242	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75436242delA	uc009xri.2	-						AGAP5_uc001juu.3_Intron	NM_001144000	NP_001137472			ArfGAP with GTPase domain, ankyrin repeat and PH						regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0																		---	---	---	---
VCL	7414	broad.mit.edu	37	10	75803109	75803110	+	Intron	INS	-	T	T	rs145684984		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75803109_75803110insT	uc001jwd.2	+						VCL_uc009xrr.2_Intron|VCL_uc010qky.1_Intron|VCL_uc001jwe.2_Intron|VCL_uc010qkz.1_Intron	NM_014000	NP_054706			vinculin isoform meta-VCL						adherens junction assembly|apical junction assembly|cell-matrix adhesion|cellular component movement|epithelial cell-cell adhesion|lamellipodium assembly|morphogenesis of an epithelium|muscle contraction|negative regulation of cell migration|platelet activation|platelet degranulation|protein localization at cell surface	costamere|cytosol|extracellular region|focal adhesion	actin binding|alpha-catenin binding|beta-catenin binding|beta-dystroglycan binding|cadherin binding|structural molecule activity		VCL/ALK(4)	kidney(4)|ovary(1)|central_nervous_system(1)	6	Prostate(51;0.0112)																	---	---	---	---
VCL	7414	broad.mit.edu	37	10	75860952	75860952	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75860952delA	uc001jwd.2	+						VCL_uc009xrr.2_Intron|VCL_uc010qky.1_Intron|VCL_uc001jwe.2_Intron|VCL_uc010qkz.1_Intron	NM_014000	NP_054706			vinculin isoform meta-VCL						adherens junction assembly|apical junction assembly|cell-matrix adhesion|cellular component movement|epithelial cell-cell adhesion|lamellipodium assembly|morphogenesis of an epithelium|muscle contraction|negative regulation of cell migration|platelet activation|platelet degranulation|protein localization at cell surface	costamere|cytosol|extracellular region|focal adhesion	actin binding|alpha-catenin binding|beta-catenin binding|beta-dystroglycan binding|cadherin binding|structural molecule activity		VCL/ALK(4)	kidney(4)|ovary(1)|central_nervous_system(1)	6	Prostate(51;0.0112)																	---	---	---	---
ADK	132	broad.mit.edu	37	10	76119301	76119301	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:76119301delA	uc001jwi.2	+						ADK_uc010qlb.1_Intron|ADK_uc001jwj.2_Intron|ADK_uc010qlc.1_Intron	NM_006721	NP_006712			adenosine kinase isoform b						purine base metabolic process|purine ribonucleoside salvage	cytosol	adenosine kinase activity|ATP binding|metal ion binding|phosphotransferase activity, alcohol group as acceptor			ovary(1)|skin(1)	2	Prostate(51;0.0112)|Ovarian(15;0.148)				Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)|Pegademase bovine(DB00061)|Ribavirin(DB00811)													---	---	---	---
ADK	132	broad.mit.edu	37	10	76287741	76287741	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:76287741delA	uc001jwi.2	+						ADK_uc010qlb.1_Intron|ADK_uc001jwj.2_Intron|ADK_uc010qlc.1_Intron|ADK_uc001jwl.2_Intron	NM_006721	NP_006712			adenosine kinase isoform b						purine base metabolic process|purine ribonucleoside salvage	cytosol	adenosine kinase activity|ATP binding|metal ion binding|phosphotransferase activity, alcohol group as acceptor			ovary(1)|skin(1)	2	Prostate(51;0.0112)|Ovarian(15;0.148)				Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)|Pegademase bovine(DB00061)|Ribavirin(DB00811)													---	---	---	---
ADK	132	broad.mit.edu	37	10	76353234	76353234	+	Intron	DEL	A	-	-	rs66494464		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:76353234delA	uc001jwi.2	+						ADK_uc010qlb.1_Intron|ADK_uc001jwj.2_Intron|ADK_uc010qlc.1_Intron|ADK_uc001jwl.2_Intron	NM_006721	NP_006712			adenosine kinase isoform b						purine base metabolic process|purine ribonucleoside salvage	cytosol	adenosine kinase activity|ATP binding|metal ion binding|phosphotransferase activity, alcohol group as acceptor			ovary(1)|skin(1)	2	Prostate(51;0.0112)|Ovarian(15;0.148)				Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)|Pegademase bovine(DB00061)|Ribavirin(DB00811)													---	---	---	---
Unknown	0	broad.mit.edu	37	10	76496797	76496797	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:76496797delT								ADK (27738 upstream) : MYST4 (89582 downstream)																																			---	---	---	---
SAMD8	142891	broad.mit.edu	37	10	76903316	76903316	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:76903316delT	uc001jwx.1	+						SAMD8_uc001jwy.1_Intron	NM_144660	NP_653261			sterile alpha motif domain containing 8						sphingomyelin biosynthetic process	integral to membrane					0	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)																	---	---	---	---
Unknown	0	broad.mit.edu	37	10	77206958	77206958	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:77206958delA								C10orf41 (38219 upstream) : MIR606 (105258 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	77274074	77274075	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:77274074_77274075delTT								C10orf41 (105335 upstream) : MIR606 (38141 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	77451539	77451539	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:77451539delT								MIR606 (139228 upstream) : C10orf11 (90980 downstream)																																			---	---	---	---
C10orf11	83938	broad.mit.edu	37	10	77768159	77768159	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:77768159delT	uc001jxi.2	+							NM_032024	NP_114413			chromosome 10 open reading frame 11												0	Prostate(51;0.0095)|all_epithelial(25;0.0221)																	---	---	---	---
C10orf11	83938	broad.mit.edu	37	10	77769082	77769083	+	Intron	INS	-	AA	AA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:77769082_77769083insAA	uc001jxi.2	+							NM_032024	NP_114413			chromosome 10 open reading frame 11												0	Prostate(51;0.0095)|all_epithelial(25;0.0221)																	---	---	---	---
C10orf11	83938	broad.mit.edu	37	10	78135759	78135759	+	Intron	DEL	G	-	-	rs74710361		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:78135759delG	uc001jxi.2	+							NM_032024	NP_114413			chromosome 10 open reading frame 11												0	Prostate(51;0.0095)|all_epithelial(25;0.0221)																	---	---	---	---
KCNMA1	3778	broad.mit.edu	37	10	78644651	78644651	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:78644651delT	uc001jxn.2	-	28					KCNMA1_uc001jxj.2_Intron|KCNMA1_uc001jxk.1_Intron|KCNMA1_uc009xrt.1_Intron|KCNMA1_uc001jxl.1_Intron|KCNMA1_uc001jxo.2_3'UTR|KCNMA1_uc001jxm.2_3'UTR|KCNMA1_uc001jxq.2_3'UTR	NM_001161352	NP_001154824			large conductance calcium-activated potassium						cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)													---	---	---	---
Unknown	0	broad.mit.edu	37	10	79445543	79445543	+	IGR	DEL	A	-	-	rs150928294	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:79445543delA								KCNMA1 (47966 upstream) : DLG5 (105008 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	80405831	80405831	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:80405831delA								RPS24 (589261 upstream) : LOC283050 (297253 downstream)																																			---	---	---	---
ZMIZ1	57178	broad.mit.edu	37	10	80928151	80928151	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:80928151delT	uc001kaf.2	+						ZMIZ1_uc001kae.2_Intron	NM_020338	NP_065071			retinoic acid induced 17						transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)															---	---	---	---
Unknown	0	broad.mit.edu	37	10	81116481	81116481	+	IGR	DEL	A	-	-	rs148936851	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:81116481delA								PPIF (1397 upstream) : ZCCHC24 (25604 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	81612871	81612871	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:81612871delT								LOC650623 (164223 upstream) : MBL1P (51783 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	82028768	82028768	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:82028768delA								ANXA11 (63335 upstream) : MAT1A (2809 downstream)																																			---	---	---	---
TSPAN14	81619	broad.mit.edu	37	10	82216014	82216014	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:82216014delG	uc001kcj.3	+						TSPAN14_uc009xss.2_Intron|TSPAN14_uc001kci.3_Intron	NM_030927	NP_112189			tetraspanin 14 isoform 1							integral to membrane				ovary(1)|central_nervous_system(1)	2			Colorectal(32;0.229)															---	---	---	---
SH2D4B	387694	broad.mit.edu	37	10	82339454	82339455	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:82339454_82339455delTT	uc001kck.1	+						SH2D4B_uc001kcl.1_Intron	NM_207372	NP_997255			SH2 domain containing 4B isoform 1												0			Colorectal(32;0.229)															---	---	---	---
Unknown	0	broad.mit.edu	37	10	82737208	82737208	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:82737208delT								SH2D4B (330892 upstream) : NRG3 (897862 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	82934182	82934185	+	IGR	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:82934182_82934185delTTTT								SH2D4B (527866 upstream) : NRG3 (700885 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	83575629	83575629	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:83575629delA								None (None upstream) : NRG3 (59441 downstream)																																			---	---	---	---
NRG3	10718	broad.mit.edu	37	10	83743442	83743442	+	Intron	DEL	T	-	-	rs10883997	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:83743442delT	uc001kco.2	+						NRG3_uc010qlz.1_Intron|NRG3_uc001kcp.2_Intron|NRG3_uc001kcq.2_Intron	NM_001010848	NP_001010848			neuregulin 3 isoform 1						regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)														---	---	---	---
NRG3	10718	broad.mit.edu	37	10	83812132	83812133	+	Intron	INS	-	TATGTATTGTTTA	TATGTATTGTTTA	rs138918172	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:83812132_83812133insTATGTATTGTTTA	uc001kco.2	+						NRG3_uc010qlz.1_Intron|NRG3_uc001kcp.2_Intron|NRG3_uc001kcq.2_Intron	NM_001010848	NP_001010848			neuregulin 3 isoform 1						regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)														---	---	---	---
NRG3	10718	broad.mit.edu	37	10	84091356	84091357	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:84091356_84091357insA	uc001kco.2	+						NRG3_uc010qlz.1_Intron|NRG3_uc001kcp.2_Intron|NRG3_uc001kcq.2_Intron	NM_001010848	NP_001010848			neuregulin 3 isoform 1						regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)														---	---	---	---
NRG3	10718	broad.mit.edu	37	10	84710755	84710757	+	Intron	DEL	TAG	-	-	rs67733928		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:84710755_84710757delTAG	uc001kco.2	+						NRG3_uc010qlz.1_Intron|NRG3_uc001kcp.2_Intron|NRG3_uc001kcq.2_Intron|NRG3_uc001kcr.2_Intron	NM_001010848	NP_001010848			neuregulin 3 isoform 1						regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	84755031	84755032	+	IGR	DEL	AA	-	-	rs138218696		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:84755031_84755032delAA								NRG3 (8096 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	85004964	85004964	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:85004964delA								NRG3 (258029 upstream) : GHITM (894221 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	85390075	85390075	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:85390075delA								NRG3 (643140 upstream) : GHITM (509110 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	85484270	85484270	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:85484270delA								NRG3 (737335 upstream) : GHITM (414915 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	86666098	86666098	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:86666098delT								FAM190B (387822 upstream) : GRID1 (693214 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	87345405	87345405	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:87345405delA	uc001kdk.1	+											Homo sapiens cDNA FLJ40336 fis, clone TESTI2031986.																														---	---	---	---
GRID1	2894	broad.mit.edu	37	10	87602720	87602720	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:87602720delA	uc001kdl.1	-						GRID1_uc009xsu.1_Intron	NM_017551	NP_060021			glutamate receptor, ionotropic, delta 1							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)			---	---	---	---
GRID1	2894	broad.mit.edu	37	10	88084535	88084535	+	Intron	DEL	A	-	-	rs72130910		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:88084535delA	uc001kdl.1	-						GRID1_uc009xsu.1_Intron	NM_017551	NP_060021			glutamate receptor, ionotropic, delta 1							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)			---	---	---	---
AGAP11	119385	broad.mit.edu	37	10	88753100	88753100	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:88753100delT	uc001kee.2	+						AGAP11_uc001kef.2_5'Flank	NM_133447	NP_597704			ankyrin repeat and GTPase domain Arf GTPase						regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0																		---	---	---	---
AGAP11	119385	broad.mit.edu	37	10	88767404	88767404	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:88767404delT	uc001kee.2	+						AGAP11_uc001kef.2_Intron	NM_133447	NP_597704			ankyrin repeat and GTPase domain Arf GTPase						regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0																		---	---	---	---
ATAD1	84896	broad.mit.edu	37	10	89516705	89516705	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:89516705delA	uc001key.1	-						ATAD1_uc010qmr.1_Intron|ATAD1_uc009xth.1_Intron|ATAD1_uc001kez.1_Intron	NM_032810	NP_116199			ATPase family, AAA domain containing 1							peroxisome	ATP binding|nucleoside-triphosphatase activity			large_intestine(1)|ovary(1)	2		all_cancers(4;6.78e-12)|Prostate(4;3.56e-12)|all_epithelial(4;5.58e-09)|Melanoma(5;0.0273)|Breast(4;0.0424)|all_hematologic(4;0.0846)|Colorectal(252;0.207)|Glioma(4;0.217)|all_neural(4;0.224)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00131)|GBM - Glioblastoma multiforme(1;1.1e-32)|Lung(2;1.4e-05)|LUSC - Lung squamous cell carcinoma(2;2.69e-05)|Colorectal(12;7.09e-05)|COAD - Colon adenocarcinoma(12;0.000261)|STAD - Stomach adenocarcinoma(243;0.235)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	89609077	89609077	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:89609077delT								CFLP1 (3712 upstream) : KILLIN (9842 downstream)																																			---	---	---	---
PTEN	5728	broad.mit.edu	37	10	89676988	89676988	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:89676988delT	uc001kfb.2	+							NM_000314	NP_000305			phosphatase and tensin homolog						activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.Y27fs*1(2)|p.?(2)|p.V54fs*29(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)			31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			---	---	---	---
Unknown	0	broad.mit.edu	37	10	89779355	89779356	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:89779355_89779356delCT								PTEN (50824 upstream) : RNLS (112701 downstream)																																			---	---	---	---
RNLS	55328	broad.mit.edu	37	10	90171280	90171282	+	Intron	DEL	TTT	-	-	rs75886450		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:90171280_90171282delTTT	uc001kfe.2	-						RNLS_uc010qms.1_Intron|RNLS_uc001kfd.2_Intron|RNLS_uc009xtj.2_Intron	NM_001031709	NP_001026879			renalase isoform 1							extracellular region	oxidoreductase activity			ovary(1)	1																		---	---	---	---
LIPJ	142910	broad.mit.edu	37	10	90345387	90345387	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:90345387delT	uc001kff.2	+						RNLS_uc010qms.1_5'Flank|RNLS_uc001kfd.2_5'Flank|RNLS_uc001kfe.2_5'Flank	NM_001010939	NP_001010939			lipase, family member J						lipid catabolic process		hydrolase activity			ovary(1)	1		all_cancers(4;2.79e-10)|Prostate(4;1.68e-15)|all_epithelial(4;1.43e-09)|Colorectal(252;0.0381)|Breast(4;0.141)|Melanoma(5;0.2)|all_hematologic(4;0.222)		Colorectal(12;1.02e-05)|COAD - Colon adenocarcinoma(12;1.54e-05)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	92107722	92107722	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:92107722delA								KIF20B (573022 upstream) : HTR7 (392856 downstream)																																			---	---	---	---
PCGF5	84333	broad.mit.edu	37	10	92920395	92920395	+	5'Flank	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:92920395delG	uc001khh.2	+						PCGF5_uc001khg.2_5'Flank	NM_032373	NP_115749			polycomb group ring finger 5						regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|PcG protein complex	zinc ion binding			lung(1)	1																		---	---	---	---
TNKS2	80351	broad.mit.edu	37	10	93600113	93600113	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93600113delA	uc001khp.2	+							NM_025235	NP_079511			tankyrase, TRF1-interacting ankyrin-related						positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)																---	---	---	---
FGFBP3	143282	broad.mit.edu	37	10	93666831	93666831	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93666831delA	uc001khq.3	-	2						NM_152429	NP_689642			fibroblast growth factor binding protein 3						positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of vascular permeability	extracellular region	fibroblast growth factor binding|heparin binding				0		Colorectal(252;0.162)																---	---	---	---
BTAF1	9044	broad.mit.edu	37	10	93711714	93711714	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93711714delT	uc001khr.2	+						BTAF1_uc009xua.1_Intron	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)																---	---	---	---
BTAF1	9044	broad.mit.edu	37	10	93741816	93741816	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93741816delT	uc001khr.2	+						BTAF1_uc001khs.1_Intron|BTAF1_uc001kht.1_Intron	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)																---	---	---	---
BTAF1	9044	broad.mit.edu	37	10	93749440	93749440	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93749440delT	uc001khr.2	+						BTAF1_uc001kht.1_Intron	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)																---	---	---	---
CPEB3	22849	broad.mit.edu	37	10	93814049	93814049	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93814049delA	uc001khw.1	-						CPEB3_uc001khu.1_Intron|CPEB3_uc001khv.1_Intron|CPEB3_uc010qnn.1_Intron	NM_014912	NP_055727			cytoplasmic polyadenylation element binding								nucleotide binding|RNA binding				0		Colorectal(252;0.0869)																---	---	---	---
CPEB3	22849	broad.mit.edu	37	10	93974246	93974246	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93974246delT	uc001khw.1	-						CPEB3_uc001khu.1_Intron|CPEB3_uc001khv.1_Intron|CPEB3_uc010qnn.1_Intron	NM_014912	NP_055727			cytoplasmic polyadenylation element binding								nucleotide binding|RNA binding				0		Colorectal(252;0.0869)																---	---	---	---
CPEB3	22849	broad.mit.edu	37	10	94021217	94021217	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:94021217delT	uc001khw.1	-						CPEB3_uc010qnn.1_Intron	NM_014912	NP_055727			cytoplasmic polyadenylation element binding								nucleotide binding|RNA binding				0		Colorectal(252;0.0869)																---	---	---	---
CPEB3	22849	broad.mit.edu	37	10	94042442	94042442	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:94042442delA	uc001khw.1	-						CPEB3_uc010qnn.1_Intron	NM_014912	NP_055727			cytoplasmic polyadenylation element binding								nucleotide binding|RNA binding				0		Colorectal(252;0.0869)																---	---	---	---
Unknown	0	broad.mit.edu	37	10	94140288	94140288	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:94140288delA								MARCH5 (26567 upstream) : IDE (73312 downstream)																																			---	---	---	---
IDE	3416	broad.mit.edu	37	10	94314613	94314613	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:94314613delA	uc001kia.2	-							NM_004969	NP_004960			insulin-degrading enzyme isoform 1 precursor						beta-amyloid metabolic process|bradykinin catabolic process|interspecies interaction between organisms|sex differentiation	cell surface|extracellular space|soluble fraction	ATP binding|metalloendopeptidase activity|protein homodimerization activity|signal transducer activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3					Bacitracin(DB00626)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)													---	---	---	---
Unknown	0	broad.mit.edu	37	10	94510695	94510695	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:94510695delT								HHEX (55289 upstream) : EXOC6 (80240 downstream)																																			---	---	---	---
EXOC6	54536	broad.mit.edu	37	10	94628573	94628573	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:94628573delT	uc001kig.2	+						EXOC6_uc010qnr.1_Intron|EXOC6_uc001kie.2_Intron|EXOC6_uc001kif.3_Intron|EXOC6_uc009xub.2_Intron|EXOC6_uc009xuc.2_Intron	NM_019053	NP_061926			SEC15-like 1 isoform a						protein transport|vesicle docking involved in exocytosis	exocyst				skin(1)	1		Colorectal(252;0.123)																---	---	---	---
EXOC6	54536	broad.mit.edu	37	10	94675429	94675429	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:94675429delA	uc001kig.2	+						EXOC6_uc010qnr.1_Intron|EXOC6_uc001kie.2_Intron|EXOC6_uc009xub.2_Intron|EXOC6_uc009xuc.2_Intron	NM_019053	NP_061926			SEC15-like 1 isoform a						protein transport|vesicle docking involved in exocytosis	exocyst				skin(1)	1		Colorectal(252;0.123)																---	---	---	---
Unknown	0	broad.mit.edu	37	10	94966400	94966400	+	IGR	DEL	T	-	-	rs113410593		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:94966400delT								CYP26A1 (128759 upstream) : MYOF (99787 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	94968105	94968105	+	IGR	DEL	T	-	-	rs76646378		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:94968105delT								CYP26A1 (130464 upstream) : MYOF (98082 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	95059458	95059458	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:95059458delT								CYP26A1 (221817 upstream) : MYOF (6729 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	95291876	95291876	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:95291876delA								CEP55 (3029 upstream) : GPR120 (34546 downstream)																																			---	---	---	---
PLCE1	51196	broad.mit.edu	37	10	95944604	95944604	+	Intron	DEL	T	-	-	rs111370666		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:95944604delT	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)																---	---	---	---
TBC1D12	23232	broad.mit.edu	37	10	96186345	96186345	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96186345delT	uc001kjr.2	+							NM_015188	NP_056003			TBC1 domain family, member 12							intracellular	Rab GTPase activator activity				0		Colorectal(252;0.0429)																---	---	---	---
TBC1D12	23232	broad.mit.edu	37	10	96193707	96193707	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96193707delA	uc001kjr.2	+							NM_015188	NP_056003			TBC1 domain family, member 12							intracellular	Rab GTPase activator activity				0		Colorectal(252;0.0429)																---	---	---	---
HELLS	3070	broad.mit.edu	37	10	96313731	96313731	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96313731delT	uc001kjt.2	+						HELLS_uc001kjs.2_Intron|HELLS_uc009xul.2_Intron|HELLS_uc009xum.2_Intron|HELLS_uc009xun.2_Intron|HELLS_uc009xuo.2_Intron|HELLS_uc001kju.2_Intron|HELLS_uc009xup.2_Intron|HELLS_uc009xuq.2_Intron|HELLS_uc009xur.2_Intron	NM_018063	NP_060533			helicase, lymphoid-specific						cell division|centromeric heterochromatin formation|lymphocyte proliferation|maintenance of DNA methylation|methylation-dependent chromatin silencing|mitosis|transcription, DNA-dependent	centromeric heterochromatin|nucleus	ATP binding|DNA binding|helicase activity			ovary(1)|kidney(1)	2		Colorectal(252;0.0429)		all cancers(201;2.13e-05)														---	---	---	---
CYP2C18	1562	broad.mit.edu	37	10	96481580	96481581	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96481580_96481581delGT	uc001kjv.3	+						CYP2C18_uc001kjw.3_Intron|CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Intron	NM_000772	NP_000763			cytochrome P450 family 2 subfamily C polypeptide						xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(3)|lung(1)|skin(1)	5		Colorectal(252;0.09)		all cancers(201;2.8e-06)|KIRC - Kidney renal clear cell carcinoma(50;0.0646)|Kidney(138;0.0805)														---	---	---	---
CYP2C18	1562	broad.mit.edu	37	10	96487381	96487381	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96487381delA	uc001kjv.3	+						CYP2C18_uc001kjw.3_Intron|CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Intron	NM_000772	NP_000763			cytochrome P450 family 2 subfamily C polypeptide						xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(3)|lung(1)|skin(1)	5		Colorectal(252;0.09)		all cancers(201;2.8e-06)|KIRC - Kidney renal clear cell carcinoma(50;0.0646)|Kidney(138;0.0805)														---	---	---	---
PDLIM1	9124	broad.mit.edu	37	10	97000754	97000755	+	Intron	INS	-	TT	TT	rs143658142	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:97000754_97000755insTT	uc001kkh.2	-						PDLIM1_uc001kki.2_Intron|PDLIM1_uc009xuv.2_Intron|PDLIM1_uc001kkj.1_Intron	NM_020992	NP_066272			PDZ and LIM domain 1						response to oxidative stress	cytoplasm|cytoskeleton	zinc ion binding				0		Colorectal(252;0.083)		Epithelial(162;1.64e-06)|all cancers(201;3.71e-05)														---	---	---	---
SORBS1	10580	broad.mit.edu	37	10	97131604	97131605	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:97131604_97131605delAA	uc001kkp.2	-						SORBS1_uc001kkk.2_Intron|SORBS1_uc001kkl.2_Intron|SORBS1_uc001kkn.2_Intron|SORBS1_uc001kkm.2_Intron|SORBS1_uc001kko.2_Intron|SORBS1_uc001kkq.2_Intron|SORBS1_uc001kkr.2_Intron|SORBS1_uc001kks.2_Intron|SORBS1_uc001kkt.2_Intron|SORBS1_uc001kku.2_Intron|SORBS1_uc001kkv.2_Intron|SORBS1_uc001kkw.2_Intron|SORBS1_uc010qoe.1_Intron|SORBS1_uc010qof.1_Intron	NM_001034954	NP_001030126			sorbin and SH3 domain containing 1 isoform 3						focal adhesion assembly|glucose transport|insulin receptor signaling pathway|muscle contraction|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|stress fiber assembly	centrosome|cytosol|focal adhesion|membrane raft|nucleus|stress fiber|zonula adherens	actin binding|insulin receptor binding|SH3/SH2 adaptor activity			breast(1)	1		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)														---	---	---	---
TCTN3	26123	broad.mit.edu	37	10	97442991	97442991	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:97442991delA	uc001klb.3	-						TCTN3_uc001kla.3_Intron|TCTN3_uc010qoi.1_Intron	NM_015631	NP_056446			tectonic 3 isoform a precursor						apoptosis	integral to membrane					0		Colorectal(252;0.0815)		Epithelial(162;1.69e-07)|all cancers(201;5.63e-06)														---	---	---	---
ENTPD1	953	broad.mit.edu	37	10	97516048	97516048	+	Intron	DEL	A	-	-	rs76946264		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:97516048delA	uc001klh.3	+						ENTPD1_uc001kle.1_Intron|ENTPD1_uc001kli.3_Intron|uc001klg.1_RNA|ENTPD1_uc010qoj.1_Intron|ENTPD1_uc010qok.1_Intron|ENTPD1_uc010qol.1_Intron|ENTPD1_uc010qom.1_Intron|ENTPD1_uc010qon.1_Intron|ENTPD1_uc009xva.2_Intron|ENTPD1_uc009xuz.2_Intron	NM_001776	NP_001767			ectonucleoside triphosphate diphosphohydrolase 1						cell adhesion	integral to plasma membrane	ATP binding			ovary(3)	3		Colorectal(252;0.0821)		Epithelial(162;1.31e-07)|all cancers(201;5.33e-06)														---	---	---	---
BLNK	29760	broad.mit.edu	37	10	97974311	97974311	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:97974311delA	uc001kls.3	-						BLNK_uc001kme.3_Intron|BLNK_uc001klt.3_Intron|BLNK_uc009xvc.2_Intron|BLNK_uc001klu.3_Intron|BLNK_uc001klv.3_Intron|BLNK_uc001klw.3_Intron|BLNK_uc001klx.3_Intron|BLNK_uc001kly.3_Intron|BLNK_uc001klz.3_Intron|BLNK_uc001kma.3_Intron|BLNK_uc001kmb.3_Intron|BLNK_uc001kmc.3_Intron|BLNK_uc001kmd.3_Intron|BLNK_uc009xvd.2_Intron	NM_013314	NP_037446			B-cell linker isoform 1						B cell differentiation|humoral immune response|inflammatory response|intracellular signal transduction	cytoplasm|plasma membrane	SH3/SH2 adaptor activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(2)	2		Colorectal(252;0.083)		Epithelial(162;7.89e-08)|all cancers(201;2.27e-06)														---	---	---	---
BLNK	29760	broad.mit.edu	37	10	97988023	97988023	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:97988023delT	uc001kls.3	-						BLNK_uc001kme.3_Intron|BLNK_uc001klt.3_Intron|BLNK_uc009xvc.2_Intron|BLNK_uc001klu.3_Intron|BLNK_uc001klv.3_Intron|BLNK_uc001klw.3_Intron|BLNK_uc001klx.3_Intron|BLNK_uc001kly.3_Intron|BLNK_uc001klz.3_Intron|BLNK_uc001kma.3_Intron|BLNK_uc001kmb.3_Intron|BLNK_uc001kmc.3_Intron|BLNK_uc001kmd.3_Intron|BLNK_uc009xvd.2_Intron	NM_013314	NP_037446			B-cell linker isoform 1						B cell differentiation|humoral immune response|inflammatory response|intracellular signal transduction	cytoplasm|plasma membrane	SH3/SH2 adaptor activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(2)	2		Colorectal(252;0.083)		Epithelial(162;7.89e-08)|all cancers(201;2.27e-06)														---	---	---	---
TLL2	7093	broad.mit.edu	37	10	98274478	98274479	+	5'Flank	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:98274478_98274479delTT	uc001kml.1	-						TLL2_uc009xvf.1_5'Flank	NM_012465	NP_036597			tolloid-like 2 precursor						cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	98536571	98536571	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:98536571delT								PIK3AP1 (56292 upstream) : MIR607 (51855 downstream)																																			---	---	---	---
SLIT1	6585	broad.mit.edu	37	10	98811287	98811288	+	Intron	INS	-	GTTG	GTTG	rs151163317	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:98811287_98811288insGTTG	uc001kmw.2	-						SLIT1_uc009xvh.1_Intron	NM_003061	NP_003052			slit homolog 1 precursor						axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)														---	---	---	---
SLIT1	6585	broad.mit.edu	37	10	98855046	98855046	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:98855046delA	uc001kmw.2	-						SLIT1_uc009xvh.1_Intron	NM_003061	NP_003052			slit homolog 1 precursor						axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	99071101	99071101	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:99071101delA								ARHGAP19 (18688 upstream) : FRAT1 (7921 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	99100912	99100912	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:99100912delA								FRAT2 (6454 upstream) : RRP12 (15547 downstream)																																			---	---	---	---
EXOSC1	51013	broad.mit.edu	37	10	99197683	99197683	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:99197683delT	uc001kni.2	-						EXOSC1_uc009xvp.1_Intron	NM_016046	NP_057130			exosomal core protein CSL4						exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	protein binding|RNA binding				0		Renal(717;0.000147)|Colorectal(252;0.00205)|Ovarian(717;0.00965)		all cancers(201;8.29e-42)|Epithelial(162;5.7e-33)|BRCA - Breast invasive adenocarcinoma(275;0.000315)|Kidney(138;0.000832)|KIRC - Kidney renal clear cell carcinoma(50;0.00269)|STAD - Stomach adenocarcinoma(243;0.202)														---	---	---	---
MMS19	64210	broad.mit.edu	37	10	99225437	99225437	+	Intron	DEL	T	-	-	rs79374790		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:99225437delT	uc001kns.3	-						MMS19_uc009xvs.2_Intron|MMS19_uc009xvt.2_Intron|MMS19_uc001knr.2_Intron|MMS19_uc010qox.1_Intron|MMS19_uc001knt.2_Intron|MMS19_uc001knu.1_Intron	NM_022362	NP_071757			MMS19 nucleotide excision repair homolog						chromosome segregation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|response to hormone stimulus|transcription, DNA-dependent|two-component signal transduction system (phosphorelay)	cytoplasm|holo TFIIH complex|MMXD complex	estrogen receptor binding|protein binding, bridging|receptor signaling complex scaffold activity|transcription coactivator activity				0		Colorectal(252;0.0846)		Epithelial(162;3.33e-10)|all cancers(201;2.74e-08)									Direct_reversal_of_damage|NER					---	---	---	---
PI4K2A	55361	broad.mit.edu	37	10	99423274	99423275	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:99423274_99423275delTT	uc001kog.1	+						PI4K2A_uc010qoy.1_Intron|PI4K2A_uc009xvw.1_Intron	NM_018425	NP_060895			phosphatidylinositol 4-kinase type 2 alpha						phosphatidylinositol biosynthetic process	cytoplasm|integral to plasma membrane|membrane raft	1-phosphatidylinositol 4-kinase activity|ATP binding|magnesium ion binding			lung(1)|skin(1)	2		Colorectal(252;0.162)		Epithelial(162;1.24e-10)|all cancers(201;1.2e-08)														---	---	---	---
C10orf28	27291	broad.mit.edu	37	10	99973283	99973283	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:99973283delA	uc001kow.3	+						C10orf28_uc001kox.3_Intron|C10orf28_uc001koy.3_Intron|C10orf28_uc009xvx.2_Intron|C10orf28_uc009xvy.2_Intron|C10orf28_uc001koz.3_Intron	NM_014472	NP_055287			growth inhibition and differentiation related								nucleotide binding			large_intestine(1)|skin(1)	2		Colorectal(252;0.234)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)														---	---	---	---
HPSE2	60495	broad.mit.edu	37	10	100656967	100656967	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:100656967delA	uc001kpn.1	-						HPSE2_uc009xwc.1_Intron|HPSE2_uc001kpo.1_Intron|HPSE2_uc009xwd.1_Intron	NM_021828	NP_068600			heparanase 2						carbohydrate metabolic process	intracellular|membrane	cation binding|heparanase activity			ovary(1)	1				Epithelial(162;1.8e-09)|all cancers(201;4.72e-07)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	101219677	101219678	+	IGR	DEL	TT	-	-	rs72031969		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:101219677_101219678delTT								GOT1 (29147 upstream) : NKX2-3 (73012 downstream)																																			---	---	---	---
ENTPD7	57089	broad.mit.edu	37	10	101462505	101462505	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:101462505delT	uc001kqa.3	+						ENTPD7_uc009xwl.2_Intron	NM_020354	NP_065087			ectonucleoside triphosphate diphosphohydrolase							cytoplasmic vesicle membrane|integral to membrane	hydrolase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.75e-08)														---	---	---	---
DNMBP	23268	broad.mit.edu	37	10	101757991	101757992	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:101757991_101757992delAA	uc001kqj.2	-							NM_015221	NP_056036			dynamin binding protein						intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)														---	---	---	---
CWF19L1	55280	broad.mit.edu	37	10	102026103	102026103	+	Intron	DEL	T	-	-	rs113760762		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102026103delT	uc001kqq.1	-						CWF19L1_uc001kqs.1_Intron|CWF19L1_uc001kqr.1_Intron|CWF19L1_uc001kqt.1_Intron|CWF19L1_uc010qpn.1_Intron	NM_018294	NP_060764			CWF19-like 1, cell cycle control								catalytic activity				0		Colorectal(252;0.117)		Epithelial(162;3.78e-10)|all cancers(201;3.1e-08)														---	---	---	---
WNT8B	7479	broad.mit.edu	37	10	102222431	102222432	+	5'Flank	DEL	TG	-	-	rs71719062		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102222431_102222432delTG	uc001krb.2	+							NM_003393	NP_003384			wingless-type MMTV integration site family,						anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|determination of dorsal identity|endoderm development|eye development|gastrulation|hypothalamus development|negative regulation of anterior neural cell fate commitment of the neural plate by Wnt receptor signaling pathway|otic placode formation|positive regulation of gene expression|response to estradiol stimulus|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			ovary(1)|breast(1)|large_intestine(1)|skin(1)	4		Colorectal(252;0.117)		Epithelial(162;1.87e-10)|all cancers(201;1.64e-08)														---	---	---	---
HIF1AN	55662	broad.mit.edu	37	10	102306494	102306494	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102306494delT	uc001krj.3	+							NM_017902	NP_060372			hypoxia-inducible factor 1, alpha subunit						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|protein binding				0		Colorectal(252;0.234)		Epithelial(162;6.75e-10)|all cancers(201;4.88e-08)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	102325811	102325811	+	IGR	DEL	A	-	-	rs112399449		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102325811delA								HIF1AN (12131 upstream) : PAX2 (179657 downstream)																																			---	---	---	---
PAX2	5076	broad.mit.edu	37	10	102525542	102525543	+	Intron	DEL	AC	-	-	rs138007777		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102525542_102525543delAC	uc001krk.3	+						PAX2_uc001krl.3_Intron|PAX2_uc001krm.3_Intron|PAX2_uc001kro.3_Intron|PAX2_uc001krn.3_Intron|PAX2_uc010qps.1_Intron|PAX2_uc001krp.1_Intron	NM_003990	NP_003981			paired box protein 2 isoform e						anti-apoptosis|axonogenesis|brain morphogenesis|branching involved in ureteric bud morphogenesis|cell fate determination|cellular response to glucose stimulus|cellular response to hydrogen peroxide|cellular response to retinoic acid|cochlea development|glial cell differentiation|inner ear morphogenesis|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesodermal cell fate specification|mesonephros development|metanephric collecting duct development|metanephric distal convoluted tubule development|metanephric mesenchymal cell differentiation|metanephric nephron tubule formation|negative regulation of caspase activity|negative regulation of cytolysis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|negative regulation of reactive oxygen species metabolic process|negative regulation of transcription, DNA-dependent|nephric duct formation|neural tube closure|optic chiasma development|optic cup morphogenesis involved in camera-type eye development|optic nerve structural organization|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of metanephric glomerulus development|positive regulation of optic nerve formation|positive regulation of transcription from RNA polymerase II promoter|pronephric field specification|protein kinase B signaling cascade|reactive oxygen species metabolic process|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of metanephros size|retinal pigment epithelium development|stem cell differentiation|transcription from RNA polymerase II promoter|ureter maturation|vestibulocochlear nerve formation|visual perception	centriolar satellite|nucleus|protein complex|protein-DNA complex	core promoter proximal region sequence-specific DNA binding|superoxide-generating NADPH oxidase activity				0		Colorectal(252;0.234)		Epithelial(162;1.32e-08)|all cancers(201;7.32e-07)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	102638650	102638650	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102638650delA								PAX2 (48953 upstream) : FAM178A (33676 downstream)																																	OREG0020447	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
FAM178A	55719	broad.mit.edu	37	10	102723543	102723543	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102723543delT	uc001krt.3	+	20						NM_018121	NP_060591			hypothetical protein LOC55719 isoform 1												0																		---	---	---	---
SEMA4G	57715	broad.mit.edu	37	10	102734057	102734057	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102734057delA	uc010qpt.1	+						SEMA4G_uc001krv.2_Intron|SEMA4G_uc001krw.1_Intron|SEMA4G_uc001krx.2_Intron|MIR608_hsa-mir-608|MI0003621_5'Flank	NM_017893	NP_060363			semaphorin 4G						cell differentiation|nervous system development	integral to membrane	receptor activity			breast(1)	1		Colorectal(252;0.234)		Epithelial(162;3.71e-09)|all cancers(201;2.1e-07)														---	---	---	---
PDZD7	79955	broad.mit.edu	37	10	102782354	102782355	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102782354_102782355delTT	uc001kso.1	-						PDZD7_uc001ksn.2_Intron	NM_024895	NP_079171			PDZ domain containing 7							cilium|nucleus	protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3				Epithelial(162;6.98e-09)|all cancers(201;3.55e-07)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	102830366	102830366	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102830366delT								KAZALD1 (2480 upstream) : TLX1NB (18713 downstream)																																			---	---	---	---
C10orf76	79591	broad.mit.edu	37	10	103711625	103711626	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:103711625_103711626delAA	uc009xwy.1	-						C10orf76_uc009xwx.1_Intron	NM_024541	NP_078817			hypothetical protein LOC79591							integral to membrane					0		Colorectal(252;0.123)		Epithelial(162;2.41e-08)|all cancers(201;6.41e-07)														---	---	---	---
C10orf76	79591	broad.mit.edu	37	10	103766491	103766491	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:103766491delT	uc009xwy.1	-							NM_024541	NP_078817			hypothetical protein LOC79591							integral to membrane					0		Colorectal(252;0.123)		Epithelial(162;2.41e-08)|all cancers(201;6.41e-07)														---	---	---	---
C10orf76	79591	broad.mit.edu	37	10	103816388	103816389	+	5'Flank	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:103816388_103816389delTT	uc009xwy.1	-						C10orf76_uc001kui.2_5'Flank	NM_024541	NP_078817			hypothetical protein LOC79591							integral to membrane					0		Colorectal(252;0.123)		Epithelial(162;2.41e-08)|all cancers(201;6.41e-07)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	103883294	103883294	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:103883294delT								LDB1 (3084 upstream) : PPRC1 (9493 downstream)																																			---	---	---	---
SUFU	51684	broad.mit.edu	37	10	104314176	104314176	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104314176delA	uc001kvy.1	+						SUFU_uc001kvw.1_Intron|SUFU_uc001kvx.2_Intron	NM_016169	NP_057253			suppressor of fused						negative regulation of transcription from RNA polymerase II promoter|proteolysis|skeletal system development	cytoplasm|nucleus	identical protein binding|protein binding|signal transducer activity|transcription corepressor activity|transcription factor binding			central_nervous_system(4)|skin(2)|breast(1)	7		Colorectal(252;0.207)		Epithelial(162;1.36e-08)|all cancers(201;3.81e-07)|BRCA - Breast invasive adenocarcinoma(275;0.242)				D|F|S		medulloblastoma	medulloblastoma			Medulloblastoma_associated_with_Germline_SUFU_Mutation				---	---	---	---
ARL3	403	broad.mit.edu	37	10	104444843	104444843	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104444843delA	uc001kwa.2	-							NM_004311	NP_004302			ADP-ribosylation factor-like 3						cell cycle|cytokinesis|small GTPase mediated signal transduction	centrosome|cytoplasmic microtubule|Golgi membrane|midbody|nucleus|photoreceptor connecting cilium|spindle microtubule	GDP binding|GTP binding|metal ion binding|microtubule binding				0		Colorectal(252;0.122)		Epithelial(162;4.88e-09)|all cancers(201;1.29e-07)|BRCA - Breast invasive adenocarcinoma(275;0.22)														---	---	---	---
ARL3	403	broad.mit.edu	37	10	104449092	104449092	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104449092delA	uc001kwa.2	-							NM_004311	NP_004302			ADP-ribosylation factor-like 3						cell cycle|cytokinesis|small GTPase mediated signal transduction	centrosome|cytoplasmic microtubule|Golgi membrane|midbody|nucleus|photoreceptor connecting cilium|spindle microtubule	GDP binding|GTP binding|metal ion binding|microtubule binding				0		Colorectal(252;0.122)		Epithelial(162;4.88e-09)|all cancers(201;1.29e-07)|BRCA - Breast invasive adenocarcinoma(275;0.22)														---	---	---	---
NT5C2	22978	broad.mit.edu	37	10	104883049	104883049	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104883049delT	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)													---	---	---	---
NT5C2	22978	broad.mit.edu	37	10	104924016	104924016	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104924016delT	uc001kwo.2	-						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)													---	---	---	---
NT5C2	22978	broad.mit.edu	37	10	104951176	104951176	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104951176delA	uc001kwo.2	-						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)													---	---	---	---
CALHM2	51063	broad.mit.edu	37	10	105208932	105208932	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105208932delA	uc001kwz.2	-						CALHM2_uc001kxa.2_Intron|CALHM2_uc001kxc.2_Intron|CALHM2_uc001kxb.2_Intron|CALHM2_uc001kxd.1_3'UTR	NM_015916	NP_057000			calcium homeostasis modulator 2							integral to membrane				skin(1)	1																		---	---	---	---
CALHM3	119395	broad.mit.edu	37	10	105234167	105234167	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105234167delC	uc001kxg.3	-							NM_001129742	NP_001123214			calcium homeostasis modulator 3							integral to membrane				large_intestine(1)	1																		---	---	---	---
NEURL	9148	broad.mit.edu	37	10	105298409	105298410	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105298409_105298410delTT	uc001kxh.2	+							NM_004210	NP_004201			neuralized-like						nervous system development	perinuclear region of cytoplasm	zinc ion binding				0				Epithelial(162;2.12e-09)|all cancers(201;6.99e-08)|BRCA - Breast invasive adenocarcinoma(275;0.125)														---	---	---	---
SH3PXD2A	9644	broad.mit.edu	37	10	105493686	105493686	+	Intron	DEL	T	-	-	rs112806805		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105493686delT	uc001kxj.1	-						SH3PXD2A_uc010qqu.1_Intron	NM_014631	NP_055446			SH3 multiple domains 1						cell communication|superoxide metabolic process	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol binding|protein binding				0		Colorectal(252;0.0815)|Breast(234;0.131)		Epithelial(162;4.09e-10)|all cancers(201;2.73e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0119)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	105620239	105620239	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105620239delT								SH3PXD2A (5075 upstream) : OBFC1 (17081 downstream)																																			---	---	---	---
SLK	9748	broad.mit.edu	37	10	105785193	105785193	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105785193delA	uc001kxo.1	+						SLK_uc001kxp.1_Intron	NM_014720	NP_055535			serine/threonine kinase 2						apoptosis|nucleotide-excision repair	cytoplasm|plasma membrane	ATP binding|DNA binding|nuclease activity|protein serine/threonine kinase activity			ovary(2)|stomach(2)|skin(2)|lung(1)|kidney(1)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)														---	---	---	---
C10orf79	80217	broad.mit.edu	37	10	105956696	105956696	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105956696delA	uc001kxw.2	-						C10orf79_uc001kxx.3_Intron|C10orf79_uc001kxy.1_Intron	NM_025145	NP_079421			hypothetical protein LOC80217												0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)														---	---	---	---
GSTO1	9446	broad.mit.edu	37	10	106016852	106016852	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:106016852delT	uc001kya.2	+							NM_004832	NP_004823			glutathione-S-transferase omega 1						xenobiotic metabolic process	cytosol	glutathione transferase activity|monodehydroascorbate reductase (NADH) activity				0		Colorectal(252;0.102)|Breast(234;0.122)		Epithelial(162;8.07e-10)|all cancers(201;2.72e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0147)	Glutathione(DB00143)													---	---	---	---
Unknown	0	broad.mit.edu	37	10	106059240	106059241	+	5'Flank	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:106059240_106059241delTC	uc001kyd.1	+											Homo sapiens cDNA FLJ37540 fis, clone BRCAN2026117.																														---	---	---	---
SORCS3	22986	broad.mit.edu	37	10	106913404	106913407	+	Intron	DEL	TGTG	-	-	rs113719434		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:106913404_106913407delTGTG	uc001kyi.1	+							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)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	107298766	107298767	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:107298766_107298767insG								SORCS3 (273773 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	107965823	107965823	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:107965823delA								SORCS3 (940830 upstream) : SORCS1 (367599 downstream)																																			---	---	---	---
SORCS1	114815	broad.mit.edu	37	10	108390607	108390608	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:108390607_108390608delAA	uc001kym.2	-						SORCS1_uc001kyl.2_Intron|SORCS1_uc009xxs.2_Intron|SORCS1_uc001kyn.1_Intron|SORCS1_uc001kyo.2_Intron	NM_052918	NP_443150			SORCS receptor 1 isoform a							integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)														---	---	---	---
SORCS1	114815	broad.mit.edu	37	10	108448119	108448119	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:108448119delA	uc001kym.2	-						SORCS1_uc001kyl.2_Intron|SORCS1_uc009xxs.2_Intron|SORCS1_uc001kyn.1_Intron|SORCS1_uc001kyo.2_Intron	NM_052918	NP_443150			SORCS receptor 1 isoform a							integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)														---	---	---	---
SORCS1	114815	broad.mit.edu	37	10	108515367	108515367	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:108515367delT	uc001kym.2	-						SORCS1_uc001kyl.2_Intron|SORCS1_uc009xxs.2_Intron|SORCS1_uc001kyn.1_Intron|SORCS1_uc001kyo.2_Intron	NM_052918	NP_443150			SORCS receptor 1 isoform a							integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)														---	---	---	---
SORCS1	114815	broad.mit.edu	37	10	108533707	108533707	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:108533707delA	uc001kym.2	-						SORCS1_uc001kyl.2_Intron|SORCS1_uc009xxs.2_Intron|SORCS1_uc001kyn.1_Intron|SORCS1_uc001kyo.2_Intron	NM_052918	NP_443150			SORCS receptor 1 isoform a							integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)														---	---	---	---
SORCS1	114815	broad.mit.edu	37	10	108622252	108622252	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:108622252delT	uc001kym.2	-						SORCS1_uc001kyl.2_Intron|SORCS1_uc009xxs.2_Intron|SORCS1_uc001kyn.1_Intron|SORCS1_uc001kyo.2_Intron	NM_052918	NP_443150			SORCS receptor 1 isoform a							integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	109118596	109118596	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:109118596delT								SORCS1 (194304 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	109675684	109675685	+	IGR	DEL	CT	-	-	rs71029083		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:109675684_109675685delCT								SORCS1 (751392 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	110232123	110232123	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:110232123delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	110371180	110371181	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:110371180_110371181delAA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	111088311	111088311	+	IGR	DEL	T	-	-	rs74374455		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:111088311delT								None (None upstream) : XPNPEP1 (536213 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	111396094	111396094	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:111396094delA								None (None upstream) : XPNPEP1 (228430 downstream)																																			---	---	---	---
XPNPEP1	7511	broad.mit.edu	37	10	111645141	111645141	+	Intron	DEL	T	-	-	rs10587314		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:111645141delT	uc001kyp.1	-						XPNPEP1_uc009xxt.1_Intron|XPNPEP1_uc001kyq.1_Intron|XPNPEP1_uc010qrb.1_Intron|XPNPEP1_uc010qra.1_5'Flank	NM_020383	NP_065116			X-prolyl aminopeptidase (aminopeptidase P) 1,						bradykinin catabolic process|proteolysis		manganese ion binding|metalloaminopeptidase activity|protein homodimerization activity			ovary(3)|pancreas(1)	4		Breast(234;0.174)		Epithelial(162;1.64e-05)|all cancers(201;0.000564)|BRCA - Breast invasive adenocarcinoma(275;0.0721)														---	---	---	---
ADD3	120	broad.mit.edu	37	10	111761474	111761474	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:111761474delA	uc001kyt.3	+						uc001kyr.1_Intron	NM_016824	NP_058432			adducin 3 (gamma) isoform a							cytoskeleton	actin binding|calmodulin binding|metal ion binding|structural constituent of cytoskeleton			ovary(2)|skin(2)|large_intestine(1)	5		Breast(234;0.052)|Lung NSC(174;0.223)		Epithelial(162;4.15e-05)|all cancers(201;0.000587)|BRCA - Breast invasive adenocarcinoma(275;0.0742)														---	---	---	---
ADD3	120	broad.mit.edu	37	10	111882229	111882229	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:111882229delT	uc001kyt.3	+						ADD3_uc001kys.3_Intron|ADD3_uc001kyu.2_Intron|ADD3_uc001kyv.2_Intron|ADD3_uc001kyw.2_Intron|ADD3_uc001kyx.2_5'Flank	NM_016824	NP_058432			adducin 3 (gamma) isoform a							cytoskeleton	actin binding|calmodulin binding|metal ion binding|structural constituent of cytoskeleton			ovary(2)|skin(2)|large_intestine(1)	5		Breast(234;0.052)|Lung NSC(174;0.223)		Epithelial(162;4.15e-05)|all cancers(201;0.000587)|BRCA - Breast invasive adenocarcinoma(275;0.0742)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	112149891	112149892	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:112149891_112149892delAA								SMNDC1 (85184 upstream) : DUSP5 (107733 downstream)																																			---	---	---	---
PDCD4	27250	broad.mit.edu	37	10	112657654	112657654	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:112657654delT	uc001kzh.2	+						PDCD4_uc001kzg.2_Intron|PDCD4_uc010qre.1_Intron	NM_014456	NP_055271			programmed cell death 4 isoform 1						apoptosis|cell aging|negative regulation of cell cycle|negative regulation of JUN kinase activity|negative regulation of transcription, DNA-dependent	cytosol|nucleus	protein binding|RNA binding			ovary(1)|breast(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.000526)|all cancers(201;0.00794)|BRCA - Breast invasive adenocarcinoma(275;0.125)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	112937403	112937403	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:112937403delA								ADRA2A (96743 upstream) : GPAM (972219 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	113078867	113078868	+	IGR	INS	-	TG	TG	rs148557067	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:113078867_113078868insTG								ADRA2A (238207 upstream) : GPAM (830754 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	113139860	113139861	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:113139860_113139861insA								ADRA2A (299200 upstream) : GPAM (769761 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	113282692	113282692	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:113282692delC								ADRA2A (442032 upstream) : GPAM (626930 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	113525371	113525371	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:113525371delA								ADRA2A (684711 upstream) : GPAM (384251 downstream)																																			---	---	---	---
VTI1A	143187	broad.mit.edu	37	10	114333170	114333170	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:114333170delA	uc001kzy.2	+						VTI1A_uc001kzz.2_Intron	NM_145206	NP_660207			SNARE Vti1a-beta protein						intracellular protein transport|retrograde transport, endosome to Golgi	SNARE complex	protein transporter activity|SNAP receptor activity			ovary(1)	1		Colorectal(252;0.0314)|Breast(234;0.183)		Epithelial(162;0.0126)|all cancers(201;0.0487)														---	---	---	---
VTI1A	143187	broad.mit.edu	37	10	114333479	114333479	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:114333479delA	uc001kzy.2	+						VTI1A_uc001kzz.2_Intron	NM_145206	NP_660207			SNARE Vti1a-beta protein						intracellular protein transport|retrograde transport, endosome to Golgi	SNARE complex	protein transporter activity|SNAP receptor activity			ovary(1)	1		Colorectal(252;0.0314)|Breast(234;0.183)		Epithelial(162;0.0126)|all cancers(201;0.0487)														---	---	---	---
TCF7L2	6934	broad.mit.edu	37	10	114780542	114780543	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:114780542_114780543insG	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	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)														---	---	---	---
TCF7L2	6934	broad.mit.edu	37	10	114837891	114837891	+	Intron	DEL	A	-	-	rs66644369		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:114837891delA	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	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	115017402	115017402	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:115017402delT								TCF7L2 (89968 upstream) : HABP2 (295376 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	115232273	115232273	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:115232273delT								TCF7L2 (304839 upstream) : HABP2 (80505 downstream)																																			---	---	---	---
NRAP	4892	broad.mit.edu	37	10	115408734	115408734	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:115408734delT	uc001laj.2	-						NRAP_uc001lak.2_Intron|NRAP_uc001lal.3_Intron	NM_198060	NP_932326			nebulin-related anchoring protein isoform S							fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)														---	---	---	---
NHLRC2	374354	broad.mit.edu	37	10	115618199	115618199	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:115618199delA	uc001lax.1	+							NM_198514	NP_940916			NHL repeat containing 2						cell redox homeostasis					ovary(1)	1				Epithelial(162;0.017)|all cancers(201;0.0187)														---	---	---	---
ABLIM1	3983	broad.mit.edu	37	10	116257133	116257133	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:116257133delA	uc010qsg.1	-						ABLIM1_uc010qsh.1_Intron|ABLIM1_uc010qsi.1_Intron|ABLIM1_uc010qsk.1_Intron|ABLIM1_uc009xyp.2_Intron|ABLIM1_uc010qsf.1_Intron|ABLIM1_uc009xyn.2_Intron|ABLIM1_uc010qsj.1_Intron|ABLIM1_uc009xyo.2_Intron	NM_002313	NP_002304			actin-binding LIM protein 1 isoform a						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)														---	---	---	---
FAM160B1	57700	broad.mit.edu	37	10	116649796	116649796	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:116649796delT	uc001lcc.2	+							NM_001135051	NP_001128523			hypothetical protein LOC57700 isoform b											lung(1)	1																		---	---	---	---
ATRNL1	26033	broad.mit.edu	37	10	116920290	116920290	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:116920290delT	uc001lcg.2	+						ATRNL1_uc001lce.2_Intron|ATRNL1_uc001lcf.2_Intron|ATRNL1_uc009xyq.2_Intron	NM_207303	NP_997186			attractin-like 1 precursor							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)														---	---	---	---
ATRNL1	26033	broad.mit.edu	37	10	117092996	117093000	+	Intron	DEL	TTTTT	-	-	rs68160181		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:117092996_117093000delTTTTT	uc001lcg.2	+						ATRNL1_uc010qsm.1_Intron|ATRNL1_uc010qsn.1_Intron	NM_207303	NP_997186			attractin-like 1 precursor							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)														---	---	---	---
GFRA1	2674	broad.mit.edu	37	10	117907567	117907568	+	Intron	INS	-	TG	TG	rs149473722		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:117907567_117907568insTG	uc001lcj.2	-						GFRA1_uc001lci.2_Intron|GFRA1_uc009xyr.2_Intron	NM_005264	NP_005255			GDNF family receptor alpha 1 isoform a						axon guidance	anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity			ovary(1)|pancreas(1)	2		Lung NSC(174;0.21)		all cancers(201;0.0337)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	118049152	118049153	+	IGR	DEL	TG	-	-	rs12768041	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:118049152_118049153delTG								GFRA1 (16026 upstream) : C10orf96 (34787 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	118618628	118618628	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:118618628delA	uc001lcw.2	+											SubName: Full=Putative uncharacterized protein C10orf134;																														---	---	---	---
KIAA1598	57698	broad.mit.edu	37	10	118709379	118709379	+	Intron	DEL	A	-	-	rs7074047	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:118709379delA	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)														---	---	---	---
VAX1	11023	broad.mit.edu	37	10	118890008	118890018	+	3'UTR	DEL	CCTTTCAGCTC	-	-	rs75502930	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:118890008_118890018delCCTTTCAGCTC	uc001ldb.1	-	4						NM_199131	NP_954582			ventral anterior homeobox 1 isoform b							nucleus	sequence-specific DNA binding			ovary(2)	2				all cancers(201;0.0108)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	119407548	119407548	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:119407548delA								EMX2 (98492 upstream) : RAB11FIP2 (356881 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	119476381	119476381	+	IGR	DEL	T	-	-	rs72346694		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:119476381delT								EMX2 (167325 upstream) : RAB11FIP2 (288048 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	120014823	120014823	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:120014823delA								CASC2 (45164 upstream) : C10orf84 (53749 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	120027893	120027894	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:120027893_120027894insA								CASC2 (58234 upstream) : C10orf84 (40678 downstream)																																			---	---	---	---
C10orf46	143384	broad.mit.edu	37	10	120454897	120454897	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:120454897delT	uc001lds.1	-						C10orf46_uc010qst.1_Intron	NM_153810	NP_722517			chromosome 10 open reading frame 46						ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding				0		Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0131)														---	---	---	---
SFXN4	119559	broad.mit.edu	37	10	120925740	120925740	+	5'Flank	DEL	T	-	-	rs75518166		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:120925740delT	uc001leb.2	-						SFXN4_uc001ldz.2_5'Flank|SFXN4_uc001lea.2_5'Flank	NM_213649	NP_998814			sideroflexin 4						iron ion homeostasis	integral to membrane|mitochondrial membrane	cation transmembrane transporter activity			ovary(1)	1		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0261)														---	---	---	---
RGS10	6001	broad.mit.edu	37	10	121281081	121281081	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:121281081delA	uc001lee.2	-						RGS10_uc001lef.2_Intron|RGS10_uc001leg.2_Intron	NM_002925	NP_002916			regulator of G-protein signaling 10 isoform b						negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|protein binding|signal transducer activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00105)|GBM - Glioblastoma multiforme(135;0.195)														---	---	---	---
BAG3	9531	broad.mit.edu	37	10	121434327	121434327	+	Intron	DEL	A	-	-	rs77720819		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:121434327delA	uc001lem.2	+						BAG3_uc001lel.2_Intron	NM_004281	NP_004272			BCL2-associated athanogene 3						anti-apoptosis|apoptosis|protein folding	cytosol				ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00187)|BRCA - Breast invasive adenocarcinoma(275;0.148)														---	---	---	---
INPP5F	22876	broad.mit.edu	37	10	121577116	121577116	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:121577116delT	uc001leo.2	+						INPP5F_uc001lep.2_5'Flank	NM_014937	NP_055752			inositol polyphosphate-5-phosphatase F								phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	121791276	121791276	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:121791276delT								SEC23IP (90031 upstream) : PPAPDC1A (425190 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	122586577	122586577	+	Intron	DEL	A	-	-	rs143615878	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:122586577delA	uc001lfb.1	-											Homo sapiens cDNA FLJ37330 fis, clone BRAMY2019509.																														---	---	---	---
WDR11	55717	broad.mit.edu	37	10	122624870	122624870	+	Intron	DEL	T	-	-	rs67419588		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:122624870delT	uc010qtf.1	+						WDR11_uc010qte.1_Intron|WDR11_uc001lfd.1_Intron	NM_018117	NP_060587			bromodomain and WD repeat domain containing 2							integral to membrane					0																		---	---	---	---
WDR11	55717	broad.mit.edu	37	10	122626688	122626688	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:122626688delT	uc010qtf.1	+						WDR11_uc010qte.1_Intron|WDR11_uc001lfd.1_Intron	NM_018117	NP_060587			bromodomain and WD repeat domain containing 2							integral to membrane					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	122798482	122798482	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:122798482delA								WDR11 (129447 upstream) : FGFR2 (439363 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	122835714	122835714	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:122835714delC								WDR11 (166679 upstream) : FGFR2 (402131 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	123204389	123204389	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:123204389delA								WDR11 (535354 upstream) : FGFR2 (33456 downstream)																																			---	---	---	---
FGFR2	2263	broad.mit.edu	37	10	123260992	123260992	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:123260992delT	uc010qtk.1	-						FGFR2_uc010qtg.1_Intron|FGFR2_uc010qth.1_Intron|FGFR2_uc010qti.1_Intron|FGFR2_uc010qtj.1_Intron|FGFR2_uc010qtl.1_Intron|FGFR2_uc010qtm.1_Intron|FGFR2_uc001lfl.3_Intron|FGFR2_uc001lfm.2_Intron|FGFR2_uc001lfg.3_Intron	NM_000141	NP_000132			fibroblast growth factor receptor 2 isoform 1						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				---	---	---	---
Unknown	0	broad.mit.edu	37	10	123375266	123375266	+	IGR	DEL	C	-	-	rs34670297		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:123375266delC								FGFR2 (17294 upstream) : ATE1 (127360 downstream)																																			---	---	---	---
TACC2	10579	broad.mit.edu	37	10	123819077	123819077	+	Intron	DEL	T	-	-	rs67088226		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:123819077delT	uc001lfv.2	+						TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Intron|TACC2_uc010qtv.1_Intron	NM_206862	NP_996744			transforming, acidic coiled-coil containing							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)																---	---	---	---
BTBD16	118663	broad.mit.edu	37	10	124096467	124096468	+	Intron	DEL	TT	-	-	rs74534319		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:124096467_124096468delTT	uc001lgc.1	+						BTBD16_uc001lgd.1_Intron	NM_144587	NP_653188			BTB (POZ) domain containing 16											skin(1)	1		all_neural(114;0.107)|Lung NSC(174;0.175)|all_lung(145;0.222)|Breast(234;0.238)																---	---	---	---
Unknown	0	broad.mit.edu	37	10	124196510	124196516	+	IGR	DEL	TTTTTTT	-	-	rs143678024		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:124196510_124196516delTTTTTTT								PLEKHA1 (4644 upstream) : ARMS2 (17663 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	125014251	125014252	+	IGR	INS	-	ACA	ACA	rs141228159		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:125014251_125014252insACA								BUB3 (89365 upstream) : GPR26 (411619 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	125026962	125026962	+	IGR	DEL	T	-	-	rs150107165		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:125026962delT								BUB3 (102076 upstream) : GPR26 (398909 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	125274922	125274922	+	Intron	DEL	C	-	-	rs75182620		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:125274922delC	uc001lhg.1	+											full-length cDNA clone CS0DD008YJ14 of Neuroblastoma Cot 50-normalized of Homo sapiens (human).																														---	---	---	---
FAM53B	9679	broad.mit.edu	37	10	126366477	126366477	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:126366477delG	uc001lhv.1	-						FAM53B_uc001lhu.1_Intron|FAM53B_uc001lhw.2_Intron	NM_014661	NP_055476			hypothetical protein LOC9679											ovary(1)|pancreas(1)	2		all_lung(145;0.0191)|Lung NSC(174;0.0301)|Colorectal(57;0.106)|all_neural(114;0.117)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.15)														---	---	---	---
ZRANB1	54764	broad.mit.edu	37	10	126675660	126675660	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:126675660delA	uc001lic.2	+	9					ZRANB1_uc010qug.1_3'UTR	NM_017580	NP_060050			zinc finger, RAN-binding domain containing 1						positive regulation of Wnt receptor signaling pathway|protein K63-linked deubiquitination|Wnt receptor signaling pathway	aggresome|centrosome|intermediate filament cytoskeleton|nucleolus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	127171108	127171108	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127171108delA								CTBP2 (321484 upstream) : LOC100169752 (91832 downstream)																																			---	---	---	---
DHX32	55760	broad.mit.edu	37	10	127573359	127573359	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127573359delT	uc001ljg.1	-							NM_018180	NP_060650			DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 32							mitochondrion|nucleus	ATP binding|helicase activity			breast(2)|ovary(1)|lung(1)	4		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)																---	---	---	---
DHX32	55760	broad.mit.edu	37	10	127576431	127576431	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127576431delA	uc001ljg.1	-							NM_018180	NP_060650			DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 32							mitochondrion|nucleus	ATP binding|helicase activity			breast(2)|ovary(1)|lung(1)	4		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)																---	---	---	---
ADAM12	8038	broad.mit.edu	37	10	127789606	127789606	+	Intron	DEL	T	-	-	rs79010435		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127789606delT	uc001ljk.2	-						ADAM12_uc010qul.1_Intron|ADAM12_uc001ljm.2_Intron|ADAM12_uc001ljn.2_Intron|ADAM12_uc001ljl.3_Intron	NM_003474	NP_003465			ADAM metallopeptidase domain 12 isoform 1						cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)														---	---	---	---
ADAM12	8038	broad.mit.edu	37	10	127940096	127940107	+	Intron	DEL	GGATGGATAGAT	-	-	rs148035377	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127940096_127940107delGGATGGATAGAT	uc001ljk.2	-						ADAM12_uc010qul.1_Intron|ADAM12_uc001ljm.2_Intron|ADAM12_uc001ljn.2_Intron|ADAM12_uc001ljl.3_Intron	NM_003474	NP_003465			ADAM metallopeptidase domain 12 isoform 1						cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)														---	---	---	---
ADAM12	8038	broad.mit.edu	37	10	127941799	127941799	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127941799delT	uc001ljk.2	-						ADAM12_uc010qul.1_Intron|ADAM12_uc001ljm.2_Intron|ADAM12_uc001ljn.2_Intron|ADAM12_uc001ljl.3_Intron	NM_003474	NP_003465			ADAM metallopeptidase domain 12 isoform 1						cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)														---	---	---	---
ADAM12	8038	broad.mit.edu	37	10	127996807	127996808	+	Intron	INS	-	T	T	rs143948620	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127996807_127996808insT	uc001ljk.2	-						ADAM12_uc010qul.1_Intron|ADAM12_uc001ljm.2_Intron|ADAM12_uc001ljn.2_Intron|ADAM12_uc001ljl.3_Intron	NM_003474	NP_003465			ADAM metallopeptidase domain 12 isoform 1						cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)														---	---	---	---
DOCK1	1793	broad.mit.edu	37	10	128770036	128770039	+	Intron	DEL	CTCA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:128770036_128770039delCTCA	uc001ljt.2	+						DOCK1_uc010qun.1_Intron	NM_001380	NP_001371			dedicator of cytokinesis 1						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)														---	---	---	---
DOCK1	1793	broad.mit.edu	37	10	129103790	129103790	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:129103790delA	uc001ljt.2	+						DOCK1_uc010qun.1_Intron	NM_001380	NP_001371			dedicator of cytokinesis 1						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	129400665	129400665	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:129400665delT								NPS (49730 upstream) : FOXI2 (134873 downstream)																																			---	---	---	---
PTPRE	5791	broad.mit.edu	37	10	129780513	129780513	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:129780513delT	uc001lkb.2	+						PTPRE_uc009yat.2_Intron	NM_006504	NP_006495			protein tyrosine phosphatase, receptor type, E						negative regulation of insulin receptor signaling pathway|protein phosphorylation	cytoplasm|integral to membrane|intermediate filament cytoskeleton|nucleus|plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(1)	1		all_epithelial(44;1.66e-05)|all_lung(145;0.00456)|Lung NSC(174;0.0066)|all_neural(114;0.0936)|Colorectal(57;0.141)|Breast(234;0.166)|Melanoma(40;0.203)																---	---	---	---
Unknown	0	broad.mit.edu	37	10	130012509	130012509	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:130012509delT	uc001lkg.1	+											Homo sapiens cDNA FLJ42232 fis, clone THYMU3000224.																														---	---	---	---
Unknown	0	broad.mit.edu	37	10	130489928	130489928	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:130489928delT								MKI67 (565460 upstream) : MGMT (775526 downstream)																																			---	---	---	---
MGMT	4255	broad.mit.edu	37	10	131372051	131372051	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:131372051delT	uc001lkh.2	+							NM_002412	NP_002403			O-6-methylguanine-DNA methyltransferase											ovary(1)|breast(1)	2		all_cancers(35;9.44e-09)|all_epithelial(44;6.98e-08)|Lung NSC(174;0.0157)|all_lung(145;0.0201)|all_neural(114;0.0732)|Colorectal(57;0.0792)|Breast(234;0.167)		OV - Ovarian serous cystadenocarcinoma(35;0.00291)									Direct_reversal_of_damage					---	---	---	---
MGMT	4255	broad.mit.edu	37	10	131382118	131382118	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:131382118delT	uc001lkh.2	+							NM_002412	NP_002403			O-6-methylguanine-DNA methyltransferase											ovary(1)|breast(1)	2		all_cancers(35;9.44e-09)|all_epithelial(44;6.98e-08)|Lung NSC(174;0.0157)|all_lung(145;0.0201)|all_neural(114;0.0732)|Colorectal(57;0.0792)|Breast(234;0.167)		OV - Ovarian serous cystadenocarcinoma(35;0.00291)									Direct_reversal_of_damage					---	---	---	---
Unknown	0	broad.mit.edu	37	10	131588698	131588700	+	IGR	DEL	AAA	-	-	rs139536643	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:131588698_131588700delAAA								MGMT (22915 upstream) : EBF3 (44847 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	131994586	131994587	+	IGR	DEL	TG	-	-	rs113782668		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:131994586_131994587delTG								GLRX3 (11802 upstream) : TCERG1L (896069 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	132036067	132036068	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:132036067_132036068delTT								GLRX3 (53283 upstream) : TCERG1L (854588 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	132076651	132076651	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:132076651delT								GLRX3 (93867 upstream) : TCERG1L (814005 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	132635855	132635856	+	IGR	INS	-	AAC	AAC	rs141619235	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:132635855_132635856insAAC								GLRX3 (653071 upstream) : TCERG1L (254800 downstream)																																			---	---	---	---
PWWP2B	170394	broad.mit.edu	37	10	134219820	134219820	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:134219820delC	uc001lll.3	+						PWWP2B_uc009ybe.2_Intron	NM_138499	NP_612508			PWWP domain containing 2 isoform 1												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)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	134347696	134347696	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:134347696delG								C10orf91 (85872 upstream) : INPP5A (3657 downstream)																																			---	---	---	---
INPP5A	3632	broad.mit.edu	37	10	134517514	134517514	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:134517514delC	uc001llp.2	+						INPP5A_uc001llo.1_Intron|INPP5A_uc001llq.2_Intron	NM_005539	NP_005530			inositol polyphosphate-5-phosphatase A						cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)														---	---	---	---
PTDSS2	81490	broad.mit.edu	37	11	478736	478736	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:478736delA	uc001lpj.2	+						PTDSS2_uc009ybv.1_Intron	NM_030783	NP_110410			phosphatidylserine synthase 2							integral to membrane					0		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;2.76e-26)|Epithelial(43;2.56e-25)|OV - Ovarian serous cystadenocarcinoma(40;7.54e-20)|BRCA - Breast invasive adenocarcinoma(625;8.76e-05)|Lung(200;0.0407)|LUSC - Lung squamous cell carcinoma(625;0.0735)	Phosphatidylserine(DB00144)													---	---	---	---
DEAF1	10522	broad.mit.edu	37	11	669636	669636	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:669636delA	uc001lqq.1	-						DEAF1_uc009ycf.1_Intron	NM_021008	NP_066288			deformed epidermal autoregulatory factor 1						embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)														---	---	---	---
CHID1	66005	broad.mit.edu	37	11	903781	903782	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:903781_903782insA	uc001lsl.2	-						CHID1_uc010qwu.1_Intron|CHID1_uc010qwv.1_Intron|CHID1_uc001lsn.2_Intron|CHID1_uc001lsm.2_Intron|CHID1_uc001lso.2_Intron|CHID1_uc001lsp.2_Intron|CHID1_uc010qww.1_Intron	NM_023947	NP_076436			chitinase domain containing 1 isoform a						chitin catabolic process|innate immune response	extracellular region|lysosome	cation binding|chitinase activity				0		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.48e-25)|Epithelial(43;3.75e-24)|BRCA - Breast invasive adenocarcinoma(625;4.65e-05)|Lung(200;0.0624)|LUSC - Lung squamous cell carcinoma(625;0.0735)														---	---	---	---
AP2A2	161	broad.mit.edu	37	11	951527	951527	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:951527delA	uc001lss.2	+						AP2A2_uc001lst.1_Intron|AP2A2_uc009yco.1_Intron	NM_012305	NP_036437			adaptor-related protein complex 2, alpha 2						axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|cytosol	lipid binding|protein transporter activity				0		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.75e-24)|BRCA - Breast invasive adenocarcinoma(625;5.73e-05)|Lung(200;0.0696)|LUSC - Lung squamous cell carcinoma(625;0.082)														---	---	---	---
AP2A2	161	broad.mit.edu	37	11	959427	959427	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:959427delT	uc001lss.2	+						AP2A2_uc001lst.1_Intron|AP2A2_uc009yco.1_Intron	NM_012305	NP_036437			adaptor-related protein complex 2, alpha 2						axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|cytosol	lipid binding|protein transporter activity				0		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.75e-24)|BRCA - Breast invasive adenocarcinoma(625;5.73e-05)|Lung(200;0.0696)|LUSC - Lung squamous cell carcinoma(625;0.082)														---	---	---	---
MUC5B	727897	broad.mit.edu	37	11	1222931	1222934	+	Intron	DEL	TGAA	-	-	rs139100160		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1222931_1222934delTGAA	uc009ycr.1	+							NM_017511	NP_059981			SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;						cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)														---	---	---	---
MUC5B	727897	broad.mit.edu	37	11	1262591	1262591	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1262591delC	uc009ycr.1	+	47	6686	c.6560delC	c.(6559-6561)ACCfs	p.T2187fs	MUC5B_uc001ltb.2_Frame_Shift_Del_p.T1497fs	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1494	7 X Cys-rich subdomain repeats.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)														---	---	---	---
BRSK2	9024	broad.mit.edu	37	11	1430198	1430199	+	Intron	DEL	GT	-	-	rs61082503	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1430198_1430199delGT	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_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)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	2029511	2029511	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:2029511delT								H19 (10446 upstream) : IGF2 (120837 downstream)																																			---	---	---	---
KCNQ1	3784	broad.mit.edu	37	11	2499367	2499368	+	Intron	INS	-	AGCT	AGCT	rs143930071	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:2499367_2499368insAGCT	uc001lwn.2	+						KCNQ1_uc009ydo.1_Intron|KCNQ1_uc009ydp.1_Intron|KCNQ1_uc001lwo.2_Intron	NM_000218	NP_000209			potassium voltage-gated channel, KQT-like						blood circulation|membrane depolarization|muscle contraction|sensory perception of sound		delayed rectifier potassium channel activity|protein binding			ovary(1)	1		all_epithelial(84;3.26e-05)|Breast(177;0.001)|Medulloblastoma(188;0.00111)|Ovarian(85;0.00158)|all_neural(188;0.00725)|all_lung(207;0.11)|Lung NSC(207;0.159)		BRCA - Breast invasive adenocarcinoma(625;0.00251)|Lung(200;0.131)	Bepridil(DB01244)|Indapamide(DB00808)													---	---	---	---
KCNQ1	3784	broad.mit.edu	37	11	2622434	2622434	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:2622434delA	uc001lwn.2	+						KCNQ1_uc009ydp.1_Intron|KCNQ1_uc001lwo.2_Intron	NM_000218	NP_000209			potassium voltage-gated channel, KQT-like						blood circulation|membrane depolarization|muscle contraction|sensory perception of sound		delayed rectifier potassium channel activity|protein binding			ovary(1)	1		all_epithelial(84;3.26e-05)|Breast(177;0.001)|Medulloblastoma(188;0.00111)|Ovarian(85;0.00158)|all_neural(188;0.00725)|all_lung(207;0.11)|Lung NSC(207;0.159)		BRCA - Breast invasive adenocarcinoma(625;0.00251)|Lung(200;0.131)	Bepridil(DB01244)|Indapamide(DB00808)													---	---	---	---
CARS	833	broad.mit.edu	37	11	3047364	3047364	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3047364delA	uc001lxh.2	-						CARS_uc001lxe.2_Intron|CARS_uc001lxf.2_Intron|CARS_uc001lxg.2_Intron|CARS_uc010qxo.1_Intron|CARS_uc010qxp.1_Intron	NM_001751	NP_001742			cysteinyl-tRNA synthetase isoform b						cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)			T	ALK	ALCL								---	---	---	---
Unknown	0	broad.mit.edu	37	11	3089819	3089820	+	IGR	INS	-	GTGT	GTGT	rs141218796	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3089819_3089820insGTGT								CARS (11148 upstream) : OSBPL5 (18526 downstream)																																			---	---	---	---
NUP98	4928	broad.mit.edu	37	11	3723544	3723565	+	Intron	DEL	CTCTCTCTCTCTCTCTCTCTCT	-	-	rs10767514		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3723544_3723565delCTCTCTCTCTCTCTCTCTCTCT	uc001lyh.2	-						NUP98_uc001lyi.2_Intron|NUP98_uc001lyg.2_Intron	NM_016320	NP_057404			nucleoporin 98kD isoform 1						carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)				T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								---	---	---	---
STIM1	6786	broad.mit.edu	37	11	4003080	4003080	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4003080delA	uc001lyv.2	+						STIM1_uc009yef.2_Intron	NM_003156	NP_003147			stromal interaction molecule 1 precursor						activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)														---	---	---	---
OR52I2	143502	broad.mit.edu	37	11	4605881	4605882	+	5'Flank	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4605881_4605882insA	uc010qyh.1	+							NM_001005170	NP_001005170			olfactory receptor, family 52, subfamily I,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	4759836	4759836	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4759836delA								OR51E2 (40760 upstream) : OR51F1 (30374 downstream)																																			---	---	---	---
OR52R1	119695	broad.mit.edu	37	11	4827273	4827273	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4827273delA	uc010qym.1	-							NM_001005177	NP_001005177			olfactory receptor, family 52, subfamily R,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0184)|all_neural(188;0.0227)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	5269475	5269475	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5269475delA								HBBP1 (4653 upstream) : HBG2 (27 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	6111666	6111667	+	IGR	DEL	TT	-	-	rs138535433		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6111666_6111667delTT								OR56A1 (62732 upstream) : OR56B4 (17342 downstream)																																			---	---	---	---
DNHD1	144132	broad.mit.edu	37	11	6535241	6535241	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6535241delT	uc001mdw.3	+						DNHD1_uc001mdp.2_Intron|DNHD1_uc001mdq.2_Intron	NM_144666	NP_653267			dynein heavy chain domain 1 isoform 1						microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	7097918	7097918	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7097918delT								NLRP14 (5161 upstream) : RBMXL2 (12247 downstream)																																			---	---	---	---
SYT9	143425	broad.mit.edu	37	11	7276613	7276616	+	Intron	DEL	TTAT	-	-	rs150614882		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7276613_7276616delTTAT	uc001mfe.2	+						SYT9_uc001mfd.2_Intron|SYT9_uc009yfi.2_Intron	NM_175733	NP_783860			synaptotagmin IX							cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)														---	---	---	---
SYT9	143425	broad.mit.edu	37	11	7293714	7293715	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7293714_7293715delTT	uc001mfe.2	+						SYT9_uc001mfd.2_Intron|SYT9_uc009yfi.2_Intron	NM_175733	NP_783860			synaptotagmin IX							cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	7904045	7904046	+	Intron	INS	-	GCGCGCGT	GCGCGCGT	rs77768145		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7904045_7904046insGCGCGCGT	uc001mfs.1	-											Homo sapiens cDNA FLJ34536 fis, clone HLUNG2008384.																														---	---	---	---
NLRP10	338322	broad.mit.edu	37	11	7985477	7985478	+	5'Flank	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7985477_7985478insT	uc001mfv.1	-							NM_176821	NP_789791			NLR family, pyrin domain containing 10								ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)														---	---	---	---
ST5	6764	broad.mit.edu	37	11	8925022	8925025	+	Intron	DEL	AAAA	-	-	rs145725179		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:8925022_8925025delAAAA	uc001mgv.2	-							NM_005418	NP_005409			suppression of tumorigenicity 5 isoform 1						positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)														---	---	---	---
TMEM41B	440026	broad.mit.edu	37	11	9302600	9302600	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:9302600delA	uc001mhm.2	-						TMEM41B_uc001mhn.1_3'UTR	NM_015012	NP_055827			transmembrane protein 41B isoform 1							integral to membrane					0				all cancers(16;9.96e-08)|Epithelial(150;4.89e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0972)														---	---	---	---
SBF2	81846	broad.mit.edu	37	11	10229281	10229281	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10229281delA	uc001mib.2	-							NM_030962	NP_112224			SET binding factor 2						myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)														---	---	---	---
SBF2	81846	broad.mit.edu	37	11	10275933	10275933	+	Intron	DEL	A	-	-	rs78715254		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10275933delA	uc001mib.2	-							NM_030962	NP_112224			SET binding factor 2						myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	10944921	10944922	+	IGR	DEL	TT	-	-	rs72859946	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10944921_10944922delTT								ZBED5 (65301 upstream) : GALNTL4 (347499 downstream)																																			---	---	---	---
GALNTL4	374378	broad.mit.edu	37	11	11597162	11597164	+	Intron	DEL	CTC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:11597162_11597164delCTC	uc001mjo.2	-							NM_198516	NP_940918			UDP-N-acetyl-alpha-D-galactosamine:polypeptide							Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0				all cancers(16;3.67e-05)|Epithelial(150;0.000184)														---	---	---	---
MICAL2	9645	broad.mit.edu	37	11	12233862	12233862	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:12233862delA	uc001mjz.2	+						MICAL2_uc010rch.1_Intron|MICAL2_uc001mka.2_Intron|MICAL2_uc010rci.1_Intron|MICAL2_uc001mkb.2_Intron|MICAL2_uc001mkc.2_Intron|MICAL2_uc001mkd.2_Intron	NM_014632	NP_055447			microtubule associated monoxygenase, calponin							cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)														---	---	---	---
MICAL2	9645	broad.mit.edu	37	11	12252262	12252262	+	Intron	DEL	C	-	-	rs143789956		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:12252262delC	uc001mjz.2	+						MICAL2_uc010rch.1_Intron|MICAL2_uc001mka.2_Intron|MICAL2_uc010rci.1_Intron|MICAL2_uc001mkb.2_Intron|MICAL2_uc001mkc.2_Intron|MICAL2_uc001mkd.2_Intron|MICAL2_uc010rcj.1_Intron	NM_014632	NP_055447			microtubule associated monoxygenase, calponin							cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)														---	---	---	---
MICAL2	9645	broad.mit.edu	37	11	12276776	12276776	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:12276776delT	uc001mjz.2	+						MICAL2_uc010rch.1_Intron|MICAL2_uc001mka.2_Intron|MICAL2_uc010rci.1_Intron|MICAL2_uc001mkb.2_Intron|MICAL2_uc001mkc.2_Intron|MICAL2_uc001mkd.2_Intron|MICAL2_uc010rcj.1_Intron|MICAL2_uc001mkf.2_Intron	NM_014632	NP_055447			microtubule associated monoxygenase, calponin							cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)														---	---	---	---
MICALCL	84953	broad.mit.edu	37	11	12363379	12363379	+	Intron	DEL	G	-	-	rs881384	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:12363379delG	uc001mkg.1	+							NM_032867	NP_116256			MICAL C-terminal like						cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)														---	---	---	---
PARVA	55742	broad.mit.edu	37	11	12465995	12465995	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:12465995delT	uc001mki.2	+						PARVA_uc001mkh.2_Intron|PARVA_uc010rck.1_Intron	NM_018222	NP_060692			parvin, alpha						cell adhesion|cell junction assembly|cilium morphogenesis	actin cytoskeleton|cytosol|focal adhesion	actin binding			breast(3)	3				Epithelial(150;0.00624)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	12644867	12644867	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:12644867delA								PARVA (93457 upstream) : TEAD1 (51102 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	12686657	12686657	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:12686657delA								PARVA (135247 upstream) : TEAD1 (9312 downstream)																																			---	---	---	---
TEAD1	7003	broad.mit.edu	37	11	12884576	12884576	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:12884576delA	uc001mkj.3	+						TEAD1_uc009ygk.2_Intron	NM_021961	NP_068780			TEA domain family member 1						hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0				Epithelial(150;0.00223)|BRCA - Breast invasive adenocarcinoma(625;0.236)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	13055300	13055300	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:13055300delA								RASSF10 (22653 upstream) : ARNTL (244025 downstream)																																			---	---	---	---
FAR1	84188	broad.mit.edu	37	11	13737755	13737755	+	Intron	DEL	A	-	-	rs67502038		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:13737755delA	uc001mld.2	+							NM_032228	NP_115604			fatty acyl CoA reductase 1						ether lipid biosynthetic process	integral to membrane|peroxisomal matrix|peroxisomal membrane	protein binding			ovary(1)|skin(1)	2																		---	---	---	---
RRAS2	22800	broad.mit.edu	37	11	14328810	14328810	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:14328810delA	uc001mlf.3	-						RRAS2_uc009ygq.2_Intron|RRAS2_uc010rco.1_Intron	NM_012250	NP_036382			related RAS viral (r-ras) oncogene homolog 2							endoplasmic reticulum|plasma membrane	GTP binding|GTPase activity|protein binding			breast(1)	1				Epithelial(150;0.203)														---	---	---	---
PDE3B	5140	broad.mit.edu	37	11	14671599	14671600	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:14671599_14671600delTT	uc001mln.2	+						PDE3B_uc001mlm.2_Intron|PDE3B_uc010rcr.1_Intron	NM_000922	NP_000913			phosphodiesterase 3B						cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	15377427	15377428	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:15377427_15377428delAA								INSC (108675 upstream) : SOX6 (610568 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	15806828	15806829	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:15806828_15806829delAG								INSC (538076 upstream) : SOX6 (181167 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	15969021	15969021	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:15969021delT								INSC (700269 upstream) : SOX6 (18975 downstream)																																			---	---	---	---
SOX6	55553	broad.mit.edu	37	11	15988220	15988220	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:15988220delA	uc001mme.2	-	16					SOX6_uc001mmd.2_3'UTR|SOX6_uc001mmf.2_3'UTR|SOX6_uc001mmg.2_3'UTR	NM_001145819	NP_001139291			SRY (sex determining region Y)-box 6 isoform 4						muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3																		---	---	---	---
SOX6	55553	broad.mit.edu	37	11	16014439	16014439	+	Intron	DEL	T	-	-	rs72441533		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:16014439delT	uc001mme.2	-						SOX6_uc001mmd.2_Intron|SOX6_uc001mmf.2_Intron|SOX6_uc001mmg.2_Intron	NM_001145819	NP_001139291			SRY (sex determining region Y)-box 6 isoform 4						muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3																		---	---	---	---
SOX6	55553	broad.mit.edu	37	11	16154599	16154599	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:16154599delA	uc001mme.2	-						SOX6_uc001mmd.2_Intron|SOX6_uc001mmf.2_Intron|SOX6_uc001mmg.2_Intron	NM_001145819	NP_001139291			SRY (sex determining region Y)-box 6 isoform 4						muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3																		---	---	---	---
SOX6	55553	broad.mit.edu	37	11	16229139	16229140	+	Intron	INS	-	A	A	rs79513855		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:16229139_16229140insA	uc001mme.2	-						SOX6_uc001mmd.2_Intron|SOX6_uc001mmf.2_Intron|SOX6_uc001mmg.2_Intron	NM_001145819	NP_001139291			SRY (sex determining region Y)-box 6 isoform 4						muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3																		---	---	---	---
SOX6	55553	broad.mit.edu	37	11	16380750	16380750	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:16380750delA	uc001mme.2	-						SOX6_uc001mmd.2_Intron|SOX6_uc001mmf.2_Intron|SOX6_uc001mmg.2_Intron|SOX6_uc001mmh.1_Intron|SOX6_uc009ygs.2_Intron|SOX6_uc001mmi.3_Intron|SOX6_uc001mmj.2_Intron	NM_001145819	NP_001139291			SRY (sex determining region Y)-box 6 isoform 4						muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3																		---	---	---	---
SOX6	55553	broad.mit.edu	37	11	16640871	16640871	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:16640871delT	uc001mmh.1	-											Synthetic construct DNA, clone: pF1KB8405, Homo sapiens SOX6 gene for SRY (sex determining region Y)-box 6, without stop codon, in Flexi system.						muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3																		---	---	---	---
SOX6	55553	broad.mit.edu	37	11	16698433	16698433	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:16698433delT	uc001mmh.1	-											Synthetic construct DNA, clone: pF1KB8405, Homo sapiens SOX6 gene for SRY (sex determining region Y)-box 6, without stop codon, in Flexi system.						muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3																		---	---	---	---
PIK3C2A	5286	broad.mit.edu	37	11	17188865	17188865	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:17188865delT	uc001mmq.3	-						PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Intron|PIK3C2A_uc001mmr.3_Intron|PIK3C2A_uc010rcx.1_Intron|PIK3C2A_uc009ygv.1_Intron	NM_002645	NP_002636			phosphoinositide-3-kinase, class 2 alpha						cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)													---	---	---	---
SERGEF	26297	broad.mit.edu	37	11	17814860	17814860	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:17814860delA	uc001mnm.2	-						SERGEF_uc009yhd.2_Intron|SERGEF_uc001mnn.2_Intron	NM_012139	NP_036271			deafness locus associated putative guanine						negative regulation of protein secretion|signal transduction	cytoplasm|nucleus	protein binding|Ran guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1																		---	---	---	---
SERGEF	26297	broad.mit.edu	37	11	17874745	17874745	+	Intron	DEL	A	-	-	rs72176776		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:17874745delA	uc001mnm.2	-						SERGEF_uc009yhd.2_Intron|SERGEF_uc001mnn.2_Intron|SERGEF_uc010rcz.1_Intron	NM_012139	NP_036271			deafness locus associated putative guanine						negative regulation of protein secretion|signal transduction	cytoplasm|nucleus	protein binding|Ran guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	18202021	18202022	+	IGR	INS	-	AC	AC	rs142353796		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18202021_18202022insAC								MRGPRX4 (6194 upstream) : LOC494141 (28663 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	18250336	18250337	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18250336_18250337insA								LOC494141 (15227 upstream) : SAA4 (2567 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	18250527	18250527	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18250527delT								LOC494141 (15418 upstream) : SAA4 (2377 downstream)																																			---	---	---	---
HPS5	11234	broad.mit.edu	37	11	18308458	18308458	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18308458delA	uc001mod.1	-						HPS5_uc001moe.1_Intron|HPS5_uc001mof.1_Intron	NM_181507	NP_852608			Hermansky-Pudlak syndrome 5 isoform a							cytosol				ovary(1)|pancreas(1)|skin(1)	3														Hermansky-Pudlak_syndrome				---	---	---	---
HPS5	11234	broad.mit.edu	37	11	18316379	18316379	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18316379delA	uc001mod.1	-						HPS5_uc001moe.1_Intron|HPS5_uc001mof.1_Intron	NM_181507	NP_852608			Hermansky-Pudlak syndrome 5 isoform a							cytosol				ovary(1)|pancreas(1)|skin(1)	3														Hermansky-Pudlak_syndrome				---	---	---	---
HPS5	11234	broad.mit.edu	37	11	18339159	18339159	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18339159delT	uc001mod.1	-						HPS5_uc001moe.1_Intron|HPS5_uc001mof.1_Intron|HPS5_uc001mog.1_Intron	NM_181507	NP_852608			Hermansky-Pudlak syndrome 5 isoform a							cytosol				ovary(1)|pancreas(1)|skin(1)	3														Hermansky-Pudlak_syndrome				---	---	---	---
LDHA	3939	broad.mit.edu	37	11	18428564	18428564	+	Intron	DEL	A	-	-	rs79367445		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18428564delA	uc001mok.3	+						LDHA_uc010rdc.1_Intron|LDHA_uc009yhn.2_Intron|LDHA_uc009yho.2_Intron|LDHA_uc001mol.3_Intron|LDHA_uc010rdd.1_Intron	NM_005566	NP_005557			lactate dehydrogenase A isoform 1						glycolysis|pyruvate metabolic process	cytosol	L-lactate dehydrogenase activity|protein binding			central_nervous_system(3)	3					NADH(DB00157)													---	---	---	---
Unknown	0	broad.mit.edu	37	11	18885491	18885491	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18885491delA								PTPN5 (72102 upstream) : MRGPRX1 (69870 downstream)																																			---	---	---	---
ZDHHC13	54503	broad.mit.edu	37	11	19175407	19175408	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:19175407_19175408delTT	uc001mpi.2	+						ZDHHC13_uc001mpj.2_Intron	NM_019028	NP_061901			zinc finger, DHHC domain containing 13 isoform						positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|palmitoyltransferase activity|signal transducer activity|zinc ion binding				0																		---	---	---	---
NAV2	89797	broad.mit.edu	37	11	19560223	19560223	+	Intron	DEL	T	-	-	rs67465066		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:19560223delT	uc001mpp.2	+							NM_001111018	NP_001104488			neuron navigator 2 isoform 3							nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6																		---	---	---	---
NAV2	89797	broad.mit.edu	37	11	19653037	19653037	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:19653037delT	uc001mpp.2	+							NM_001111018	NP_001104488			neuron navigator 2 isoform 3							nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6																		---	---	---	---
NAV2	89797	broad.mit.edu	37	11	20104442	20104442	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:20104442delG	uc001mpr.3	+						NAV2_uc001mpp.2_Intron|NAV2_uc009yhx.2_Intron|NAV2_uc009yhz.2_Intron|NAV2_uc001mpu.2_Intron	NM_182964	NP_892009			neuron navigator 2 isoform 1							nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	20154649	20154650	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:20154649_20154650insA								NAV2 (11503 upstream) : DBX1 (23110 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	20166315	20166315	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:20166315delA								NAV2 (23169 upstream) : DBX1 (11445 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	20375905	20375906	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:20375905_20375906delTC								DBX1 (194035 upstream) : HTATIP2 (9325 downstream)																																			---	---	---	---
NELL1	4745	broad.mit.edu	37	11	20795508	20795508	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:20795508delT	uc001mqe.2	+						NELL1_uc001mqf.2_Intron|NELL1_uc009yid.2_Intron|NELL1_uc010rdo.1_Intron|NELL1_uc010rdp.1_Intron	NM_006157	NP_006148			nel-like 1 isoform 1 precursor						cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	21723629	21723629	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:21723629delA								NELL1 (126402 upstream) : ANO5 (491093 downstream)																																			---	---	---	---
SLC17A6	57084	broad.mit.edu	37	11	22396073	22396073	+	Intron	DEL	A	-	-	rs5790258		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:22396073delA	uc001mqk.2	+							NM_020346	NP_065079			solute carrier family 17 (sodium-dependent						sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	22457794	22457794	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:22457794delT								SLC17A6 (56750 upstream) : FANCF (186285 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	22678333	22678334	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:22678333_22678334delTG								FANCF (30946 upstream) : GAS2 (9826 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	22920666	22920667	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:22920666_22920667delTT	uc001mqq.1	+											full-length cDNA clone CS0DJ011YO21 of T cells (Jurkat cell line) Cot 10-normalized of Homo sapiens (human).																														---	---	---	---
Unknown	0	broad.mit.edu	37	11	23098770	23098770	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:23098770delT								SVIP (247388 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	23578409	23578410	+	IGR	INS	-	T	T	rs148358362	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:23578409_23578410insT								SVIP (727027 upstream) : LUZP2 (940146 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	23786408	23786408	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:23786408delA								SVIP (935026 upstream) : LUZP2 (732148 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	23815037	23815038	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:23815037_23815038insA								SVIP (963655 upstream) : LUZP2 (703518 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	24295412	24295412	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:24295412delT								None (None upstream) : LUZP2 (223144 downstream)																																			---	---	---	---
LUZP2	338645	broad.mit.edu	37	11	24647460	24647461	+	Intron	INS	-	A	A	rs144350035	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:24647460_24647461insA	uc001mqs.2	+						LUZP2_uc009yif.2_Intron|LUZP2_uc009yig.2_Intron	NM_001009909	NP_001009909			leucine zipper protein 2 precursor							extracellular region				ovary(1)|skin(1)	2																		---	---	---	---
LUZP2	338645	broad.mit.edu	37	11	24652723	24652723	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:24652723delT	uc001mqs.2	+						LUZP2_uc009yif.2_Intron|LUZP2_uc009yig.2_Intron	NM_001009909	NP_001009909			leucine zipper protein 2 precursor							extracellular region				ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	25423998	25423998	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:25423998delA								LUZP2 (319816 upstream) : ANO3 (786831 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	25887259	25887259	+	IGR	DEL	T	-	-	rs143008707		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:25887259delT								LUZP2 (783077 upstream) : ANO3 (323570 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	25967685	25967685	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:25967685delT								LUZP2 (863503 upstream) : ANO3 (243144 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	26188667	26188667	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:26188667delA								None (None upstream) : ANO3 (22162 downstream)																																			---	---	---	---
ANO3	63982	broad.mit.edu	37	11	26646167	26646167	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:26646167delA	uc001mqt.3	+						ANO3_uc010rdr.1_Intron|ANO3_uc010rds.1_Intron|ANO3_uc010rdt.1_Intron	NM_031418	NP_113606			transmembrane protein 16C							chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4																		---	---	---	---
ANO3	63982	broad.mit.edu	37	11	26656823	26656823	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:26656823delT	uc001mqt.3	+						ANO3_uc010rdr.1_Intron|ANO3_uc010rds.1_Intron|ANO3_uc010rdt.1_Intron	NM_031418	NP_113606			transmembrane protein 16C							chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4																		---	---	---	---
LGR4	55366	broad.mit.edu	37	11	27393400	27393400	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:27393400delT	uc001mrj.3	-						LGR4_uc001mrk.3_Intron	NM_018490	NP_060960			leucine-rich repeat-containing G protein-coupled							integral to membrane|plasma membrane	protein-hormone receptor activity			ovary(1)	1																		---	---	---	---
LGR4	55366	broad.mit.edu	37	11	27393416	27393416	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:27393416delT	uc001mrj.3	-						LGR4_uc001mrk.3_Intron	NM_018490	NP_060960			leucine-rich repeat-containing G protein-coupled							integral to membrane|plasma membrane	protein-hormone receptor activity			ovary(1)	1																		---	---	---	---
LGR4	55366	broad.mit.edu	37	11	27451030	27451031	+	Intron	DEL	AA	-	-	rs75796053		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:27451030_27451031delAA	uc001mrj.3	-						LGR4_uc001mrk.3_Intron	NM_018490	NP_060960			leucine-rich repeat-containing G protein-coupled							integral to membrane|plasma membrane	protein-hormone receptor activity			ovary(1)	1																		---	---	---	---
LIN7C	55327	broad.mit.edu	37	11	27520359	27520359	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:27520359delA	uc001mrl.2	-						LIN7C_uc009yii.2_Intron	NM_018362	NP_060832			lin-7 homolog C						exocytosis|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction					0																		---	---	---	---
BDNFOS	497258	broad.mit.edu	37	11	27631632	27631632	+	Intron	DEL	A	-	-	rs34826346		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:27631632delA	uc001mrm.2	+						BDNFOS_uc009yij.2_Intron|BDNFOS_uc009yik.2_Intron|BDNFOS_uc009yil.2_Intron|BDNFOS_uc001mrp.2_Intron|BDNFOS_uc009yim.2_Intron|BDNFOS_uc009yin.2_Intron|BDNFOS_uc009yio.2_Intron|BDNFOS_uc009yip.2_Intron|BDNFOS_uc001mrn.2_Intron|BDNFOS_uc009yiq.2_Intron|BDNFOS_uc001mro.2_Intron|BDNFOS_uc009yir.2_Intron|BDNFOS_uc009yis.2_Intron|BDNFOS_uc009yit.2_Intron|BDNFOS_uc009yiu.2_Intron|BDNFOS_uc009yiv.2_Intron|BDNFOS_uc009yiw.2_Intron|BDNFOS_uc009yix.2_Intron|BDNFOS_uc009yiy.2_Intron|BDNFOS_uc009yiz.2_Intron|BDNFOS_uc001mrq.3_Intron|BDNFOS_uc001mrr.3_Intron|BDNFOS_uc009yja.2_Intron|BDNFOS_uc009yjb.2_Intron	NR_002832				Homo sapiens non-coding transcript BT2C (BDNF) mRNA, complete sequence; alternatively spliced.												0																		---	---	---	---
BDNF	627	broad.mit.edu	37	11	27734948	27734948	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:27734948delT	uc001msa.2	-						BDNF_uc001mrw.3_Intron|BDNF_uc001mrx.2_Intron|BDNF_uc001mry.3_Intron|BDNF_uc001mrz.3_Intron	NM_170731	NP_733927			brain-derived neurotrophic factor isoform b							extracellular region	growth factor activity				0																		---	---	---	---
METT5D1	196074	broad.mit.edu	37	11	28279122	28279122	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:28279122delT	uc001msh.2	+						METT5D1_uc001msg.2_Intron|METT5D1_uc001mse.2_Intron	NM_001113528	NP_001107000			methyltransferase 5 domain containing 1 isoform								methyltransferase activity				0																		---	---	---	---
METT5D1	196074	broad.mit.edu	37	11	28299251	28299251	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:28299251delA	uc001msh.2	+						METT5D1_uc001msg.2_Intron|METT5D1_uc001mse.2_Intron	NM_001113528	NP_001107000			methyltransferase 5 domain containing 1 isoform								methyltransferase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	28405862	28405862	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:28405862delT								METT5D1 (50808 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	28849082	28849083	+	IGR	INS	-	T	T	rs111625923		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:28849082_28849083insT								METT5D1 (494028 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	28913896	28913897	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:28913896_28913897delAC								METT5D1 (558842 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	29748140	29748140	+	IGR	DEL	A	-	-	rs140898794		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:29748140delA								None (None upstream) : KCNA4 (283626 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	29876508	29876508	+	IGR	DEL	A	-	-	rs78076974	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:29876508delA								None (None upstream) : KCNA4 (155258 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	30062870	30062871	+	IGR	DEL	TG	-	-	rs143260255	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:30062870_30062871delTG								KCNA4 (24382 upstream) : FSHB (189692 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	30616458	30616458	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:30616458delT								MPPED2 (8528 upstream) : DCDC1 (348291 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	30770829	30770830	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:30770829_30770830delAA								MPPED2 (162899 upstream) : DCDC1 (193919 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	30837856	30837856	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:30837856delA								MPPED2 (229926 upstream) : DCDC1 (126893 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	31019359	31019360	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:31019359_31019360delTG	uc009yjk.1	-						uc009yjl.1_Intron|DCDC1_uc001msu.1_Intron					RecName: Full=Doublecortin domain-containing protein 5;																														---	---	---	---
Unknown	0	broad.mit.edu	37	11	31120158	31120158	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:31120158delC	uc009yjk.1	-						uc009yjl.1_Intron|DCDC1_uc001msu.1_Intron					RecName: Full=Doublecortin domain-containing protein 5;																														---	---	---	---
DCDC1	341019	broad.mit.edu	37	11	31336591	31336591	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:31336591delA	uc001msv.2	-						DCDC1_uc001msu.1_Intron	NM_181807	NP_861523			doublecortin domain containing 1						intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)																	---	---	---	---
Unknown	0	broad.mit.edu	37	11	32233078	32233078	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32233078delA								RCN1 (105807 upstream) : WT1 (176247 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	32242375	32242376	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32242375_32242376insG								RCN1 (115104 upstream) : WT1 (166949 downstream)																																			---	---	---	---
EIF3M	10480	broad.mit.edu	37	11	32614276	32614276	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32614276delT	uc001mtu.2	+						EIF3M_uc010ref.1_Intron	NM_006360	NP_006351			eukaryotic translation initiation factor 3,							eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)|breast(1)|skin(1)	3	Breast(20;0.109)																	---	---	---	---
CCDC73	493860	broad.mit.edu	37	11	32635951	32635951	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32635951delT	uc001mtv.2	-	16	1957	c.1913delA	c.(1912-1914)AATfs	p.N638fs		NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	638										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)																	---	---	---	---
CCDC73	493860	broad.mit.edu	37	11	32637520	32637520	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32637520delT	uc001mtv.2	-	15	1385	c.1341delA	c.(1339-1341)AAAfs	p.K447fs	CCDC73_uc001mtw.1_Frame_Shift_Del_p.K437fs	NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	447										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)																	---	---	---	---
Unknown	0	broad.mit.edu	37	11	33423117	33423117	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:33423117delT								HIPK3 (47178 upstream) : C11orf41 (140760 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	33534831	33534831	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:33534831delT								HIPK3 (158892 upstream) : C11orf41 (29046 downstream)																																			---	---	---	---
NAT10	55226	broad.mit.edu	37	11	34145710	34145711	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34145710_34145711delAA	uc001mvk.2	+						NAT10_uc010ren.1_Intron	NM_024662	NP_078938			N-acetyltransferase 10 isoform a							nucleolus	ATP binding|N-acetyltransferase activity|protein binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0119)|all_hematologic(20;0.0231)																---	---	---	---
ABTB2	25841	broad.mit.edu	37	11	34279862	34279862	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34279862delT	uc001mvl.1	-							NM_145804	NP_665803			ankyrin repeat and BTB (POZ) domain containing								DNA binding			central_nervous_system(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(20;0.0691)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	34397688	34397689	+	IGR	DEL	TT	-	-	rs79459848		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34397688_34397689delTT								ABTB2 (18886 upstream) : CAT (62789 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	34406713	34406713	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34406713delT								ABTB2 (27911 upstream) : CAT (53765 downstream)																																			---	---	---	---
CAT	847	broad.mit.edu	37	11	34491219	34491219	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34491219delT	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)													---	---	---	---
ELF5	2001	broad.mit.edu	37	11	34513128	34513130	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34513128_34513130delTTT	uc001mvo.1	-						ELF5_uc001mvp.1_Intron|ELF5_uc009ykd.1_Intron	NM_198381	NP_938195			E74-like factor 5 ESE-2a						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)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	34736658	34736659	+	IGR	INS	-	AAC	AAC	rs141512948	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34736658_34736659insAAC								EHF (53577 upstream) : APIP (160055 downstream)																																			---	---	---	---
PAMR1	25891	broad.mit.edu	37	11	35528962	35528963	+	Intron	INS	-	AAAT	AAAT	rs146404914	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:35528962_35528963insAAAT	uc001mwg.2	-						PAMR1_uc001mwf.2_Intron|PAMR1_uc010rew.1_Intron|PAMR1_uc010rex.1_Intron	NM_001001991	NP_001001991			regeneration associated muscle protease isoform						proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	35625684	35625685	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:35625684_35625685delAA								PAMR1 (73836 upstream) : FJX1 (14050 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	35643475	35643475	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:35643475delA								FJX1 (1056 upstream) : TRIM44 (40878 downstream)																																			---	---	---	---
TRIM44	54765	broad.mit.edu	37	11	35738909	35738909	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:35738909delA	uc001mwi.2	+							NM_017583	NP_060053			DIPB protein							intracellular	protein binding|zinc ion binding			skin(1)	1	all_lung(20;0.0317)|Lung NSC(22;0.0661)|all_epithelial(35;0.115)	all_hematologic(20;0.107)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	35934346	35934346	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:35934346delA								TRIM44 (103416 upstream) : LDLRAD3 (31266 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	37211594	37211595	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:37211594_37211595delAA								C11orf74 (515204 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	37532398	37532399	+	IGR	INS	-	TG	TG	rs112051202		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:37532398_37532399insTG								C11orf74 (836008 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	37877212	37877212	+	IGR	DEL	A	-	-	rs71710158		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:37877212delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	38438170	38438171	+	IGR	INS	-	T	T	rs112566265		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:38438170_38438171insT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	38530752	38530752	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:38530752delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	39662283	39662283	+	IGR	DEL	A	-	-	rs35568178		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:39662283delA								None (None upstream) : LRRC4C (473470 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	39878710	39878710	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:39878710delT								None (None upstream) : LRRC4C (257043 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	39965186	39965186	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:39965186delT								None (None upstream) : LRRC4C (170567 downstream)																																			---	---	---	---
LRRC4C	57689	broad.mit.edu	37	11	40466688	40466688	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:40466688delA	uc001mxc.1	-						LRRC4C_uc001mxd.1_Intron	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)																---	---	---	---
LRRC4C	57689	broad.mit.edu	37	11	40552464	40552464	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:40552464delT	uc001mxc.1	-						LRRC4C_uc001mxd.1_Intron	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)																---	---	---	---
LRRC4C	57689	broad.mit.edu	37	11	40746411	40746411	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:40746411delA	uc001mxc.1	-						LRRC4C_uc001mxd.1_Intron	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)																---	---	---	---
LRRC4C	57689	broad.mit.edu	37	11	40811475	40811475	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:40811475delA	uc001mxc.1	-						LRRC4C_uc001mxd.1_Intron	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)																---	---	---	---
LRRC4C	57689	broad.mit.edu	37	11	41012352	41012352	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:41012352delA	uc001mxc.1	-						LRRC4C_uc001mxd.1_Intron	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)																---	---	---	---
LRRC4C	57689	broad.mit.edu	37	11	41065835	41065835	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:41065835delA	uc001mxc.1	-						LRRC4C_uc001mxd.1_Intron	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)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	41682434	41682434	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:41682434delA								LRRC4C (201111 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	41800789	41800789	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:41800789delA								LRRC4C (319466 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	42162424	42162424	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:42162424delT								LRRC4C (681101 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	42242250	42242250	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:42242250delA								LRRC4C (760927 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	42382677	42382678	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:42382677_42382678delTG								LRRC4C (901354 upstream) : API5 (950827 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	42726118	42726118	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:42726118delT								None (None upstream) : API5 (607387 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	42838415	42838415	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:42838415delA								None (None upstream) : API5 (495090 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	43522097	43522097	+	IGR	DEL	A	-	-	rs78176982		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:43522097delA								TTC17 (6604 upstream) : MIR670 (59109 downstream)																																			---	---	---	---
ALKBH3	221120	broad.mit.edu	37	11	43936035	43936036	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:43936035_43936036insA	uc001mxs.2	+						ALKBH3_uc009ykp.2_Intron|ALKBH3_uc001mxt.2_Intron|ALKBH3_uc009ykq.2_Intron|uc001mxu.1_Intron	NM_139178	NP_631917			AlkB homolog 3						DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation	mitochondrion|nucleoplasm	damaged DNA binding|DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0					Vitamin C(DB00126)								Direct_reversal_of_damage					---	---	---	---
Unknown	0	broad.mit.edu	37	11	43957697	43957697	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:43957697delG								ALKBH3 (15872 upstream) : AG2 (6409 downstream)																																			---	---	---	---
ACCSL	390110	broad.mit.edu	37	11	44075997	44075998	+	Intron	INS	-	T	T	rs111253416		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:44075997_44075998insT	uc001mxw.1	+						ACCSL_uc009ykr.2_Intron	NM_001031854	NP_001027025			1-aminocyclopropane-1-carboxylate synthase								1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5																		---	---	---	---
EXT2	2132	broad.mit.edu	37	11	44242522	44242522	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:44242522delA	uc001mxz.2	+						EXT2_uc010rfo.1_Intron|EXT2_uc001mxy.2_Intron|EXT2_uc009ykt.2_Intron|EXT2_uc001mya.2_Intron	NM_207122	NP_997005			exostosin 2 isoform 2						glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction	Golgi membrane|integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity			lung(2)|breast(2)|skin(1)	5								Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses				---	---	---	---
Unknown	0	broad.mit.edu	37	11	44520970	44520971	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:44520970_44520971insT								ALX4 (189254 upstream) : CD82 (66170 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	44578209	44578209	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:44578209delT								ALX4 (246493 upstream) : CD82 (8932 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	44999933	44999934	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:44999933_44999934delGA								LOC221122 (357 upstream) : PRDM11 (115630 downstream)																																			---	---	---	---
PRDM11	56981	broad.mit.edu	37	11	45193457	45193458	+	Intron	INS	-	CAATT	CAATT	rs140406681	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:45193457_45193458insCAATT	uc001myo.2	+							NM_020229	NP_064614			PR domain containing 11											upper_aerodigestive_tract(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	45603248	45603248	+	IGR	DEL	A	-	-	rs71995899		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:45603248delA								SYT13 (295364 upstream) : CHST1 (67179 downstream)																																			---	---	---	---
PHF21A	51317	broad.mit.edu	37	11	46004856	46004856	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46004856delA	uc001ncc.3	-						PHF21A_uc001ncb.3_Intron|PHF21A_uc009ykx.2_Intron|PHF21A_uc001nce.2_Intron	NM_001101802	NP_001095272			BRAF35/HDAC2 complex isoform a						blood coagulation|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2																		---	---	---	---
PHF21A	51317	broad.mit.edu	37	11	46062751	46062751	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46062751delT	uc001ncc.3	-						PHF21A_uc001ncb.3_Intron|PHF21A_uc009ykx.2_Intron|PHF21A_uc001nce.2_Intron	NM_001101802	NP_001095272			BRAF35/HDAC2 complex isoform a						blood coagulation|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2																		---	---	---	---
CKAP5	9793	broad.mit.edu	37	11	46818941	46818941	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46818941delA	uc001ndi.1	-						CKAP5_uc009ylg.1_Intron|CKAP5_uc001ndj.1_Intron	NM_001008938	NP_001008938			colonic and hepatic tumor over-expressed protein						cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2																		---	---	---	---
C11orf49	79096	broad.mit.edu	37	11	47075171	47075174	+	Intron	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47075171_47075174delAAAA	uc001ndp.2	+						C11orf49_uc001nds.2_Intron|C11orf49_uc001ndq.2_Intron|C11orf49_uc001ndr.2_Intron|C11orf49_uc010rgx.1_Intron|C11orf49_uc010rgy.1_Intron|C11orf49_uc010rgz.1_Intron	NM_024113	NP_077018			hypothetical protein LOC79096 isoform 3												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	47212651	47212651	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47212651delA								PACSIN3 (4693 upstream) : DDB2 (23842 downstream)																																			---	---	---	---
NUP160	23279	broad.mit.edu	37	11	47841147	47841147	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47841147delT	uc001ngm.2	-						NUP160_uc009ylw.2_Intron	NM_015231	NP_056046			nucleoporin 160kDa						carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	47983765	47983766	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47983765_47983766insT								NUP160 (113708 upstream) : PTPRJ (18344 downstream)																																			---	---	---	---
PTPRJ	5795	broad.mit.edu	37	11	48010825	48010825	+	Intron	DEL	T	-	-	rs11039483		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48010825delT	uc001ngp.3	+						PTPRJ_uc001ngo.3_Intron	NM_002843	NP_002834			protein tyrosine phosphatase, receptor type, J						contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8																		---	---	---	---
PTPRJ	5795	broad.mit.edu	37	11	48062074	48062074	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48062074delT	uc001ngp.3	+						PTPRJ_uc001ngo.3_Intron	NM_002843	NP_002834			protein tyrosine phosphatase, receptor type, J						contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	48247024	48247024	+	IGR	DEL	T	-	-	rs113249692		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48247024delT								OR4B1 (7734 upstream) : OR4X2 (19632 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	48827669	48827669	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48827669delC								OR4A47 (316397 upstream) : FOLH1 (340519 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	48967951	48967951	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48967951delA								OR4A47 (456679 upstream) : FOLH1 (200237 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	49094581	49094582	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:49094581_49094582insA								OR4A47 (583309 upstream) : FOLH1 (73606 downstream)																																			---	---	---	---
LOC440040	440040	broad.mit.edu	37	11	49777594	49777595	+	Intron	DEL	TA	-	-	rs139110052	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:49777594_49777595delTA	uc010rhy.1	+						LOC440040_uc009ymb.2_Intron	NR_027044				SubName: Full=cDNA FLJ60249, highly similar to Metabotropic glutamate receptor 5;												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	50228603	50228603	+	IGR	DEL	A	-	-	rs112861391		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:50228603delA								OR4C12 (224566 upstream) : LOC441601 (10397 downstream)																																			---	---	---	---
LOC441601	441601	broad.mit.edu	37	11	50254815	50254815	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:50254815delA	uc001nhd.2	-							NR_003034				Homo sapiens septin 7 pseudogene, transcript variant 2, mRNA (cDNA clone IMAGE:5265802).												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	51448660	51448660	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:51448660delA								OR4A5 (36265 upstream) : OR4C46 (66622 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	51583341	51583344	+	IGR	DEL	GAAT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:51583341_51583344delGAAT								OR4C46 (67132 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	55024045	55024045	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55024045delT								None (None upstream) : TRIM48 (5613 downstream)																																			---	---	---	---
TRIM48	79097	broad.mit.edu	37	11	55035952	55035952	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55035952delT	uc010rid.1	+							NM_024114	NP_077019			tripartite motif-containing 48							intracellular	zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	55316612	55316613	+	IGR	INS	-	T	T	rs146749326	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55316612_55316613insT								OR4A15 (180219 upstream) : OR4C15 (5170 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	55534810	55534812	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55534810_55534812delAAA								OR4C6 (100652 upstream) : OR5D13 (6102 downstream)																																			---	---	---	---
OR5D14	219436	broad.mit.edu	37	11	55563305	55563305	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55563305delA	uc010rim.1	+	1	274	c.274delA	c.(274-276)AAAfs	p.K92fs		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	92	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)																---	---	---	---
SPRYD5	84767	broad.mit.edu	37	11	55652383	55652383	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55652383delT	uc010rip.1	+						SPRYD5_uc010riq.1_5'Flank	NM_032681	NP_116070			SPRY domain containing 5							intracellular	zinc ion binding				0		all_epithelial(135;0.226)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	55689487	55689487	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55689487delT								OR5W2 (7429 upstream) : OR5I1 (13446 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	56034370	56034370	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56034370delA								OR5T3 (13673 upstream) : OR5T1 (8745 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	56103413	56103413	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56103413delT								OR8K3 (16694 upstream) : OR8K1 (10102 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	56674330	56674330	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56674330delA								OR9G4 (163043 upstream) : OR5AK2 (82059 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	56698561	56698561	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56698561delA								OR9G4 (187274 upstream) : OR5AK2 (57828 downstream)																																			---	---	---	---
PRG2	5553	broad.mit.edu	37	11	57162286	57162286	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57162286delA	uc001nke.2	-											Homo sapiens mRNA for FOAP-13, complete cds.						defense response to bacterium|immune response	extracellular region|transport vesicle	heparin binding|sugar binding			central_nervous_system(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)	Sargramostim(DB00020)													---	---	---	---
Unknown	0	broad.mit.edu	37	11	57357258	57357258	+	IGR	DEL	A	-	-	rs144738610	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57357258delA								UBE2L6 (21805 upstream) : SERPING1 (7769 downstream)																																			---	---	---	---
SERPING1	710	broad.mit.edu	37	11	57368424	57368426	+	Intron	DEL	AAA	-	-	rs35871015		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57368424_57368426delAAA	uc001nkp.1	+						SERPING1_uc001nkq.1_Intron|SERPING1_uc010rju.1_Intron|SERPING1_uc010rjv.1_Intron|SERPING1_uc001nkr.1_Intron|SERPING1_uc009ymi.1_Intron|SERPING1_uc009ymj.1_Intron|SERPING1_uc001nks.1_Intron	NM_000062	NP_000053			serpin peptidase inhibitor, clade G, member 1						blood circulation|blood coagulation, intrinsic pathway|complement activation, classical pathway|innate immune response|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation	extracellular space|platelet alpha granule lumen	protein binding|serine-type endopeptidase inhibitor activity			central_nervous_system(1)	1														Hereditary_Angioedema				---	---	---	---
SERPING1	710	broad.mit.edu	37	11	57369329	57369335	+	Intron	DEL	AAAAAAA	-	-	rs141358474		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57369329_57369335delAAAAAAA	uc001nkp.1	+						SERPING1_uc001nkq.1_Intron|SERPING1_uc010rju.1_Intron|SERPING1_uc010rjv.1_Intron|SERPING1_uc001nkr.1_Intron|SERPING1_uc009ymi.1_Intron|SERPING1_uc009ymj.1_Intron|SERPING1_uc001nks.1_Intron	NM_000062	NP_000053			serpin peptidase inhibitor, clade G, member 1						blood circulation|blood coagulation, intrinsic pathway|complement activation, classical pathway|innate immune response|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation	extracellular space|platelet alpha granule lumen	protein binding|serine-type endopeptidase inhibitor activity			central_nervous_system(1)	1														Hereditary_Angioedema				---	---	---	---
CLP1	10978	broad.mit.edu	37	11	57428126	57428126	+	Intron	DEL	A	-	-	rs74496835		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57428126delA	uc001nkw.2	+						CLP1_uc010rjw.1_Intron|CLP1_uc009yml.2_Intron	NM_006831	NP_006822			ATP/GTP-binding protein isoform 1						mRNA 3'-end processing|nuclear mRNA splicing, via spliceosome|siRNA loading onto RISC involved in RNA interference|targeting of mRNA for destruction involved in RNA interference|termination of RNA polymerase II transcription|tRNA splicing, via endonucleolytic cleavage and ligation	nucleoplasm|tRNA-intron endonuclease complex	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|ATP-dependent polyribonucleotide 5'-hydroxyl-kinase activity			ovary(1)	1																		---	---	---	---
CTNND1	1500	broad.mit.edu	37	11	57558867	57558867	+	5'UTR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57558867delG	uc001nmc.3	+	3					CTNND1_uc001nlf.1_5'UTR|CTNND1_uc001nlh.1_5'UTR|CTNND1_uc001nlu.3_Intron|CTNND1_uc001nlt.3_Intron|CTNND1_uc001nls.3_Intron|CTNND1_uc001nlw.3_Intron|CTNND1_uc001nmf.3_5'UTR|CTNND1_uc001nmd.3_Intron|CTNND1_uc001nlk.3_Intron|CTNND1_uc001nme.3_5'UTR|CTNND1_uc001nll.3_Intron|CTNND1_uc001nmg.3_Intron|CTNND1_uc001nlj.3_Intron|CTNND1_uc001nlr.3_Intron|CTNND1_uc001nlp.3_Intron|CTNND1_uc001nlx.3_Intron|CTNND1_uc001nlz.3_Intron|CTNND1_uc009ymn.2_Intron|CTNND1_uc001nlm.3_5'UTR|CTNND1_uc001nly.3_Intron|CTNND1_uc001nmb.3_Intron|CTNND1_uc001nma.3_Intron|CTNND1_uc001nmi.3_Intron|CTNND1_uc001nmh.3_5'UTR|CTNND1_uc001nlq.3_Intron|CTNND1_uc001nln.3_5'UTR|CTNND1_uc001nli.3_5'UTR|CTNND1_uc001nlo.3_Intron|CTNND1_uc001nlv.3_Intron	NM_001085458	NP_001078927			catenin, delta 1 isoform 1ABC						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)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	57964570	57964571	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57964570_57964571delTT								OR9Q2 (5665 upstream) : OR1S2 (6106 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	58017526	58017527	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:58017526_58017527delTT								OR10Q1 (21179 upstream) : OR10W1 (16737 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	58144641	58144641	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:58144641delA								OR5B17 (18099 upstream) : OR5B3 (25299 downstream)																																			---	---	---	---
LPXN	9404	broad.mit.edu	37	11	58343414	58343414	+	5'Flank	DEL	T	-	-	rs34461980		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:58343414delT	uc001nmw.2	-						LPXN_uc009ymp.2_5'Flank|LPXN_uc010rkj.1_Intron|LPXN_uc010rkk.1_Intron	NM_004811	NP_004802			leupaxin isoform 2						cell adhesion|protein complex assembly|signal transduction	cytoplasm	zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	58616918	58616918	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:58616918delA								GLYATL2 (4921 upstream) : GLYATL1 (78220 downstream)																																			---	---	---	---
DTX4	23220	broad.mit.edu	37	11	58963076	58963076	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:58963076delT	uc001nns.2	+						DTX4_uc001nnr.2_Intron	NM_015177	NP_055992			deltex 4 homolog						Notch signaling pathway	cytoplasm	zinc ion binding			lung(2)|central_nervous_system(1)	3		all_epithelial(135;0.125)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	58983430	58983430	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:58983430delA								MPEG1 (2936 upstream) : OR5AN1 (148502 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	59184103	59184103	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59184103delA								OR5AN1 (51237 upstream) : OR5A2 (5351 downstream)																																			---	---	---	---
OSBP	5007	broad.mit.edu	37	11	59364059	59364060	+	Intron	INS	-	A	A	rs113563479		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59364059_59364060insA	uc001noc.1	-						OSBP_uc009ymr.1_Intron|hsa-mir-3162|MI0014192_5'Flank	NM_002556	NP_002547			oxysterol binding protein						lipid transport	Golgi membrane	oxysterol binding			large_intestine(1)	1		all_epithelial(135;0.000236)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	59706734	59706734	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59706734delT								TCN1 (72693 upstream) : PLAC1L (101014 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	59723674	59723674	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59723674delT	uc001nok.1	+											Homo sapiens mRNA for hypothetical protein, partial sequence, clone:Hsa11-digit01-13-09-F.																														---	---	---	---
Unknown	0	broad.mit.edu	37	11	60042936	60042936	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60042936delA								MS4A6A (90797 upstream) : MS4A4A (5203 downstream)																																			---	---	---	---
MS4A15	219995	broad.mit.edu	37	11	60539762	60539762	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60539762delT	uc009ynf.1	+						MS4A15_uc001npx.2_Intron|MS4A15_uc001npy.2_Intron|MS4A15_uc009yng.1_Intron	NM_001098835	NP_001092305			membrane-spanning 4-domains, subfamily A, member							integral to membrane	receptor activity			lung(1)	1																		---	---	---	---
CD6	923	broad.mit.edu	37	11	60783054	60783054	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60783054delA	uc001nqq.2	+						CD6_uc001nqp.2_Intron|CD6_uc001nqr.2_Intron|CD6_uc001nqs.2_Intron|CD6_uc001nqt.2_Intron	NM_006725	NP_006716			CD6 molecule precursor						cell adhesion	cell surface|integral to plasma membrane	scavenger receptor activity			pancreas(1)	1																		---	---	---	---
FADS1	3992	broad.mit.edu	37	11	61572224	61572224	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61572224delG	uc010rlm.1	-	7	1114	c.986delC	c.(985-987)CCAfs	p.P329fs	FADS1_uc001nsh.2_Frame_Shift_Del_p.P188fs|FADS1_uc010rln.1_Frame_Shift_Del_p.P188fs	NM_013402	NP_037534	O60427	FADS1_HUMAN	fatty acid desaturase 1	272	Helical; (Potential).				cell-cell signaling|cellular response to starvation|electron transport chain|icosanoid biosynthetic process|phospholipid biosynthetic process|regulation of cell differentiation|regulation of transcription, DNA-dependent|transport	endoplasmic reticulum membrane|integral to membrane|microsome	C-5 sterol desaturase activity|heme binding|protein binding			central_nervous_system(1)	1					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)													---	---	---	---
ASRGL1	80150	broad.mit.edu	37	11	62116443	62116443	+	Intron	DEL	T	-	-	rs112720859		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62116443delT	uc001nte.3	+						ASRGL1_uc001ntf.3_Intron|ASRGL1_uc001ntg.3_Intron	NM_025080	NP_079356			asparaginase-like 1						asparagine catabolic process via L-aspartate|protein maturation	cytoplasm|microtubule cytoskeleton|nucleus	N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity				0					L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)													---	---	---	---
ASRGL1	80150	broad.mit.edu	37	11	62140935	62140935	+	Intron	DEL	T	-	-	rs112856978		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62140935delT	uc001nte.3	+						ASRGL1_uc001ntf.3_Intron|ASRGL1_uc001ntg.3_Intron|ASRGL1_uc001nth.1_Intron	NM_025080	NP_079356			asparaginase-like 1						asparagine catabolic process via L-aspartate|protein maturation	cytoplasm|microtubule cytoskeleton|nucleus	N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity				0					L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)													---	---	---	---
AHNAK	79026	broad.mit.edu	37	11	62316141	62316141	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62316141delA	uc001ntl.2	-						AHNAK_uc001ntk.1_5'Flank	NM_001620	NP_001611			AHNAK nucleoprotein isoform 1						nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	62799908	62799908	+	IGR	DEL	T	-	-	rs114064409	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62799908delT								SLC22A8 (16597 upstream) : SLC22A24 (47506 downstream)																																			---	---	---	---
ATL3	25923	broad.mit.edu	37	11	63429361	63429361	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:63429361delA	uc001nxk.1	-						ATL3_uc010rms.1_Intron|ATL3_uc001nxl.1_Intron	NM_015459	NP_056274			atlastin 3						endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			pancreas(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	63702257	63702258	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:63702257_63702258delTT								RCOR2 (17941 upstream) : NAA40 (4184 downstream)																																			---	---	---	---
OTUB1	55611	broad.mit.edu	37	11	63752540	63752542	+	5'Flank	DEL	AAA	-	-	rs34083911		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:63752540_63752542delAAA	uc001nyf.1	+						OTUB1_uc001nyg.1_5'Flank|OTUB1_uc010rmz.1_5'Flank|OTUB1_uc010rna.1_5'Flank|OTUB1_uc009ypa.2_5'Flank|OTUB1_uc009ypb.1_5'Flank	NM_017670	NP_060140			otubain 1						protein K48-linked deubiquitination	cytoplasm	NEDD8-specific protease activity|omega peptidase activity|ubiquitin binding|ubiquitin-specific protease activity			breast(1)	1																		---	---	---	---
FKBP2	2286	broad.mit.edu	37	11	64009066	64009067	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64009066_64009067insG	uc001nyy.2	+						FKBP2_uc010rnh.1_Intron|FKBP2_uc001nyz.2_5'Flank	NM_004470	NP_004461			FK506 binding protein 2, 13kDa precursor						protein folding	endoplasmic reticulum membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|protein binding				0																		---	---	---	---
CDC42BPG	55561	broad.mit.edu	37	11	64594105	64594105	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64594105delG	uc001obs.3	-							NM_017525	NP_059995			CDC42 binding protein kinase gamma (DMPK-like)						actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4																		---	---	---	---
EHD1	10938	broad.mit.edu	37	11	64649470	64649470	+	5'Flank	DEL	T	-	-	rs35279427		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64649470delT	uc010rnq.1	-						EHD1_uc001obv.1_5'Flank	NM_006795	NP_006786			EH-domain containing 1						blood coagulation|cholesterol homeostasis|endocytic recycling|intracellular protein transport|low-density lipoprotein particle clearance|positive regulation of cholesterol storage|protein homooligomerization	early endosome membrane|lipid particle|plasma membrane|platelet dense tubular network membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	65125432	65125432	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65125432delT								TIGD3 (352 upstream) : SLC25A45 (17231 downstream)																																			---	---	---	---
CATSPER1	117144	broad.mit.edu	37	11	65784658	65784658	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65784658delG	uc001ogt.2	-							NM_053054	NP_444282			sperm-associated cation channel 1						cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	protein binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	65808054	65808054	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65808054delA								CATSPER1 (14066 upstream) : GAL3ST3 (183 downstream)																																			---	---	---	---
RAB1B	81876	broad.mit.edu	37	11	66039143	66039143	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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																		---	---	---	---
RBM14	10432	broad.mit.edu	37	11	66393160	66393160	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66393160delC	uc001oit.2	+						RBM14_uc009yrh.2_Intron|RBM14_uc009yri.2_Intron|RBM4_uc009yrj.2_Intron|RBM4_uc009yrk.2_Intron	NM_006328	NP_006319			RNA binding motif protein 14						DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|histone deacetylation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus	mediator complex|ribonucleoprotein complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|protein binding, bridging|RNA binding|RNA polymerase II transcription cofactor activity			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
C11orf80	79703	broad.mit.edu	37	11	66514186	66514186	+	Intron	DEL	A	-	-	rs516078		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66514186delA	uc001ojf.2	+						C11orf80_uc001ojg.2_Intron|C11orf80_uc001ojh.2_Intron|C11orf80_uc010rpk.1_Intron	NM_024650	NP_078926			hypothetical protein LOC79703												0																		---	---	---	---
SYT12	91683	broad.mit.edu	37	11	66807086	66807086	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66807086delA	uc009yrl.2	+						SYT12_uc001oju.2_Intron	NM_177963	NP_808878			synaptotagmin XII							cell junction|integral to membrane|synaptic vesicle membrane				ovary(1)	1																		---	---	---	---
KDM2A	22992	broad.mit.edu	37	11	66969427	66969427	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66969427delA	uc001ojw.2	+						KDM2A_uc001ojx.2_Intron	NM_012308	NP_036440			F-box and leucine-rich repeat protein 11						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9																		---	---	---	---
PPP1CA	5499	broad.mit.edu	37	11	67165933	67165933	+	3'UTR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67165933delC	uc001okw.1	-	7					PPP1CA_uc009yro.1_3'UTR|PPP1CA_uc001okt.1_3'UTR|PPP1CA_uc001oku.1_3'UTR|PPP1CA_uc001okv.1_3'UTR|PPP1CA_uc001okx.1_3'UTR|PPP1CA_uc001oky.2_3'UTR	NM_002708	NP_002699			protein phosphatase 1, catalytic subunit, alpha						cell cycle|cell division|glycogen metabolic process|protein dephosphorylation|triglyceride catabolic process	cytosol|MLL5-L complex|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|protein binding|protein phosphatase type 1 regulator activity|protein serine/threonine phosphatase activity			breast(1)|pancreas(1)	2			BRCA - Breast invasive adenocarcinoma(15;8.53e-07)															---	---	---	---
Unknown	0	broad.mit.edu	37	11	67282376	67282377	+	IGR	DEL	TT	-	-	rs76958955		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67282376_67282377delTT								CDK2AP2 (6261 upstream) : CABP2 (4041 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	67424082	67424083	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67424082_67424083delTT								ACY3 (5952 upstream) : ALDH3B2 (5551 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	67480265	67480266	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67480265_67480266insT								ALDH3B2 (31580 upstream) : LOC645332 (78974 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	67599525	67599526	+	IGR	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67599525_67599526insC								LOC645332 (26718 upstream) : UNC93B1 (159049 downstream)																																			---	---	---	---
CHKA	1119	broad.mit.edu	37	11	67852855	67852855	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67852855delT	uc001onj.2	-						CHKA_uc001onk.2_Intron	NM_001277	NP_001268			choline kinase alpha isoform a						lipid transport|phosphatidylethanolamine biosynthetic process	cytoplasm	ATP binding|choline kinase activity|drug binding|ethanolamine kinase activity|signal transducer activity			ovary(1)|central_nervous_system(1)	2					Choline(DB00122)													---	---	---	---
LRP5	4041	broad.mit.edu	37	11	68109539	68109542	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68109539_68109542delTTTT	uc001ont.2	+						LRP5_uc009ysg.2_Intron	NM_002335	NP_002326			low density lipoprotein receptor-related protein						adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7																		---	---	---	---
LRP5	4041	broad.mit.edu	37	11	68148745	68148745	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68148745delG	uc001ont.2	+						LRP5_uc009ysg.2_Intron	NM_002335	NP_002326			low density lipoprotein receptor-related protein						adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7																		---	---	---	---
LRP5	4041	broad.mit.edu	37	11	68150350	68150351	+	Intron	DEL	TT	-	-	rs34825808		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68150350_68150351delTT	uc001ont.2	+						LRP5_uc009ysg.2_Intron	NM_002335	NP_002326			low density lipoprotein receptor-related protein						adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7																		---	---	---	---
GAL	51083	broad.mit.edu	37	11	68458593	68458593	+	3'UTR	DEL	T	-	-	rs75147512		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)														---	---	---	---
CPT1A	1374	broad.mit.edu	37	11	68569098	68569099	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68569098_68569099delAA	uc001oog.3	-						CPT1A_uc001oof.3_Intron|CPT1A_uc009ysj.2_Intron	NM_001876	NP_001867			carnitine palmitoyltransferase 1A liver isoform						carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)													---	---	---	---
TPCN2	219931	broad.mit.edu	37	11	68880455	68880455	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68880455delC	uc001oot.2	+							NM_139075				two pore segment channel 2						cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)															---	---	---	---
Unknown	0	broad.mit.edu	37	11	69209995	69209996	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:69209995_69209996insT								MYEOV (53546 upstream) : CCND1 (245877 downstream)																																			---	---	---	---
ORAOV1	220064	broad.mit.edu	37	11	69487294	69487294	+	Intron	DEL	A	-	-	rs112417405		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:69487294delA	uc001opc.2	-						ORAOV1_uc010rqi.1_Intron|ORAOV1_uc009ysm.2_Intron|ORAOV1_uc001opd.2_Intron|ORAOV1_uc001ope.1_Intron	NM_153451	NP_703152			oral cancer overexpressed 1												0	all_cancers(3;5.53e-114)|all_epithelial(3;1.34e-121)|Breast(3;9.28e-34)|all_lung(4;1.99e-21)|Lung NSC(4;4.65e-21)|Hepatocellular(3;6.15e-15)|Melanoma(5;1.89e-05)|Ovarian(3;0.0348)		Epithelial(3;5.64e-57)|all cancers(3;5.98e-51)|BRCA - Breast invasive adenocarcinoma(2;5.49e-48)|Lung(3;1.13e-16)|LUSC - Lung squamous cell carcinoma(11;3.74e-15)|STAD - Stomach adenocarcinoma(18;0.0278)|LUAD - Lung adenocarcinoma(13;0.0537)															---	---	---	---
Unknown	0	broad.mit.edu	37	11	69852089	69852090	+	IGR	INS	-	A	A	rs140485910	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:69852089_69852090insA								FGF3 (217897 upstream) : ANO1 (72318 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	69919927	69919927	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:69919927delA								FGF3 (285735 upstream) : ANO1 (4481 downstream)																																			---	---	---	---
ANO1	55107	broad.mit.edu	37	11	69949371	69949371	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:69949371delA	uc001opj.2	+						ANO1_uc001opk.1_Intron|ANO1_uc001opl.1_Intron	NM_018043	NP_060513			anoctamin 1, calcium activated chloride channel						multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2																		---	---	---	---
ANO1	55107	broad.mit.edu	37	11	69977410	69977411	+	Intron	DEL	TG	-	-	rs112231295		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:69977410_69977411delTG	uc001opj.2	+						ANO1_uc001opk.1_Intron|ANO1_uc001opl.1_Intron|ANO1_uc010rqk.1_Intron	NM_018043	NP_060513			anoctamin 1, calcium activated chloride channel						multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	70087077	70087077	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:70087077delC								FADD (33569 upstream) : PPFIA1 (29746 downstream)																																			---	---	---	---
PPFIA1	8500	broad.mit.edu	37	11	70177341	70177342	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:70177341_70177342delAA	uc001opo.2	+						PPFIA1_uc001opn.1_Intron|PPFIA1_uc001opp.2_Intron|PPFIA1_uc001opq.1_Intron	NM_003626	NP_003617			PTPRF interacting protein alpha 1 isoform b						cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)															---	---	---	---
SHANK2	22941	broad.mit.edu	37	11	70406399	70406399	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:70406399delA	uc001oqc.2	-						SHANK2_uc010rqn.1_Intron|SHANK2_uc001opz.2_Intron|uc009ysn.1_Intron|SHANK2_uc010rqp.1_Intron	NM_012309	NP_036441			SH3 and multiple ankyrin repeat domains 2						intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)															---	---	---	---
SHANK2	22941	broad.mit.edu	37	11	70554344	70554345	+	Intron	INS	-	G	G	rs140558282	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:70554344_70554345insG	uc001oqc.2	-							NM_012309	NP_036441			SH3 and multiple ankyrin repeat domains 2						intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)															---	---	---	---
Unknown	0	broad.mit.edu	37	11	71050080	71050080	+	IGR	DEL	A	-	-	rs35213797		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:71050080delA								SHANK2 (114272 upstream) : DHCR7 (95379 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	71231840	71231840	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:71231840delT								NADSYN1 (19261 upstream) : KRTAP5-7 (6473 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	71337295	71337295	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:71337295delT								KRTAP5-11 (43374 upstream) : FAM86C (161262 downstream)																																			---	---	---	---
NUMA1	4926	broad.mit.edu	37	11	71728560	71728561	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:71728560_71728561delAA	uc001orl.1	-						NUMA1_uc009ysw.1_5'Flank|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Intron|NUMA1_uc001orn.2_5'Flank|NUMA1_uc009ysx.1_Intron|NUMA1_uc001oro.1_Intron|NUMA1_uc009ysy.1_3'UTR|NUMA1_uc001orp.2_3'UTR|NUMA1_uc001orq.2_3'UTR	NM_006185	NP_006176			nuclear mitotic apparatus protein 1						G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8								T	RARA	APL								---	---	---	---
NUMA1	4926	broad.mit.edu	37	11	71730234	71730234	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:71730234delA	uc001orl.1	-						NUMA1_uc009ysw.1_5'Flank|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Intron|NUMA1_uc001orn.2_5'Flank|NUMA1_uc009ysx.1_Intron|NUMA1_uc001oro.1_Intron|NUMA1_uc009ysy.1_Intron|NUMA1_uc001orp.2_Intron|NUMA1_uc001orq.2_Intron	NM_006185	NP_006176			nuclear mitotic apparatus protein 1						G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8								T	RARA	APL								---	---	---	---
NUMA1	4926	broad.mit.edu	37	11	71779504	71779504	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:71779504delA	uc001orl.1	-						NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Intron|NUMA1_uc001oro.1_Intron|NUMA1_uc001orp.2_Intron|NUMA1_uc001orq.2_Intron	NM_006185	NP_006176			nuclear mitotic apparatus protein 1						G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8								T	RARA	APL								---	---	---	---
FOLR1	2348	broad.mit.edu	37	11	71902410	71902410	+	Intron	DEL	T	-	-	rs5792581		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:71902410delT	uc001orz.1	+						FOLR1_uc001osa.1_Intron|FOLR1_uc001osb.1_Intron|FOLR1_uc001osc.1_Intron|FOLR1_uc001osd.1_5'Flank	NM_016724	NP_057936			folate receptor 1 precursor						cell death|folic acid transport|receptor-mediated endocytosis	anchored to membrane|extracellular region|integral to plasma membrane|membrane fraction	folic acid binding|receptor activity			ovary(1)	1																		---	---	---	---
ARAP1	116985	broad.mit.edu	37	11	72421119	72421120	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:72421119_72421120insG	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																		---	---	---	---
FCHSD2	9873	broad.mit.edu	37	11	72742075	72742075	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:72742075delA	uc009ytl.2	-						FCHSD2_uc010rrg.1_Intron|FCHSD2_uc001oth.3_Intron|FCHSD2_uc001oti.2_Intron	NM_014824	NP_055639			FCH and double SH3 domains 2								protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(5;3.3e-05)															---	---	---	---
Unknown	0	broad.mit.edu	37	11	72901223	72901223	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:72901223delT								FCHSD2 (48080 upstream) : P2RY2 (28121 downstream)																																			---	---	---	---
FAM168A	23201	broad.mit.edu	37	11	73210869	73210870	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:73210869_73210870insA	uc001otz.1	-						FAM168A_uc001oty.1_Intron|FAM168A_uc009ytp.1_Intron	NM_015159	NP_055974			hypothetical protein LOC23201												0																		---	---	---	---
FAM168A	23201	broad.mit.edu	37	11	73217208	73217210	+	Intron	DEL	AAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:73217208_73217210delAAG	uc001otz.1	-						FAM168A_uc001oty.1_Intron|FAM168A_uc009ytp.1_Intron	NM_015159	NP_055974			hypothetical protein LOC23201												0																		---	---	---	---
FAM168A	23201	broad.mit.edu	37	11	73261854	73261854	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:73261854delA	uc001otz.1	-						FAM168A_uc001oty.1_Intron|FAM168A_uc009ytp.1_Intron	NM_015159	NP_055974			hypothetical protein LOC23201												0																		---	---	---	---
RAB6A	5870	broad.mit.edu	37	11	73390977	73390977	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:73390977delA	uc001oue.2	-						RAB6A_uc001ouf.2_Intron|RAB6A_uc009yts.2_Intron	NM_002869	NP_002860			RAB6A, member RAS oncogene family isoform a						minus-end-directed organelle transport along microtubule|peptidyl-cysteine methylation|protein targeting to Golgi|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic vesicle|cytosol|Golgi membrane|trans-Golgi network	GTP binding|GTPase activity|protein domain specific binding				0																		---	---	---	---
RAB6A	5870	broad.mit.edu	37	11	73457978	73457978	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:73457978delT	uc001oue.2	-						RAB6A_uc001ouf.2_Intron|RAB6A_uc009yts.2_Intron|RAB6A_uc001oug.2_Intron	NM_002869	NP_002860			RAB6A, member RAS oncogene family isoform a						minus-end-directed organelle transport along microtubule|peptidyl-cysteine methylation|protein targeting to Golgi|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic vesicle|cytosol|Golgi membrane|trans-Golgi network	GTP binding|GTPase activity|protein domain specific binding				0																		---	---	---	---
PPME1	51400	broad.mit.edu	37	11	73928786	73928787	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:73928786_73928787delAA	uc001ouw.2	+						PPME1_uc009yty.2_Intron	NM_016147	NP_057231			protein phosphatase methylesterase 1						protein demethylation		carboxylesterase activity|protein C-terminal methylesterase activity|protein phosphatase 2A binding|protein phosphatase inhibitor activity|protein phosphatase type 2A regulator activity				0	Breast(11;3.29e-05)																	---	---	---	---
XRRA1	143570	broad.mit.edu	37	11	74627854	74627855	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:74627854_74627855insT	uc009yub.2	-						XRRA1_uc001ovm.2_Intron|XRRA1_uc001ovo.2_Intron|XRRA1_uc001ovq.3_Intron|XRRA1_uc001ovp.3_Intron|XRRA1_uc001ovr.2_Intron	NM_182969	NP_892014			X-ray radiation resistance associated 1						response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1																		---	---	---	---
SLCO2B1	11309	broad.mit.edu	37	11	74858381	74858381	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:74858381delG	uc010rrp.1	+											Homo sapiens mRNA for KIAA0880 protein, partial cds.						sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)													---	---	---	---
Unknown	0	broad.mit.edu	37	11	75403168	75403170	+	IGR	DEL	TTT	-	-	rs112733596		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:75403168_75403170delTTT								MAP6 (23689 upstream) : MOGAT2 (25764 downstream)																																			---	---	---	---
UVRAG	7405	broad.mit.edu	37	11	75792259	75792259	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:75792259delT	uc001oxc.2	+						UVRAG_uc010rrw.1_Intron|UVRAG_uc001oxd.2_Intron|UVRAG_uc010rrx.1_Intron	NM_003369	NP_003360			UV radiation resistance associated						DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6																		---	---	---	---
UVRAG	7405	broad.mit.edu	37	11	75817417	75817417	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:75817417delT	uc001oxc.2	+						UVRAG_uc010rrw.1_Intron|UVRAG_uc001oxd.2_Intron|UVRAG_uc010rrx.1_Intron	NM_003369	NP_003360			UV radiation resistance associated						DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6																		---	---	---	---
C11orf30	56946	broad.mit.edu	37	11	76246875	76246877	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:76246875_76246877delTTT	uc001oxl.2	+						C11orf30_uc001oxm.2_Intron|C11orf30_uc010rsb.1_Intron|C11orf30_uc010rsc.1_Intron|C11orf30_uc001oxn.2_Intron|C11orf30_uc010rsd.1_Intron|C11orf30_uc001oxo.1_Intron|C11orf30_uc010rse.1_Intron	NM_020193	NP_064578			EMSY protein						chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	76271263	76271264	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:76271263_76271264insA								C11orf30 (8675 upstream) : LRRC32 (97305 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	76318022	76318024	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:76318022_76318024delTTT								C11orf30 (55434 upstream) : LRRC32 (50545 downstream)																																			---	---	---	---
CAPN5	726	broad.mit.edu	37	11	76813801	76813801	+	Intron	DEL	C	-	-	rs35544168		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:76813801delC	uc001oxx.2	+						CAPN5_uc009yup.2_Intron|CAPN5_uc009yuq.2_Intron|CAPN5_uc001oxy.2_Intron|OMP_uc010rsk.1_5'Flank	NM_004055	NP_004046			calpain 5						proteolysis|signal transduction	intracellular	calcium-dependent cysteine-type endopeptidase activity				0																		---	---	---	---
MYO7A	4647	broad.mit.edu	37	11	76847604	76847604	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:76847604delA	uc001oyb.2	+						MYO7A_uc010rsl.1_Intron|MYO7A_uc010rsm.1_Intron|MYO7A_uc001oyc.2_Intron	NM_000260	NP_000251			myosin VIIA isoform 1						actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4																		---	---	---	---
PAK1	5058	broad.mit.edu	37	11	77171205	77171206	+	Intron	DEL	AA	-	-	rs80195530		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:77171205_77171206delAA	uc001oyh.3	-						PAK1_uc001oyg.3_Intron	NM_002576	NP_002567			p21-activated kinase 1 isoform 2						apoptosis|axon guidance|cytoskeleton organization|ER-nucleus signaling pathway|positive regulation of JUN kinase activity|positive regulation of peptidyl-serine phosphorylation|protein autophosphorylation|T cell costimulation|T cell receptor signaling pathway	cytosol|focal adhesion|Golgi apparatus	ATP binding|collagen binding|protein binding|protein serine/threonine kinase activity			skin(2)|stomach(1)|lung(1)	4	all_cancers(14;1.75e-18)																	---	---	---	---
CLNS1A	1207	broad.mit.edu	37	11	77334205	77334205	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:77334205delA	uc001oyk.2	-						CLNS1A_uc001oyl.2_Intron	NM_001293	NP_001284			chloride channel, nucleotide-sensitive, 1A						blood circulation|cell volume homeostasis|chloride transport|ncRNA metabolic process|spliceosomal snRNP assembly	cytoskeleton|cytosol|nucleus|plasma membrane	protein binding			ovary(1)	1	all_cancers(14;5.43e-17)|all_epithelial(13;1.78e-19)		Epithelial(5;1.02e-48)|BRCA - Breast invasive adenocarcinoma(5;1.4e-30)															---	---	---	---
Unknown	0	broad.mit.edu	37	11	77365989	77365989	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:77365989delT								CLNS1A (17138 upstream) : RSF1 (11286 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	77807757	77807758	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:77807757_77807758delTT								NDUFC2 (16492 upstream) : ALG8 (4230 downstream)																																			---	---	---	---
GAB2	9846	broad.mit.edu	37	11	77968056	77968056	+	Intron	DEL	T	-	-	rs34131674		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:77968056delT	uc001ozh.2	-						GAB2_uc001ozg.2_Intron	NM_080491	NP_536739			GRB2-associated binding protein 2 isoform a						osteoclast differentiation|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mast cell degranulation	cytosol|plasma membrane	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|transmembrane receptor protein tyrosine kinase adaptor activity			ovary(5)|lung(1)	6	all_cancers(14;3.31e-18)|all_epithelial(13;5.3e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.58e-23)															---	---	---	---
GAB2	9846	broad.mit.edu	37	11	77985049	77985049	+	Intron	DEL	T	-	-	rs113060948		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:77985049delT	uc001ozh.2	-						GAB2_uc001ozg.2_Intron	NM_080491	NP_536739			GRB2-associated binding protein 2 isoform a						osteoclast differentiation|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mast cell degranulation	cytosol|plasma membrane	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|transmembrane receptor protein tyrosine kinase adaptor activity			ovary(5)|lung(1)	6	all_cancers(14;3.31e-18)|all_epithelial(13;5.3e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.58e-23)															---	---	---	---
NARS2	79731	broad.mit.edu	37	11	78201091	78201092	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:78201091_78201092insA	uc001ozi.2	-						NARS2_uc010rsq.1_Intron	NM_024678	NP_078954			asparaginyl-tRNA synthetase 2, mitochondrial						asparaginyl-tRNA aminoacylation	mitochondrial matrix	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding			ovary(2)	2	all_cancers(14;2.63e-17)|all_epithelial(13;1.85e-19)				L-Asparagine(DB00174)													---	---	---	---
NARS2	79731	broad.mit.edu	37	11	78264337	78264337	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:78264337delT	uc001ozi.2	-						NARS2_uc010rsq.1_Intron|uc001ozj.2_Intron	NM_024678	NP_078954			asparaginyl-tRNA synthetase 2, mitochondrial						asparaginyl-tRNA aminoacylation	mitochondrial matrix	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding			ovary(2)	2	all_cancers(14;2.63e-17)|all_epithelial(13;1.85e-19)				L-Asparagine(DB00174)													---	---	---	---
Unknown	0	broad.mit.edu	37	11	78307195	78307196	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:78307195_78307196delTT								NARS2 (21286 upstream) : ODZ4 (57133 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	78345559	78345559	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:78345559delA								NARS2 (59650 upstream) : ODZ4 (18770 downstream)																																			---	---	---	---
ODZ4	26011	broad.mit.edu	37	11	78368841	78368841	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:78368841delA	uc001ozl.3	-	34					ODZ4_uc001ozk.3_3'UTR	NM_001098816	NP_001092286			odz, odd Oz/ten-m homolog 4						signal transduction	integral to membrane				ovary(2)|pancreas(2)	4																		---	---	---	---
ODZ4	26011	broad.mit.edu	37	11	78466213	78466213	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:78466213delT	uc001ozl.3	-							NM_001098816	NP_001092286			odz, odd Oz/ten-m homolog 4						signal transduction	integral to membrane				ovary(2)|pancreas(2)	4																		---	---	---	---
ODZ4	26011	broad.mit.edu	37	11	78487096	78487096	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:78487096delT	uc001ozl.3	-							NM_001098816	NP_001092286			odz, odd Oz/ten-m homolog 4						signal transduction	integral to membrane				ovary(2)|pancreas(2)	4																		---	---	---	---
ODZ4	26011	broad.mit.edu	37	11	78521109	78521109	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:78521109delA	uc001ozl.3	-							NM_001098816	NP_001092286			odz, odd Oz/ten-m homolog 4						signal transduction	integral to membrane				ovary(2)|pancreas(2)	4																		---	---	---	---
ODZ4	26011	broad.mit.edu	37	11	78793609	78793609	+	Intron	DEL	G	-	-	rs11340501		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:78793609delG	uc001ozl.3	-						ODZ4_uc009yvc.2_Intron	NM_001098816	NP_001092286			odz, odd Oz/ten-m homolog 4						signal transduction	integral to membrane				ovary(2)|pancreas(2)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	79353921	79353921	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:79353921delT								ODZ4 (202226 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	79836657	79836657	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:79836657delG								ODZ4 (684962 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	79935613	79935613	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:79935613delT								ODZ4 (783918 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	80062222	80062222	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:80062222delT								ODZ4 (910527 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	80242192	80242192	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:80242192delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	80579519	80579519	+	IGR	DEL	T	-	-	rs75651616		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:80579519delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	80896898	80896898	+	IGR	DEL	G	-	-	rs56774621		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:80896898delG								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	80985220	80985221	+	IGR	INS	-	TT	TT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:80985220_80985221insTT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	81904560	81904560	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:81904560delA	uc001ozo.1	-											Homo sapiens cDNA clone IMAGE:5298883.																														---	---	---	---
Unknown	0	broad.mit.edu	37	11	82177400	82177400	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:82177400delT								None (None upstream) : FAM181B (265653 downstream)																																			---	---	---	---
PRCP	5547	broad.mit.edu	37	11	82550236	82550236	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:82550236delT	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																		---	---	---	---
RAB30	27314	broad.mit.edu	37	11	82779341	82779342	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:82779341_82779342delAA	uc001ozu.2	-						RAB30_uc010rst.1_Intron|RAB30_uc001ozv.2_Intron	NM_014488	NP_055303			RAB30, member RAS oncogene family						protein transport|small GTPase mediated signal transduction	Golgi stack|plasma membrane	GTP binding|GTPase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	82790948	82790948	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:82790948delA								RAB30 (8064 upstream) : PCF11 (77189 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	82856336	82856336	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:82856336delA								RAB30 (73452 upstream) : PCF11 (11801 downstream)																																			---	---	---	---
ANKRD42	338699	broad.mit.edu	37	11	82949875	82949876	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:82949875_82949876delAA	uc001ozz.1	+						ANKRD42_uc010rsv.1_Intron|ANKRD42_uc001paa.2_Intron|ANKRD42_uc001pab.1_Intron	NM_182603	NP_872409			ankyrin repeat domain 42											skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	83113432	83113432	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:83113432delA	uc001pag.2	+											Homo sapiens cDNA clone IMAGE:5296561.																														---	---	---	---
DLG2	1740	broad.mit.edu	37	11	83205773	83205774	+	Intron	DEL	TA	-	-	rs78085442		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:83205773_83205774delTA	uc001paj.2	-						DLG2_uc001pai.2_Intron|DLG2_uc010rsy.1_Intron|DLG2_uc010rsz.1_Intron|DLG2_uc010rta.1_Intron|DLG2_uc001pak.2_Intron|DLG2_uc010rtb.1_Intron|DLG2_uc010rsw.1_Intron|DLG2_uc010rsx.1_Intron	NM_001364	NP_001355			chapsyn-110 isoform 2							cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)																---	---	---	---
DLG2	1740	broad.mit.edu	37	11	83885693	83885693	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:83885693delA	uc001paj.2	-						DLG2_uc001pai.2_Intron|DLG2_uc010rsy.1_Intron|DLG2_uc010rsz.1_Intron|DLG2_uc010rta.1_Intron|DLG2_uc001pak.2_Intron|DLG2_uc010rtb.1_Intron|DLG2_uc001pal.1_Intron|DLG2_uc001pam.1_Intron	NM_001364	NP_001355			chapsyn-110 isoform 2							cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)																---	---	---	---
DLG2	1740	broad.mit.edu	37	11	84138603	84138603	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:84138603delA	uc001paj.2	-						DLG2_uc010rsz.1_Intron|DLG2_uc010rta.1_Intron|DLG2_uc001pak.2_Intron|DLG2_uc001pal.1_Intron	NM_001364	NP_001355			chapsyn-110 isoform 2							cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)																---	---	---	---
DLG2	1740	broad.mit.edu	37	11	84316635	84316636	+	Intron	DEL	AA	-	-	rs140916511		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:84316635_84316636delAA	uc001paj.2	-						DLG2_uc010rsz.1_Intron|DLG2_uc010rta.1_Intron|DLG2_uc001pak.2_Intron|DLG2_uc001pal.1_Intron	NM_001364	NP_001355			chapsyn-110 isoform 2							cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)																---	---	---	---
DLG2	1740	broad.mit.edu	37	11	84328027	84328027	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:84328027delT	uc001paj.2	-						DLG2_uc010rsz.1_Intron|DLG2_uc010rta.1_Intron|DLG2_uc001pak.2_Intron|DLG2_uc001pal.1_Intron	NM_001364	NP_001355			chapsyn-110 isoform 2							cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)																---	---	---	---
DLG2	1740	broad.mit.edu	37	11	84837648	84837648	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:84837648delT	uc001pak.2	-							NM_001142699	NP_001136171			chapsyn-110 isoform 1							cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)																---	---	---	---
DLG2	1740	broad.mit.edu	37	11	84985417	84985417	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:84985417delA	uc001pak.2	-							NM_001142699	NP_001136171			chapsyn-110 isoform 1							cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)																---	---	---	---
DLG2	1740	broad.mit.edu	37	11	85166461	85166461	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:85166461delT	uc001pak.2	-							NM_001142699	NP_001136171			chapsyn-110 isoform 1							cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)																---	---	---	---
SYTL2	54843	broad.mit.edu	37	11	85411365	85411365	+	Intron	DEL	T	-	-	rs72171133		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:85411365delT	uc010rth.1	-						SYTL2_uc010rtg.1_Intron|SYTL2_uc010rti.1_Intron|SYTL2_uc010rtj.1_Intron|SYTL2_uc001pav.2_Intron|SYTL2_uc010rte.1_Intron|SYTL2_uc001pax.2_Intron|SYTL2_uc001paz.2_Intron|SYTL2_uc001pba.2_Intron|SYTL2_uc001pay.2_Intron|SYTL2_uc001paw.2_Intron|SYTL2_uc009yvj.2_Intron|SYTL2_uc001pbd.2_Intron|SYTL2_uc001pbb.2_Intron|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)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	85558430	85558430	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:85558430delT								SYTL2 (36252 upstream) : CCDC83 (7714 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	85643808	85643808	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:85643808delT								CCDC83 (12757 upstream) : PICALM (24678 downstream)																																			---	---	---	---
PICALM	8301	broad.mit.edu	37	11	85738543	85738545	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:85738543_85738545delTTT	uc001pbm.2	-						PICALM_uc001pbl.2_Intron|PICALM_uc001pbn.2_Intron|PICALM_uc010rtl.1_Intron	NM_007166	NP_009097			phosphatidylinositol-binding clathrin assembly						clathrin coat assembly|endosome transport|negative regulation of receptor-mediated endocytosis|positive regulation of transcription, DNA-dependent|receptor internalization|regulation of protein localization	clathrin coat|clathrin-coated vesicle|coated pit|Golgi apparatus|nucleus|postsynaptic membrane|presynaptic membrane	1-phosphatidylinositol binding|clathrin heavy chain binding			urinary_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(157;7.42e-07)|all_hematologic(158;0.00092)						T	MLLT10|MLL	TALL|AML|								---	---	---	---
PICALM	8301	broad.mit.edu	37	11	85779621	85779622	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:85779621_85779622delAG	uc001pbm.2	-						PICALM_uc001pbl.2_Intron|PICALM_uc001pbn.2_Intron|PICALM_uc010rtl.1_Intron	NM_007166	NP_009097			phosphatidylinositol-binding clathrin assembly						clathrin coat assembly|endosome transport|negative regulation of receptor-mediated endocytosis|positive regulation of transcription, DNA-dependent|receptor internalization|regulation of protein localization	clathrin coat|clathrin-coated vesicle|coated pit|Golgi apparatus|nucleus|postsynaptic membrane|presynaptic membrane	1-phosphatidylinositol binding|clathrin heavy chain binding			urinary_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(157;7.42e-07)|all_hematologic(158;0.00092)						T	MLLT10|MLL	TALL|AML|								---	---	---	---
ME3	10873	broad.mit.edu	37	11	86181481	86181481	+	Intron	DEL	T	-	-	rs72041416		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:86181481delT	uc001pbz.2	-						ME3_uc001pca.2_Intron|ME3_uc009yvk.2_Intron|ME3_uc010rtr.1_Intron	NM_001014811	NP_001014811			mitochondrial malic enzyme 3 precursor						aerobic respiration|malate metabolic process|oxygen metabolic process|pyruvate metabolic process	mitochondrial matrix	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|metal ion binding|NAD binding			ovary(1)	1		Acute lymphoblastic leukemia(157;4.34e-06)|all_hematologic(158;0.00252)			NADH(DB00157)													---	---	---	---
ME3	10873	broad.mit.edu	37	11	86199222	86199222	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:86199222delA	uc001pbz.2	-						ME3_uc001pca.2_Intron|ME3_uc009yvk.2_Intron|ME3_uc010rtr.1_Intron	NM_001014811	NP_001014811			mitochondrial malic enzyme 3 precursor						aerobic respiration|malate metabolic process|oxygen metabolic process|pyruvate metabolic process	mitochondrial matrix	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|metal ion binding|NAD binding			ovary(1)	1		Acute lymphoblastic leukemia(157;4.34e-06)|all_hematologic(158;0.00252)			NADH(DB00157)													---	---	---	---
ME3	10873	broad.mit.edu	37	11	86293952	86293953	+	Intron	DEL	AA	-	-	rs79072936		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:86293952_86293953delAA	uc001pbz.2	-						ME3_uc001pca.2_Intron|ME3_uc009yvk.2_Intron|ME3_uc010rtr.1_Intron	NM_001014811	NP_001014811			mitochondrial malic enzyme 3 precursor						aerobic respiration|malate metabolic process|oxygen metabolic process|pyruvate metabolic process	mitochondrial matrix	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|metal ion binding|NAD binding			ovary(1)	1		Acute lymphoblastic leukemia(157;4.34e-06)|all_hematologic(158;0.00252)			NADH(DB00157)													---	---	---	---
Unknown	0	broad.mit.edu	37	11	86674397	86674397	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:86674397delT	uc001pcf.2	+											Homo sapiens cDNA clone IMAGE:5303543.																														---	---	---	---
TMEM135	65084	broad.mit.edu	37	11	86909750	86909750	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:86909750delT	uc001pch.2	+						TMEM135_uc010rtt.1_Intron|TMEM135_uc001pci.2_Intron	NM_022918	NP_075069			transmembrane protein 135							integral to membrane					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	87191989	87191989	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:87191989delT								TMEM135 (157421 upstream) : RAB38 (654442 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	87597209	87597210	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:87597209_87597210delGT								TMEM135 (562641 upstream) : RAB38 (249221 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	87820534	87820534	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:87820534delA								TMEM135 (785966 upstream) : RAB38 (25897 downstream)																																			---	---	---	---
RAB38	23682	broad.mit.edu	37	11	87860739	87860739	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:87860739delT	uc001pcj.1	-							NM_022337	NP_071732			RAB38						protein transport|small GTPase mediated signal transduction	melanosome|plasma membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)																---	---	---	---
RAB38	23682	broad.mit.edu	37	11	87863310	87863310	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:87863310delA	uc001pcj.1	-							NM_022337	NP_071732			RAB38						protein transport|small GTPase mediated signal transduction	melanosome|plasma membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	88181066	88181066	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:88181066delA								CTSC (110125 upstream) : GRM5 (56679 downstream)																																			---	---	---	---
GRM5	2915	broad.mit.edu	37	11	88244193	88244193	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:88244193delA	uc001pcq.2	-						GRM5_uc009yvm.2_Intron	NM_001143831	NP_001137303			glutamate receptor, metabotropic 5 isoform a						activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)													---	---	---	---
GRM5	2915	broad.mit.edu	37	11	88526980	88526980	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:88526980delT	uc001pcq.2	-						GRM5_uc009yvm.2_Intron	NM_001143831	NP_001137303			glutamate receptor, metabotropic 5 isoform a						activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)													---	---	---	---
GRM5	2915	broad.mit.edu	37	11	88756309	88756310	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:88756309_88756310delGT	uc001pcq.2	-						GRM5_uc009yvm.2_Intron|GRM5_uc009yvn.1_Intron	NM_001143831	NP_001137303			glutamate receptor, metabotropic 5 isoform a						activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)													---	---	---	---
NOX4	50507	broad.mit.edu	37	11	89089598	89089598	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:89089598delA	uc001pct.2	-						NOX4_uc009yvr.2_Intron|NOX4_uc001pcu.2_Intron|NOX4_uc001pcw.2_Intron|NOX4_uc001pcx.2_Intron|NOX4_uc001pcv.2_Intron|NOX4_uc009yvo.2_Intron|NOX4_uc010rtu.1_Intron|NOX4_uc009yvp.2_Intron|NOX4_uc010rtv.1_Intron|NOX4_uc009yvq.2_Intron	NM_016931	NP_058627			NADPH oxidase 4 isoform a						cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	90068130	90068130	+	IGR	DEL	G	-	-	rs66947788		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:90068130delG								CHORDC1 (111598 upstream) : MIR1261 (534159 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	90110379	90110379	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:90110379delT								CHORDC1 (153847 upstream) : MIR1261 (491910 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	90179285	90179285	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:90179285delA								CHORDC1 (222753 upstream) : MIR1261 (423004 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	91404065	91404065	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:91404065delT								MIR1261 (801695 upstream) : FAT3 (681197 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	91566655	91566655	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:91566655delA								MIR1261 (964285 upstream) : FAT3 (518607 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	92049580	92049581	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92049580_92049581insA								None (None upstream) : FAT3 (35681 downstream)																																			---	---	---	---
MTNR1B	4544	broad.mit.edu	37	11	92707774	92707774	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92707774delT	uc001pdk.1	+							NM_005959	NP_005950			melatonin receptor 1B						G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)													---	---	---	---
Unknown	0	broad.mit.edu	37	11	92738963	92738963	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92738963delT								MTNR1B (23015 upstream) : SLC36A4 (141889 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	92789797	92789797	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92789797delT								MTNR1B (73849 upstream) : SLC36A4 (91055 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	92817356	92817357	+	IGR	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92817356_92817357insC								MTNR1B (101408 upstream) : SLC36A4 (63495 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	92948022	92948023	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92948022_92948023delTT								SLC36A4 (16927 upstream) : CCDC67 (115133 downstream)																																			---	---	---	---
KIAA1731	85459	broad.mit.edu	37	11	93405583	93405585	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:93405583_93405585delTTT	uc009ywb.1	+							NM_033395	NP_203753			hypothetical protein LOC85459							centrosome					0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)																---	---	---	---
KIAA1731	85459	broad.mit.edu	37	11	93425791	93425791	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:93425791delT	uc009ywb.1	+						KIAA1731_uc001pdu.1_5'Flank	NM_033395	NP_203753			hypothetical protein LOC85459							centrosome					0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	94041499	94041499	+	IGR	DEL	T	-	-	rs112794124		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:94041499delT								FOLR4 (642 upstream) : GPR83 (68978 downstream)																																			---	---	---	---
PIWIL4	143689	broad.mit.edu	37	11	94349640	94349640	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:94349640delT	uc001pfa.2	+						PIWIL4_uc010rue.1_Intron|PIWIL4_uc009ywk.1_Intron	NM_152431	NP_689644			piwi-like 4						cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|meiosis|multicellular organismal development|piRNA metabolic process|regulation of translation|spermatogenesis	nucleus|piP-body	piRNA binding			skin(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	94394644	94394644	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:94394644delC								PIWIL4 (40058 upstream) : AMOTL1 (106864 downstream)																																			---	---	---	---
FAM76B	143684	broad.mit.edu	37	11	95520715	95520715	+	Intron	DEL	T	-	-	rs150255193	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:95520715delT	uc001pfn.2	-						CEP57_uc001pfo.1_5'Flank|CEP57_uc010ruh.1_5'Flank|CEP57_uc010rui.1_5'Flank|CEP57_uc009ywn.1_5'Flank|CEP57_uc001pfp.1_5'Flank|CEP57_uc001pfq.1_5'Flank|CEP57_uc001pfr.1_5'Flank|FAM76B_uc001pfm.2_Intron	NM_144664	NP_653265			hypothetical protein LOC143684												0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)																---	---	---	---
CEP57	9702	broad.mit.edu	37	11	95561203	95561203	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:95561203delT	uc001pfp.1	+						CEP57_uc010ruh.1_Intron|CEP57_uc010rui.1_Intron|CEP57_uc009ywn.1_Intron|CEP57_uc001pfq.1_Intron|CEP57_uc001pfr.1_Intron	NM_014679	NP_055494			translokin						fibroblast growth factor receptor signaling pathway|G2/M transition of mitotic cell cycle|protein import into nucleus, translocation|spermatid development	centrosome|cytosol|Golgi apparatus|microtubule|nucleus	fibroblast growth factor binding|protein homodimerization activity			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)												Mosaic_Variegated_Aneuploidy_Syndrome				---	---	---	---
MTMR2	8898	broad.mit.edu	37	11	95628325	95628328	+	Intron	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:95628325_95628328delAAAA	uc001pfu.2	-						MTMR2_uc001pfv.2_Intron|MTMR2_uc001pfs.2_Intron|MTMR2_uc001pft.2_Intron|MTMR2_uc010ruj.1_Intron	NM_016156	NP_057240			myotubularin-related protein 2 isoform 1							nucleus	inositol or phosphatidylinositol phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)																---	---	---	---
MAML2	84441	broad.mit.edu	37	11	95857870	95857871	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:95857870_95857871delAG	uc001pfw.1	-							NM_032427	NP_115803			mastermind-like 2						Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)						T	MECT1|CRTC3	salivary gland mucoepidermoid								---	---	---	---
MAML2	84441	broad.mit.edu	37	11	95871787	95871787	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:95871787delG	uc001pfw.1	-							NM_032427	NP_115803			mastermind-like 2						Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)						T	MECT1|CRTC3	salivary gland mucoepidermoid								---	---	---	---
Unknown	0	broad.mit.edu	37	11	96654524	96654524	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:96654524delT								JRKL (527797 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	96772065	96772065	+	IGR	DEL	T	-	-	rs79773118		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:96772065delT								JRKL (645338 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	96779714	96779714	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:96779714delA								JRKL (652987 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	97030018	97030018	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:97030018delA								JRKL (903291 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	97143316	97143316	+	IGR	DEL	A	-	-	rs73541605	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:97143316delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	97158168	97158168	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:97158168delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	97307582	97307583	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:97307582_97307583delAC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	97377326	97377326	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:97377326delC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	98210733	98210734	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:98210733_98210734insA								None (None upstream) : CNTN5 (681137 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	98684621	98684621	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:98684621delA								None (None upstream) : CNTN5 (207250 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	98718357	98718358	+	IGR	DEL	AC	-	-	rs36122815		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:98718357_98718358delAC								None (None upstream) : CNTN5 (173513 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	98724153	98724153	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:98724153delA								None (None upstream) : CNTN5 (167718 downstream)																																			---	---	---	---
CNTN5	53942	broad.mit.edu	37	11	98932344	98932344	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:98932344delA	uc001pga.2	+						CNTN5_uc009ywv.1_Intron|CNTN5_uc001pfz.2_Intron|CNTN5_uc001pgb.2_Intron	NM_014361	NP_055176			contactin 5 isoform long						cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)														---	---	---	---
CNTN5	53942	broad.mit.edu	37	11	99200815	99200815	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:99200815delA	uc001pga.2	+						CNTN5_uc009ywv.1_Intron|CNTN5_uc001pfz.2_Intron|CNTN5_uc001pgb.2_Intron	NM_014361	NP_055176			contactin 5 isoform long						cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)														---	---	---	---
CNTN5	53942	broad.mit.edu	37	11	99955402	99955402	+	Intron	DEL	A	-	-	rs77188532		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:99955402delA	uc001pga.2	+						CNTN5_uc009ywv.1_Intron|CNTN5_uc001pfz.2_Intron|CNTN5_uc001pgb.2_Intron	NM_014361	NP_055176			contactin 5 isoform long						cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)														---	---	---	---
CNTN5	53942	broad.mit.edu	37	11	100053637	100053637	+	Intron	DEL	A	-	-	rs34956719		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:100053637delA	uc001pga.2	+						CNTN5_uc009ywv.1_Intron|CNTN5_uc001pfz.2_Intron|CNTN5_uc001pgb.2_Intron	NM_014361	NP_055176			contactin 5 isoform long						cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)														---	---	---	---
CNTN5	53942	broad.mit.edu	37	11	100092537	100092537	+	Intron	DEL	A	-	-	rs142481281		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:100092537delA	uc001pga.2	+						CNTN5_uc009ywv.1_Intron|CNTN5_uc001pfz.2_Intron|CNTN5_uc001pgb.2_Intron|CNTN5_uc010ruk.1_Intron	NM_014361	NP_055176			contactin 5 isoform long						cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)														---	---	---	---
ARHGAP42	143872	broad.mit.edu	37	11	100639046	100639047	+	Intron	INS	-	AA	AA	rs140748271	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:100639046_100639047insAA	uc001pge.2	+							NM_152432	NP_689645			Rho-type GTPase-activating protein FLJ32810						filopodium assembly|signal transduction	intracellular	cytoskeletal adaptor activity|GTPase activator activity|SH3 domain binding				0																		---	---	---	---
KIAA1377	57562	broad.mit.edu	37	11	101788831	101788831	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:101788831delT	uc001pgm.2	+						ANGPTL5_uc001pgl.2_5'Flank	NM_020802	NP_065853			hypothetical protein LOC57562								protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	101968509	101968510	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:101968509_101968510delTT								C11orf70 (14365 upstream) : YAP1 (12700 downstream)																																			---	---	---	---
YAP1	10413	broad.mit.edu	37	11	102010922	102010923	+	Intron	INS	-	AA	AA	rs67216822		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:102010922_102010923insAA	uc001pgt.2	+						YAP1_uc001pgs.2_Intron|YAP1_uc001pgu.2_Intron|YAP1_uc001pgv.2_Intron|YAP1_uc010ruo.1_Intron|YAP1_uc001pgw.2_Intron	NM_001130145	NP_001123617			Yes-associated protein 1, 65kDa isoform 1						cell proliferation|cellular response to gamma radiation|contact inhibition|hippo signaling cascade|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription coactivator activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_cancers(8;0.000575)|all_epithelial(12;0.00564)	Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.00936)	Lung(13;0.245)	BRCA - Breast invasive adenocarcinoma(274;0.0189)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	102530548	102530549	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:102530548_102530549delTG								MMP20 (34485 upstream) : MMP27 (31866 downstream)																																			---	---	---	---
DYNC2H1	79659	broad.mit.edu	37	11	103253834	103253835	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:103253834_103253835insG	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)														---	---	---	---
DYNC2H1	79659	broad.mit.edu	37	11	103280142	103280143	+	Intron	INS	-	TAGT	TAGT	rs144400831	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:103280142_103280143insTAGT	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	103570421	103570422	+	IGR	INS	-	C	C	rs35841629		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:103570421_103570422insC								DYNC2H1 (219830 upstream) : PDGFD (207493 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	103747155	103747155	+	IGR	DEL	A	-	-	rs76276907		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:103747155delA								DYNC2H1 (396564 upstream) : PDGFD (30760 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	103762834	103762835	+	IGR	INS	-	ACA	ACA	rs72520939		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:103762834_103762835insACA								DYNC2H1 (412243 upstream) : PDGFD (15080 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	104654854	104654854	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:104654854delA								PDGFD (619827 upstream) : CASP12 (101588 downstream)																																			---	---	---	---
CASP5	838	broad.mit.edu	37	11	104869776	104869776	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:104869776delT	uc010rva.1	-						CASP5_uc010ruz.1_Intron|CASP5_uc010rvb.1_Intron|CASP5_uc010rvc.1_Intron|CASP5_uc009yxh.2_Intron|CASP5_uc010rvd.1_Intron	NM_004347	NP_004338			caspase 5 isoform a precursor						apoptosis|cellular response to mechanical stimulus|proteolysis|regulation of apoptosis	intracellular	cysteine-type endopeptidase activity|protein binding			ovary(2)|lung(1)	3		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000943)|Epithelial(105;0.0104)|all cancers(92;0.042)														---	---	---	---
CASP1	834	broad.mit.edu	37	11	104942369	104942369	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:104942369delT	uc010rve.1	-						CASP1_uc010rvf.1_Intron|CASP1_uc010rvg.1_Intron|CASP1_uc010rvh.1_Intron|CASP1_uc010rvi.1_Intron|uc001piq.1_5'Flank	NM_033292	NP_150634			caspase 1 isoform alpha precursor						cellular response to mechanical stimulus|cellular response to organic substance|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis|signal transduction	cytosol	caspase activator activity|cysteine-type endopeptidase activity|protein binding			ovary(2)	2		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000525)|Epithelial(105;0.0128)|all cancers(92;0.0482)	Minocycline(DB01017)|Penicillamine(DB00859)													---	---	---	---
GRIA4	2893	broad.mit.edu	37	11	105781021	105781021	+	Intron	DEL	T	-	-	rs113570660		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:105781021delT	uc001pix.2	+						GRIA4_uc001piu.1_Intron|GRIA4_uc001piw.2_Intron|GRIA4_uc009yxk.1_Intron	NM_000829	NP_000820			glutamate receptor, ionotrophic, AMPA 4 isoform						glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)													---	---	---	---
Unknown	0	broad.mit.edu	37	11	105857775	105857776	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:105857775_105857776insT								GRIA4 (4956 upstream) : KIAA1826 (20854 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	106195437	106195437	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:106195437delA								AASDHPPT (226018 upstream) : GUCY1A2 (362473 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	106339385	106339387	+	IGR	DEL	TTT	-	-	rs34897891		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:106339385_106339387delTTT								AASDHPPT (369966 upstream) : GUCY1A2 (218523 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	107044463	107044465	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:107044463_107044465delTTT								GUCY1A2 (155292 upstream) : CWF19L2 (152609 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	107184791	107184792	+	IGR	INS	-	AAAC	AAAC	rs146632428	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:107184791_107184792insAAAC								GUCY1A2 (295620 upstream) : CWF19L2 (12282 downstream)																																			---	---	---	---
CWF19L2	143884	broad.mit.edu	37	11	107319242	107319242	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:107319242delA	uc010rvp.1	-							NM_152434	NP_689647			CWF19-like 2, cell cycle control								catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	107448407	107448408	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:107448407_107448408delAA								ALKBH8 (11946 upstream) : ELMOD1 (13409 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	107740145	107740146	+	IGR	DEL	AA	-	-	rs150509401		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:107740145_107740146delAA								SLC35F2 (10231 upstream) : RAB39 (59131 downstream)																																			---	---	---	---
CUL5	8065	broad.mit.edu	37	11	107887523	107887524	+	Intron	INS	-	A	A	rs67098905		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:107887523_107887524insA	uc001pjv.2	+						CUL5_uc001pju.2_Intron	NM_003478	NP_003469			Vasopressin-activated calcium-mobilizing						cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)														---	---	---	---
CUL5	8065	broad.mit.edu	37	11	107944060	107944060	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:107944060delT	uc001pjv.2	+						CUL5_uc001pju.2_Intron	NM_003478	NP_003469			Vasopressin-activated calcium-mobilizing						cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)														---	---	---	---
NPAT	4863	broad.mit.edu	37	11	108031565	108031565	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108031565delA	uc001pjz.3	-						NPAT_uc010rvv.1_Intron	NM_002519	NP_002510			nuclear protein,  ataxia-telangiectasia locus						positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)														---	---	---	---
NPAT	4863	broad.mit.edu	37	11	108081941	108081942	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108081941_108081942delAA	uc001pjz.3	-							NM_002519	NP_002510			nuclear protein,  ataxia-telangiectasia locus						positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)														---	---	---	---
ATM	472	broad.mit.edu	37	11	108195587	108195587	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108195587delT	uc001pkb.1	+						ATM_uc009yxr.1_Intron|C11orf65_uc010rvx.1_Intron|ATM_uc001pke.1_Intron|ATM_uc001pkg.1_Intron	NM_000051	NP_000042			ataxia telangiectasia mutated isoform 1						cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)				D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			---	---	---	---
C11orf65	160140	broad.mit.edu	37	11	108332127	108332127	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108332127delA	uc001pkh.2	-						C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron	NM_152587	NP_689800			hypothetical protein LOC160140											ovary(1)	1		all_cancers(61;1.38e-11)|all_epithelial(67;3.16e-07)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;8.21e-06)|BRCA - Breast invasive adenocarcinoma(274;1.01e-05)|all cancers(92;0.000189)|Colorectal(284;0.114)|OV - Ovarian serous cystadenocarcinoma(223;0.144)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	108501835	108501835	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108501835delT								EXPH5 (37461 upstream) : DDX10 (33981 downstream)																																			---	---	---	---
DDX10	1662	broad.mit.edu	37	11	108630731	108630731	+	Intron	DEL	A	-	-	rs2514011		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108630731delA	uc001pkm.2	+						DDX10_uc001pkl.1_Intron	NM_004398	NP_004389			DEAD (Asp-Glu-Ala-Asp) box polypeptide 10								ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)				T	NUP98	AML*								---	---	---	---
Unknown	0	broad.mit.edu	37	11	108815389	108815389	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108815389delG								DDX10 (3743 upstream) : C11orf87 (477486 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	109326221	109326221	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:109326221delT								C11orf87 (26383 upstream) : ZC3H12C (637705 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	109575307	109575308	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:109575307_109575308delAC								C11orf87 (275469 upstream) : ZC3H12C (388618 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	109773634	109773636	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:109773634_109773636delAAA								C11orf87 (473796 upstream) : ZC3H12C (190290 downstream)																																			---	---	---	---
RDX	5962	broad.mit.edu	37	11	110114446	110114446	+	Intron	DEL	A	-	-	rs78307284		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110114446delA	uc001pku.2	-						RDX_uc009yxx.1_Intron|RDX_uc009yxy.2_Intron|RDX_uc009yxz.2_Intron|RDX_uc009yya.2_Intron|RDX_uc010rwe.1_Intron	NM_002906	NP_002897			radixin						actin filament capping	cleavage furrow|cytoskeleton|extrinsic to membrane|Golgi apparatus|nucleolus|plasma membrane	actin binding				0		all_cancers(61;7.18e-13)|all_epithelial(67;2.61e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.13e-06)|BRCA - Breast invasive adenocarcinoma(274;9.75e-06)|all cancers(92;5.9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0248)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	110205437	110205437	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110205437delT	uc001pkv.1	+											Homo sapiens cDNA FLJ36798 fis, clone ADRGL2007283.																														---	---	---	---
Unknown	0	broad.mit.edu	37	11	110285385	110285385	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110285385delT								RDX (117948 upstream) : FDX1 (15209 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	110618991	110618991	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110618991delT								ARHGAP20 (35079 upstream) : C11orf53 (507716 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	110884059	110884060	+	IGR	DEL	GT	-	-	rs35848568		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110884059_110884060delGT								ARHGAP20 (300147 upstream) : C11orf53 (242647 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	110957205	110957205	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110957205delA								ARHGAP20 (373293 upstream) : C11orf53 (169502 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	110968941	110968941	+	IGR	DEL	T	-	-	rs71476981		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110968941delT								ARHGAP20 (385029 upstream) : C11orf53 (157766 downstream)																																			---	---	---	---
BTG4	54766	broad.mit.edu	37	11	111381363	111381363	+	Intron	DEL	T	-	-	rs113662105		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:111381363delT	uc001plj.2	-						BTG4_uc001plk.2_Intron|uc001pll.2_RNA|uc001plm.2_5'Flank|MIR34B_hsa-mir-34b|MI0000742_5'Flank|MIR34C_hsa-mir-34c|MI0000743_5'Flank	NM_017589	NP_060059			B-cell translocation gene 4						cell cycle arrest|negative regulation of cell proliferation|neuron differentiation						0		all_cancers(61;3.78e-13)|all_epithelial(67;5.29e-08)|Melanoma(852;3.15e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0204)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;1.22e-06)|BRCA - Breast invasive adenocarcinoma(274;1.72e-06)|all cancers(92;2.18e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0509)														---	---	---	---
ALG9	79796	broad.mit.edu	37	11	111679270	111679270	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:111679270delC	uc001pmb.2	-						ALG9_uc001ply.2_Intron|ALG9_uc001plz.2_Intron|ALG9_uc010rwm.1_Intron|ALG9_uc010rwn.1_Intron|ALG9_uc010rwo.1_Intron	NM_001077690	NP_001071158			asparagine-linked glycosylation 9 protein						dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			large_intestine(1)|ovary(1)	2		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;6.81e-07)|BRCA - Breast invasive adenocarcinoma(274;1.15e-06)|all cancers(92;1.3e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0587)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	111769931	111769931	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:111769931delT								C11orf1 (15136 upstream) : CRYAB (9419 downstream)																																			---	---	---	---
C11orf57	55216	broad.mit.edu	37	11	111953922	111953923	+	3'UTR	DEL	TA	-	-	rs150653446	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:111953922_111953923delTA	uc001pmr.3	+	6					C11orf57_uc001pmw.3_3'UTR|C11orf57_uc001pmt.3_3'UTR|C11orf57_uc001pmv.3_3'UTR|C11orf57_uc001pms.3_3'UTR	NM_001082970	NP_001076439			hypothetical protein LOC55216 isoform b											breast(2)|ovary(1)	3		all_cancers(61;9.8e-15)|all_epithelial(67;6.57e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.6e-07)|BRCA - Breast invasive adenocarcinoma(274;6.17e-07)|all cancers(92;7.01e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0521)														---	---	---	---
PTS	5805	broad.mit.edu	37	11	112100752	112100752	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:112100752delA	uc001pnj.3	+						PTS_uc009yyo.2_Intron	NM_000317	NP_000308			6-pyruvoyltetrahydropterin synthase						cellular amino acid metabolic process|central nervous system development|tetrahydrobiopterin biosynthetic process	mitochondrion	6-pyruvoyltetrahydropterin synthase activity|metal ion binding				0		all_cancers(61;2.51e-14)|all_epithelial(67;1.64e-08)|Melanoma(852;8.81e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;1.27e-06)|BRCA - Breast invasive adenocarcinoma(274;1.43e-06)|all cancers(92;2.1e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0519)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	112355759	112355759	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:112355759delA								PTS (215082 upstream) : NCAM1 (476236 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	112696133	112696134	+	IGR	INS	-	GT	GT	rs142677498	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:112696133_112696134insGT								PTS (555456 upstream) : NCAM1 (135861 downstream)																																			---	---	---	---
NCAM1	4684	broad.mit.edu	37	11	112852640	112852640	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:112852640delT	uc009yyq.1	+						NCAM1_uc001pno.2_Intron	NM_001076682	NP_001070150			neural cell adhesion molecule 1 isoform 3						axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	113363598	113363601	+	IGR	DEL	AAAC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:113363598_113363601delAAAC								DRD2 (17185 upstream) : TMPRSS5 (194668 downstream)																																			---	---	---	---
ZBTB16	7704	broad.mit.edu	37	11	114089738	114089739	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:114089738_114089739delGT	uc001pop.2	+						ZBTB16_uc001poq.2_Intron	NM_006006	NP_005997			promyelocytic leukemia zinc finger protein						apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)														---	---	---	---
NNMT	4837	broad.mit.edu	37	11	114164880	114164880	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:114164880delG	uc001por.1	+						NNMT_uc001pos.1_5'Flank	NM_006169	NP_006160			nicotinamide N-methyltransferase						xenobiotic metabolic process	cytosol	nicotinamide N-methyltransferase activity|pyridine N-methyltransferase activity			ovary(1)	1		all_cancers(61;4.83e-16)|all_epithelial(67;7.28e-09)|all_hematologic(158;0.000135)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.79e-06)|Epithelial(105;1.32e-05)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.128)	Niacin(DB00627)													---	---	---	---
Unknown	0	broad.mit.edu	37	11	114377970	114377973	+	IGR	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:114377970_114377973delAAAA								REXO2 (56972 upstream) : FAM55A (14465 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	114703021	114703022	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:114703021_114703022insT								FAM55B (125369 upstream) : CADM1 (336931 downstream)																																			---	---	---	---
CADM1	23705	broad.mit.edu	37	11	115099506	115099506	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:115099506delA	uc001ppi.3	-						CADM1_uc001ppf.3_Intron|CADM1_uc001ppk.3_Intron|CADM1_uc001ppj.3_Intron|CADM1_uc001ppl.2_Intron	NM_014333	NP_055148			immunoglobulin superfamily, member 4D isoform 1						adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)														---	---	---	---
CADM1	23705	broad.mit.edu	37	11	115297766	115297766	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:115297766delA	uc001ppi.3	-						CADM1_uc001ppf.3_Intron|CADM1_uc001ppk.3_Intron|CADM1_uc001ppj.3_Intron|CADM1_uc001ppl.2_Intron	NM_014333	NP_055148			immunoglobulin superfamily, member 4D isoform 1						adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	115889366	115889367	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:115889366_115889367insT								CADM1 (514125 upstream) : BUD13 (729521 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	115987408	115987408	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:115987408delT								CADM1 (612167 upstream) : BUD13 (631480 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	116069127	116069129	+	IGR	DEL	GAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:116069127_116069129delGAG								CADM1 (693886 upstream) : BUD13 (549759 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	116145687	116145688	+	IGR	DEL	GT	-	-	rs7121267		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:116145687_116145688delGT								CADM1 (770446 upstream) : BUD13 (473200 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	116397758	116397758	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:116397758delA								None (None upstream) : BUD13 (221130 downstream)																																			---	---	---	---
SIK3	23387	broad.mit.edu	37	11	116906447	116906447	+	Intron	DEL	T	-	-	rs113834558		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:116906447delT	uc001ppy.2	-						SIK3_uc001ppz.2_Intron|SIK3_uc001pqa.2_Intron	NM_025164	NP_079440			serine/threonine-protein kinase QSK							cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	116973312	116973313	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:116973312_116973313insA								SIK3 (4319 upstream) : PAFAH1B2 (41727 downstream)																																			---	---	---	---
RNF214	257160	broad.mit.edu	37	11	117110765	117110765	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117110765delA	uc001pqt.2	+						RNF214_uc001pqu.2_Intron|RNF214_uc010rxf.1_Intron	NM_207343	NP_997226			ring finger protein 214								zinc ion binding				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.88e-05)|Epithelial(105;0.000397)|all cancers(92;0.00258)														---	---	---	---
DSCAML1	57453	broad.mit.edu	37	11	117480495	117480495	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117480495delT	uc001prh.1	-						DSCAML1_uc001pri.1_Intron	NM_020693	NP_065744			Down syndrome cell adhesion molecule like 1						axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)														---	---	---	---
DSCAML1	57453	broad.mit.edu	37	11	117513044	117513044	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117513044delT	uc001prh.1	-						DSCAML1_uc001pri.1_Intron	NM_020693	NP_065744			Down syndrome cell adhesion molecule like 1						axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)														---	---	---	---
TMPRSS4	56649	broad.mit.edu	37	11	117959111	117959112	+	Intron	INS	-	G	G	rs145910139	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117959111_117959112insG	uc010rxo.1	+						TMPRSS4_uc010rxp.1_Intron|TMPRSS4_uc010rxq.1_Intron|TMPRSS4_uc010rxr.1_Intron|TMPRSS4_uc010rxs.1_Intron|TMPRSS4_uc009yzu.2_Intron|uc001prx.1_5'Flank|uc001pry.1_5'Flank|uc001prz.1_5'Flank|uc009yzs.1_5'Flank|uc001psa.1_5'Flank	NM_019894	NP_063947			transmembrane protease, serine 4 isoform 1						proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0431)|all_hematologic(192;0.164)|Breast(348;0.183)|all_neural(223;0.238)		BRCA - Breast invasive adenocarcinoma(274;4.16e-05)|Epithelial(105;0.00204)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	118055461	118055461	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118055461delT								SCN2B (8124 upstream) : AMICA1 (8981 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	118058232	118058232	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118058232delA								SCN2B (10895 upstream) : AMICA1 (6210 downstream)																																			---	---	---	---
CD3E	916	broad.mit.edu	37	11	118180129	118180129	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118180129delA	uc001psq.3	+						CD3E_uc010rya.1_Intron	NM_000733	NP_000724			CD3E antigen, epsilon polypeptide precursor						G-protein coupled receptor protein signaling pathway|signal complex assembly|T cell costimulation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	external side of plasma membrane|integral to plasma membrane	protein heterodimerization activity|protein kinase binding|receptor signaling complex scaffold activity|receptor signaling protein activity|SH3 domain binding|T cell receptor binding|transmembrane receptor activity			ovary(2)	2	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;3.09e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0251)	Muromonab(DB00075)													---	---	---	---
UBE4A	9354	broad.mit.edu	37	11	118247607	118247607	+	Intron	DEL	A	-	-	rs1784239		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118247607delA	uc001psw.2	+						UBE4A_uc001psv.2_Intron	NM_004788	NP_004779			ubiquitination factor E4A						ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	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;3.28e-05)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	118593764	118593764	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118593764delT								TREH (43383 upstream) : DDX6 (24709 downstream)																																			---	---	---	---
DDX6	1656	broad.mit.edu	37	11	118626216	118626216	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118626216delA	uc001pub.2	-						DDX6_uc001pua.2_Intron|DDX6_uc001puc.2_Intron	NM_004397	NP_004388			DEAD (Asp-Glu-Ala-Asp) box polypeptide 6						exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|RNA-induced silencing complex|stress granule	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|RNA helicase activity			ovary(1)	1	all_hematologic(175;0.0839)	Renal(330;0.0183)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)|Hepatocellular(160;0.0893)|Breast(348;0.0979)|all_hematologic(192;0.103)		OV - Ovarian serous cystadenocarcinoma(223;3.39e-06)|BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Colorectal(284;0.0377)				T	IGH@	B-NHL								---	---	---	---
Unknown	0	broad.mit.edu	37	11	118692307	118692308	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118692307_118692308delAA								DDX6 (30335 upstream) : CXCR5 (62233 downstream)																																			---	---	---	---
CCDC153	283152	broad.mit.edu	37	11	119068135	119068135	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119068135delT	uc010rze.1	-							NM_001145018	NP_001138490			coiled-coil domain containing 153												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	119500962	119500962	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119500962delT								THY1 (206716 upstream) : PVRL1 (7846 downstream)																																			---	---	---	---
PVRL1	5818	broad.mit.edu	37	11	119520401	119520401	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119520401delA	uc001pwu.1	-							NM_203285	NP_976030			poliovirus receptor-related 1 isoform 2						adherens junction organization|cell junction assembly|entry of virus into host cell|heterophilic cell-cell adhesion|homophilic cell adhesion|immune response	cell-cell adherens junction|extracellular region|integral to membrane	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0		Breast(348;0.037)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.29e-05)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	119632292	119632296	+	IGR	DEL	CTTTT	-	-	rs10536629		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119632292_119632296delCTTTT								PVRL1 (32857 upstream) : TRIM29 (349699 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	120048677	120048677	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120048677delG								TRIM29 (39814 upstream) : OAF (33070 downstream)																																			---	---	---	---
ARHGEF12	23365	broad.mit.edu	37	11	120318628	120318628	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120318628delT	uc001pxl.1	+						ARHGEF12_uc009zat.2_Intron|ARHGEF12_uc010rzn.1_Intron|ARHGEF12_uc009zau.1_Intron	NM_015313	NP_056128			Rho guanine nucleotide exchange factor (GEF) 12						apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)				T	MLL	AML								---	---	---	---
GRIK4	2900	broad.mit.edu	37	11	120467442	120467442	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120467442delT	uc001pxn.2	+						GRIK4_uc009zav.1_Intron|GRIK4_uc009zaw.1_Intron	NM_014619	NP_055434			glutamate receptor KA1 precursor						glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)													---	---	---	---
TBCEL	219899	broad.mit.edu	37	11	120940499	120940500	+	Intron	DEL	AA	-	-	rs74380809		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120940499_120940500delAA	uc009zay.2	+						TBCEL_uc001pxo.2_Intron|TBCEL_uc001pxp.2_Intron|TBCEL_uc001pxq.2_Intron	NM_001130047	NP_001123519			tubulin folding cofactor E-like							cytoplasm|cytoskeleton				skin(1)	1		Breast(109;0.00526)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.89e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.121)														---	---	---	---
SORL1	6653	broad.mit.edu	37	11	121439214	121439214	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:121439214delT	uc001pxx.2	+							NM_003105	NP_003096			sortilin-related receptor containing LDLR class						cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	121534524	121534526	+	IGR	DEL	TTC	-	-	rs10606399		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:121534524_121534526delTTC								SORL1 (30053 upstream) : LOC399959 (425285 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	121790542	121790542	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:121790542delT								SORL1 (286071 upstream) : LOC399959 (169269 downstream)																																			---	---	---	---
LOC399959	399959	broad.mit.edu	37	11	122233032	122233033	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:122233032_122233033delTT	uc009zbb.1	-											Homo sapiens cDNA FLJ34394 fis, clone HCHON2000676.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	122329118	122329119	+	IGR	DEL	CA	-	-	rs35967091		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:122329118_122329119delCA								LOC399959 (90651 upstream) : UBASH3B (197279 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	122466802	122466802	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:122466802delA								LOC399959 (228335 upstream) : UBASH3B (59596 downstream)																																			---	---	---	---
UBASH3B	84959	broad.mit.edu	37	11	122607205	122607205	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:122607205delA	uc001pyi.3	+							NM_032873	NP_116262			ubiquitin associated and SH3 domain containing,							cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)														---	---	---	---
UBASH3B	84959	broad.mit.edu	37	11	122669627	122669627	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:122669627delT	uc001pyi.3	+							NM_032873	NP_116262			ubiquitin associated and SH3 domain containing,							cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)														---	---	---	---
GRAMD1B	57476	broad.mit.edu	37	11	123489375	123489375	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123489375delT	uc001pyx.2	+						GRAMD1B_uc001pyw.2_Intron|GRAMD1B_uc010rzw.1_Intron|GRAMD1B_uc010rzx.1_Intron|GRAMD1B_uc001pyy.2_Intron	NM_020716	NP_065767			GRAM domain containing 1B							integral to membrane				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;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)														---	---	---	---
SCN3B	55800	broad.mit.edu	37	11	123519683	123519684	+	Intron	INS	-	T	T	rs140972225	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123519683_123519684insT	uc001pza.1	-						SCN3B_uc001pzb.1_Intron	NM_001040151	NP_001035241			voltage-gated sodium channel beta-3 subunit						axon guidance	integral to membrane|plasma membrane	voltage-gated sodium channel activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6		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;5.37e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0227)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	123538217	123538217	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123538217delA								SCN3B (12902 upstream) : ZNF202 (56780 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	123621101	123621102	+	IGR	INS	-	CA	CA	rs139079215	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123621101_123621102insCA								ZNF202 (8738 upstream) : OR6X1 (3188 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	124120375	124120376	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124120375_124120376insT								OR8G2 (24065 upstream) : OR8D1 (59361 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	124282129	124282129	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124282129delA								OR8B2 (5483 upstream) : OR8B4 (11711 downstream)																																			---	---	---	---
TBRG1	84897	broad.mit.edu	37	11	124496789	124496790	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124496789_124496790insT	uc001qak.3	+						TBRG1_uc001qaj.3_Intron|TBRG1_uc001qal.3_Intron|TBRG1_uc001qam.3_RNA|TBRG1_uc009zbf.2_Intron|TBRG1_uc009zbg.2_Intron|TBRG1_uc009zbh.2_Intron	NM_032811	NP_116200			transforming growth factor beta regulator 1						cell cycle arrest|DNA replication|negative regulation of cell proliferation|nucleolus to nucleoplasm transport|protein stabilization	nucleus	DNA binding|protein binding				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0218)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	124730901	124730902	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124730901_124730902delGA								C11orf61 (60602 upstream) : ROBO3 (4380 downstream)																																			---	---	---	---
ROBO4	54538	broad.mit.edu	37	11	124760994	124760994	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124760994delA	uc001qbg.2	-						ROBO4_uc010sas.1_Intron|ROBO4_uc001qbh.2_Intron|ROBO4_uc001qbi.2_Intron|ROBO4_uc010sat.1_Intron	NM_019055	NP_061928			roundabout homolog 4, magic roundabout						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)														---	---	---	---
PKNOX2	63876	broad.mit.edu	37	11	125177455	125177455	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:125177455delA	uc001qbu.2	+						PKNOX2_uc010saz.1_Intron|PKNOX2_uc010sba.1_Intron|PKNOX2_uc010sbb.1_Intron	NM_022062	NP_071345			PBX/knotted 1 homeobox 2							nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(109;0.00234)|all_lung(97;0.0191)|Lung NSC(97;0.0196)|Medulloblastoma(222;0.0447)|all_neural(223;0.116)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.117)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	125995959	125995959	+	IGR	DEL	C	-	-	rs143987369	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:125995959delC								CDON (62772 upstream) : RPUSD4 (76031 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	127429268	127429269	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:127429268_127429269delAA								KIRREL3 (555913 upstream) : ETS1 (899387 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	127713614	127713615	+	IGR	DEL	CG	-	-	rs3083889	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:127713614_127713615delCG								KIRREL3 (840259 upstream) : ETS1 (615041 downstream)																																	OREG0021493	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	11	127956584	127956585	+	IGR	DEL	TG	-	-	rs58909966		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:127956584_127956585delTG								None (None upstream) : ETS1 (372071 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	127999406	127999406	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:127999406delA								None (None upstream) : ETS1 (329250 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	128206789	128206789	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128206789delC								None (None upstream) : ETS1 (121867 downstream)																																			---	---	---	---
ETS1	2113	broad.mit.edu	37	11	128354632	128354632	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128354632delA	uc010sbs.1	-						ETS1_uc001qej.2_Intron|ETS1_uc009zch.2_Intron|ETS1_uc009zcg.2_Intron	NM_005238	NP_005229			v-ets erythroblastosis virus E26 oncogene						cell motility|immune response|induction of apoptosis|negative regulation of cell cycle|negative regulation of cell cycle|negative regulation of cell proliferation|PML body organization|positive regulation of cellular component movement|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|response to antibiotic|transcription from RNA polymerase II promoter	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			lung(4)|central_nervous_system(1)|pleura(1)	6	all_hematologic(175;0.0537)	Lung NSC(97;0.000542)|all_lung(97;0.000665)|Breast(109;0.00765)|all_neural(223;0.0351)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.47e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0174)|LUSC - Lung squamous cell carcinoma(976;0.0815)|Lung(307;0.0833)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	128482343	128482343	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128482343delC								ETS1 (24890 upstream) : FLI1 (74087 downstream)																																			---	---	---	---
ARHGAP32	9743	broad.mit.edu	37	11	128905745	128905745	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128905745delA	uc009zcp.2	-						ARHGAP32_uc009zcq.1_Intron|ARHGAP32_uc001qfb.2_Intron	NM_001142685	NP_001136157			Rho GTPase-activating protein isoform 1						cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5																		---	---	---	---
ARHGAP32	9743	broad.mit.edu	37	11	128933357	128933357	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128933357delA	uc009zcp.2	-						ARHGAP32_uc009zcq.1_Intron|ARHGAP32_uc001qfb.2_Intron	NM_001142685	NP_001136157			Rho GTPase-activating protein isoform 1						cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5																		---	---	---	---
ARHGAP32	9743	broad.mit.edu	37	11	129026339	129026339	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:129026339delT	uc009zcp.2	-						ARHGAP32_uc009zcq.1_Intron	NM_001142685	NP_001136157			Rho GTPase-activating protein isoform 1						cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	129142022	129142022	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:129142022delA								ARHGAP32 (79929 upstream) : BARX2 (103859 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	129152514	129152514	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:129152514delA								ARHGAP32 (90421 upstream) : BARX2 (93367 downstream)																																			---	---	---	---
BARX2	8538	broad.mit.edu	37	11	129303104	129303104	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:129303104delA	uc001qfc.3	+							NM_003658	NP_003649			BarH-like homeobox 2												0	all_hematologic(175;0.0749)	Lung NSC(97;0.000383)|all_lung(97;0.000824)|Breast(109;0.000962)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.00929)|Lung(977;0.0245)|LUSC - Lung squamous cell carcinoma(976;0.0253)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	130024477	130024478	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:130024477_130024478delAA								APLP2 (9772 upstream) : ST14 (5204 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	130230730	130230731	+	Intron	DEL	TT	-	-	rs34129893		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:130230730_130230731delTT	uc001qgd.2	+											Homo sapiens cDNA FLJ34521 fis, clone HLUNG2007041.																														---	---	---	---
Unknown	0	broad.mit.edu	37	11	130268312	130268312	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:130268312delA	uc010scb.1	+						uc010scc.1_Intron					Homo sapiens cDNA FLJ34521 fis, clone HLUNG2007041.																														---	---	---	---
ADAMTS15	170689	broad.mit.edu	37	11	130316481	130316481	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:130316481delA	uc010scd.1	+							NM_139055	NP_620686			a disintegrin-like and metalloprotease						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	130589760	130589761	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:130589760_130589761delCA								ADAMTS15 (246045 upstream) : SNX19 (156006 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	130605814	130605814	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:130605814delT								ADAMTS15 (262099 upstream) : SNX19 (139953 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	130815913	130815913	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:130815913delC								SNX19 (29531 upstream) : NTM (424458 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	131098828	131098828	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:131098828delA								SNX19 (312446 upstream) : NTM (141543 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	131137128	131137128	+	IGR	DEL	A	-	-	rs35197575		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:131137128delA								SNX19 (350746 upstream) : NTM (103243 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	131156685	131156686	+	IGR	DEL	TT	-	-	rs35171011		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:131156685_131156686delTT								SNX19 (370303 upstream) : NTM (83685 downstream)																																			---	---	---	---
NTM	50863	broad.mit.edu	37	11	131364823	131364823	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:131364823delA	uc010sci.1	+						NTM_uc001qgm.2_Intron|NTM_uc010sch.1_Intron	NM_001144058	NP_001137530			neurotrimin isoform 3						cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6																		---	---	---	---
NTM	50863	broad.mit.edu	37	11	131453465	131453466	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:131453465_131453466insT	uc010sci.1	+						NTM_uc001qgm.2_Intron|NTM_uc010sch.1_Intron	NM_001144058	NP_001137530			neurotrimin isoform 3						cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6																		---	---	---	---
NTM	50863	broad.mit.edu	37	11	132206566	132206568	+	3'UTR	DEL	TTT	-	-	rs72291665		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:132206566_132206568delTTT	uc001qgp.2	+	7					NTM_uc001qgm.2_3'UTR|NTM_uc010sch.1_3'UTR|NTM_uc010sci.1_3'UTR|NTM_uc010scj.1_3'UTR|NTM_uc001qgq.2_3'UTR|NTM_uc001qgr.2_3'UTR	NM_016522	NP_057606			neurotrimin isoform 1						cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6																		---	---	---	---
OPCML	4978	broad.mit.edu	37	11	132405402	132405402	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:132405402delA	uc001qgs.2	-						OPCML_uc001qgu.2_Intron|OPCML_uc010sck.1_Intron|OPCML_uc001qgt.2_Intron|OPCML_uc010scl.1_Intron	NM_002545	NP_002536			opioid binding protein/cell adhesion						cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)														---	---	---	---
OPCML	4978	broad.mit.edu	37	11	133010724	133010725	+	Intron	INS	-	GACGAA	GACGAA	rs5795826		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:133010724_133010725insGACGAA	uc001qgu.2	-							NM_001012393	NP_001012393			opioid binding protein/cell adhesion						cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)														---	---	---	---
IGSF9B	22997	broad.mit.edu	37	11	133788237	133788238	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:133788237_133788238insG	uc001qgx.3	-							NM_014987	NP_055802			immunoglobulin superfamily, member 9B							integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)														---	---	---	---
IGSF9B	22997	broad.mit.edu	37	11	133791471	133791472	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:133791471_133791472delTT	uc001qgx.3	-							NM_014987	NP_055802			immunoglobulin superfamily, member 9B							integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	133843634	133843634	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:133843634delC								IGSF9B (16754 upstream) : LOC100128239 (58533 downstream)																																			---	---	---	---
JAM3	83700	broad.mit.edu	37	11	133935848	133935848	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:133935848delA	uc001qhb.1	+						JAM3_uc009zcz.1_5'Flank	NM_032801	NP_116190			junctional adhesion molecule 3 precursor						angiogenesis|blood coagulation|regulation of neutrophil chemotaxis	cell-cell contact zone|desmosome|extracellular space|integral to membrane	integrin binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.06e-21)|all_epithelial(12;3.37e-16)|all_lung(97;7.03e-06)|Lung NSC(97;1.67e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0506)|Esophageal squamous(93;0.0566)		Epithelial(10;1.55e-09)|BRCA - Breast invasive adenocarcinoma(10;1.35e-08)|all cancers(11;2.81e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00402)|Lung(977;0.245)														---	---	---	---
B3GAT1	27087	broad.mit.edu	37	11	134252304	134252305	+	Intron	DEL	TG	-	-	rs138976464		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134252304_134252305delTG	uc001qhq.2	-						B3GAT1_uc001qhr.2_Intron|B3GAT1_uc010scv.1_Intron	NM_018644	NP_061114			beta-1,3-glucuronyltransferase 1						carbohydrate metabolic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.39e-23)|all_epithelial(12;7.17e-17)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|Medulloblastoma(222;0.0125)|all_neural(223;0.0137)|Esophageal squamous(93;0.0559)		Epithelial(10;2.58e-11)|all cancers(11;5.75e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.000879)|Lung(977;0.0864)														---	---	---	---
Unknown	0	broad.mit.edu	37	11	134308824	134308825	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134308824_134308825delCT	uc001qhs.2	+											Homo sapiens cDNA FLJ37762 fis, clone BRHIP2024347, weakly similar to GALECTIN-3.																														---	---	---	---
Unknown	0	broad.mit.edu	37	11	134671646	134671646	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134671646delA								B3GAT1 (389834 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	134836311	134836311	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134836311delA								B3GAT1 (554499 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	11	134927846	134927846	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134927846delA								B3GAT1 (646034 upstream) : None (None downstream)																																			---	---	---	---
KDM5A	5927	broad.mit.edu	37	12	471455	471455	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:471455delA	uc001qif.1	-						KDM5A_uc001qie.1_Intron|KDM5A_uc010sdn.1_Intron|KDM5A_uc010sdo.1_Intron	NM_001042603	NP_001036068			retinoblastoma binding protein 2 isoform 1						chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3								T 	NUP98	AML								---	---	---	---
KDM5A	5927	broad.mit.edu	37	12	479922	479922	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:479922delC	uc001qif.1	-						KDM5A_uc001qie.1_Intron|KDM5A_uc010sdn.1_Intron|KDM5A_uc010sdo.1_Intron	NM_001042603	NP_001036068			retinoblastoma binding protein 2 isoform 1						chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3								T 	NUP98	AML								---	---	---	---
B4GALNT3	283358	broad.mit.edu	37	12	666220	666220	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:666220delG	uc001qii.1	+						B4GALNT3_uc001qik.1_Intron	NM_173593	NP_775864			beta							Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)															---	---	---	---
Unknown	0	broad.mit.edu	37	12	848100	848100	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:848100delA								NINJ2 (75345 upstream) : WNK1 (14125 downstream)																																			---	---	---	---
ERC1	23085	broad.mit.edu	37	12	1185471	1185471	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:1185471delT	uc001qjb.2	+						ERC1_uc001qiz.2_Intron|ERC1_uc001qjc.2_Intron|ERC1_uc001qja.2_Intron|ERC1_uc001qjd.2_Intron|ERC1_uc001qjf.2_Intron	NM_178040	NP_829884			RAB6-interacting protein 2 isoform epsilon						I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)															---	---	---	---
ERC1	23085	broad.mit.edu	37	12	1436057	1436059	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:1436057_1436059delTTT	uc001qjb.2	+						ERC1_uc001qiz.2_Intron|ERC1_uc001qjc.2_Intron|ERC1_uc001qja.2_Intron|ERC1_uc001qjd.2_Intron|ERC1_uc001qjf.2_Intron|ERC1_uc010sdv.1_Intron|ERC1_uc001qje.2_Intron	NM_178040	NP_829884			RAB6-interacting protein 2 isoform epsilon						I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)															---	---	---	---
ERC1	23085	broad.mit.edu	37	12	1498375	1498375	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:1498375delT	uc001qjb.2	+						ERC1_uc001qiz.2_Intron|ERC1_uc001qjc.2_Intron|ERC1_uc001qja.2_Intron|ERC1_uc001qjd.2_Intron|ERC1_uc001qjf.2_Intron|ERC1_uc010sdv.1_Intron|ERC1_uc001qje.2_Intron	NM_178040	NP_829884			RAB6-interacting protein 2 isoform epsilon						I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)															---	---	---	---
FBXL14	144699	broad.mit.edu	37	12	1681299	1681299	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:1681299delA	uc001qjh.2	-						WNT5B_uc009zdq.2_5'Flank	NM_152441	NP_689654			F-box and leucine-rich repeat protein 14							cytoplasm				ovary(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00115)															---	---	---	---
DCP1B	196513	broad.mit.edu	37	12	2088373	2088373	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:2088373delT	uc001qjx.1	-						DCP1B_uc010sdy.1_Intron	NM_152640	NP_689853			decapping enzyme Dcp1b						exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	hydrolase activity|protein binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00193)															---	---	---	---
CACNA1C	775	broad.mit.edu	37	12	2548881	2548883	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:2548881_2548883delTTT	uc009zdu.1	+						CACNA1C_uc009zdv.1_Intron|CACNA1C_uc001qkb.2_Intron|CACNA1C_uc001qkc.2_Intron|CACNA1C_uc001qke.2_Intron|CACNA1C_uc001qkf.2_Intron|CACNA1C_uc001qjz.2_Intron|CACNA1C_uc001qkd.2_Intron|CACNA1C_uc001qkg.2_Intron|CACNA1C_uc009zdw.1_Intron|CACNA1C_uc001qkh.2_Intron|CACNA1C_uc001qkl.2_Intron|CACNA1C_uc001qkn.2_Intron|CACNA1C_uc001qko.2_Intron|CACNA1C_uc001qkp.2_Intron|CACNA1C_uc001qkr.2_Intron|CACNA1C_uc001qku.2_Intron|CACNA1C_uc001qkq.2_Intron|CACNA1C_uc001qks.2_Intron|CACNA1C_uc001qkt.2_Intron|CACNA1C_uc001qka.1_Intron|CACNA1C_uc001qki.1_Intron|CACNA1C_uc001qkj.1_Intron|CACNA1C_uc001qkk.1_Intron|CACNA1C_uc001qkm.1_Intron	NM_199460	NP_955630			calcium channel, voltage-dependent, L type,						axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)													---	---	---	---
Unknown	0	broad.mit.edu	37	12	2949271	2949272	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:2949271_2949272delAA	uc009zdz.1	+											Homo sapiens cDNA clone IMAGE:40132675.																														---	---	---	---
TULP3	7289	broad.mit.edu	37	12	3003705	3003708	+	Intron	DEL	ACAC	-	-	rs143140361		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:3003705_3003708delACAC	uc010seh.1	+						TULP3_uc010sef.1_Intron|TULP3_uc009zec.1_Intron|TULP3_uc010seg.1_Intron|TULP3_uc001qlj.2_Intron|TULP3_uc010sei.1_Intron	NM_003324	NP_003315			tubby like protein 3 isoform 1						G-protein coupled receptor protein signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|extracellular region|nucleus|plasma membrane	phosphatidylinositol-4,5-bisphosphate binding				0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)															---	---	---	---
Unknown	0	broad.mit.edu	37	12	3161685	3161687	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:3161685_3161687delAAA								TEAD4 (11844 upstream) : TSPAN9 (24870 downstream)																																			---	---	---	---
TSPAN9	10867	broad.mit.edu	37	12	3264763	3264764	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:3264763_3264764delAA	uc001qlp.2	+							NM_006675	NP_006666			tetraspanin 9							integral to plasma membrane|membrane fraction				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00153)|COAD - Colon adenocarcinoma(12;0.0831)															---	---	---	---
TSPAN9	10867	broad.mit.edu	37	12	3337352	3337352	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:3337352delA	uc001qlp.2	+							NM_006675	NP_006666			tetraspanin 9							integral to plasma membrane|membrane fraction				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00153)|COAD - Colon adenocarcinoma(12;0.0831)															---	---	---	---
EFCAB4B	84766	broad.mit.edu	37	12	3845012	3845012	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:3845012delA	uc001qmj.2	-						EFCAB4B_uc010sen.1_Intron|EFCAB4B_uc010seo.1_Intron	NM_032680	NP_116069			EF-hand calcium binding domain 4B isoform c						activation of store-operated calcium channel activity|store-operated calcium entry	cytoplasm	calcium ion binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.00287)|COAD - Colon adenocarcinoma(12;0.0264)															---	---	---	---
C12orf4	57102	broad.mit.edu	37	12	4639391	4639391	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:4639391delA	uc001qms.2	-						C12orf4_uc001qmt.2_Intron	NM_020374	NP_065107			hypothetical protein LOC57102												0			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)	BRCA - Breast invasive adenocarcinoma(232;0.0281)														---	---	---	---
GALNT8	26290	broad.mit.edu	37	12	4850746	4850746	+	Intron	DEL	A	-	-	rs77650407		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:4850746delA	uc001qne.1	+							NM_017417	NP_059113			polypeptide N-acetylgalactosaminyltransferase 8							Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
KCNA6	3742	broad.mit.edu	37	12	4943956	4943956	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:4943956delA	uc001qng.2	+							NM_002235	NP_002226			potassium voltage-gated channel, shaker-related							voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3															HNSCC(72;0.22)			---	---	---	---
ANO2	57101	broad.mit.edu	37	12	5711857	5711857	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:5711857delA	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																		---	---	---	---
ANO2	57101	broad.mit.edu	37	12	5921538	5921541	+	Intron	DEL	AAAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:5921538_5921541delAAAG	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																		---	---	---	---
VWF	7450	broad.mit.edu	37	12	6126787	6126787	+	Intron	DEL	T	-	-	rs67100831		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6126787delT	uc001qnn.1	-						VWF_uc010set.1_Intron	NM_000552	NP_000543			von Willebrand factor preproprotein						blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)													---	---	---	---
Unknown	0	broad.mit.edu	37	12	6593250	6593250	+	IGR	DEL	A	-	-	rs74499427		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6593250delA								VAMP1 (13407 upstream) : MRPL51 (8066 downstream)																																			---	---	---	---
NCAPD2	9918	broad.mit.edu	37	12	6628059	6628059	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6628059delT	uc001qoo.2	+						NCAPD2_uc009zen.1_Intron|NCAPD2_uc010sfd.1_Intron	NM_014865	NP_055680			non-SMC condensin I complex, subunit D2						cell division|mitotic chromosome condensation	condensin core heterodimer|cytoplasm	histone binding			ovary(2)|lung(1)|breast(1)|kidney(1)	5																		---	---	---	---
CHD4	1108	broad.mit.edu	37	12	6685216	6685218	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6685216_6685218delTTT	uc001qpo.2	-						CHD4_uc001qpn.2_Intron|CHD4_uc001qpp.2_Intron|uc001qpq.1_5'Flank	NM_001273	NP_001264			chromodomain helicase DNA binding protein 4						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																		---	---	---	---
ACRBP	84519	broad.mit.edu	37	12	6752424	6752424	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6752424delA	uc001qpu.1	-						ACRBP_uc010sfg.1_Intron	NM_032489	NP_115878			proacrosin binding protein sp32 precursor							acrosomal vesicle|extracellular region				central_nervous_system(1)	1																		---	---	---	---
ENO2	2026	broad.mit.edu	37	12	7030554	7030556	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7030554_7030556delAAA	uc001qru.1	+						ENO2_uc009zfi.1_Intron|ENO2_uc010sfq.1_Intron|ENO2_uc001qrv.1_Intron	NM_001975	NP_001966			enolase 2						gluconeogenesis|glycolysis	phosphopyruvate hydratase complex|plasma membrane	magnesium ion binding|phosphopyruvate hydratase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	7182597	7182597	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7182597delT								C1S (4264 upstream) : C1R (4920 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	7338794	7338794	+	IGR	DEL	G	-	-	rs113717305		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7338794delG								CLSTN3 (27266 upstream) : PEX5 (2965 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	7381537	7381540	+	IGR	DEL	AGTC	-	-	rs150968036		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7381537_7381540delAGTC								PEX5 (10370 upstream) : ACSM4 (75388 downstream)																																			---	---	---	---
CD163L1	283316	broad.mit.edu	37	12	7556021	7556021	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7556021delT	uc001qsy.2	-						CD163L1_uc010sge.1_Intron	NM_174941	NP_777601			scavenger receptor cysteine-rich type 1							extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11																		---	---	---	---
CD163L1	283316	broad.mit.edu	37	12	7572359	7572360	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7572359_7572360delAA	uc001qsy.2	-						CD163L1_uc010sge.1_Intron	NM_174941	NP_777601			scavenger receptor cysteine-rich type 1							extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11																		---	---	---	---
SLC2A14	144195	broad.mit.edu	37	12	7972052	7972052	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7972052delT	uc001qtk.2	-						SLC2A14_uc001qtl.2_Intron|SLC2A14_uc001qtm.2_Intron|SLC2A14_uc010sgg.1_Intron|SLC2A14_uc001qtn.2_Intron|SLC2A14_uc001qto.2_Intron|SLC2A14_uc010sgh.1_Intron	NM_153449	NP_703150			glucose transporter 14						cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)														---	---	---	---
SLC2A14	144195	broad.mit.edu	37	12	8043905	8043906	+	5'Flank	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8043905_8043906delTT	uc010sgh.1	-						uc001qtp.1_Intron	NM_153449	NP_703150			glucose transporter 14						cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	8059123	8059123	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8059123delT								SLC2A14 (15379 upstream) : SLC2A3 (12702 downstream)																																			---	---	---	---
SLC2A3	6515	broad.mit.edu	37	12	8080994	8080995	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8080994_8080995delAA	uc001qtr.2	-							NM_006931	NP_008862			solute carrier family 2 (facilitated glucose						carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)														---	---	---	---
SLC2A3	6515	broad.mit.edu	37	12	8084774	8084774	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8084774delT	uc001qtr.2	-						SLC2A3_uc001qts.2_Intron	NM_006931	NP_008862			solute carrier family 2 (facilitated glucose						carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	8134326	8134327	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8134326_8134327delTT								SLC2A3 (45434 upstream) : FOXJ2 (51032 downstream)																																			---	---	---	---
C3AR1	719	broad.mit.edu	37	12	8214361	8214362	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8214361_8214362insA	uc001qtv.1	-							NM_004054	NP_004045			complement component 3a receptor 1						blood circulation|chemotaxis|elevation of cytosolic calcium ion concentration|inflammatory response	integral to plasma membrane	C3a anaphylatoxin receptor activity|complement component C3a receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)	1				Kidney(36;0.0893)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	8421941	8421941	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8421941delT	uc001quj.1	+											full-length cDNA clone CS0DB004YI02 of Neuroblastoma Cot 10-normalized of Homo sapiens (human).																														---	---	---	---
CLEC6A	93978	broad.mit.edu	37	12	8628702	8628702	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8628702delT	uc001qum.1	+							NM_001007033	NP_001007034			dectin-2						defense response to fungus|innate immune response|positive regulation of cytokine secretion|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	sugar binding			breast(1)	1	Lung SC(5;0.184)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	8679831	8679831	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8679831delT								CLEC4D (4873 upstream) : CLEC4E (6070 downstream)																																			---	---	---	---
CLEC4E	26253	broad.mit.edu	37	12	8692981	8692982	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8692981_8692982delTT	uc001quo.1	-							NM_014358	NP_055173			C-type lectin domain family 4, member E							integral to membrane	sugar binding			central_nervous_system(1)	1	Lung SC(5;0.184)																	---	---	---	---
RIMKLB	57494	broad.mit.edu	37	12	8859667	8859667	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8859667delT	uc001quu.2	+						RIMKLB_uc009zgf.1_Intron|RIMKLB_uc001qux.2_Intron|RIMKLB_uc010sgl.1_Intron|RIMKLB_uc001quw.2_Intron	NM_020734	NP_065785			ribosomal modification protein rimK-like family						protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0																		---	---	---	---
A2ML1	144568	broad.mit.edu	37	12	9025380	9025381	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9025380_9025381delAA	uc001quz.3	+						A2ML1_uc001qva.1_Intron|A2ML1_uc010sgm.1_Intron|A2ML1_uc001qvb.1_Intron	NM_144670	NP_653271			alpha-2-macroglobulin-like 1 precursor							extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3																		---	---	---	---
A2ML1	144568	broad.mit.edu	37	12	9027840	9027841	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9027840_9027841insT	uc001quz.3	+						A2ML1_uc001qva.1_Intron|A2ML1_uc010sgm.1_Intron|A2ML1_uc001qvb.1_Intron	NM_144670	NP_653271			alpha-2-macroglobulin-like 1 precursor							extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3																		---	---	---	---
A2M	2	broad.mit.edu	37	12	9227066	9227067	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9227066_9227067insT	uc001qvk.1	-						A2M_uc001qvj.1_Intron|A2M_uc009zgk.1_Intron	NM_000014	NP_000005			alpha-2-macroglobulin precursor						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)													---	---	---	---
A2M	2	broad.mit.edu	37	12	9260471	9260471	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9260471delT	uc001qvk.1	-						A2M_uc009zgk.1_Intron	NM_000014	NP_000005			alpha-2-macroglobulin precursor						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)													---	---	---	---
Unknown	0	broad.mit.edu	37	12	9292446	9292447	+	IGR	INS	-	T	T	rs148529929	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9292446_9292447insT								A2M (23888 upstream) : PZP (8990 downstream)																																			---	---	---	---
PZP	5858	broad.mit.edu	37	12	9316049	9316049	+	Intron	DEL	A	-	-	rs71453676		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9316049delA	uc001qvl.2	-						PZP_uc009zgl.2_Intron|PZP_uc010sgo.1_Intron|PZP_uc009zgm.1_Intron	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	9604219	9604219	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9604219delT								DDX12 (3451 upstream) : KLRB1 (143652 downstream)																																			---	---	---	---
CLECL1	160365	broad.mit.edu	37	12	9882411	9882411	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9882411delT	uc001qwj.2	-							NM_172004	NP_742001			type II transmembrane protein DCAL1							integral to membrane|plasma membrane	sugar binding				0																		---	---	---	---
C12orf59	120939	broad.mit.edu	37	12	10341142	10341147	+	Intron	DEL	AAGAAA	-	-	rs11319912		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10341142_10341147delAAGAAA	uc001qxr.2	+						C12orf59_uc001qxq.2_Intron					RecName: Full=Uncharacterized protein C12orf59; Flags: Precursor;							integral to membrane				ovary(1)	1																		---	---	---	---
C12orf59	120939	broad.mit.edu	37	12	10343823	10343823	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10343823delT	uc001qxr.2	+	5					C12orf59_uc001qxq.2_3'UTR					RecName: Full=Uncharacterized protein C12orf59; Flags: Precursor;							integral to membrane				ovary(1)	1																		---	---	---	---
KLRD1	3824	broad.mit.edu	37	12	10454110	10454110	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10454110delA	uc001qxw.3	+							NM_001114396	NP_001107868			killer cell lectin-like receptor subfamily D,						cell surface receptor linked signaling pathway|regulation of immune response	integral to membrane|plasma membrane	sugar binding|transmembrane receptor activity				0																		---	---	---	---
MAGOHB	55110	broad.mit.edu	37	12	10767887	10767888	+	5'Flank	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10767887_10767888delAA	uc001qyq.1	-						MAGOHB_uc001qyr.1_5'Flank	NM_018048	NP_060518			mago-nashi homolog B						mRNA processing|mRNA transport|RNA splicing	nucleus	RNA binding			breast(1)	1																		---	---	---	---
CSDA	8531	broad.mit.edu	37	12	10868143	10868144	+	Intron	DEL	AA	-	-	rs112162659		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10868143_10868144delAA	uc001qyt.2	-						CSDA_uc001qyu.2_Intron	NM_003651	NP_003642			cold shock domain protein A isoform a						negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)																	---	---	---	---
CSDA	8531	broad.mit.edu	37	12	10871576	10871576	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10871576delA	uc001qyt.2	-						CSDA_uc001qyu.2_Intron	NM_003651	NP_003642			cold shock domain protein A isoform a						negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)																	---	---	---	---
PRB4	5545	broad.mit.edu	37	12	11276954	11276957	+	Intron	DEL	CTTA	-	-	rs143262155		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11276954_11276957delCTTA	uc001qzf.1	-						PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRH1_uc001qzj.2_Intron	NM_002723	NP_002714			proline-rich protein BstNI subfamily 4							extracellular region				ovary(1)	1															HNSCC(22;0.051)			---	---	---	---
PRB4	5545	broad.mit.edu	37	12	11295162	11295162	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11295162delA	uc001qzf.1	-						PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRH1_uc001qzj.2_Intron	NM_002723	NP_002714			proline-rich protein BstNI subfamily 4							extracellular region				ovary(1)	1															HNSCC(22;0.051)			---	---	---	---
PRB4	5545	broad.mit.edu	37	12	11334273	11334274	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11334273_11334274insT	uc001qzf.1	-							NM_002723	NP_002714			proline-rich protein BstNI subfamily 4							extracellular region				ovary(1)	1															HNSCC(22;0.051)			---	---	---	---
Unknown	0	broad.mit.edu	37	12	11670191	11670192	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11670191_11670192insT								PRB2 (121693 upstream) : ETV6 (132596 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	11670374	11670374	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11670374delT								PRB2 (121876 upstream) : ETV6 (132414 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	11741336	11741338	+	IGR	DEL	TAA	-	-	rs112443285		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11741336_11741338delTAA								PRB2 (192838 upstream) : ETV6 (61450 downstream)																																			---	---	---	---
ETV6	2120	broad.mit.edu	37	12	11857286	11857286	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11857286delT	uc001qzz.2	+							NM_001987	NP_001978			ets variant 6							cytoplasm|nucleolus	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		ETV6/NTRK3(234)|ETV6/JAK2(11)	soft_tissue(85)|kidney(66)|breast(55)|salivary_gland(26)|haematopoietic_and_lymphoid_tissue(13)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)|pancreas(1)	250		all_cancers(2;1.88e-12)|Acute lymphoblastic leukemia(2;6.91e-39)|all_hematologic(2;2.7e-36)						T	NTRK3|RUNX1|PDGFRB|ABL1|MN1|ABL2|FACL6|CHIC2|ARNT|JAK2|EVI1|CDX2|STL|HLXB9|MDS2|PER1|SYK|TTL|FGFR3|PAX5	congenital fibrosarcoma|multiple leukemia and lymphoma| secretory breast|MDS|ALL								---	---	---	---
LRP6	4040	broad.mit.edu	37	12	12273985	12273985	+	3'UTR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12273985delC	uc001rah.3	-	23					BCL2L14_uc001raf.1_Intron	NM_002336	NP_002327			low density lipoprotein receptor-related protein						cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)																---	---	---	---
LOH12CR1	118426	broad.mit.edu	37	12	12552242	12552242	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12552242delA	uc001ral.2	+						LOH12CR1_uc009zhu.2_Intron	NM_058169	NP_477517			LOH1CR12											ovary(1)	1		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.0205)														---	---	---	---
LOH12CR1	118426	broad.mit.edu	37	12	12591133	12591133	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12591133delA	uc001ral.2	+						LOH12CR1_uc009zhu.2_Intron	NM_058169	NP_477517			LOH1CR12											ovary(1)	1		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.0205)														---	---	---	---
DDX47	51202	broad.mit.edu	37	12	12975396	12975396	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12975396delT	uc001rav.2	+						DDX47_uc009zhw.1_Intron|DDX47_uc001rax.2_Intron|DDX47_uc001ray.2_Intron	NM_016355	NP_057439			DEAD (Asp-Glu-Ala-Asp) box polypeptide 47							nucleolus|nucleolus	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding				0		Prostate(47;0.0526)		BRCA - Breast invasive adenocarcinoma(232;0.0354)														---	---	---	---
HTR7P1	93164	broad.mit.edu	37	12	13173778	13173778	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:13173778delT	uc001rbh.2	+											Homo sapiens cDNA FLJ43688 fis, clone TBAES2003492.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	14175752	14175752	+	IGR	DEL	T	-	-	rs77892643		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14175752delT								GRIN2B (42730 upstream) : ATF7IP (342859 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	14441545	14441545	+	IGR	DEL	T	-	-	rs75421477		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14441545delT								GRIN2B (308523 upstream) : ATF7IP (77066 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	14458955	14458955	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14458955delA								GRIN2B (325933 upstream) : ATF7IP (59656 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	14748041	14748041	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14748041delT								PLBD1 (27250 upstream) : GUCY2C (17529 downstream)																																			---	---	---	---
GUCY2C	2984	broad.mit.edu	37	12	14826386	14826386	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14826386delA	uc001rcd.2	-							NM_004963	NP_004954			guanylate cyclase 2C precursor						intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6																		---	---	---	---
WBP11	51729	broad.mit.edu	37	12	14948252	14948252	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14948252delT	uc001rci.2	-							NM_016312	NP_057396			WW domain binding protein 11						mRNA processing|RNA splicing|rRNA processing	cytoplasm	single-stranded DNA binding|WW domain binding			ovary(1)|lung(1)	2																		---	---	---	---
ERP27	121506	broad.mit.edu	37	12	15074021	15074021	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15074021delT	uc001rco.2	-							NM_152321	NP_689534			endoplasmic reticulum protein 27 kDa precursor							endoplasmic reticulum lumen				breast(1)	1																		---	---	---	---
RERG	85004	broad.mit.edu	37	12	15263014	15263014	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15263014delT	uc001rcs.2	-						RERG_uc001rct.2_Intron|RERG_uc010shu.1_Intron	NM_032918	NP_116307			RAS-like, estrogen-regulated, growth inhibitor						negative regulation of cell growth|negative regulation of cell proliferation|response to hormone stimulus|small GTPase mediated signal transduction	cytosol|membrane|nucleus	estrogen receptor binding|GDP binding|GTP binding|GTPase activity			lung(1)	1																		---	---	---	---
PTPRO	5800	broad.mit.edu	37	12	15593376	15593376	+	Intron	DEL	A	-	-	rs112575285		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15593376delA	uc001rcv.1	+						PTPRO_uc001rcw.1_Intron|PTPRO_uc001rcu.1_Intron	NM_030667	NP_109592			receptor-type protein tyrosine phosphatase O							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)																---	---	---	---
PTPRO	5800	broad.mit.edu	37	12	15639407	15639407	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15639407delT	uc001rcv.1	+						PTPRO_uc001rcw.1_Intron|PTPRO_uc001rcu.1_Intron	NM_030667	NP_109592			receptor-type protein tyrosine phosphatase O							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)																---	---	---	---
PTPRO	5800	broad.mit.edu	37	12	15739654	15739654	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15739654delT	uc001rcv.1	+						PTPRO_uc001rcw.1_Intron|PTPRO_uc001rcx.1_Intron|PTPRO_uc001rcy.1_Intron|PTPRO_uc001rcz.1_Intron|PTPRO_uc001rda.1_Intron	NM_030667	NP_109592			receptor-type protein tyrosine phosphatase O							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)																---	---	---	---
PTPRO	5800	broad.mit.edu	37	12	15745021	15745021	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15745021delT	uc001rcv.1	+						PTPRO_uc001rcw.1_Intron|PTPRO_uc001rcx.1_Intron|PTPRO_uc001rcy.1_Intron|PTPRO_uc001rcz.1_Intron|PTPRO_uc001rda.1_Intron	NM_030667	NP_109592			receptor-type protein tyrosine phosphatase O							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)																---	---	---	---
PTPRO	5800	broad.mit.edu	37	12	15745204	15745204	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15745204delA	uc001rcv.1	+						PTPRO_uc001rcw.1_Intron|PTPRO_uc001rcx.1_Intron|PTPRO_uc001rcy.1_Intron|PTPRO_uc001rcz.1_Intron|PTPRO_uc001rda.1_Intron	NM_030667	NP_109592			receptor-type protein tyrosine phosphatase O							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)																---	---	---	---
EPS8	2059	broad.mit.edu	37	12	15883336	15883336	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15883336delT	uc001rdb.2	-						EPS8_uc009zig.2_Intron	NM_004447	NP_004438			epidermal growth factor receptor pathway						cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	16848062	16848062	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:16848062delA								LMO3 (85304 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	17900980	17900980	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:17900980delT								None (None upstream) : RERGL (332824 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	17919822	17919822	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:17919822delT								None (None upstream) : RERGL (313982 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	18055505	18055506	+	IGR	DEL	GG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:18055505_18055506delGG								None (None upstream) : RERGL (178298 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	18070982	18070983	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:18070982_18070983insA								None (None upstream) : RERGL (162821 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	18144829	18144829	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:18144829delT								None (None upstream) : RERGL (88975 downstream)																																			---	---	---	---
PIK3C2G	5288	broad.mit.edu	37	12	18580717	18580717	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:18580717delA	uc001rdt.2	+						PIK3C2G_uc010sia.1_Intron|PIK3C2G_uc010sib.1_Intron|PIK3C2G_uc010sic.1_Intron	NM_004570	NP_004561			phosphoinositide-3-kinase, class 2 gamma						cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)																---	---	---	---
PLCZ1	89869	broad.mit.edu	37	12	18880119	18880120	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:18880119_18880120delAA	uc010sid.1	-						PLCZ1_uc001rdv.3_Intron|PLCZ1_uc001rdw.3_Intron	NM_033123	NP_149114			phospholipase C, zeta 1						intracellular signal transduction|lipid catabolic process|multicellular organismal development	nucleus|perinuclear region of cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	19040479	19040479	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:19040479delA								CAPZA3 (148358 upstream) : PLEKHA5 (242169 downstream)																																			---	---	---	---
PLEKHA5	54477	broad.mit.edu	37	12	19512151	19512151	+	Intron	DEL	T	-	-	rs75159934		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:19512151delT	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|PLEKHA5_uc001rec.1_Intron|PLEKHA5_uc009zio.2_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)																	---	---	---	---
AEBP2	121536	broad.mit.edu	37	12	19608095	19608096	+	Intron	DEL	TT	-	-	rs111309177		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:19608095_19608096delTT	uc001ref.2	+						AEBP2_uc001ree.2_Intron|AEBP2_uc001reg.1_Intron	NM_001114176	NP_001107648			AE binding protein 2 isoform b						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)|Esophageal squamous(101;0.143)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	19750605	19750605	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:19750605delA								AEBP2 (75432 upstream) : PDE3A (771592 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	20312503	20312503	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:20312503delA								AEBP2 (637330 upstream) : PDE3A (209694 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	21253977	21253977	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21253977delT								SLCO1B3 (10939 upstream) : SLCO1B1 (30151 downstream)																																			---	---	---	---
SLCO1B1	10599	broad.mit.edu	37	12	21327320	21327320	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21327320delT	uc001req.3	+							NM_006446	NP_006437			solute carrier organic anion transporter family,						bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)													---	---	---	---
SLCO1A2	6579	broad.mit.edu	37	12	21484637	21484637	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21484637delA	uc001rer.2	-						SLCO1A2_uc001res.2_Intron|SLCO1A2_uc010siq.1_Intron|SLCO1A2_uc010sio.1_Intron|SLCO1A2_uc010sip.1_Intron	NM_021094	NP_066580			organic anion transporting polypeptide A						bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4																		---	---	---	---
GYS2	2998	broad.mit.edu	37	12	21706730	21706731	+	Intron	INS	-	ACACACAC	ACACACAC	rs143876613	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21706730_21706731insACACACAC	uc001rfb.2	-							NM_021957	NP_068776			glycogen synthase 2						glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	21831929	21831929	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21831929delT								LDHB (21153 upstream) : KCNJ8 (85961 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	22098685	22098685	+	IGR	DEL	A	-	-	rs35252704		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22098685delA								ABCC9 (4349 upstream) : CMAS (100474 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	22337736	22337738	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22337736_22337738delAAA								CMAS (119135 upstream) : ST8SIA1 (8588 downstream)																																			---	---	---	---
ST8SIA1	6489	broad.mit.edu	37	12	22428488	22428488	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22428488delA	uc001rfo.3	-						ST8SIA1_uc009zix.2_Intron	NM_003034	NP_003025			alpha-2,8-sialyltransferase 1						glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(3)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	22566056	22566056	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22566056delT	uc001rfp.1	-											full-length cDNA clone CS0DI081YP04 of Placenta Cot 25-normalized of Homo sapiens (human).																														---	---	---	---
KIAA0528	9847	broad.mit.edu	37	12	22644245	22644245	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22644245delT	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																		---	---	---	---
KIAA0528	9847	broad.mit.edu	37	12	22657896	22657896	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22657896delA	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	22719394	22719394	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22719394delA								KIAA0528 (21942 upstream) : ETNK1 (58682 downstream)																																			---	---	---	---
ETNK1	55500	broad.mit.edu	37	12	22816427	22816427	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22816427delA	uc001rft.2	+						ETNK1_uc009ziz.2_Intron	NM_018638	NP_061108			ethanolamine kinase 1 isoform A						phosphatidylethanolamine biosynthetic process	cytoplasm	ATP binding|ethanolamine kinase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	22908694	22908695	+	IGR	INS	-	AAG	AAG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22908694_22908695insAAG								ETNK1 (65087 upstream) : SOX5 (776537 downstream)																																			---	---	---	---
SOX5	6660	broad.mit.edu	37	12	24043747	24043748	+	Intron	DEL	AA	-	-	rs113124701		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:24043747_24043748delAA	uc001rfw.2	-						SOX5_uc001rfx.2_Intron|SOX5_uc001rfy.2_Intron|SOX5_uc010siv.1_Intron|SOX5_uc010siw.1_Intron|SOX5_uc001rfz.1_Intron|SOX5_uc001rga.2_Intron	NM_006940	NP_008871			SRY (sex determining region Y)-box 5 isoform a						transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6																		---	---	---	---
SOX5	6660	broad.mit.edu	37	12	24129752	24129752	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:24129752delT	uc001rfx.2	-						SOX5_uc001rfy.2_Intron	NM_152989	NP_694534			SRY (sex determining region Y)-box 5 isoform b						transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6																		---	---	---	---
SOX5	6660	broad.mit.edu	37	12	24221093	24221093	+	Intron	DEL	A	-	-	rs150388733	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:24221093delA	uc001rfx.2	-						SOX5_uc001rfy.2_Intron	NM_152989	NP_694534			SRY (sex determining region Y)-box 5 isoform b						transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	24913045	24913045	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:24913045delT								SOX5 (197665 upstream) : BCAT1 (51236 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	24935096	24935097	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:24935096_24935097delCA								SOX5 (219716 upstream) : BCAT1 (29184 downstream)																																			---	---	---	---
BCAT1	586	broad.mit.edu	37	12	24984598	24984598	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:24984598delA	uc001rgd.3	-						BCAT1_uc001rgc.2_Intron|BCAT1_uc010six.1_Intron|BCAT1_uc010siy.1_Intron|BCAT1_uc001rge.3_Intron	NM_005504	NP_005495			branched chain aminotransferase 1, cytosolic						branched chain family amino acid biosynthetic process|branched chain family amino acid catabolic process|cell proliferation|G1/S transition of mitotic cell cycle	cytosol	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			lung(1)|breast(1)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Ovarian(17;0.107)|Colorectal(261;0.196)				Gabapentin(DB00996)|L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|L-Valine(DB00161)|Pyridoxal Phosphate(DB00114)													---	---	---	---
BCAT1	586	broad.mit.edu	37	12	25052743	25052743	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:25052743delG	uc001rgd.3	-						BCAT1_uc001rgc.2_Intron|BCAT1_uc010six.1_Intron|BCAT1_uc010siy.1_Intron|BCAT1_uc001rge.3_Intron	NM_005504	NP_005495			branched chain aminotransferase 1, cytosolic						branched chain family amino acid biosynthetic process|branched chain family amino acid catabolic process|cell proliferation|G1/S transition of mitotic cell cycle	cytosol	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			lung(1)|breast(1)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Ovarian(17;0.107)|Colorectal(261;0.196)				Gabapentin(DB00996)|L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|L-Valine(DB00161)|Pyridoxal Phosphate(DB00114)													---	---	---	---
CASC1	55259	broad.mit.edu	37	12	25269874	25269874	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:25269874delT	uc001rgl.2	-						CASC1_uc001rgk.2_Intron|CASC1_uc001rgm.3_Intron|CASC1_uc001rgj.2_Intron|CASC1_uc010sje.1_Intron|CASC1_uc010sjf.1_Intron|CASC1_uc010sjg.1_Intron	NM_001082973	NP_001076442			cancer susceptibility candidate 1 isoform b											ovary(2)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Melanoma(3;0.0301)|Colorectal(261;0.11)		OV - Ovarian serous cystadenocarcinoma(3;7.42e-20)|Epithelial(3;7.58e-16)|all cancers(3;1.07e-13)															---	---	---	---
Unknown	0	broad.mit.edu	37	12	25597470	25597470	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:25597470delT								KRAS (193607 upstream) : IFLTD1 (31546 downstream)																																			---	---	---	---
IFLTD1	160492	broad.mit.edu	37	12	25787557	25787558	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:25787557_25787558delCT	uc010sjj.1	-							NM_001145727	NP_001139199			intermediate filament tail domain containing 1							intermediate filament	structural molecule activity			ovary(2)|central_nervous_system(1)	3	all_lung(3;2.75e-22)|Lung NSC(3;1.77e-21)|all_hematologic(7;0.00656)|Colorectal(261;0.0847)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	25854485	25854486	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:25854485_25854486delGA								IFLTD1 (52997 upstream) : RASSF8 (257483 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	25929422	25929422	+	IGR	DEL	A	-	-	rs35230561		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:25929422delA								IFLTD1 (127934 upstream) : RASSF8 (182547 downstream)																																			---	---	---	---
RASSF8	11228	broad.mit.edu	37	12	26167836	26167836	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:26167836delA	uc001rgx.2	+						RASSF8_uc001rgy.2_Intron|RASSF8_uc001rgz.2_Intron|RASSF8_uc009zjd.1_Intron|RASSF8_uc001rgw.1_Intron	NM_007211	NP_009142			Ras association (RalGDS/AF-6) domain family						signal transduction						0	Colorectal(261;0.0847)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	26474958	26474959	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:26474958_26474959insA								SSPN (69105 upstream) : ITPR2 (13328 downstream)																																			---	---	---	---
ITPR2	3709	broad.mit.edu	37	12	26783380	26783380	+	Intron	DEL	A	-	-	rs67839691	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:26783380delA	uc001rhg.2	-							NM_002223	NP_002214			inositol 1,4,5-triphosphate receptor, type 2						activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)																	---	---	---	---
ITPR2	3709	broad.mit.edu	37	12	26961028	26961028	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:26961028delA	uc001rhg.2	-						ITPR2_uc001rhh.1_Intron|ITPR2_uc001rhi.1_Intron	NM_002223	NP_002214			inositol 1,4,5-triphosphate receptor, type 2						activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)																	---	---	---	---
MED21	9412	broad.mit.edu	37	12	27180183	27180183	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:27180183delA	uc001rhp.1	+						MED21_uc009zjh.1_Intron	NM_004264	NP_004255			mediator complex subunit 21						positive regulation of transcription from RNA polymerase II promoter	mediator complex	DNA-directed RNA polymerase activity|transcription coactivator activity				0	Colorectal(261;0.0847)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	27294171	27294171	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:27294171delT								C12orf71 (58716 upstream) : STK38L (102907 downstream)																																			---	---	---	---
MRPS35	60488	broad.mit.edu	37	12	27867009	27867012	+	Intron	DEL	AAAA	-	-	rs34566131		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:27867009_27867012delAAAA	uc001rih.2	+						MRPS35_uc001rii.2_Intron	NM_021821	NP_068593			mitochondrial ribosomal protein S35 precursor						DNA damage response, detection of DNA damage	mitochondrial small ribosomal subunit					0	Lung SC(9;0.0873)																	---	---	---	---
MRPS35	60488	broad.mit.edu	37	12	27877136	27877136	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:27877136delT	uc001rih.2	+						MRPS35_uc001rii.2_Intron	NM_021821	NP_068593			mitochondrial ribosomal protein S35 precursor						DNA damage response, detection of DNA damage	mitochondrial small ribosomal subunit					0	Lung SC(9;0.0873)																	---	---	---	---
CCDC91	55297	broad.mit.edu	37	12	28508042	28508043	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:28508042_28508043insT	uc001riq.2	+						CCDC91_uc001rio.2_Intron|CCDC91_uc009zjk.2_Intron|CCDC91_uc001rip.1_Intron|CCDC91_uc001rir.2_Intron|CCDC91_uc009zjl.2_Intron	NM_018318	NP_060788			GGA binding partner						protein transport	Golgi apparatus|membrane				central_nervous_system(1)	1	Acute lymphoblastic leukemia(23;0.00718)|all_hematologic(23;0.0113)|Lung SC(9;0.184)																	---	---	---	---
FAR2	55711	broad.mit.edu	37	12	29304802	29304802	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:29304802delA	uc001ris.3	+							NM_018099	NP_060569			fatty acyl CoA reductase 2						ether lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor				0																		---	---	---	---
ERGIC2	51290	broad.mit.edu	37	12	29494269	29494270	+	Intron	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:29494269_29494270delTC	uc001riv.2	-						ERGIC2_uc001riw.2_Intron	NM_016570	NP_057654			PTX1 protein						vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane|nucleus				ovary(1)	1	Lung NSC(12;2.02e-08)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)|Lung SC(9;0.184)				Arsenic trioxide(DB01169)													---	---	---	---
ERGIC2	51290	broad.mit.edu	37	12	29516769	29516773	+	Intron	DEL	AAAAA	-	-	rs143081023		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:29516769_29516773delAAAAA	uc001riv.2	-						ERGIC2_uc001riw.2_Intron	NM_016570	NP_057654			PTX1 protein						vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane|nucleus				ovary(1)	1	Lung NSC(12;2.02e-08)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)|Lung SC(9;0.184)				Arsenic trioxide(DB01169)													---	---	---	---
Unknown	0	broad.mit.edu	37	12	29555614	29555614	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:29555614delA								ERGIC2 (21471 upstream) : OVCH1 (24875 downstream)																																			---	---	---	---
TMTC1	83857	broad.mit.edu	37	12	29759800	29759800	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:29759800delT	uc001rjb.2	-						TMTC1_uc001riz.2_Intron|TMTC1_uc001rja.2_Intron|TMTC1_uc001rjc.1_Intron	NM_175861	NP_787057			transmembrane and tetratricopeptide repeat							integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)																	---	---	---	---
TMTC1	83857	broad.mit.edu	37	12	29782261	29782261	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:29782261delA	uc001rjb.2	-						TMTC1_uc001riz.2_Intron|TMTC1_uc001rja.2_Intron|TMTC1_uc001rjc.1_Intron	NM_175861	NP_787057			transmembrane and tetratricopeptide repeat							integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	29953207	29953207	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:29953207delA								TMTC1 (15515 upstream) : IPO8 (828716 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	30424818	30424818	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:30424818delA								TMTC1 (487126 upstream) : IPO8 (357105 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	31160129	31160129	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31160129delT								TSPAN11 (10593 upstream) : DDX11 (66650 downstream)																																			---	---	---	---
DDX11	1663	broad.mit.edu	37	12	31242207	31242207	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31242207delC	uc001rjt.1	+						DDX11_uc010sjw.1_3'UTR|DDX11_uc010sjx.1_Intron|DDX11_uc001rjr.1_Intron|DDX11_uc001rjs.1_Intron|DDX11_uc001rju.1_Intron|DDX11_uc001rjv.1_Intron|DDX11_uc001rjw.1_Intron|DDX11_uc001rjx.1_5'UTR|DDX11_uc009zjn.1_Intron	NM_152438	NP_689651			DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11						G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)														Multiple Myeloma(12;0.14)			---	---	---	---
Unknown	0	broad.mit.edu	37	12	31412101	31412102	+	IGR	DEL	AA	-	-	rs148776214		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31412101_31412102delAA								DDX11 (154376 upstream) : FAM60A (21425 downstream)																																			---	---	---	---
FAM60A	58516	broad.mit.edu	37	12	31435557	31435557	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31435557delA	uc010sjz.1	-	6					FAM60A_uc001rkd.2_3'UTR|FAM60A_uc010ska.1_3'UTR|FAM60A_uc001rke.2_3'UTR|FAM60A_uc010skb.1_RNA|FAM60A_uc001rkc.2_3'UTR	NM_021238	NP_067061			family with sequence similarity 60, member A												0	all_cancers(9;5.22e-13)|all_epithelial(9;4e-13)|all_lung(12;1.2e-11)|Lung NSC(12;2.17e-09)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0207)|Lung SC(12;0.0592)|Esophageal squamous(101;0.162)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	31517495	31517495	+	Intron	DEL	A	-	-	rs113239253		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31517495delA	uc001rkg.3	-											Homo sapiens cDNA clone IMAGE:5532261, partial cds.																														---	---	---	---
Unknown	0	broad.mit.edu	37	12	31529885	31529885	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31529885delT								FAM60A (50726 upstream) : DENND5B (5272 downstream)																																			---	---	---	---
DENND5B	160518	broad.mit.edu	37	12	31633203	31633203	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31633203delA	uc001rki.1	-						DENND5B_uc001rkh.1_Intron|DENND5B_uc009zjq.1_5'Flank|DENND5B_uc001rkj.2_Intron|DENND5B_uc001rkk.1_Intron	NM_144973	NP_659410			DENN/MADD domain containing 5B							integral to membrane				ovary(1)|central_nervous_system(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	32156930	32156930	+	IGR	DEL	A	-	-	rs11051726	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:32156930delA								C12orf35 (10899 upstream) : BICD1 (103255 downstream)																																			---	---	---	---
BICD1	636	broad.mit.edu	37	12	32278080	32278081	+	Intron	INS	-	T	T	rs72514183		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:32278080_32278081insT	uc001rku.2	+						BICD1_uc001rkv.2_Intron|BICD1_uc010skd.1_Intron	NM_001714	NP_001705			bicaudal D homolog 1 isoform 1						anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)															---	---	---	---
BICD1	636	broad.mit.edu	37	12	32450306	32450306	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:32450306delT	uc001rku.2	+						BICD1_uc001rkv.2_Intron|BICD1_uc010skd.1_Intron	NM_001714	NP_001705			bicaudal D homolog 1 isoform 1						anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)															---	---	---	---
Unknown	0	broad.mit.edu	37	12	33214805	33214805	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:33214805delA								PKP2 (165025 upstream) : SYT10 (313543 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	33667241	33667241	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:33667241delT								SYT10 (74487 upstream) : ALG10 (507975 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	33748096	33748096	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:33748096delG								SYT10 (155342 upstream) : ALG10 (427120 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	33857466	33857468	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:33857466_33857468delTTT								SYT10 (264712 upstream) : ALG10 (317748 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	34473861	34473861	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:34473861delT								ALG10 (292627 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	34569328	34569328	+	IGR	DEL	G	-	-	rs111519211		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:34569328delG								ALG10 (388094 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	37968748	37968748	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:37968748delA								None (None upstream) : ALG10B (741809 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	37970365	37970366	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:37970365_37970366insT								None (None upstream) : ALG10B (740191 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	38284069	38284069	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:38284069delA								None (None upstream) : ALG10B (426488 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	38386405	38386405	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:38386405delT								None (None upstream) : ALG10B (324152 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	38446150	38446151	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:38446150_38446151insA								None (None upstream) : ALG10B (264406 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	38649040	38649040	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:38649040delA								None (None upstream) : ALG10B (61517 downstream)																																			---	---	---	---
ALG10B	144245	broad.mit.edu	37	12	38710255	38710255	+	5'Flank	DEL	A	-	-	rs36120291		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:38710255delA	uc001rln.3	+						ALG10B_uc001rlo.3_5'Flank|ALG10B_uc010skk.1_5'Flank	NM_001013620	NP_001013642			asparagine-linked glycosylation 10 homolog B						dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|plasma membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			ovary(2)|skin(1)	3	Esophageal squamous(101;0.187)	Lung NSC(34;0.204)|all_lung(34;0.235)														OREG0021733	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	12	38926640	38926640	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:38926640delT								ALG10B (203113 upstream) : CPNE8 (119362 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	39037510	39037511	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:39037510_39037511delAA								ALG10B (313983 upstream) : CPNE8 (8491 downstream)																																			---	---	---	---
CPNE8	144402	broad.mit.edu	37	12	39219166	39219166	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:39219166delA	uc001rls.1	-							NM_153634	NP_705898			copine VIII											pancreas(1)	1	Esophageal squamous(101;0.187)	Lung NSC(34;0.137)|Melanoma(24;0.152)|all_lung(34;0.157)																---	---	---	---
CPNE8	144402	broad.mit.edu	37	12	39223056	39223057	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:39223056_39223057insA	uc001rls.1	-							NM_153634	NP_705898			copine VIII											pancreas(1)	1	Esophageal squamous(101;0.187)	Lung NSC(34;0.137)|Melanoma(24;0.152)|all_lung(34;0.157)																---	---	---	---
CPNE8	144402	broad.mit.edu	37	12	39301028	39301028	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:39301028delT	uc001rls.1	-							NM_153634	NP_705898			copine VIII											pancreas(1)	1	Esophageal squamous(101;0.187)	Lung NSC(34;0.137)|Melanoma(24;0.152)|all_lung(34;0.157)																---	---	---	---
Unknown	0	broad.mit.edu	37	12	39483232	39483232	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:39483232delA								CPNE8 (183812 upstream) : KIF21A (203799 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	39505763	39505763	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:39505763delT								CPNE8 (206343 upstream) : KIF21A (181268 downstream)																																			---	---	---	---
KIF21A	55605	broad.mit.edu	37	12	39742584	39742585	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:39742584_39742585insA	uc001rly.2	-						KIF21A_uc001rlx.2_Intron|KIF21A_uc001rlz.2_Intron|KIF21A_uc010skl.1_Intron	NM_017641	NP_060111			kinesin family member 21A						microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)																---	---	---	---
Unknown	0	broad.mit.edu	37	12	40923610	40923610	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:40923610delT	uc001rmj.1	+											Homo sapiens mRNA; cDNA DKFZp686N11246 (from clone DKFZp686N11246).																														---	---	---	---
Unknown	0	broad.mit.edu	37	12	40965563	40965564	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:40965563_40965564delAA								LRRK2 (202479 upstream) : CNTN1 (120794 downstream)																																			---	---	---	---
CNTN1	1272	broad.mit.edu	37	12	41112706	41112706	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41112706delT	uc001rmm.1	+						CNTN1_uc009zjy.1_Intron|CNTN1_uc001rmn.1_Intron	NM_001843	NP_001834			contactin 1 isoform 1 precursor						axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)																---	---	---	---
CNTN1	1272	broad.mit.edu	37	12	41144023	41144024	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41144023_41144024insT	uc001rmm.1	+						CNTN1_uc009zjy.1_Intron|CNTN1_uc001rmn.1_Intron	NM_001843	NP_001834			contactin 1 isoform 1 precursor						axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)																---	---	---	---
CNTN1	1272	broad.mit.edu	37	12	41328667	41328667	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41328667delT	uc001rmm.1	+						CNTN1_uc009zjy.1_Intron|CNTN1_uc001rmn.1_Intron|CNTN1_uc001rmo.2_Intron	NM_001843	NP_001834			contactin 1 isoform 1 precursor						axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)																---	---	---	---
CNTN1	1272	broad.mit.edu	37	12	41399602	41399602	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41399602delT	uc001rmm.1	+						CNTN1_uc001rmn.1_Intron	NM_001843	NP_001834			contactin 1 isoform 1 precursor						axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)																---	---	---	---
CNTN1	1272	broad.mit.edu	37	12	41407336	41407337	+	Intron	DEL	AA	-	-	rs34197329		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41407336_41407337delAA	uc001rmm.1	+						CNTN1_uc001rmn.1_Intron	NM_001843	NP_001834			contactin 1 isoform 1 precursor						axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)																---	---	---	---
PDZRN4	29951	broad.mit.edu	37	12	41967812	41967812	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41967812delT	uc010skn.1	+	10					PDZRN4_uc001rmq.3_3'UTR|PDZRN4_uc009zjz.2_3'UTR|PDZRN4_uc001rmr.2_3'UTR	NM_013377	NP_037509			PDZ domain containing RING finger 4 isoform 2								ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)																---	---	---	---
Unknown	0	broad.mit.edu	37	12	42038061	42038061	+	IGR	DEL	G	-	-	rs67237911	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:42038061delG								PDZRN4 (69677 upstream) : GXYLT1 (437589 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	42354732	42354732	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:42354732delA								PDZRN4 (386348 upstream) : GXYLT1 (120918 downstream)																																			---	---	---	---
PPHLN1	51535	broad.mit.edu	37	12	42664476	42664477	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:42664476_42664477delAA	uc001rmy.2	+							NM_201439	NP_958847			periphilin 1 isoform 3						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	43028051	43028051	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:43028051delT								PRICKLE1 (44479 upstream) : ADAMTS20 (719962 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	43098625	43098625	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:43098625delA								PRICKLE1 (115053 upstream) : ADAMTS20 (649388 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	43254026	43254026	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:43254026delT								PRICKLE1 (270454 upstream) : ADAMTS20 (493987 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	43322918	43322918	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:43322918delT								PRICKLE1 (339346 upstream) : ADAMTS20 (425095 downstream)																																			---	---	---	---
PUS7L	83448	broad.mit.edu	37	12	44130669	44130670	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:44130669_44130670delAA	uc001rnq.3	-						PUS7L_uc001rnr.3_Intron|PUS7L_uc001rns.3_Intron|PUS7L_uc009zkb.2_Intron	NM_001098615	NP_001092085			pseudouridylate synthase 7 homolog (S.						pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			pancreas(1)	1	all_cancers(12;0.00027)	Lung NSC(34;0.114)|all_lung(34;0.24)		GBM - Glioblastoma multiforme(48;0.0402)														---	---	---	---
PUS7L	83448	broad.mit.edu	37	12	44133248	44133248	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:44133248delT	uc001rnq.3	-						PUS7L_uc001rnr.3_Intron|PUS7L_uc001rns.3_Intron|PUS7L_uc009zkb.2_Intron	NM_001098615	NP_001092085			pseudouridylate synthase 7 homolog (S.						pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			pancreas(1)	1	all_cancers(12;0.00027)	Lung NSC(34;0.114)|all_lung(34;0.24)		GBM - Glioblastoma multiforme(48;0.0402)														---	---	---	---
TMEM117	84216	broad.mit.edu	37	12	44638168	44638168	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:44638168delT	uc001rod.2	+						TMEM117_uc001roe.2_Intron|TMEM117_uc009zkc.2_Intron	NM_032256	NP_115632			transmembrane protein 117							endoplasmic reticulum|integral to membrane					0	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)														---	---	---	---
TMEM117	84216	broad.mit.edu	37	12	44642772	44642772	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:44642772delT	uc001rod.2	+						TMEM117_uc001roe.2_Intron|TMEM117_uc009zkc.2_Intron	NM_032256	NP_115632			transmembrane protein 117							endoplasmic reticulum|integral to membrane					0	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)														---	---	---	---
NELL2	4753	broad.mit.edu	37	12	45075063	45075063	+	Intron	DEL	T	-	-	rs111633082		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:45075063delT	uc001rog.2	-						NELL2_uc001rof.3_Intron|NELL2_uc001roh.2_Intron|NELL2_uc009zkd.2_Intron|NELL2_uc010skz.1_Intron|NELL2_uc010sla.1_Intron|NELL2_uc001roi.1_Intron|NELL2_uc010slb.1_Intron|NELL2_uc001roj.2_Intron	NM_001145108	NP_001138580			NEL-like protein 2 isoform b precursor						cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	45333936	45333936	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:45333936delA								NELL2 (26225 upstream) : DBX2 (74603 downstream)																																			---	---	---	---
DBX2	440097	broad.mit.edu	37	12	45445905	45445905	+	5'Flank	DEL	T	-	-	rs75551561		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:45445905delT	uc001rok.1	-							NM_001004329	NP_001004329			developing brain homeobox 2							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Lung SC(27;0.192)	Lung NSC(34;0.142)		GBM - Glioblastoma multiforme(48;0.0515)														---	---	---	---
ANO6	196527	broad.mit.edu	37	12	45650830	45650830	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:45650830delA	uc001roo.2	+						ANO6_uc010sld.1_Intron|ANO6_uc010sle.1_Intron|ANO6_uc010slf.1_Intron	NM_001025356	NP_001020527			anoctamin 6 isoform a						activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2																		---	---	---	---
ANO6	196527	broad.mit.edu	37	12	45796789	45796789	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:45796789delT	uc001roo.2	+						ANO6_uc010sld.1_Intron|ANO6_uc010sle.1_Intron|ANO6_uc010slf.1_Intron|ANO6_uc010slg.1_Intron	NM_001025356	NP_001020527			anoctamin 6 isoform a						activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2																		---	---	---	---
ARID2	196528	broad.mit.edu	37	12	46211715	46211715	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:46211715delT	uc001ros.1	+						ARID2_uc001ror.2_Intron	NM_152641	NP_689854			AT rich interactive domain 2 (ARID, RFX-like)						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)														---	---	---	---
SLC38A1	81539	broad.mit.edu	37	12	46632125	46632125	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:46632125delA	uc001rpa.2	-						SLC38A1_uc001rpb.2_Intron|SLC38A1_uc001rpc.2_Intron|SLC38A1_uc001rpd.2_Intron|SLC38A1_uc001rpe.2_Intron|SLC38A1_uc010slh.1_Intron|SLC38A1_uc009zkj.1_Intron	NM_030674	NP_109599			amino acid transporter system A1						cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)															---	---	---	---
Unknown	0	broad.mit.edu	37	12	47022611	47022612	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47022611_47022612delTG								SLC38A2 (255966 upstream) : SLC38A4 (135932 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	47028123	47028123	+	IGR	DEL	T	-	-	rs139521206		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47028123delT								SLC38A2 (261478 upstream) : SLC38A4 (130421 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	47040627	47040628	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47040627_47040628insT								SLC38A2 (273982 upstream) : SLC38A4 (117916 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	47147193	47147194	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47147193_47147194insA								SLC38A2 (380548 upstream) : SLC38A4 (11350 downstream)																																			---	---	---	---
FAM113B	91523	broad.mit.edu	37	12	47599556	47599556	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47599556delA	uc001rpn.2	+							NM_138371	NP_612380			hypothetical protein LOC91523								hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)																	---	---	---	---
FAM113B	91523	broad.mit.edu	37	12	47608430	47608430	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47608430delA	uc001rpn.2	+						LOC100233209_uc001rpp.2_Intron|FAM113B_uc010slj.1_5'Flank|FAM113B_uc001rpq.2_5'Flank|FAM113B_uc009zkn.2_5'Flank	NM_138371	NP_612380			hypothetical protein LOC91523								hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)																	---	---	---	---
FAM113B	91523	broad.mit.edu	37	12	47617221	47617221	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47617221delT	uc001rpn.2	+						FAM113B_uc010slj.1_Intron|FAM113B_uc001rpq.2_Intron	NM_138371	NP_612380			hypothetical protein LOC91523								hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	47806813	47806814	+	IGR	INS	-	AC	AC	rs148217255	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47806813_47806814insAC								FAM113B (176372 upstream) : RPAP3 (248902 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	47808166	47808166	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47808166delT								FAM113B (177725 upstream) : RPAP3 (247550 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	47873264	47873264	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47873264delA								FAM113B (242823 upstream) : RPAP3 (182452 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	47949703	47949704	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47949703_47949704insA								FAM113B (319262 upstream) : RPAP3 (106012 downstream)																																			---	---	---	---
RPAP3	79657	broad.mit.edu	37	12	48096336	48096336	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48096336delA	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)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	48408868	48408871	+	IGR	DEL	TTTT	-	-	rs67239075		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48408868_48408871delTTTT								COL2A1 (10583 upstream) : SENP1 (27887 downstream)																																			---	---	---	---
SENP1	29843	broad.mit.edu	37	12	48470275	48470276	+	Intron	DEL	TT	-	-	rs76895440		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48470275_48470276delTT	uc001rqx.2	-						SENP1_uc001rqw.2_Intron|SENP1_uc001rqy.2_Intron|SENP1_uc001rqz.2_Intron|SENP1_uc009zkx.2_Intron	NM_014554	NP_055369			sentrin/SUMO-specific protease 1						activation of caspase activity|induction of apoptosis by extracellular signals|protein desumoylation|proteolysis	cytoplasm|nucleus	endopeptidase activity|SUMO-specific protease activity			pancreas(2)|lung(1)	3		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)																---	---	---	---
Unknown	0	broad.mit.edu	37	12	48600599	48600599	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48600599delA								OR10AD1 (3524 upstream) : H1FNT (122164 downstream)																																			---	---	---	---
ZNF641	121274	broad.mit.edu	37	12	48738938	48738938	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48738938delT	uc001rrn.1	-						ZNF641_uc001rro.1_Intron|ZNF641_uc010sls.1_Intron	NM_152320	NP_689533			zinc finger protein 641						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	48995641	48995642	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48995641_48995642insA								LALBA (31812 upstream) : C12orf41 (51353 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	49198615	49198615	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49198615delT								ADCY6 (15795 upstream) : CACNB3 (9619 downstream)																																			---	---	---	---
RND1	27289	broad.mit.edu	37	12	49260793	49260794	+	5'Flank	INS	-	AA	AA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49260793_49260794insAA	uc001rsn.2	-							NM_014470	NP_055285			GTP-binding protein RHO6 precursor						actin filament organization|axon guidance|negative regulation of cell adhesion|neuron remodeling|small GTPase mediated signal transduction	adherens junction|cytoskeleton|cytosol	GTP binding|GTPase activity|receptor binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	49269430	49269430	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49269430delT								RND1 (9777 upstream) : CCDC65 (28463 downstream)																																			---	---	---	---
FKBP11	51303	broad.mit.edu	37	12	49322132	49322132	+	5'Flank	DEL	T	-	-	rs113105455		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49322132delT	uc001rsp.2	-						FKBP11_uc001rsq.3_5'Flank|FKBP11_uc010smb.1_5'Flank	NM_016594	NP_057678			FK506 binding protein 11 isoform 1 precursor						protein folding	integral to membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0																		---	---	---	---
MLL2	8085	broad.mit.edu	37	12	49433407	49433407	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49433407delA	uc001rta.3	-							NM_003482	NP_003473			myeloid/lymphoid or mixed-lineage leukemia 2						chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41								N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			---	---	---	---
LMBR1L	55716	broad.mit.edu	37	12	49494516	49494516	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49494516delT	uc001rth.3	-						LMBR1L_uc001rtg.3_Intron|LMBR1L_uc001rti.3_Intron	NM_018113	NP_060583			lipocalin-interacting membrane receptor						endocytosis	integral to membrane|plasma membrane	receptor activity			pancreas(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	49965703	49965703	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49965703delT								MCRS1 (3792 upstream) : FAM186B (10956 downstream)																																			---	---	---	---
NCKAP5L	57701	broad.mit.edu	37	12	50207615	50207615	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50207615delT	uc009zlk.2	-							NM_001037806	NP_001032895			NCK-associated protein 5-like											central_nervous_system(1)	1																		---	---	---	---
FAIM2	23017	broad.mit.edu	37	12	50283037	50283037	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50283037delC	uc001rvj.1	-						FAIM2_uc001rvi.1_Intron|FAIM2_uc001rvk.1_Intron	NM_012306	NP_036438			Fas apoptotic inhibitory molecule 2						anti-apoptosis|apoptosis	cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|ovary(1)|skin(1)	3																		---	---	---	---
SMARCD1	6602	broad.mit.edu	37	12	50489116	50489116	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50489116delT	uc001rvx.3	+						SMARCD1_uc001rvy.3_Intron|SMARCD1_uc009zlp.2_Intron	NM_003076	NP_003067			SWI/SNF-related matrix-associated						chromatin-mediated maintenance of transcription|nervous system development|regulation of transcription from RNA polymerase II promoter	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	protein complex scaffold|transcription coactivator activity			ovary(1)	1																		---	---	---	---
LASS5	91012	broad.mit.edu	37	12	50534796	50534796	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50534796delA	uc001rwd.3	-						LASS5_uc001rwc.2_Intron|LASS5_uc001rwe.3_Intron|LASS5_uc001rwf.3_Intron|LASS5_uc010smq.1_Intron	NM_147190	NP_671723			LAG1 homolog, ceramide synthase 5						ceramide biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity				0																		---	---	---	---
LASS5	91012	broad.mit.edu	37	12	50541733	50541733	+	Intron	DEL	T	-	-	rs76919525		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50541733delT	uc001rwd.3	-						LASS5_uc001rwe.3_Intron|LASS5_uc001rwf.3_Intron|LASS5_uc010smq.1_Intron	NM_147190	NP_671723			LAG1 homolog, ceramide synthase 5						ceramide biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity				0																		---	---	---	---
LASS5	91012	broad.mit.edu	37	12	50558783	50558786	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50558783_50558786delTTTT	uc001rwd.3	-						LASS5_uc001rwe.3_Intron|LASS5_uc001rwf.3_Intron|LASS5_uc010smq.1_Intron	NM_147190	NP_671723			LAG1 homolog, ceramide synthase 5						ceramide biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity				0																		---	---	---	---
LIMA1	51474	broad.mit.edu	37	12	50625266	50625266	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50625266delA	uc001rwj.3	-						LIMA1_uc001rwk.3_Intron|LIMA1_uc010smr.1_Intron|LIMA1_uc010sms.1_Intron	NM_016357	NP_057441			LIM domain and actin binding 1 isoform b						actin filament bundle assembly|negative regulation of actin filament depolymerization|ruffle organization	cytoplasm|focal adhesion|stress fiber	actin filament binding|actin monomer binding|zinc ion binding			ovary(1)	1																		---	---	---	---
LARP4	113251	broad.mit.edu	37	12	50854279	50854279	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50854279delT	uc001rwp.1	+						LARP4_uc001rwo.1_Intron|LARP4_uc001rwq.1_Intron|LARP4_uc001rwr.1_Intron|LARP4_uc001rws.1_Intron|LARP4_uc009zlr.1_Intron|LARP4_uc001rwt.1_Intron|LARP4_uc001rwm.2_Intron|LARP4_uc001rwn.2_Intron	NM_052879	NP_443111			c-Mpl binding protein isoform a								nucleotide binding|RNA binding			ovary(1)	1																		---	---	---	---
DIP2B	57609	broad.mit.edu	37	12	50930054	50930055	+	Intron	INS	-	CATA	CATA	rs148405106	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50930054_50930055insCATA	uc001rwv.2	+						DIP2B_uc001rwu.2_Intron	NM_173602	NP_775873			DIP2 disco-interacting protein 2 homolog B							nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6																		---	---	---	---
DIP2B	57609	broad.mit.edu	37	12	50933020	50933021	+	Intron	DEL	TT	-	-	rs11336743		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50933020_50933021delTT	uc001rwv.2	+						DIP2B_uc001rwu.2_Intron	NM_173602	NP_775873			DIP2 disco-interacting protein 2 homolog B							nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6																		---	---	---	---
DIP2B	57609	broad.mit.edu	37	12	50971583	50971583	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50971583delA	uc001rwv.2	+						DIP2B_uc001rwu.2_Intron	NM_173602	NP_775873			DIP2 disco-interacting protein 2 homolog B							nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6																		---	---	---	---
DIP2B	57609	broad.mit.edu	37	12	51090798	51090799	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51090798_51090799insA	uc001rwv.2	+						DIP2B_uc009zlt.2_Intron	NM_173602	NP_775873			DIP2 disco-interacting protein 2 homolog B							nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6																		---	---	---	---
DIP2B	57609	broad.mit.edu	37	12	51126692	51126692	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51126692delT	uc001rwv.2	+						DIP2B_uc009zlt.2_Intron	NM_173602	NP_775873			DIP2 disco-interacting protein 2 homolog B							nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6																		---	---	---	---
SLC11A2	4891	broad.mit.edu	37	12	51389091	51389092	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51389091_51389092insA	uc001rxe.3	-						SLC11A2_uc001rxd.3_Intron|SLC11A2_uc001rxc.3_Intron|SLC11A2_uc001rxf.2_Intron|SLC11A2_uc001rxg.1_5'Flank|SLC11A2_uc010smx.1_Intron|SLC11A2_uc001rxh.1_Intron|SLC11A2_uc001rxj.1_Intron|SLC11A2_uc001rxi.2_Intron|SLC11A2_uc001rxk.1_Intron|SLC11A2_uc010smy.1_Intron	NM_000617	NP_000608			solute carrier family 11 (proton-coupled						activation of caspase activity|cellular iron ion homeostasis|cellular response to oxidative stress|detection of oxygen|ferrous iron import|multicellular organismal iron ion homeostasis|response to hypoxia|response to iron ion	apical plasma membrane|basal part of cell|cell surface|cytoplasmic vesicle|early endosome|late endosome|late endosome membrane|lysosomal membrane|lysosome|nucleus|paraferritin complex|perinuclear region of cytoplasm|perinuclear region of cytoplasm|plasma membrane|recycling endosome|trans-Golgi network	cadmium ion transmembrane transporter activity|cadmium ion transmembrane transporter activity|cobalt ion transmembrane transporter activity|copper ion transmembrane transporter activity|ferrous iron transmembrane transporter activity|ferrous iron transmembrane transporter activity|lead ion transmembrane transporter activity|lead ion transmembrane transporter activity|manganese ion transmembrane transporter activity|manganese ion transmembrane transporter activity|nickel ion transmembrane transporter activity|protein binding|solute:hydrogen symporter activity|vanadium ion transmembrane transporter activity|zinc ion transmembrane transporter activity			large_intestine(1)	1																		---	---	---	---
LETMD1	25875	broad.mit.edu	37	12	51447933	51447934	+	Intron	INS	-	GA	GA	rs141010792	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51447933_51447934insGA	uc001rxm.2	+						LETMD1_uc010smz.1_Intron|LETMD1_uc010sna.1_Intron|LETMD1_uc001rxl.2_Intron|LETMD1_uc009zlv.2_Intron|LETMD1_uc001rxs.2_Intron|LETMD1_uc009zlw.2_Intron|LETMD1_uc001rxn.2_Intron|LETMD1_uc001rxo.2_Intron|LETMD1_uc001rxp.2_Intron|LETMD1_uc001rxq.2_Intron|LETMD1_uc001rxr.2_Intron|LETMD1_uc001rxt.2_Intron	NM_015416	NP_056231			LETM1 domain containing 1 isoform 1							integral to membrane|mitochondrial outer membrane	protein binding			central_nervous_system(2)	2																		---	---	---	---
CSRNP2	81566	broad.mit.edu	37	12	51475641	51475642	+	Intron	INS	-	C	C	rs1112392	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51475641_51475642insC	uc001rxu.1	-							NM_030809	NP_110436			TGF-beta induced apoptosis protein 12						apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0																		---	---	---	---
SCN8A	6334	broad.mit.edu	37	12	51987468	51987468	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51987468delT	uc001ryw.2	+							NM_014191	NP_055006			sodium channel, voltage gated, type VIII, alpha						axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)													---	---	---	---
KRT5	3852	broad.mit.edu	37	12	52911638	52911638	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52911638delA	uc001san.2	-						KRT5_uc009zmh.2_Intron	NM_000424	NP_000415			keratin 5						epidermis development|hemidesmosome assembly	cytosol|keratin filament	protein binding|structural constituent of cytoskeleton				0				BRCA - Breast invasive adenocarcinoma(357;0.189)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	53059493	53059493	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53059493delT								KRT2 (13534 upstream) : KRT1 (9027 downstream)																																			---	---	---	---
KRT79	338785	broad.mit.edu	37	12	53227362	53227362	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53227362delC	uc001sbb.2	-							NM_175834	NP_787028			keratin 6L							keratin filament	structural molecule activity			ovary(2)|skin(2)	4																		---	---	---	---
SOAT2	8435	broad.mit.edu	37	12	53510744	53510746	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53510744_53510746delTTT	uc001sbv.2	+						SOAT2_uc009zms.2_Intron	NM_003578	NP_003569			acyl-CoA:cholesterol acyltransferase 2						cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|macrophage derived foam cell differentiation|very-low-density lipoprotein particle assembly	brush border|endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			ovary(1)	1																		---	---	---	---
SP1	6667	broad.mit.edu	37	12	53802707	53802707	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53802707delA	uc001scw.2	+						SP1_uc010sog.1_Intron	NM_138473	NP_612482			Sp1 transcription factor isoform a						positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	double-stranded DNA binding|histone deacetylase binding|HMG box domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(357;0.00527)														---	---	---	---
ATF7	11016	broad.mit.edu	37	12	53947163	53947163	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53947163delT	uc001sdy.2	-						ATF7_uc010sok.1_Intron|ATF7_uc001sdz.2_Intron|ATF7_uc010sol.1_Intron|ATF7_uc001sea.3_Intron|ATF7_uc001seb.3_Intron	NM_001130059	NP_001123531			activating transcription factor 7 isoform 1						interspecies interaction between organisms	cytoplasm|nuclear periphery|nucleoplasm	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)	2																		---	---	---	---
ATP5G2	517	broad.mit.edu	37	12	54064409	54064409	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54064409delT	uc009znc.2	-						ATP5G2_uc001sec.2_Intron|ATP5G2_uc001sed.2_Intron	NM_001002031	NP_001002031			ATP synthase, H+ transporting, mitochondrial F0						ATP hydrolysis coupled proton transport|ATP synthesis coupled proton transport	integral to membrane|mitochondrial proton-transporting ATP synthase complex|proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity|lipid binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	54326956	54326956	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54326956delA								CALCOCO1 (205649 upstream) : HOXC13 (5620 downstream)																																			---	---	---	---
HOXC9	3225	broad.mit.edu	37	12	54396807	54396807	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54396807delT	uc001sep.2	+	3					HOXC9_uc001seq.2_3'UTR	NM_006897	NP_008828			homeobox C9						multicellular organismal development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)|skin(1)	3																		---	---	---	---
CBX5	23468	broad.mit.edu	37	12	54646036	54646036	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54646036delA	uc001sfh.3	-						CBX5_uc001sfk.3_Intron|CBX5_uc001sfi.3_Intron|CBX5_uc001sfj.3_Intron	NM_001127322	NP_001120794			heterochromatin protein 1-alpha						blood coagulation|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|nuclear centromeric heterochromatin|nuclear envelope|nucleolus|transcriptional repressor complex	methylated histone residue binding|protein binding, bridging|repressing transcription factor binding				0																		---	---	---	---
COPZ1	22818	broad.mit.edu	37	12	54739315	54739315	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54739315delT	uc001sfs.1	+						COPZ1_uc001sft.2_Intron|COPZ1_uc009znm.1_Intron|COPZ1_uc010sot.1_Intron	NM_016057	NP_057141			coatomer protein complex, subunit zeta 1						COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol					0																		---	---	---	---
GTSF1	121355	broad.mit.edu	37	12	54862723	54862723	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54862723delA	uc001sgb.2	-							NM_144594	NP_653195			gametocyte specific factor 1								metal ion binding				0		Myeloproliferative disorder(1001;0.00452)																---	---	---	---
LACRT	90070	broad.mit.edu	37	12	55025712	55025712	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55025712delC	uc001sgi.1	-							NM_033277	NP_150593			lacritin precursor						calcineurin-NFAT signaling pathway|positive regulation of epithelial cell proliferation|positive regulation of NFAT protein import into nucleus|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of secretion|protein localization in Golgi apparatus|tear secretion	extracellular region|stored secretory granule	collagen binding|fibronectin binding|glycoprotein binding|growth factor activity|laminin-1 binding|protein N-terminus binding			central_nervous_system(1)	1																		---	---	---	---
DCD	117159	broad.mit.edu	37	12	55038760	55038760	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55038760delA	uc001sgj.2	-						DCD_uc009znt.2_Intron|DCD_uc009znu.2_Intron	NM_053283	NP_444513			dermcidin preproprotein						defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular region	protein binding			ovary(1)	1		Myeloproliferative disorder(1001;0.0255)																---	---	---	---
DCD	117159	broad.mit.edu	37	12	55044087	55044087	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55044087delT	uc001sgj.2	-						DCD_uc009znt.2_5'Flank|DCD_uc009znu.2_5'Flank	NM_053283	NP_444513			dermcidin preproprotein						defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular region	protein binding			ovary(1)	1		Myeloproliferative disorder(1001;0.0255)																---	---	---	---
Unknown	0	broad.mit.edu	37	12	55094810	55094811	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55094810_55094811delGA								DCD (52661 upstream) : MUCL1 (153488 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	55243946	55243946	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55243946delT								DCD (201797 upstream) : MUCL1 (4353 downstream)																																			---	---	---	---
KIAA0748	9840	broad.mit.edu	37	12	55344733	55344733	+	Intron	DEL	T	-	-	rs34091523		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55344733delT	uc001sgn.3	-						KIAA0748_uc001sgl.3_Intron|KIAA0748_uc001sgm.3_Intron|KIAA0748_uc010spb.1_Intron|KIAA0748_uc010spc.1_Intron|KIAA0748_uc010spd.1_Intron|KIAA0748_uc001sgo.3_Intron	NM_001098815	NP_001092285			hypothetical protein LOC9840											ovary(1)|central_nervous_system(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	55394516	55394518	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55394516_55394518delTTT								KIAA0748 (16060 upstream) : NEUROD4 (19211 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	55517543	55517543	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55517543delT								NEUROD4 (93743 upstream) : OR9K2 (6010 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	55650051	55650051	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55650051delG								OR6C74 (8042 upstream) : OR6C6 (38023 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	55973464	55973464	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55973464delT								OR6C4 (27526 upstream) : OR10P1 (57212 downstream)																																			---	---	---	---
DNAJC14	85406	broad.mit.edu	37	12	56206737	56206737	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56206737delT	uc001shu.1	-						SARNP_uc009zoa.2_Intron|SARNP_uc001shs.3_Intron|SARNP_uc001sht.2_Intron|SARNP_uc001shv.3_Intron	NM_032364	NP_115740			dopamine receptor interacting protein						protein folding|protein transport	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|unfolded protein binding			ovary(3)|large_intestine(1)	4																		---	---	---	---
ERBB3	2065	broad.mit.edu	37	12	56487854	56487854	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56487854delC	uc001sjh.2	+						ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Intron|ERBB3_uc009zok.2_Intron|ERBB3_uc001sjk.2_5'Flank	NM_001982	NP_001973			erbB-3 isoform 1 precursor						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)															---	---	---	---
MYL6B	140465	broad.mit.edu	37	12	56551174	56551174	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56551174delA	uc001sjs.2	+						MYL6B_uc001sjt.2_Intron|MYL6B_uc001sju.1_Intron|MYL6_uc001sjv.2_5'Flank|MYL6_uc001sjw.1_5'Flank|MYL6_uc001sjx.1_5'Flank|MYL6_uc010sqd.1_5'Flank|MYL6_uc001sjz.2_5'Flank|MYL6_uc010sqe.1_5'Flank	NM_002475	NP_002466			smooth muscle and non-muscle myosin alkali light						muscle filament sliding|skeletal muscle tissue development	cytosol|muscle myosin complex|unconventional myosin complex	calcium ion binding|motor activity|protein binding|structural constituent of muscle				0			OV - Ovarian serous cystadenocarcinoma(18;0.0979)															---	---	---	---
Unknown	0	broad.mit.edu	37	12	56856925	56856925	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56856925delT								MIP (8496 upstream) : SPRYD4 (5376 downstream)																																			---	---	---	---
RBMS2	5939	broad.mit.edu	37	12	56982000	56982000	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56982000delT	uc001sln.2	+						RBMS2_uc010sqp.1_Intron|RBMS2_uc010sqq.1_Intron|RBMS2_uc009zou.2_Intron	NM_002898	NP_002889			RNA binding motif, single stranded interacting						RNA processing	nucleus	nucleotide binding|RNA binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	57099234	57099236	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57099234_57099236delTTT								PTGES3 (17156 upstream) : NACA (6975 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	57448177	57448177	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57448177delA								MYO1A (4276 upstream) : TMEM194A (1250 downstream)																																			---	---	---	---
TMEM194A	23306	broad.mit.edu	37	12	57458047	57458047	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57458047delT	uc001smy.2	-						TMEM194A_uc001smx.2_Intron|TMEM194A_uc010sra.1_Intron	NM_001130963	NP_001124435			transmembrane protein 194A isoform a							integral to membrane					0																		---	---	---	---
TMEM194A	23306	broad.mit.edu	37	12	57466469	57466469	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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																		---	---	---	---
R3HDM2	22864	broad.mit.edu	37	12	57732134	57732137	+	Intron	DEL	AAAC	-	-	rs147577978		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57732134_57732137delAAAC	uc001snt.2	-						R3HDM2_uc001sns.2_Intron|R3HDM2_uc009zpo.1_Intron	NM_014925	NP_055740			R3H domain containing 2							nucleus	nucleic acid binding			ovary(2)	2																		---	---	---	---
R3HDM2	22864	broad.mit.edu	37	12	57814012	57814012	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57814012delA	uc001snt.2	-						R3HDM2_uc001sns.2_Intron|R3HDM2_uc009zpo.1_Intron	NM_014925	NP_055740			R3H domain containing 2							nucleus	nucleic acid binding			ovary(2)	2																		---	---	---	---
DTX3	196403	broad.mit.edu	37	12	58000613	58000613	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:58000613delC	uc001sow.1	+						DTX3_uc001sov.1_Intron|DTX3_uc001sox.1_Intron|DTX3_uc001soy.1_Intron	NM_178502	NP_848597			deltex homolog 3						Notch signaling pathway	cytoplasm	zinc ion binding			breast(1)|central_nervous_system(1)	2	Melanoma(17;0.122)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	58293330	58293330	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:58293330delA								CTDSP2 (52583 upstream) : XRCC6BP1 (42115 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	58408670	58408671	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:58408670_58408671delTT								XRCC6BP1 (57619 upstream) : LRIG3 (857267 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	58839900	58839900	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:58839900delT								XRCC6BP1 (488849 upstream) : LRIG3 (426038 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	59178996	59178996	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:59178996delA								XRCC6BP1 (827945 upstream) : LRIG3 (86942 downstream)																																			---	---	---	---
LRIG3	121227	broad.mit.edu	37	12	59298058	59298058	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:59298058delA	uc001sqr.2	-						LRIG3_uc009zqh.2_Intron|LRIG3_uc010ssh.1_Intron	NM_153377	NP_700356			leucine-rich repeats and immunoglobulin-like							integral to membrane				skin(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;1.17e-18)															---	---	---	---
Unknown	0	broad.mit.edu	37	12	59481584	59481584	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:59481584delA								LRIG3 (167322 upstream) : SLC16A7 (508264 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	59513754	59513754	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:59513754delA								LRIG3 (199492 upstream) : SLC16A7 (476094 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	59753816	59753816	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:59753816delA								LRIG3 (439554 upstream) : SLC16A7 (236032 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	59912564	59912564	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:59912564delG								LRIG3 (598302 upstream) : SLC16A7 (77284 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	60255434	60255435	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:60255434_60255435delAC								SLC16A7 (80027 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	61015246	61015247	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:61015246_61015247insA								SLC16A7 (839839 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	61134456	61134456	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:61134456delA								SLC16A7 (959049 upstream) : FAM19A2 (967587 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	61255563	61255564	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:61255563_61255564insA								None (None upstream) : FAM19A2 (846479 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	61632976	61632979	+	IGR	DEL	TCTC	-	-	rs144130164		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:61632976_61632979delTCTC								None (None upstream) : FAM19A2 (469064 downstream)																																			---	---	---	---
FAM19A2	338811	broad.mit.edu	37	12	62214345	62214345	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:62214345delA	uc001sqw.2	-						FAM19A2_uc001sqv.2_Intron|FAM19A2_uc001sqx.2_Intron|FAM19A2_uc001sqy.2_Intron	NM_178539	NP_848634			family with sequence similarity 19 (chemokine							cytoplasm				ovary(1)	1			GBM - Glioblastoma multiforme(1;0.00484)	GBM - Glioblastoma multiforme(3;0.02)														---	---	---	---
FAM19A2	338811	broad.mit.edu	37	12	62459482	62459483	+	Intron	INS	-	TG	TG	rs140275505	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:62459482_62459483insTG	uc001sqw.2	-						FAM19A2_uc001sqx.2_Intron|FAM19A2_uc001sqy.2_Intron	NM_178539	NP_848634			family with sequence similarity 19 (chemokine							cytoplasm				ovary(1)	1			GBM - Glioblastoma multiforme(1;0.00484)	GBM - Glioblastoma multiforme(3;0.02)														---	---	---	---
MON2	23041	broad.mit.edu	37	12	62909599	62909599	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:62909599delA	uc001sre.2	+						MON2_uc009zqj.2_Intron|MON2_uc010ssl.1_Intron|MON2_uc010ssm.1_Intron|MON2_uc010ssn.1_Intron|MON2_uc001srf.2_Intron	NM_015026	NP_055841			MON2 homolog						Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)														---	---	---	---
MON2	23041	broad.mit.edu	37	12	62946678	62946678	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:62946678delT	uc001sre.2	+	24	3325	c.2934delT	c.(2932-2934)TATfs	p.Y978fs	MON2_uc009zqj.2_Frame_Shift_Del_p.Y978fs|MON2_uc010ssl.1_Frame_Shift_Del_p.Y906fs|MON2_uc010ssm.1_Frame_Shift_Del_p.Y955fs|MON2_uc010ssn.1_Frame_Shift_Del_p.Y978fs|MON2_uc001srf.2_Frame_Shift_Del_p.Y741fs	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	979					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)														---	---	---	---
PPM1H	57460	broad.mit.edu	37	12	63195104	63195104	+	Intron	DEL	T	-	-	rs34210349		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:63195104delT	uc001srk.3	-							NM_020700	NP_065751			protein phosphatase 1H (PP2C domain containing)								phosphoprotein phosphatase activity			lung(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;0.000443)|BRCA - Breast invasive adenocarcinoma(9;0.209)	GBM - Glioblastoma multiforme(28;0.0126)														---	---	---	---
PPM1H	57460	broad.mit.edu	37	12	63304268	63304268	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:63304268delT	uc001srk.3	-							NM_020700	NP_065751			protein phosphatase 1H (PP2C domain containing)								phosphoprotein phosphatase activity			lung(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;0.000443)|BRCA - Breast invasive adenocarcinoma(9;0.209)	GBM - Glioblastoma multiforme(28;0.0126)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	63766992	63766992	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:63766992delT								AVPR1A (220402 upstream) : DPY19L2 (185701 downstream)																																			---	---	---	---
DPY19L2	283417	broad.mit.edu	37	12	63956447	63956447	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:63956447delT	uc001srp.1	-						DPY19L2_uc010sso.1_Intron	NM_173812	NP_776173			dpy-19-like 2						multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)														---	---	---	---
DPY19L2	283417	broad.mit.edu	37	12	64038437	64038438	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64038437_64038438delTG	uc001srp.1	-						DPY19L2_uc009zqk.1_Intron	NM_173812	NP_776173			dpy-19-like 2						multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)														---	---	---	---
SRGAP1	57522	broad.mit.edu	37	12	64376027	64376027	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64376027delA	uc010ssp.1	+						SRGAP1_uc001srt.2_Intron|SRGAP1_uc001srv.2_5'Flank	NM_020762	NP_065813			SLIT-ROBO Rho GTPase activating protein 1						axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	64575820	64575820	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64575820delA								SRGAP1 (34207 upstream) : C12orf66 (10600 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	64577156	64577156	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64577156delA								SRGAP1 (35543 upstream) : C12orf66 (9264 downstream)																																			---	---	---	---
C12orf56	115749	broad.mit.edu	37	12	64746470	64746470	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64746470delT	uc001ssa.3	-						uc001srx.2_Intron	NM_001099676	NP_001093146			hypothetical protein LOC115749												0			GBM - Glioblastoma multiforme(3;0.000582)	GBM - Glioblastoma multiforme(28;0.0259)														---	---	---	---
C12orf56	115749	broad.mit.edu	37	12	64746630	64746631	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64746630_64746631delTT	uc001ssa.3	-						uc001srx.2_Intron	NM_001099676	NP_001093146			hypothetical protein LOC115749												0			GBM - Glioblastoma multiforme(3;0.000582)	GBM - Glioblastoma multiforme(28;0.0259)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	64788760	64788761	+	Intron	DEL	TT	-	-	rs112692444		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64788760_64788761delTT	uc001srx.2	+											Homo sapiens mRNA; cDNA DKFZp434A0326 (from clone DKFZp434A0326).																														---	---	---	---
XPOT	11260	broad.mit.edu	37	12	64825692	64825692	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64825692delT	uc001ssb.2	+							NM_007235	NP_009166			tRNA exportin						intracellular protein transport|tRNA export from nucleus	cytoplasm|nucleoplasm	protein transporter activity|tRNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(28;0.0404)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	64909193	64909193	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64909193delT								TBK1 (13302 upstream) : RASSF3 (95100 downstream)																																			---	---	---	---
GNS	2799	broad.mit.edu	37	12	65130629	65130629	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:65130629delA	uc001ssg.3	-						GNS_uc001ssf.2_Intron|GNS_uc010ssq.1_Intron|GNS_uc010ssr.1_Intron	NM_002076	NP_002067			glucosamine (N-acetyl)-6-sulfatase precursor							lysosome	metal ion binding|N-acetylglucosamine-6-sulfatase activity|protein binding			central_nervous_system(1)	1	Lung NSC(1;7.25e-14)|all_lung(1;1.25e-12)		LUAD - Lung adenocarcinoma(6;0.115)	GBM - Glioblastoma multiforme(28;0.0435)														---	---	---	---
GNS	2799	broad.mit.edu	37	12	65151916	65151916	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:65151916delA	uc001ssg.3	-						GNS_uc010ssq.1_Intron|GNS_uc010ssr.1_Intron	NM_002076	NP_002067			glucosamine (N-acetyl)-6-sulfatase precursor							lysosome	metal ion binding|N-acetylglucosamine-6-sulfatase activity|protein binding			central_nervous_system(1)	1	Lung NSC(1;7.25e-14)|all_lung(1;1.25e-12)		LUAD - Lung adenocarcinoma(6;0.115)	GBM - Glioblastoma multiforme(28;0.0435)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	65435894	65435894	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:65435894delC								GNS (282668 upstream) : WIF1 (8513 downstream)																																			---	---	---	---
WIF1	11197	broad.mit.edu	37	12	65450048	65450048	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:65450048delT	uc001ssk.2	-							NM_007191	NP_009122			WNT inhibitory factor 1 precursor						multicellular organismal development|Wnt receptor signaling pathway	extracellular region	protein tyrosine kinase activity			ovary(2)|lung(1)|skin(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0231)				T	HMGA2	pleomorphic salivary gland adenoma								---	---	---	---
LEMD3	23592	broad.mit.edu	37	12	65586790	65586790	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:65586790delT	uc001ssl.1	+						LEMD3_uc009zqo.1_Intron	NM_014319	NP_055134			LEM domain containing 3						negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway	integral to nuclear inner membrane|membrane fraction	DNA binding|nucleotide binding|protein binding			central_nervous_system(3)|ovary(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0104)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	65948882	65948884	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:65948882_65948884delTTT	uc010ssu.1	-											Homo sapiens, clone IMAGE:5172510, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	12	66094343	66094343	+	IGR	DEL	T	-	-	rs111997158		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:66094343delT								MSRB3 (233663 upstream) : RPSAP52 (57460 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	66143255	66143255	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:66143255delA								MSRB3 (282575 upstream) : RPSAP52 (8548 downstream)																																			---	---	---	---
HMGA2	8091	broad.mit.edu	37	12	66262094	66262094	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:66262094delT	uc001ssw.1	+						HMGA2_uc001ssx.2_Intron|HMGA2_uc001sss.1_Intron|HMGA2_uc001sst.1_Intron|HMGA2_uc001ssu.1_Intron|HMGA2_uc001ssv.2_Intron|uc001ssz.1_Intron|uc001sta.1_Intron	NM_003483	NP_003474			high mobility group AT-hook 2 isoform a						cell division|chromatin organization|mitosis|multicellular organismal development|regulation of growth|transcription, DNA-dependent	chromatin	AT DNA binding		HMGA2/LPP(161)|HMGA2/WIF1_ENST00000286574(14)|HMGA2/RAD51B(11)|HMGA2/NFIB_ENST00000397581(8)|HMGA2/FHIT_ENST00000476844(4)|HMGA2/CCNB1IP1(2)|HMGA2/ALDH2_ENST00000261733(2)|HMGA2/EBF1(2)|HMGA2/LHFP(2)|HMGA2/COX6C(2)	soft_tissue(159)|bone(27)|salivary_gland(22)	208	all_cancers(1;5.78e-46)		GBM - Glioblastoma multiforme(1;0.00179)|LUSC - Lung squamous cell carcinoma(43;0.156)	GBM - Glioblastoma multiforme(28;0.0386)				T	 LHFP|RAD51L1|LPP|HEI10|COX6C|CMKOR1|NFIB|ALDH2|CCNB1IP1|EBF1|WIF1|FHIT	lipoma|leiomyoma|pleiomorphic salivary gland adenoma								---	---	---	---
HMGA2	8091	broad.mit.edu	37	12	66333137	66333137	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:66333137delT	uc001ssx.2	+						HMGA2_uc001ssw.1_Intron	NM_003483	NP_003474			high mobility group AT-hook 2 isoform a						cell division|chromatin organization|mitosis|multicellular organismal development|regulation of growth|transcription, DNA-dependent	chromatin	AT DNA binding		HMGA2/LPP(161)|HMGA2/WIF1_ENST00000286574(14)|HMGA2/RAD51B(11)|HMGA2/NFIB_ENST00000397581(8)|HMGA2/FHIT_ENST00000476844(4)|HMGA2/CCNB1IP1(2)|HMGA2/ALDH2_ENST00000261733(2)|HMGA2/EBF1(2)|HMGA2/LHFP(2)|HMGA2/COX6C(2)	soft_tissue(159)|bone(27)|salivary_gland(22)	208	all_cancers(1;5.78e-46)		GBM - Glioblastoma multiforme(1;0.00179)|LUSC - Lung squamous cell carcinoma(43;0.156)	GBM - Glioblastoma multiforme(28;0.0386)				T	 LHFP|RAD51L1|LPP|HEI10|COX6C|CMKOR1|NFIB|ALDH2|CCNB1IP1|EBF1|WIF1|FHIT	lipoma|leiomyoma|pleiomorphic salivary gland adenoma								---	---	---	---
Unknown	0	broad.mit.edu	37	12	66395967	66395968	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:66395967_66395968insA								HMGA2 (35899 upstream) : LLPH (120882 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	66431539	66431539	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:66431539delA								HMGA2 (71471 upstream) : LLPH (85311 downstream)																																			---	---	---	---
HELB	92797	broad.mit.edu	37	12	66730177	66730177	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:66730177delA	uc001sti.2	+						HELB_uc010ssz.1_Intron|HELB_uc009zqt.1_Intron	NM_033647	NP_387467			helicase (DNA) B						DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	67417346	67417346	+	IGR	DEL	T	-	-	rs76558854		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:67417346delT								GRIP1 (219452 upstream) : CAND1 (245715 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	67739803	67739803	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:67739803delA								CAND1 (31415 upstream) : DYRK2 (302709 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	67890343	67890343	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:67890343delG								CAND1 (181955 upstream) : DYRK2 (152169 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	68004587	68004587	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:68004587delT								CAND1 (296199 upstream) : DYRK2 (37925 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	68268796	68268796	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:68268796delT								DYRK2 (212353 upstream) : IFNG (279754 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	68379080	68379081	+	IGR	DEL	TC	-	-	rs139080816		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:68379080_68379081delTC								DYRK2 (322637 upstream) : IFNG (169469 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	68581872	68581872	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:68581872delC								IFNG (28351 upstream) : IL26 (13257 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	68784459	68784460	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:68784459_68784460delAA								MDM1 (58298 upstream) : RAP1B (220192 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	69079471	69079473	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:69079471_69079473delAAA	uc001sud.1	-						uc001sue.1_Intron|NUP107_uc001suf.2_5'Flank|NUP107_uc001sug.2_5'Flank|NUP107_uc010stj.1_5'Flank					Homo sapiens cDNA clone IMAGE:5268292.																														---	---	---	---
Unknown	0	broad.mit.edu	37	12	69456525	69456525	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:69456525delA								CPM (99505 upstream) : CPSF6 (176792 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	69543811	69543811	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:69543811delA								CPM (186791 upstream) : CPSF6 (89506 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	69592647	69592647	+	IGR	DEL	A	-	-	rs7485302	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:69592647delA								CPM (235627 upstream) : CPSF6 (40670 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	70009273	70009274	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:70009273_70009274delCA								LRRC10 (4331 upstream) : BEST3 (27866 downstream)																																			---	---	---	---
RAB3IP	117177	broad.mit.edu	37	12	70136105	70136105	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:70136105delA	uc001svp.2	+						RAB3IP_uc001svl.1_Intron|RAB3IP_uc001svm.2_Intron|RAB3IP_uc001svn.2_Intron|RAB3IP_uc001svo.2_Intron|RAB3IP_uc001svq.2_Intron|RAB3IP_uc001svr.2_Intron|RAB3IP_uc001svs.2_Intron	NM_175623	NP_783322			RAB3A interacting protein isoform alpha 2						cilium assembly|Golgi to plasma membrane transport|protein localization to organelle|protein transport	actin cortical patch|centrosome|cytosol|lamellipodium|microtubule basal body|nucleus	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Esophageal squamous(21;0.187)		Lung(24;0.000381)|OV - Ovarian serous cystadenocarcinoma(12;0.00168)|STAD - Stomach adenocarcinoma(21;0.00694)															---	---	---	---
Unknown	0	broad.mit.edu	37	12	70577854	70577855	+	IGR	INS	-	A	A	rs75180226		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:70577854_70577855insA								RAB3IP (360872 upstream) : CNOT2 (58922 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	70598787	70598787	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:70598787delA								RAB3IP (381805 upstream) : CNOT2 (37990 downstream)																																			---	---	---	---
PTPRR	5801	broad.mit.edu	37	12	71096817	71096817	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:71096817delT	uc001swi.1	-						PTPRR_uc001swh.1_Intron|PTPRR_uc009zrs.2_Intron|PTPRR_uc010stq.1_Intron|PTPRR_uc010str.1_Intron	NM_002849	NP_002840			protein tyrosine phosphatase, receptor type, R						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)														---	---	---	---
TSPAN8	7103	broad.mit.edu	37	12	71524621	71524621	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:71524621delA	uc009zrt.1	-						TSPAN8_uc001swk.1_Intron|TSPAN8_uc001swj.1_Intron	NM_004616	NP_004607			transmembrane 4 superfamily member 3						protein glycosylation	integral to membrane|lysosome	signal transducer activity			skin(2)|lung(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(43;0.24)|OV - Ovarian serous cystadenocarcinoma(12;0.244)															---	---	---	---
TSPAN8	7103	broad.mit.edu	37	12	71611897	71611897	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:71611897delT	uc001swk.1	-							NM_004616	NP_004607			transmembrane 4 superfamily member 3						protein glycosylation	integral to membrane|lysosome	signal transducer activity			skin(2)|lung(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(43;0.24)|OV - Ovarian serous cystadenocarcinoma(12;0.244)															---	---	---	---
TBC1D15	64786	broad.mit.edu	37	12	72267100	72267101	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72267100_72267101insT	uc001swu.2	+						TBC1D15_uc009zrv.2_Intron|TBC1D15_uc010stt.1_Intron|TBC1D15_uc001swv.2_Intron|TBC1D15_uc001sww.2_Intron	NM_022771	NP_073608			TBC1 domain family, member 15 isoform 1								protein binding|Rab GTPase activator activity				0																		---	---	---	---
TBC1D15	64786	broad.mit.edu	37	12	72319316	72319316	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72319316delT	uc001swu.2	+	18					TBC1D15_uc010stt.1_3'UTR|TBC1D15_uc001swv.2_3'UTR|TBC1D15_uc001sww.2_3'UTR	NM_022771	NP_073608			TBC1 domain family, member 15 isoform 1								protein binding|Rab GTPase activator activity				0																		---	---	---	---
TPH2	121278	broad.mit.edu	37	12	72377520	72377521	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72377520_72377521delAG	uc009zrw.1	+						TPH2_uc001swy.2_Intron	NM_173353	NP_775489			tryptophan hydroxylase 2						aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)													---	---	---	---
Unknown	0	broad.mit.edu	37	12	72489914	72489915	+	IGR	INS	-	ACAC	ACAC	rs144560604	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72489914_72489915insACAC								TPH2 (63693 upstream) : LOC283392 (166413 downstream)																																			---	---	---	---
TRHDE	29953	broad.mit.edu	37	12	72772029	72772029	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72772029delA	uc001sxa.2	+							NM_013381	NP_037513			thyrotropin-releasing hormone degrading enzyme						cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3																		---	---	---	---
TRHDE	29953	broad.mit.edu	37	12	72799106	72799106	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72799106delT	uc001sxa.2	+							NM_013381	NP_037513			thyrotropin-releasing hormone degrading enzyme						cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	73070663	73070663	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:73070663delT								TRHDE (11242 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	73525130	73525130	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:73525130delA								TRHDE (465709 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	73700004	73700004	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:73700004delA								TRHDE (640583 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	73759572	73759572	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:73759572delA								TRHDE (700151 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	73882446	73882446	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:73882446delA								TRHDE (823025 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	74025058	74025059	+	IGR	INS	-	A	A	rs75690051		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:74025058_74025059insA								TRHDE (965637 upstream) : ATXN7L3B (906492 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	74501382	74501382	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:74501382delA								None (None upstream) : ATXN7L3B (430169 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	74530048	74530048	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:74530048delT	uc009zrx.1	-											Homo sapiens cDNA clone IMAGE:3926153, partial cds.																														---	---	---	---
Unknown	0	broad.mit.edu	37	12	74793526	74793526	+	IGR	DEL	T	-	-	rs79433836		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:74793526delT								None (None upstream) : ATXN7L3B (138025 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	75016716	75016716	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:75016716delT								ATXN7L3B (81493 upstream) : KCNC2 (417181 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	75169973	75169974	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:75169973_75169974delGA								ATXN7L3B (234750 upstream) : KCNC2 (263923 downstream)																																			---	---	---	---
KCNC2	3747	broad.mit.edu	37	12	75435987	75435987	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:75435987delT	uc009zry.2	-						KCNC2_uc001sxe.2_Intron|KCNC2_uc001sxf.2_Intron	NM_139136	NP_631874			Shaw-related voltage-gated potassium channel						energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6																		---	---	---	---
KCNC2	3747	broad.mit.edu	37	12	75528363	75528363	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:75528363delA	uc001sxg.1	-						KCNC2_uc009zry.2_Intron|KCNC2_uc001sxe.2_Intron|KCNC2_uc001sxf.2_Intron|KCNC2_uc010stw.1_Intron	NM_139137	NP_631875			Shaw-related voltage-gated potassium channel						energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6																		---	---	---	---
KCNC2	3747	broad.mit.edu	37	12	75557380	75557380	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:75557380delA	uc001sxg.1	-						KCNC2_uc009zry.2_Intron|KCNC2_uc001sxe.2_Intron|KCNC2_uc001sxf.2_Intron|KCNC2_uc010stw.1_Intron	NM_139137	NP_631875			Shaw-related voltage-gated potassium channel						energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6																		---	---	---	---
CAPS2	84698	broad.mit.edu	37	12	75686882	75686882	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:75686882delA	uc001sxk.3	-						CAPS2_uc001sxm.3_Intron|CAPS2_uc009zsa.2_Intron|CAPS2_uc001sxi.3_Intron|CAPS2_uc001sxj.3_Intron|CAPS2_uc001sxl.3_Intron	NM_032606	NP_115995			calcyphosine 2								calcium ion binding			ovary(2)	2																		---	---	---	---
CAPS2	84698	broad.mit.edu	37	12	75692575	75692575	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:75692575delA	uc001sxk.3	-						CAPS2_uc001sxm.3_Intron|CAPS2_uc009zsa.2_Intron|CAPS2_uc001sxi.3_Intron|CAPS2_uc001sxj.3_Intron|CAPS2_uc001sxl.3_Intron	NM_032606	NP_115995			calcyphosine 2								calcium ion binding			ovary(2)	2																		---	---	---	---
CAPS2	84698	broad.mit.edu	37	12	75732371	75732371	+	Intron	DEL	T	-	-	rs113010335		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:75732371delT	uc001sxm.3	-						CAPS2_uc009zsa.2_Intron|GLIPR1L1_uc001sxn.2_Intron|GLIPR1L1_uc001sxo.2_Intron					RecName: Full=Calcyphosin-2; AltName: Full=Calcyphosine-2;								calcium ion binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	76175446	76175446	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:76175446delA								KRR1 (270028 upstream) : PHLDA1 (243782 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	76176511	76176511	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:76176511delT								KRR1 (271093 upstream) : PHLDA1 (242717 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	76368963	76368963	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:76368963delT								KRR1 (463545 upstream) : PHLDA1 (50265 downstream)																																			---	---	---	---
NAP1L1	4673	broad.mit.edu	37	12	76441737	76441737	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:76441737delT	uc001sxw.2	-						NAP1L1_uc001sxv.2_Intron|NAP1L1_uc001sxz.2_3'UTR|NAP1L1_uc001sxx.2_3'UTR|NAP1L1_uc001sxy.2_3'UTR|NAP1L1_uc010sty.1_3'UTR|NAP1L1_uc010stz.1_3'UTR	NM_139207	NP_631946			nucleosome assembly protein 1-like 1						DNA replication|nucleosome assembly|positive regulation of cell proliferation	chromatin assembly complex|melanosome	protein binding			ovary(1)|skin(1)	2		Colorectal(145;0.09)																---	---	---	---
Unknown	0	broad.mit.edu	37	12	76521708	76521708	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:76521708delA								NAP1L1 (42970 upstream) : BBS10 (216558 downstream)																																			---	---	---	---
OSBPL8	114882	broad.mit.edu	37	12	76852480	76852480	+	Intron	DEL	A	-	-	rs76961576		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:76852480delA	uc001sye.1	-						OSBPL8_uc001syf.1_Intron|OSBPL8_uc001syg.1_Intron	NM_020841	NP_065892			oxysterol-binding protein-like protein 8 isoform						lipid transport		lipid binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	77045780	77045780	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:77045780delT								OSBPL8 (92191 upstream) : ZDHHC17 (112074 downstream)																																			---	---	---	---
E2F7	144455	broad.mit.edu	37	12	77460083	77460084	+	5'Flank	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:77460083_77460084insA	uc001sym.3	-						E2F7_uc001syn.2_5'Flank	NM_203394	NP_976328			E2F transcription factor 7						cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	78013548	78013548	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:78013548delT								E2F7 (554188 upstream) : NAV3 (211521 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	78014248	78014250	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:78014248_78014250delTTT								E2F7 (554888 upstream) : NAV3 (210819 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	78040848	78040849	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:78040848_78040849delAC								E2F7 (581488 upstream) : NAV3 (184220 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	78144324	78144325	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:78144324_78144325delAA								E2F7 (684964 upstream) : NAV3 (80744 downstream)																																			---	---	---	---
NAV3	89795	broad.mit.edu	37	12	78237178	78237179	+	Intron	DEL	TG	-	-	rs113904325		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:78237178_78237179delTG	uc001syp.2	+						NAV3_uc001syo.2_Intron	NM_014903	NP_055718			neuron navigator 3							nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17															HNSCC(70;0.22)			---	---	---	---
NAV3	89795	broad.mit.edu	37	12	78303220	78303220	+	Intron	DEL	A	-	-	rs35769757		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:78303220delA	uc001syp.2	+						NAV3_uc001syo.2_Intron	NM_014903	NP_055718			neuron navigator 3							nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17															HNSCC(70;0.22)			---	---	---	---
NAV3	89795	broad.mit.edu	37	12	78412103	78412103	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:78412103delG	uc001syp.2	+						NAV3_uc001syo.2_Intron	NM_014903	NP_055718			neuron navigator 3							nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17															HNSCC(70;0.22)			---	---	---	---
Unknown	0	broad.mit.edu	37	12	78732544	78732544	+	Intron	DEL	A	-	-	rs76743551		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:78732544delA	uc001syq.1	-											Homo sapiens cDNA clone IMAGE:4829846.																														---	---	---	---
SYT1	6857	broad.mit.edu	37	12	79391445	79391446	+	Intron	DEL	TT	-	-	rs143170436		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:79391445_79391446delTT	uc001sys.2	+						SYT1_uc001syt.2_Intron|SYT1_uc001syu.2_Intron	NM_001135805	NP_001129277			synaptotagmin I						detection of calcium ion|glutamate secretion|neurotransmitter secretion|protein homooligomerization	cell junction|chromaffin granule membrane|clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	1-phosphatidylinositol binding|low-density lipoprotein particle receptor binding|metal ion binding|syntaxin-1 binding|transporter activity			skin(3)|pancreas(2)|ovary(1)	6																		---	---	---	---
SYT1	6857	broad.mit.edu	37	12	79836520	79836520	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:79836520delT	uc001sys.2	+						SYT1_uc001syt.2_Intron|SYT1_uc001syu.2_Intron|SYT1_uc001syv.2_Intron	NM_001135805	NP_001129277			synaptotagmin I						detection of calcium ion|glutamate secretion|neurotransmitter secretion|protein homooligomerization	cell junction|chromaffin granule membrane|clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	1-phosphatidylinositol binding|low-density lipoprotein particle receptor binding|metal ion binding|syntaxin-1 binding|transporter activity			skin(3)|pancreas(2)|ovary(1)	6																		---	---	---	---
PTPRQ	374462	broad.mit.edu	37	12	81063246	81063246	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:81063246delA	uc001sze.2	+							NM_001145026	NP_001138498			protein tyrosine phosphatase, receptor type, Q												0																		---	---	---	---
LIN7A	8825	broad.mit.edu	37	12	81231679	81231679	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:81231679delT	uc001szj.1	-						LIN7A_uc001szk.1_Intron	NM_004664	NP_004655			lin-7 homolog A						exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2																		---	---	---	---
LIN7A	8825	broad.mit.edu	37	12	81242413	81242414	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:81242413_81242414delAA	uc001szj.1	-						LIN7A_uc001szk.1_Intron	NM_004664	NP_004655			lin-7 homolog A						exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	81411028	81411029	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:81411028_81411029delAA								LIN7A (79334 upstream) : ACSS3 (60780 downstream)																																			---	---	---	---
PPFIA2	8499	broad.mit.edu	37	12	82145193	82145195	+	Intron	DEL	TTT	-	-	rs63338060		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:82145193_82145195delTTT	uc001szo.1	-						PPFIA2_uc010suj.1_Intron|PPFIA2_uc009zsi.1_Intron	NM_003625	NP_003616			PTPRF interacting protein alpha 2											ovary(3)|lung(2)|pancreas(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	82177975	82177975	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:82177975delA								PPFIA2 (24866 upstream) : CCDC59 (568115 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	82218069	82218069	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:82218069delT								PPFIA2 (64960 upstream) : CCDC59 (528021 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	82310931	82310931	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:82310931delT								PPFIA2 (157822 upstream) : CCDC59 (435159 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	82568188	82568188	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:82568188delT								PPFIA2 (415079 upstream) : CCDC59 (177902 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	82652886	82652887	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:82652886_82652887delAA								PPFIA2 (499777 upstream) : CCDC59 (93203 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	82912765	82912766	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:82912765_82912766delGA								C12orf26 (39824 upstream) : TMTC2 (168168 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	82954347	82954347	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:82954347delT								C12orf26 (81406 upstream) : TMTC2 (126587 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	83708801	83708801	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:83708801delT								TMTC2 (180738 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	84648905	84648905	+	IGR	DEL	T	-	-	rs62781360		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:84648905delT								None (None upstream) : SLC6A15 (604364 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	84649617	84649617	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:84649617delT								None (None upstream) : SLC6A15 (603652 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	84655455	84655455	+	IGR	DEL	A	-	-	rs35749532		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:84655455delA								None (None upstream) : SLC6A15 (597814 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	84715142	84715142	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:84715142delT								None (None upstream) : SLC6A15 (538127 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	85025245	85025245	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:85025245delT								None (None upstream) : SLC6A15 (228024 downstream)																																			---	---	---	---
LRRIQ1	84125	broad.mit.edu	37	12	85521574	85521574	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:85521574delA	uc001tac.2	+							NM_001079910	NP_001073379			leucine-rich repeats and IQ motif containing 1											ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)														---	---	---	---
LRRIQ1	84125	broad.mit.edu	37	12	85609573	85609573	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:85609573delA	uc001tac.2	+							NM_001079910	NP_001073379			leucine-rich repeats and IQ motif containing 1											ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	85748973	85748973	+	IGR	DEL	C	-	-	rs1913132	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:85748973delC								ALX1 (53414 upstream) : RASSF9 (449358 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	86058047	86058047	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:86058047delT								ALX1 (362488 upstream) : RASSF9 (140284 downstream)																																			---	---	---	---
MGAT4C	25834	broad.mit.edu	37	12	86588235	86588237	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:86588235_86588237delTTT	uc001tai.3	-						MGAT4C_uc001tal.3_Intron|MGAT4C_uc001taj.3_Intron|MGAT4C_uc001tak.3_Intron|MGAT4C_uc010sum.1_Intron|MGAT4C_uc001tah.3_Intron	NM_013244	NP_037376			alpha-1,3-mannosyl-glycoprotein						post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	87413407	87413408	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:87413407_87413408insA								MGAT4C (180726 upstream) : C12orf50 (960408 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	87826193	87826193	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:87826193delA								MGAT4C (593512 upstream) : C12orf50 (547623 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	88121610	88121611	+	IGR	DEL	AA	-	-	rs66486278		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:88121610_88121611delAA								MGAT4C (888929 upstream) : C12orf50 (252205 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	88183257	88183258	+	IGR	DEL	TA	-	-	rs1284716	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:88183257_88183258delTA								MGAT4C (950576 upstream) : C12orf50 (190558 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	88248074	88248074	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:88248074delA								None (None upstream) : C12orf50 (125742 downstream)																																			---	---	---	---
TMTC3	160418	broad.mit.edu	37	12	88582872	88582873	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:88582872_88582873delTT	uc001tau.2	+							NM_181783	NP_861448			transmembrane and tetratricopeptide repeat							integral to membrane	binding			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	88665328	88665328	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:88665328delA								TMTC3 (71665 upstream) : KITLG (221241 downstream)																																			---	---	---	---
KITLG	4254	broad.mit.edu	37	12	88926063	88926063	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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	89662590	89662590	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:89662590delT								KITLG (688352 upstream) : DUSP6 (79249 downstream)																																			---	---	---	---
ATP2B1	490	broad.mit.edu	37	12	90025919	90025920	+	Intron	DEL	TT	-	-	rs35538303		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:90025919_90025920delTT	uc001tbh.2	-						ATP2B1_uc001tbg.2_Intron	NM_001682	NP_001673			plasma membrane calcium ATPase 1 isoform 1b						ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	90221128	90221129	+	IGR	DEL	AA	-	-	rs35513770		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:90221128_90221129delAA								LOC338758 (115400 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	90288769	90288769	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:90288769delT								LOC338758 (183041 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	90587640	90587640	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:90587640delT								LOC338758 (481912 upstream) : C12orf12 (758353 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	90619327	90619327	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:90619327delT								LOC338758 (513599 upstream) : C12orf12 (726666 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	90628205	90628206	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:90628205_90628206delCT								LOC338758 (522477 upstream) : C12orf12 (717787 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	91041977	91041977	+	IGR	DEL	A	-	-	rs146647809		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:91041977delA								LOC338758 (936249 upstream) : C12orf12 (304016 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	91195865	91195865	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:91195865delT								None (None upstream) : C12orf12 (150128 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	91210857	91210858	+	IGR	INS	-	TG	TG	rs146767723	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:91210857_91210858insTG								None (None upstream) : C12orf12 (135135 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	91514951	91514951	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:91514951delT								LUM (9409 upstream) : DCN (24085 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	91649564	91649565	+	IGR	DEL	GG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:91649564_91649565delGG								DCN (72758 upstream) : BTG1 (729301 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	91711573	91711574	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:91711573_91711574insT								DCN (134767 upstream) : BTG1 (667292 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	91860924	91860925	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:91860924_91860925delAA								DCN (284118 upstream) : BTG1 (517941 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	91893822	91893822	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:91893822delT								DCN (317016 upstream) : BTG1 (485044 downstream)																																			---	---	---	---
BTG1	694	broad.mit.edu	37	12	92399260	92399260	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:92399260delA	uc001tbv.1	-						BTG1_uc001tbw.1_Intron|BTG1_uc001tbx.1_Intron|BTG1_uc009zss.1_Intron					Homo sapiens full length insert cDNA clone YW25A12.						cell migration|negative regulation of cell growth|negative regulation of cell proliferation|positive regulation of angiogenesis|positive regulation of endothelial cell differentiation|positive regulation of myoblast differentiation|regulation of apoptosis|regulation of transcription, DNA-dependent	cytoplasm|nucleus	kinase binding|transcription cofactor activity				0		Acute lymphoblastic leukemia(6;3.02e-13)|all_hematologic(6;4.32e-09)						T	MYC	BCLL								---	---	---	---
BTG1	694	broad.mit.edu	37	12	92405804	92405804	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:92405804delT	uc001tbv.1	-						BTG1_uc001tbw.1_Intron|BTG1_uc001tbx.1_Intron|BTG1_uc009zss.1_Intron					Homo sapiens full length insert cDNA clone YW25A12.						cell migration|negative regulation of cell growth|negative regulation of cell proliferation|positive regulation of angiogenesis|positive regulation of endothelial cell differentiation|positive regulation of myoblast differentiation|regulation of apoptosis|regulation of transcription, DNA-dependent	cytoplasm|nucleus	kinase binding|transcription cofactor activity				0		Acute lymphoblastic leukemia(6;3.02e-13)|all_hematologic(6;4.32e-09)						T	MYC	BCLL								---	---	---	---
BTG1	694	broad.mit.edu	37	12	92519103	92519103	+	Intron	DEL	A	-	-	rs7134948	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:92519103delA	uc001tbv.1	-						BTG1_uc001tbw.1_Intron|BTG1_uc001tbx.1_Intron|BTG1_uc009zss.1_Intron					Homo sapiens full length insert cDNA clone YW25A12.						cell migration|negative regulation of cell growth|negative regulation of cell proliferation|positive regulation of angiogenesis|positive regulation of endothelial cell differentiation|positive regulation of myoblast differentiation|regulation of apoptosis|regulation of transcription, DNA-dependent	cytoplasm|nucleus	kinase binding|transcription cofactor activity				0		Acute lymphoblastic leukemia(6;3.02e-13)|all_hematologic(6;4.32e-09)						T	MYC	BCLL								---	---	---	---
Unknown	0	broad.mit.edu	37	12	93054385	93054385	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:93054385delA								CLLU1 (176929 upstream) : C12orf74 (42455 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	93054904	93054904	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:93054904delA								CLLU1 (177448 upstream) : C12orf74 (41936 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	93436372	93436372	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:93436372delA								EEA1 (113265 upstream) : NUDT4 (335329 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	93599198	93599201	+	IGR	DEL	ACAC	-	-	rs34823251		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:93599198_93599201delACAC								EEA1 (276091 upstream) : NUDT4 (172500 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	93740449	93740449	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:93740449delA								EEA1 (417342 upstream) : NUDT4 (31252 downstream)																																			---	---	---	---
MRPL42	28977	broad.mit.edu	37	12	93863513	93863513	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:93863513delA	uc001tcr.2	+						MRPL42_uc001tcq.2_Intron|MRPL42_uc001tcs.2_Intron|MRPL42_uc001tct.2_Intron	NM_172177	NP_751917			mitochondrial ribosomal protein L42 isoform a						translation	mitochondrial small ribosomal subunit	structural constituent of ribosome			ovary(2)	2																		---	---	---	---
CRADD	8738	broad.mit.edu	37	12	94098271	94098274	+	Intron	DEL	TATA	-	-	rs74653581	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:94098271_94098274delTATA	uc001tda.2	+						CRADD_uc010sur.1_Intron|CRADD_uc010sus.1_Intron	NM_003805	NP_003796			CASP2 and RIPK1 domain containing adaptor with						apoptosis|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|signal transduction	intracellular	death domain binding|protease binding|protein binding, bridging			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	94380020	94380020	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:94380020delT								CRADD (91404 upstream) : PLXNC1 (162479 downstream)																																			---	---	---	---
CCDC41	51134	broad.mit.edu	37	12	94811095	94811095	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:94811095delA	uc001tdd.2	-						CCDC41_uc001tde.2_Intron|CCDC41_uc009zsw.1_Intron|CCDC41_uc001tdf.2_Intron	NM_016122	NP_057206			NY-REN-58 antigen												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	94940800	94940807	+	IGR	DEL	CTCTGGAT	-	-	rs113459448		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:94940800_94940807delCTCTGGAT								LOC144486 (84458 upstream) : TMCC3 (20093 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	95093252	95093252	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:95093252delA								TMCC3 (48928 upstream) : MIR492 (134922 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	95196760	95196761	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:95196760_95196761delAC								TMCC3 (152436 upstream) : MIR492 (31413 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	95307243	95307246	+	IGR	DEL	ATTC	-	-	rs144025636		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:95307243_95307246delATTC								MIR492 (78954 upstream) : NDUFA12 (57866 downstream)																																			---	---	---	---
FGD6	55785	broad.mit.edu	37	12	95517690	95517690	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:95517690delT	uc001tdp.3	-						FGD6_uc009zsx.2_Intron|FGD6_uc001tdq.1_Intron	NM_018351	NP_060821			FYVE, RhoGEF and PH domain containing 6						actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3																		---	---	---	---
FGD6	55785	broad.mit.edu	37	12	95548710	95548710	+	Intron	DEL	A	-	-	rs77012457		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:95548710delA	uc001tdp.3	-						FGD6_uc009zsx.2_Intron	NM_018351	NP_060821			FYVE, RhoGEF and PH domain containing 6						actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3																		---	---	---	---
VEZT	55591	broad.mit.edu	37	12	95614418	95614418	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:95614418delT	uc001tdz.2	+						VEZT_uc009zsy.1_Intron|VEZT_uc001tdr.2_Intron|VEZT_uc001tds.2_Intron|VEZT_uc001tdt.2_Intron|VEZT_uc009zsz.1_Intron|VEZT_uc001tdv.2_Intron|VEZT_uc001tdw.1_Intron	NM_017599	NP_060069			vezatin, adherens junctions transmembrane							acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	95852135	95852135	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:95852135delT								MIR331 (149846 upstream) : METAP2 (15687 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	96573123	96573123	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:96573123delA								LTA4H (135825 upstream) : ELK3 (15084 downstream)																																			---	---	---	---
CDK17	5128	broad.mit.edu	37	12	96676467	96676467	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:96676467delA	uc001tep.1	-						CDK17_uc009ztk.2_Intron|CDK17_uc010svb.1_Intron	NM_002595	NP_002586			PCTAIRE protein kinase 2								ATP binding|cyclin-dependent protein kinase activity			ovary(3)|lung(2)|kidney(1)|central_nervous_system(1)	7																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	96843575	96843575	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:96843575delA								CDK17 (49352 upstream) : C12orf63 (198178 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	96987042	96987042	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:96987042delT	uc001ter.1	+											Homo sapiens cDNA FLJ31514 fis, clone NT2RI1000164.																														---	---	---	---
C12orf63	374467	broad.mit.edu	37	12	97132949	97132949	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:97132949delT	uc001tet.1	+							NM_198520	NP_940922			hypothetical protein LOC374467											skin(6)|ovary(1)	7																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	97277860	97277861	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:97277860_97277861delAC								C12orf63 (118812 upstream) : NEDD1 (23140 downstream)																																			---	---	---	---
NEDD1	121441	broad.mit.edu	37	12	97307153	97307153	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:97307153delT	uc001teu.3	+						NEDD1_uc001tev.3_Intron|NEDD1_uc010svc.1_Intron|NEDD1_uc001tew.2_Intron|NEDD1_uc001tex.2_Intron	NM_152905	NP_690869			neural precursor cell expressed, developmentally						cell division|G2/M transition of mitotic cell cycle|mitosis	cytosol					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	97388890	97388890	+	IGR	DEL	G	-	-	rs67436305		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:97388890delG								NEDD1 (41429 upstream) : RMST (469909 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	98449190	98449190	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:98449190delA								RMST (490397 upstream) : LOC100128191 (457563 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	98693672	98693673	+	IGR	DEL	AA	-	-	rs75931972		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:98693672_98693673delAA								RMST (734879 upstream) : LOC100128191 (213080 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	98756828	98756828	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:98756828delT								RMST (798035 upstream) : LOC100128191 (149925 downstream)																																			---	---	---	---
ANKS1B	56899	broad.mit.edu	37	12	99434053	99434054	+	Intron	INS	-	GT	GT	rs146791344	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:99434053_99434054insGT	uc001tge.1	-						ANKS1B_uc001tgf.1_Intron|ANKS1B_uc001tgk.2_Intron|ANKS1B_uc001tgd.1_Intron|ANKS1B_uc001tgi.2_Intron|ANKS1B_uc009ztr.2_Intron|ANKS1B_uc001tgj.2_Intron|ANKS1B_uc001tgg.3_Intron|ANKS1B_uc010svg.1_Intron|ANKS1B_uc009zts.1_Intron|ANKS1B_uc001tgm.1_Intron	NM_152788	NP_690001			cajalin 2 isoform a							Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)														---	---	---	---
ANKS1B	56899	broad.mit.edu	37	12	99925822	99925822	+	Intron	DEL	T	-	-	rs143564495		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:99925822delT	uc001tge.1	-						ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Intron	NM_152788	NP_690001			cajalin 2 isoform a							Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)														---	---	---	---
ANKS1B	56899	broad.mit.edu	37	12	99967502	99967503	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:99967502_99967503insA	uc001tge.1	-						ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Intron	NM_152788	NP_690001			cajalin 2 isoform a							Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)														---	---	---	---
ANKS1B	56899	broad.mit.edu	37	12	100126799	100126799	+	Intron	DEL	A	-	-	rs67023717		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:100126799delA	uc001tge.1	-						ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Intron	NM_152788	NP_690001			cajalin 2 isoform a							Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)														---	---	---	---
ANKS1B	56899	broad.mit.edu	37	12	100373797	100373797	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:100373797delA	uc001tge.1	-						ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Intron	NM_152788	NP_690001			cajalin 2 isoform a							Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)														---	---	---	---
UHRF1BP1L	23074	broad.mit.edu	37	12	100443930	100443930	+	Intron	DEL	A	-	-	rs150785024		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:100443930delA	uc001tgq.2	-						UHRF1BP1L_uc001tgp.2_Intron	NM_015054	NP_055869			UHRF1 (ICBP90) binding protein 1-like isoform a											ovary(2)	2																		---	---	---	---
UHRF1BP1L	23074	broad.mit.edu	37	12	100470058	100470058	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:100470058delT	uc001tgq.2	-						UHRF1BP1L_uc001tgr.2_Intron|UHRF1BP1L_uc001tgp.2_Intron	NM_015054	NP_055869			UHRF1 (ICBP90) binding protein 1-like isoform a											ovary(2)	2																		---	---	---	---
DEPDC4	120863	broad.mit.edu	37	12	100646135	100646135	+	3'UTR	DEL	A	-	-	rs66721214		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:100646135delA	uc001thi.2	-	5					DEPDC4_uc001thh.1_Intron	NM_152317	NP_689530			DEP domain containing 4						intracellular signal transduction						0																		---	---	---	---
SCYL2	55681	broad.mit.edu	37	12	100693481	100693482	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:100693481_100693482delTT	uc001thn.2	+						SCYL2_uc009ztw.1_Intron|SCYL2_uc001thm.1_Intron	NM_017988	NP_060458			SCY1-like 2 protein						endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6																		---	---	---	---
NR1H4	9971	broad.mit.edu	37	12	100889519	100889519	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:100889519delA	uc001thq.1	+						NR1H4_uc001thp.1_Intron|NR1H4_uc010svj.1_Intron|NR1H4_uc001thr.1_Intron|NR1H4_uc010svk.1_Intron	NM_005123	NP_005114			nuclear receptor subfamily 1, group H, member 4						bile acid metabolic process|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|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3																		---	---	---	---
GAS2L3	283431	broad.mit.edu	37	12	101009794	101009794	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101009794delA	uc001thu.2	+						GAS2L3_uc009zty.2_Intron|GAS2L3_uc001thv.2_Intron	NM_174942	NP_777602			growth arrest-specific 2 like 3						cell cycle arrest					skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	101046171	101046171	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101046171delA								GAS2L3 (27488 upstream) : ANO4 (65133 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	101054415	101054415	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101054415delA								GAS2L3 (35732 upstream) : ANO4 (56889 downstream)																																			---	---	---	---
ANO4	121601	broad.mit.edu	37	12	101495465	101495465	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101495465delA	uc010svm.1	+						ANO4_uc001thw.2_Intron|ANO4_uc001thx.2_Intron|ANO4_uc001thy.2_Intron	NM_178826	NP_849148			anoctamin 4							chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6															HNSCC(74;0.22)			---	---	---	---
Unknown	0	broad.mit.edu	37	12	101643527	101643527	+	IGR	DEL	A	-	-	rs63538361		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101643527delA								SLC5A8 (39511 upstream) : UTP20 (30378 downstream)																																			---	---	---	---
UTP20	27340	broad.mit.edu	37	12	101679507	101679507	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101679507delT	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	101836065	101836065	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101836065delT								ARL1 (34493 upstream) : SPIC (33134 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	101966555	101966555	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101966555delA								SPIC (85781 upstream) : MYBPC1 (22192 downstream)																																			---	---	---	---
GNPTAB	79158	broad.mit.edu	37	12	102147062	102147062	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:102147062delA	uc001tit.2	-							NM_024312	NP_077288			N-acetylglucosamine-1-phosphate transferase						cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2																		---	---	---	---
NUP37	79023	broad.mit.edu	37	12	102471060	102471060	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:102471060delT	uc001tjc.2	-						NUP37_uc009zub.1_Frame_Shift_Del_p.K254fs	NM_024057	NP_076962			nucleoporin 37kDa						carbohydrate metabolic process|cell division|chromosome segregation|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	protein binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	102658194	102658194	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:102658194delT								PMCH (66580 upstream) : IGF1 (131451 downstream)																																			---	---	---	---
PAH	5053	broad.mit.edu	37	12	103301801	103301801	+	Intron	DEL	A	-	-	rs34438405		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:103301801delA	uc001tjq.1	-						PAH_uc010swc.1_Intron	NM_000277	NP_000268			phenylalanine hydroxylase						catecholamine biosynthetic process|L-phenylalanine catabolic process|neurotransmitter biosynthetic process	cytosol	phenylalanine 4-monooxygenase activity			ovary(4)	4					Epinephrine(DB00668)|L-Phenylalanine(DB00120)|Levodopa(DB01235)|Norepinephrine(DB00368)|Tetrahydrobiopterin(DB00360)													---	---	---	---
C12orf42	374470	broad.mit.edu	37	12	103752964	103752964	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:103752964delT	uc001tjt.2	-						C12orf42_uc001tjs.2_Intron|C12orf42_uc009zuf.1_Intron|C12orf42_uc001tju.2_Intron	NM_198521	NP_940923			hypothetical protein LOC374470											ovary(1)|central_nervous_system(1)	2																		---	---	---	---
HSP90B1	7184	broad.mit.edu	37	12	104340286	104340286	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104340286delT	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)													---	---	---	---
GLT8D2	83468	broad.mit.edu	37	12	104442962	104442962	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104442962delT	uc001tkh.1	-						GLT8D2_uc001tki.1_Intron	NM_031302	NP_112592			glycosyltransferase 8 domain containing 2							integral to membrane	transferase activity, transferring glycosyl groups			ovary(1)|skin(1)	2																		---	---	---	---
CHST11	50515	broad.mit.edu	37	12	104849766	104849766	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104849766delT	uc001tkx.1	+						CHST11_uc001tky.2_5'Flank	NM_018413	NP_060883			carbohydrate sulfotransferase 11						chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 4-sulfotransferase activity|N-acetylgalactosamine 4-O-sulfotransferase activity				0																		---	---	---	---
CHST11	50515	broad.mit.edu	37	12	104966434	104966434	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104966434delA	uc001tkx.1	+						CHST11_uc001tky.2_Intron	NM_018413	NP_060883			carbohydrate sulfotransferase 11						chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 4-sulfotransferase activity|N-acetylgalactosamine 4-O-sulfotransferase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	105353249	105353249	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:105353249delT								SLC41A2 (30777 upstream) : C12orf45 (26849 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	105367112	105367113	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:105367112_105367113delTT								SLC41A2 (44640 upstream) : C12orf45 (12985 downstream)																																			---	---	---	---
APPL2	55198	broad.mit.edu	37	12	105601642	105601642	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:105601642delA	uc001tlf.1	-						APPL2_uc010swt.1_Intron|APPL2_uc001tlg.1_Intron|APPL2_uc010swu.1_Intron|APPL2_uc009zuq.2_Intron	NM_018171	NP_060641			adaptor protein, phosphotyrosine interaction, PH						cell cycle|cell proliferation|signal transduction	early endosome membrane|nucleus	protein binding			upper_aerodigestive_tract(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	105712736	105712736	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:105712736delA								APPL2 (82728 upstream) : C12orf75 (11678 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	105822771	105822772	+	IGR	INS	-	AG	AG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:105822771_105822772insAG								C12orf75 (57476 upstream) : NUAK1 (634353 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	105822953	105822954	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:105822953_105822954delTG								C12orf75 (57658 upstream) : NUAK1 (634171 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	105966932	105966932	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:105966932delA								C12orf75 (201637 upstream) : NUAK1 (490193 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	106274097	106274097	+	IGR	DEL	A	-	-	rs117725775	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:106274097delA								C12orf75 (508802 upstream) : NUAK1 (183028 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	106574778	106574780	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:106574778_106574780delTTT								NUAK1 (40967 upstream) : CKAP4 (56880 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	106608880	106608880	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:106608880delT								NUAK1 (75069 upstream) : CKAP4 (22780 downstream)																																			---	---	---	---
POLR3B	55703	broad.mit.edu	37	12	106755895	106755895	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:106755895delT	uc001tlp.2	+						POLR3B_uc001tlq.2_Intron	NM_018082	NP_060552			DNA-directed RNA polymerase III B isoform 1						innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
POLR3B	55703	broad.mit.edu	37	12	106777775	106777775	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:106777775delA	uc001tlp.2	+						POLR3B_uc001tlq.2_Intron	NM_018082	NP_060552			DNA-directed RNA polymerase III B isoform 1						innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
POLR3B	55703	broad.mit.edu	37	12	106831211	106831211	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:106831211delT	uc001tlp.2	+						POLR3B_uc001tlq.2_Intron	NM_018082	NP_060552			DNA-directed RNA polymerase III B isoform 1						innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
RIC8B	55188	broad.mit.edu	37	12	107172615	107172615	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:107172615delA	uc001tlx.2	+						RIC8B_uc001tlw.2_Intron|RIC8B_uc001tly.2_Intron|RIC8B_uc001tlz.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																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	107587335	107587335	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:107587335delC								CRY1 (99737 upstream) : BTBD11 (124862 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	107622345	107622345	+	IGR	DEL	T	-	-	rs34007168		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:107622345delT								CRY1 (134747 upstream) : BTBD11 (89852 downstream)																																			---	---	---	---
BTBD11	121551	broad.mit.edu	37	12	107717171	107717171	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:107717171delA	uc001tmk.1	+						BTBD11_uc009zut.1_Intron|BTBD11_uc001tmj.2_Intron	NM_001018072	NP_001018082			BTB (POZ) domain containing 11 isoform a							integral to membrane	DNA binding			skin(2)|ovary(1)	3																		---	---	---	---
BTBD11	121551	broad.mit.edu	37	12	107734483	107734483	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:107734483delA	uc001tmk.1	+						BTBD11_uc009zut.1_Intron|BTBD11_uc001tmj.2_Intron	NM_001018072	NP_001018082			BTB (POZ) domain containing 11 isoform a							integral to membrane	DNA binding			skin(2)|ovary(1)	3																		---	---	---	---
BTBD11	121551	broad.mit.edu	37	12	107876581	107876581	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:107876581delT	uc001tmk.1	+						BTBD11_uc009zut.1_Intron|BTBD11_uc001tmj.2_Intron	NM_001018072	NP_001018082			BTB (POZ) domain containing 11 isoform a							integral to membrane	DNA binding			skin(2)|ovary(1)	3																		---	---	---	---
ASCL4	121549	broad.mit.edu	37	12	108169097	108169097	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108169097delC	uc001tmr.2	+	1	936	c.105delC	c.(103-105)GACfs	p.D35fs		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	34					regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	108175294	108175294	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108175294delA								ASCL4 (4874 upstream) : WSCD2 (348217 downstream)																																			---	---	---	---
CMKLR1	1240	broad.mit.edu	37	12	108682732	108682732	+	3'UTR	DEL	C	-	-	rs138297025	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108682732delC	uc009zuw.2	-	3					CMKLR1_uc001tmw.2_3'UTR|CMKLR1_uc001tmv.2_3'UTR|CMKLR1_uc009zuv.2_3'UTR	NM_001142345	NP_001135817			chemokine-like receptor 1 isoform a						chemotaxis|immune response|negative regulation of interleukin-12 production|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage chemotaxis|regulation of calcium-mediated signaling|skeletal system development	integral to plasma membrane	chemokine receptor activity			lung(3)|ovary(1)|pancreas(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	108870836	108870836	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108870836delT								CMKLR1 (137742 upstream) : FICD (38215 downstream)																																			---	---	---	---
SART3	9733	broad.mit.edu	37	12	108946850	108946851	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108946850_108946851delAA	uc001tmz.1	-						SART3_uc009zux.1_Intron|SART3_uc010swx.1_Intron|SART3_uc010swz.1_Intron|SART3_uc001tna.1_Intron	NM_014706	NP_055521			squamous cell carcinoma antigen recognized by T						RNA processing	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding			pancreas(1)	1														Porokeratosis				---	---	---	---
SVOP	55530	broad.mit.edu	37	12	109337667	109337667	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109337667delT	uc010sxh.1	-							NM_018711	NP_061181			SV2 related protein							cell junction|integral to membrane|synaptic vesicle membrane	ion transmembrane transporter activity				0																		---	---	---	---
ACACB	32	broad.mit.edu	37	12	109666141	109666142	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109666141_109666142delAA	uc001tob.2	+						ACACB_uc001toc.2_Intron|ACACB_uc010sxl.1_5'Flank|ACACB_uc001tod.2_5'Flank|ACACB_uc010sxm.1_5'Flank	NM_001093	NP_001084			acetyl-Coenzyme A carboxylase beta						acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)													---	---	---	---
MYO1H	283446	broad.mit.edu	37	12	109849552	109849553	+	Intron	INS	-	CT	CT	rs146618593	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109849552_109849553insCT	uc010sxn.1	+							NM_001101421	NP_001094891			myosin 1H							myosin complex	motor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	110099401	110099402	+	IGR	INS	-	ACC	ACC	rs75661188		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110099401_110099402insACC								MVK (64331 upstream) : C12orf34 (52788 downstream)																																			---	---	---	---
GIT2	9815	broad.mit.edu	37	12	110375984	110375984	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110375984delA	uc001tps.2	-						TCHP_uc001tpo.1_Intron|GIT2_uc001tpr.2_Intron|GIT2_uc001tpq.2_Intron|GIT2_uc001tpv.2_Intron|GIT2_uc001tpu.2_Intron|GIT2_uc001tpt.2_Intron|GIT2_uc010sxu.1_Intron	NM_057169	NP_476510			G protein-coupled receptor kinase interacting						regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	nucleoplasm	ARF GTPase activator activity|protein binding|zinc ion binding			central_nervous_system(1)	1																		---	---	---	---
GIT2	9815	broad.mit.edu	37	12	110416201	110416201	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110416201delT	uc001tps.2	-						GIT2_uc001tpq.2_Intron|GIT2_uc001tpv.2_Intron|GIT2_uc001tpu.2_Intron|GIT2_uc001tpt.2_Intron|GIT2_uc010sxu.1_Intron|GIT2_uc001tpw.2_Intron|GIT2_uc010sxv.1_Intron	NM_057169	NP_476510			G protein-coupled receptor kinase interacting						regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	nucleoplasm	ARF GTPase activator activity|protein binding|zinc ion binding			central_nervous_system(1)	1																		---	---	---	---
IFT81	28981	broad.mit.edu	37	12	110592599	110592599	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110592599delT	uc001tqi.2	+						IFT81_uc001tqh.2_Intron|IFT81_uc001tqj.2_Intron|IFT81_uc001tqg.2_Intron	NM_001143779	NP_001137251			intraflagellar transport 81-like isoform 1						cell differentiation|multicellular organismal development|spermatogenesis	intraflagellar transport particle B|microtubule-based flagellum				ovary(1)	1																		---	---	---	---
IFT81	28981	broad.mit.edu	37	12	110655832	110655832	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110655832delT	uc001tqi.2	+						IFT81_uc001tqh.2_Intron|IFT81_uc001tqj.2_Intron	NM_001143779	NP_001137251			intraflagellar transport 81-like isoform 1						cell differentiation|multicellular organismal development|spermatogenesis	intraflagellar transport particle B|microtubule-based flagellum				ovary(1)	1																		---	---	---	---
ARPC3	10094	broad.mit.edu	37	12	110877947	110877947	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110877947delA	uc001tqq.2	-							NM_005719	NP_005710			actin related protein 2/3 complex subunit 3						cellular component movement|regulation of actin filament polymerization	Arp2/3 protein complex|cytoplasm	actin binding|structural constituent of cytoskeleton			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	111184583	111184583	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111184583delA								PPP1CC (3826 upstream) : CCDC63 (100228 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	111205653	111205653	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111205653delA								PPP1CC (24896 upstream) : CCDC63 (79158 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	111370113	111370113	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111370113delA								MYL2 (11709 upstream) : CUX2 (101716 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	111370245	111370245	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111370245delT								MYL2 (11841 upstream) : CUX2 (101584 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	111452323	111452325	+	IGR	DEL	AAA	-	-	rs75979537		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111452323_111452325delAAA								MYL2 (93919 upstream) : CUX2 (19504 downstream)																																			---	---	---	---
CUX2	23316	broad.mit.edu	37	12	111629597	111629598	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111629597_111629598insC	uc001tsa.1	+						CUX2_uc001tsb.1_Intron	NM_015267	NP_056082			cut-like 2							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	111790237	111790237	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111790237delT								CUX2 (1881 upstream) : FAM109A (8248 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	111815280	111815281	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111815280_111815281delAA								FAM109A (8355 upstream) : SH2B3 (28471 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	112056003	112056004	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112056003_112056004insA								ATXN2 (18523 upstream) : BRAP (23947 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	112057358	112057359	+	IGR	DEL	TT	-	-	rs143381288		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112057358_112057359delTT								ATXN2 (19878 upstream) : BRAP (22592 downstream)																																			---	---	---	---
BRAP	8315	broad.mit.edu	37	12	112082569	112082569	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112082569delT	uc001tsn.3	-						BRAP_uc010syh.1_Intron|BRAP_uc009zvv.2_Intron	NM_006768	NP_006759			BRCA1 associated protein						MAPKKK cascade|negative regulation of signal transduction|Ras protein signal transduction	cytoplasm|ubiquitin ligase complex	identical protein binding|nuclear localization sequence binding|nucleotide binding|ubiquitin-protein ligase activity|zinc ion binding			lung(1)	1																		---	---	---	---
MAPKAPK5	8550	broad.mit.edu	37	12	112325690	112325690	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112325690delA	uc001tta.2	+						MAPKAPK5_uc001tsz.2_Intron|MAPKAPK5_uc001ttb.2_Intron	NM_139078	NP_620777			MAP kinase-activated protein kinase 5 isoform 2						signal transduction	cytoplasm|nucleus	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)	3																		---	---	---	---
TMEM116	89894	broad.mit.edu	37	12	112421245	112421245	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112421245delA	uc001ttc.1	-						TMEM116_uc001ttd.1_Intron|TMEM116_uc001tte.1_Intron|TMEM116_uc001ttf.1_Intron|TMEM116_uc001ttg.1_Intron|TMEM116_uc001tth.1_Intron|TMEM116_uc001tti.1_Intron	NM_138341	NP_612350			transmembrane protein 116							integral to membrane				ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	112463039	112463048	+	IGR	DEL	AAAAAAAAAA	-	-	rs71870109		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112463039_112463048delAAAAAAAAAA								ERP29 (2015 upstream) : NAA25 (1446 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	112551304	112551304	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112551304delA								NAA25 (4707 upstream) : TRAFD1 (12045 downstream)																																			---	---	---	---
C12orf51	283450	broad.mit.edu	37	12	112690936	112690936	+	Intron	DEL	T	-	-	rs74455713		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112690936delT	uc009zwc.2	-						C12orf51_uc010syk.1_Intron|C12orf51_uc001tts.2_Intron|C12orf51_uc001ttt.3_Intron	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2																		---	---	---	---
C12orf51	283450	broad.mit.edu	37	12	112740501	112740501	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112740501delT	uc009zwc.2	-							NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2																		---	---	---	---
DDX54	79039	broad.mit.edu	37	12	113620370	113620371	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113620370_113620371delTT	uc001tup.2	-						DDX54_uc001tuq.3_Intron	NM_024072	NP_076977			DEAD (Asp-Glu-Ala-Asp) box polypeptide 54						estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	113848445	113848446	+	IGR	DEL	GG	-	-	rs35167797		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113848445_113848446delGG								SDS (6753 upstream) : SDSL (11770 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	113915666	113915666	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113915666delT								LHX5 (5789 upstream) : RBM19 (338877 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	113938992	113938993	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113938992_113938993delAC								LHX5 (29115 upstream) : RBM19 (315550 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	114413666	114413666	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:114413666delA								RBM19 (9490 upstream) : TBX5 (378070 downstream)																																			---	---	---	---
TBX5	6910	broad.mit.edu	37	12	114824749	114824749	+	Intron	DEL	T	-	-	rs71666049		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:114824749delT	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	115070213	115070215	+	IGR	DEL	TTT	-	-	rs144780272		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:115070213_115070215delTTT								TBX5 (223966 upstream) : TBX3 (37844 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	115962128	115962128	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:115962128delA								TBX3 (840159 upstream) : MED13L (434255 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	116199508	116199509	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116199508_116199509delAA								None (None upstream) : MED13L (196874 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	116214769	116214769	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116214769delA								None (None upstream) : MED13L (181614 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	116359923	116359923	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116359923delA								None (None upstream) : MED13L (36460 downstream)																																			---	---	---	---
MED13L	23389	broad.mit.edu	37	12	116429910	116429911	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116429910_116429911delAA	uc001tvw.2	-							NM_015335	NP_056150			mediator complex subunit 13-like						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)														---	---	---	---
MED13L	23389	broad.mit.edu	37	12	116468086	116468086	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116468086delT	uc001tvw.2	-							NM_015335	NP_056150			mediator complex subunit 13-like						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)														---	---	---	---
MED13L	23389	broad.mit.edu	37	12	116613883	116613883	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116613883delA	uc001tvw.2	-							NM_015335	NP_056150			mediator complex subunit 13-like						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)														---	---	---	---
MED13L	23389	broad.mit.edu	37	12	116677923	116677924	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116677923_116677924delTT	uc001tvw.2	-							NM_015335	NP_056150			mediator complex subunit 13-like						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)														---	---	---	---
MED13L	23389	broad.mit.edu	37	12	116700808	116700808	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116700808delT	uc001tvw.2	-							NM_015335	NP_056150			mediator complex subunit 13-like						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)														---	---	---	---
RNFT2	84900	broad.mit.edu	37	12	117193148	117193148	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117193148delT	uc009zwn.2	+						RNFT2_uc001twb.3_Intron|RNFT2_uc001twa.3_Intron	NM_001109903	NP_001103373			transmembrane protein 118 isoform 1							integral to membrane	zinc ion binding				0	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.034)														---	---	---	---
RNFT2	84900	broad.mit.edu	37	12	117262757	117262757	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117262757delA	uc009zwn.2	+						RNFT2_uc001twb.3_Intron|RNFT2_uc001twa.3_Intron|RNFT2_uc001twc.3_Intron	NM_001109903	NP_001103373			transmembrane protein 118 isoform 1							integral to membrane	zinc ion binding				0	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.034)														---	---	---	---
HRK	8739	broad.mit.edu	37	12	117309118	117309118	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117309118delT	uc001twe.2	-							NM_003806	NP_003797			harakiri						apoptosis|induction of apoptosis|negative regulation of survival gene product expression|positive regulation of protein homooligomerization|positive regulation of release of cytochrome c from mitochondria		protein binding				0	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0282)														---	---	---	---
FBXW8	26259	broad.mit.edu	37	12	117364542	117364542	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117364542delT	uc001twg.1	+						FBXW8_uc001twf.1_Intron|FBXW8_uc009zwp.1_Intron	NM_153348	NP_699179			F-box and WD repeat domain containing 8 isoform								protein binding			ovary(2)|pancreas(1)	3	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0353)														---	---	---	---
FBXW8	26259	broad.mit.edu	37	12	117383019	117383019	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117383019delT	uc001twg.1	+						FBXW8_uc001twf.1_Intron|FBXW8_uc009zwp.1_Intron	NM_153348	NP_699179			F-box and WD repeat domain containing 8 isoform								protein binding			ovary(2)|pancreas(1)	3	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0353)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	117632698	117632699	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117632698_117632699insT								FBXO21 (4398 upstream) : NOS1 (18280 downstream)																																			---	---	---	---
NOS1	4842	broad.mit.edu	37	12	117801530	117801531	+	5'Flank	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117801530_117801531delAC	uc001twm.1	-							NM_000620	NP_000611			nitric oxide synthase 1, neuronal						multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)													---	---	---	---
Unknown	0	broad.mit.edu	37	12	117871882	117871887	+	IGR	DEL	CACACA	-	-	rs62994761		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117871882_117871887delCACACA								NOS1 (72300 upstream) : KSR2 (18930 downstream)																																			---	---	---	---
KSR2	283455	broad.mit.edu	37	12	118184627	118184627	+	Intron	DEL	A	-	-	rs138608445		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118184627delA	uc001two.2	-							NM_173598	NP_775869			kinase suppressor of ras 2						intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)																	---	---	---	---
KSR2	283455	broad.mit.edu	37	12	118225437	118225438	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118225437_118225438insA	uc001two.2	-							NM_173598	NP_775869			kinase suppressor of ras 2						intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)																	---	---	---	---
KSR2	283455	broad.mit.edu	37	12	118232095	118232096	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118232095_118232096delCA	uc001two.2	-							NM_173598	NP_775869			kinase suppressor of ras 2						intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)																	---	---	---	---
KSR2	283455	broad.mit.edu	37	12	118400152	118400152	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118400152delT	uc001two.2	-							NM_173598	NP_775869			kinase suppressor of ras 2						intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	118587461	118587462	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118587461_118587462delAG								PEBP1 (4071 upstream) : TAOK3 (145 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	118979756	118979756	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118979756delT								SUDS3 (123917 upstream) : SRRM4 (439640 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	119330667	119330667	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:119330667delA								SUDS3 (474828 upstream) : SRRM4 (88729 downstream)																																			---	---	---	---
CCDC60	160777	broad.mit.edu	37	12	119877119	119877120	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:119877119_119877120insG	uc001txe.2	+						uc001txf.2_Intron	NM_178499	NP_848594			coiled-coil domain containing 60											ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)														---	---	---	---
CCDC60	160777	broad.mit.edu	37	12	119900067	119900067	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:119900067delA	uc001txe.2	+						uc001txf.2_Intron	NM_178499	NP_848594			coiled-coil domain containing 60											ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)														---	---	---	---
CCDC60	160777	broad.mit.edu	37	12	119929965	119929966	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:119929965_119929966insT	uc001txe.2	+						uc001txf.2_Intron	NM_178499	NP_848594			coiled-coil domain containing 60											ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)														---	---	---	---
CIT	11113	broad.mit.edu	37	12	120131041	120131042	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120131041_120131042insT	uc001txi.1	-						CIT_uc001txh.1_Intron|CIT_uc001txj.1_Intron	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)														---	---	---	---
CIT	11113	broad.mit.edu	37	12	120146289	120146290	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120146289_120146290delTT	uc001txi.1	-						CIT_uc001txh.1_Intron|CIT_uc001txj.1_Intron	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	120351993	120351994	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120351993_120351994insA								CIT (36901 upstream) : CCDC64 (75654 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	120870416	120870416	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120870416delA								MSI1 (63458 upstream) : COX6A1 (5488 downstream)																																			---	---	---	---
SFRS9	8683	broad.mit.edu	37	12	120904159	120904159	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120904159delA	uc001tyi.2	-						SFRS9_uc009zwy.2_Intron	NM_003769	NP_003760			splicing factor, arginine/serine-rich 9						mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|RNA binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)																	---	---	---	---
DYNLL1	8655	broad.mit.edu	37	12	120910396	120910396	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120910396delA	uc001tyj.2	+						SFRS9_uc001tyi.2_5'Flank|SFRS9_uc009zwy.2_5'Flank	NM_001037494	NP_001032583			dynein light chain 1						actin cytoskeleton organization|activation of pro-apoptotic gene products|anatomical structure morphogenesis|female gamete generation|G2/M transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|microtubule-based process|negative regulation of phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transport	centrosome|cytoplasmic dynein complex|cytosol|microtubule|mitochondrion|nucleus|plasma membrane	motor activity|protein binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	120938545	120938545	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120938545delT								DYNLL1 (2248 upstream) : COQ5 (2538 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	121034094	121034094	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121034094delA								POP5 (14893 upstream) : CABP1 (44328 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	121054170	121054170	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121054170delT								POP5 (34969 upstream) : CABP1 (24252 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	121062456	121062457	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121062456_121062457delTT								POP5 (43255 upstream) : CABP1 (15965 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	121189346	121189346	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121189346delA								ACADS (11536 upstream) : SPPL3 (11690 downstream)																																			---	---	---	---
SPPL3	121665	broad.mit.edu	37	12	121206374	121206375	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121206374_121206375delAG	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)																	---	---	---	---
SPPL3	121665	broad.mit.edu	37	12	121229157	121229157	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121229157delT	uc001tzd.2	-						SPPL3_uc009zwz.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)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	121400871	121400871	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121400871delA								SPPL3 (58720 upstream) : C12orf27 (6770 downstream)																																			---	---	---	---
ANAPC5	51433	broad.mit.edu	37	12	121755374	121755374	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121755374delA	uc001uag.2	-						ANAPC5_uc010szu.1_Intron|ANAPC5_uc001uae.2_Intron|ANAPC5_uc010szv.1_Intron|ANAPC5_uc001uaf.2_Intron|ANAPC5_uc001uah.2_Intron	NM_016237	NP_057321			anaphase-promoting complex subunit 5 isoform a						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|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	protein phosphatase binding|ubiquitin-protein ligase activity			skin(3)|breast(2)|kidney(1)	6	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	121810674	121810674	+	IGR	DEL	A	-	-	rs80032684		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121810674delA								ANAPC5 (18662 upstream) : RNF34 (27228 downstream)																																			---	---	---	---
RNF34	80196	broad.mit.edu	37	12	121846782	121846782	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121846782delT	uc001ual.1	+						RNF34_uc010szw.1_Intron|RNF34_uc001uak.1_Intron|RNF34_uc001uam.1_Intron	NM_025126	NP_079402			ring finger protein 34 isoform 2						apoptosis	endomembrane system|membrane|nuclear speck	ligase activity|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000432)|Epithelial(86;0.00233)														---	---	---	---
TMEM120B	144404	broad.mit.edu	37	12	122157150	122157150	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122157150delA	uc001ubc.3	+						TMEM120B_uc009zxh.2_Intron	NM_001080825	NP_001074294			transmembrane protein 120B							integral to membrane					0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;5.75e-05)|Epithelial(86;0.000128)|BRCA - Breast invasive adenocarcinoma(302;0.238)														---	---	---	---
SETD1B	23067	broad.mit.edu	37	12	122253308	122253309	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122253308_122253309insA	uc001ubi.2	+							NM_015048	NP_055863			SET domain containing 1B						histone H3-K4 methylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			kidney(1)	1																		---	---	---	---
WDR66	144406	broad.mit.edu	37	12	122421303	122421306	+	Intron	DEL	AAAA	-	-	rs10713983		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122421303_122421306delAAAA	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)														---	---	---	---
CLIP1	6249	broad.mit.edu	37	12	122764630	122764630	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122764630delT	uc001ucg.1	-						CLIP1_uc001uch.1_Intron|CLIP1_uc001uci.1_Intron|CLIP1_uc001ucj.1_Intron	NM_002956	NP_002947			restin isoform a						mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)														---	---	---	---
CLIP1	6249	broad.mit.edu	37	12	122819988	122819989	+	Intron	DEL	AA	-	-	rs35684124		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122819988_122819989delAA	uc001ucg.1	-						CLIP1_uc001uch.1_Intron|CLIP1_uc001uci.1_Intron|CLIP1_uc001ucj.1_Intron	NM_002956	NP_002947			restin isoform a						mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)														---	---	---	---
CLIP1	6249	broad.mit.edu	37	12	122837410	122837410	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122837410delA	uc001ucg.1	-						CLIP1_uc001uch.1_Intron|CLIP1_uc001uci.1_Intron|CLIP1_uc001ucj.1_Intron|CLIP1_uc009zxo.1_Intron|CLIP1_uc010tae.1_Intron	NM_002956	NP_002947			restin isoform a						mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)														---	---	---	---
RSRC2	65117	broad.mit.edu	37	12	122991552	122991553	+	Intron	DEL	AA	-	-	rs144251671		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122991552_122991553delAA	uc001ucr.2	-						RSRC2_uc001uco.2_Intron|RSRC2_uc001ucp.2_Intron|RSRC2_uc001ucq.2_Intron|RSRC2_uc001ucs.2_Intron|RSRC2_uc001uct.2_Intron|RSRC2_uc001ucu.2_Intron	NM_023012	NP_075388			arginine/serine-rich coiled-coil 2 isoform a											ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.14e-05)|Epithelial(86;0.000183)|BRCA - Breast invasive adenocarcinoma(302;0.201)														---	---	---	---
KNTC1	9735	broad.mit.edu	37	12	123067170	123067170	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123067170delA	uc001ucv.2	+						KNTC1_uc010taf.1_Intron	NM_014708	NP_055523			Rough Deal homolog, centromere/kinetochore						cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)														---	---	---	---
GPR81	27198	broad.mit.edu	37	12	123150316	123150317	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123150316_123150317delTT	uc001ucw.1	-							NM_032554				G protein-coupled receptor 81						response to estradiol stimulus	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.14e-05)|Epithelial(86;3.25e-05)|BRCA - Breast invasive adenocarcinoma(302;0.197)														---	---	---	---
GPR81	27198	broad.mit.edu	37	12	123210262	123210265	+	Intron	DEL	AAAA	-	-	rs138507581		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123210262_123210265delAAAA	uc001ucw.1	-							NM_032554				G protein-coupled receptor 81						response to estradiol stimulus	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.14e-05)|Epithelial(86;3.25e-05)|BRCA - Breast invasive adenocarcinoma(302;0.197)														---	---	---	---
DENR	8562	broad.mit.edu	37	12	123246767	123246767	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123246767delT	uc001uda.2	+						DENR_uc010tag.1_Intron|DENR_uc001udb.2_Intron	NM_003677	NP_003668			density-regulated protein								protein binding|translation initiation factor activity				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.28e-05)|Epithelial(86;6.43e-05)|BRCA - Breast invasive adenocarcinoma(302;0.199)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	123313598	123313598	+	IGR	DEL	T	-	-	rs62733860		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123313598delT								CCDC62 (1673 upstream) : HIP1R (5697 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	123767267	123767268	+	IGR	DEL	TT	-	-	rs75949806		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123767267_123767268delTT								CDK2AP1 (10580 upstream) : SBNO1 (13188 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	123767429	123767429	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123767429delT								CDK2AP1 (10742 upstream) : SBNO1 (13027 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	123769998	123769998	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123769998delA								CDK2AP1 (13311 upstream) : SBNO1 (10458 downstream)																																			---	---	---	---
SBNO1	55206	broad.mit.edu	37	12	123810579	123810579	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123810579delT	uc010tap.1	-						SBNO1_uc010tao.1_Intron|SBNO1_uc010taq.1_Intron|SBNO1_uc001uet.2_Intron|SBNO1_uc001ueu.2_Intron|SBNO1_uc001uev.2_Intron|SBNO1_uc009zxy.1_Intron	NM_018183	NP_060653			sno, strawberry notch homolog 1								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	123890369	123890369	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123890369delT	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)														---	---	---	---
RILPL1	353116	broad.mit.edu	37	12	123999481	123999482	+	Intron	DEL	TT	-	-	rs112636202		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123999481_123999482delTT	uc001ufe.2	-						RILPL1_uc001ufd.2_Intron|RILPL1_uc010tas.1_Intron	NM_178314	NP_847884			Rab interacting lysosomal protein-like 1						neuroprotection	cytosol					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.00067)|all cancers(50;0.00836)|BRCA - Breast invasive adenocarcinoma(302;0.197)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	124609561	124609561	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124609561delT								ZNF664 (109594 upstream) : FAM101A (164149 downstream)																																			---	---	---	---
FAM101A	144347	broad.mit.edu	37	12	124783091	124783091	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124783091delC	uc001ugd.1	+						FAM101A_uc001uge.1_Intron	NM_181709	NP_859060			hypothetical protein LOC144347												0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;2.38e-05)|OV - Ovarian serous cystadenocarcinoma(86;6.95e-05)|all cancers(50;0.000361)|BRCA - Breast invasive adenocarcinoma(302;0.059)														---	---	---	---
NCOR2	9612	broad.mit.edu	37	12	124842641	124842642	+	Intron	DEL	GC	-	-	rs56331447	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124842641_124842642delGC	uc010tba.1	-						NCOR2_uc010tay.1_Intron|NCOR2_uc010taz.1_Intron|NCOR2_uc010tbb.1_Intron|NCOR2_uc010tbc.1_Intron|NCOR2_uc001ugj.1_Intron	NM_001077261	NP_001070729			nuclear receptor co-repressor 2 isoform 2						cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	125358780	125358780	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:125358780delA								SCARB1 (10261 upstream) : UBC (37414 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	125396166	125396174	+	IGR	DEL	AAAAAAAAA	-	-	rs71901580		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:125396166_125396174delAAAAAAAAA								SCARB1 (47647 upstream) : UBC (20 downstream)																																			---	---	---	---
DHX37	57647	broad.mit.edu	37	12	125437293	125437294	+	Intron	INS	-	A	A	rs7960694	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:125437293_125437294insA	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)														---	---	---	---
BRI3BP	140707	broad.mit.edu	37	12	125492652	125492653	+	Intron	INS	-	TGC	TGC	rs144180463	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:125492652_125492653insTGC	uc001uha.1	+							NM_080626	NP_542193			BRI3-binding protein							integral to membrane|mitochondrial outer membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.35e-05)|Epithelial(86;0.000426)|all cancers(50;0.00576)														---	---	---	---
TMEM132B	114795	broad.mit.edu	37	12	126015282	126015283	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:126015282_126015283delTG	uc001uhe.1	+							NM_052907	NP_443139			transmembrane protein 132B							integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	126255156	126255157	+	IGR	DEL	GT	-	-	rs113774102		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:126255156_126255157delGT								TMEM132B (111567 upstream) : LOC100128554 (671870 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	126611469	126611469	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:126611469delT								TMEM132B (467880 upstream) : LOC100128554 (315558 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	127224224	127224224	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:127224224delA	uc001uhk.3	-						uc001uhl.2_Intron					Homo sapiens cDNA clone IMAGE:6160413.																														---	---	---	---
Unknown	0	broad.mit.edu	37	12	127405782	127405783	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:127405782_127405783insT	uc001uho.2	-											Homo sapiens cDNA clone IMAGE:4829480.																														---	---	---	---
Unknown	0	broad.mit.edu	37	12	127488999	127488999	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:127488999delT	uc001uho.2	-											Homo sapiens cDNA clone IMAGE:4829480.																														---	---	---	---
Unknown	0	broad.mit.edu	37	12	127865270	127865271	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:127865270_127865271delCA								LOC100128554 (907940 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	127925302	127925302	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:127925302delA								LOC100128554 (967972 upstream) : TMEM132C (973989 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	128227660	128227661	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:128227660_128227661insA								None (None upstream) : TMEM132C (671630 downstream)																																			---	---	---	---
TMEM132C	92293	broad.mit.edu	37	12	128936409	128936409	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:128936409delA	uc001uhs.3	+							NM_001136103	NP_001129575			transmembrane protein 132C							integral to membrane				central_nervous_system(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	129324951	129324951	+	IGR	DEL	T	-	-	rs34933559		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:129324951delT								SLC15A4 (16410 upstream) : GLT1D1 (13130 downstream)																																			---	---	---	---
GLT1D1	144423	broad.mit.edu	37	12	129446445	129446445	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:129446445delT	uc010tbh.1	+						GLT1D1_uc001uhx.1_Intron|GLT1D1_uc001uhy.1_Intron	NM_144669	NP_653270			glycosyltransferase 1 domain containing 1						biosynthetic process	extracellular region	transferase activity, transferring glycosyl groups				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.97e-06)|Epithelial(86;3.97e-05)|all cancers(50;0.00019)														---	---	---	---
TMEM132D	121256	broad.mit.edu	37	12	129988543	129988544	+	Intron	INS	-	TCA	TCA	rs141085342		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:129988543_129988544insTCA	uc009zyl.1	-							NM_133448	NP_597705			transmembrane protein 132D precursor							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	130234178	130234178	+	Intron	DEL	G	-	-	rs11060534	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:130234178delG	uc009zyl.1	-							NM_133448	NP_597705			transmembrane protein 132D precursor							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)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	130398939	130398939	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:130398939delT								TMEM132D (10727 upstream) : LOC100190940 (119060 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	130708400	130708401	+	IGR	INS	-	GTGA	GTGA	rs36079971		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:130708400_130708401insGTGA								FZD10 (58116 upstream) : PIWIL1 (114213 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	131215315	131215315	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:131215315delT								RIMBP2 (14489 upstream) : STX2 (58834 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	131379899	131379900	+	IGR	INS	-	GT	GT	rs146053676	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:131379899_131379900insGT								RAN (19075 upstream) : GPR133 (58552 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	131723892	131723894	+	IGR	DEL	AAA	-	-	rs34857032		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:131723892_131723894delAAA								LOC116437 (26417 upstream) : SFRS8 (471741 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	131970063	131970064	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:131970063_131970064delAG								LOC116437 (272588 upstream) : SFRS8 (225571 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	132009194	132009194	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132009194delA								LOC116437 (311719 upstream) : SFRS8 (186441 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	132302670	132302670	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132302670delA								SFRS8 (18388 upstream) : MMP17 (10271 downstream)																																			---	---	---	---
PUS1	80324	broad.mit.edu	37	12	132416398	132416398	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132416398delT	uc001ujf.2	+						PUS1_uc001ujg.2_Intron|PUS1_uc001ujh.2_Intron|PUS1_uc001uji.2_5'UTR	NM_025215	NP_079491			pseudouridine synthase 1 isoform 1							mitochondrion	pseudouridine synthase activity|pseudouridylate synthase activity|RNA binding			breast(1)|central_nervous_system(1)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.05e-08)|Epithelial(86;2.51e-07)|all cancers(50;2.94e-07)														---	---	---	---
EP400	57634	broad.mit.edu	37	12	132496183	132496183	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132496183delT	uc001ujn.2	+						EP400_uc001ujl.2_Intron|EP400_uc001ujm.2_Intron	NM_015409	NP_056224			E1A binding protein p400						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	132670445	132670445	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132670445delT								NOC4L (33459 upstream) : GALNT9 (10473 downstream)																																			---	---	---	---
GOLGA3	2802	broad.mit.edu	37	12	133394557	133394557	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133394557delC	uc001ukz.1	-						GOLGA3_uc001ula.1_Intron|GOLGA3_uc001ulb.2_Intron	NM_005895	NP_005886			Golgi autoantigen, golgin subfamily a, 3						intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	133688914	133688915	+	IGR	DEL	TT	-	-	rs67455350		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133688914_133688915delTT								ZNF140 (4658 upstream) : ZNF10 (18298 downstream)																																			---	---	---	---
ZNF268	10795	broad.mit.edu	37	12	133718674	133718674	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133718674delA	uc010tbv.1	+						ZNF10_uc009zzb.2_Intron|ZNF10_uc001ulq.2_Intron					RecName: Full=Zinc finger protein 268; AltName: Full=Zinc finger protein 3; AltName: Full=HZF3;							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.000215)|all_epithelial(31;0.096)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)														---	---	---	---
ZNF268	10795	broad.mit.edu	37	12	133764702	133764703	+	Intron	DEL	TT	-	-	rs72400258		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133764702_133764703delTT	uc010tcf.1	+						ZNF268_uc010tbv.1_Intron|ZNF268_uc010tbw.1_Intron|ZNF268_uc010tbx.1_Intron|ZNF268_uc010tby.1_Intron|ZNF268_uc010tbz.1_Intron|ZNF268_uc010tca.1_Intron|ZNF268_uc010tcb.1_Intron|ZNF268_uc010tcc.1_Intron|ZNF268_uc010tcd.1_Intron|ZNF268_uc010tce.1_Intron|ZNF268_uc010tcg.1_Intron|ZNF268_uc010tch.1_Intron	NM_003415	NP_003406			zinc finger protein 268 isoform a							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.000215)|all_epithelial(31;0.096)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	133801900	133801901	+	Intron	INS	-	AC	AC	rs36192116	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133801900_133801901insAC	uc010tci.1	-											SubName: Full=cDNA FLJ32661 fis, clone TESTI1000055, weakly similar to HOMEOBOX PROTEIN SIX1;																														---	---	---	---
DKFZp686A1627	266695	broad.mit.edu	37	13	19651281	19651282	+	Intron	INS	-	T	T	rs138485383	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:19651281_19651282insT	uc001umb.1	-							NR_002801				Homo sapiens mRNA; cDNA DKFZp686A1627 (from clone DKFZp686A1627).												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	13	19801216	19801216	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:19801216delT								TUBA3C (45280 upstream) : LOC100101938 (35725 downstream)																																			---	---	---	---
LOC100101938	100101938	broad.mit.edu	37	13	19841555	19841555	+	Intron	DEL	T	-	-	rs66813754		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:19841555delT	uc010tck.1	-							NR_027248				Homo sapiens cDNA clone IMAGE:5265638.												0																		---	---	---	---
TPTE2	93492	broad.mit.edu	37	13	19997315	19997315	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:19997315delA	uc001umd.2	-						TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Intron|TPTE2_uc001ume.2_Intron|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_Intron|TPTE2_uc010tcl.1_Intron	NM_199254	NP_954863			TPTE and PTEN homologous inositol lipid							endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)														---	---	---	---
PSPC1	55269	broad.mit.edu	37	13	20349508	20349509	+	Intron	DEL	AA	-	-	rs111616049		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:20349508_20349509delAA	uc001uml.2	-						PSPC1_uc001umj.1_Intron|PSPC1_uc001umk.1_Intron	NM_001042414	NP_001035879			paraspeckle protein 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleolus	nucleotide binding|protein binding|RNA binding			breast(1)	1		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	20386697	20386697	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:20386697delC								PSPC1 (29614 upstream) : ZMYM5 (10927 downstream)																																			---	---	---	---
ZMYM2	7750	broad.mit.edu	37	13	20603942	20603944	+	Intron	DEL	TTT	-	-	rs67169743		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:20603942_20603944delTTT	uc001umr.2	+						ZMYM2_uc001ums.2_Intron|ZMYM2_uc001umt.2_Intron|ZMYM2_uc010tco.1_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)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	20972064	20972064	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:20972064delA								GJB6 (165530 upstream) : CRYL1 (5745 downstream)																																			---	---	---	---
CRYL1	51084	broad.mit.edu	37	13	21006643	21006644	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21006643_21006644delAA	uc001une.2	-						CRYL1_uc001unf.2_Intron|CRYL1_uc001ung.2_Intron|CRYL1_uc010tcp.1_Intron	NM_015974	NP_057058			lambda-crystallin						fatty acid metabolic process	cytosol	3-hydroxyacyl-CoA dehydrogenase activity|L-gulonate 3-dehydrogenase activity|NAD+ binding|protein homodimerization activity				0		all_cancers(29;2.27e-23)|all_epithelial(30;1.69e-19)|all_lung(29;8.29e-18)|Lung SC(185;0.0262)|Ovarian(182;0.0827)|Hepatocellular(188;0.244)		all cancers(112;6.6e-05)|Epithelial(112;0.00178)|OV - Ovarian serous cystadenocarcinoma(117;0.0169)|Lung(94;0.0215)|GBM - Glioblastoma multiforme(144;0.0402)|LUSC - Lung squamous cell carcinoma(192;0.061)														---	---	---	---
N6AMT2	221143	broad.mit.edu	37	13	21343933	21343933	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21343933delA	uc001uno.1	-						N6AMT2_uc009zzr.1_Intron|N6AMT2_uc001unp.2_Intron	NM_174928	NP_777588			N-6 adenine-specific DNA methyltransferase 2								methyltransferase activity|nucleic acid binding				0		all_cancers(29;5.91e-19)|all_epithelial(30;1.42e-15)|all_lung(29;5.9e-14)|Lung SC(185;0.0367)		all cancers(112;0.000234)|Epithelial(112;0.000471)|OV - Ovarian serous cystadenocarcinoma(117;0.0111)|Lung(94;0.0161)|LUSC - Lung squamous cell carcinoma(192;0.0431)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	21486791	21486791	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21486791delA								XPO4 (9878 upstream) : LATS2 (60387 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	21702655	21702655	+	IGR	DEL	T	-	-	rs35371074		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21702655delT								LATS2 (66933 upstream) : SAP18 (11998 downstream)																																			---	---	---	---
SKA3	221150	broad.mit.edu	37	13	21736313	21736313	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21736313delT	uc001unt.2	-						SKA3_uc001unv.2_Intron|SKA3_uc001unu.2_Intron	NM_145061	NP_659498			SKA3						cell division|chromosome segregation|mitosis|regulation of microtubule polymerization or depolymerization	condensed chromosome outer kinetochore|cytoplasm|spindle microtubule	protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	13	21884102	21884103	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21884102_21884103insA	uc001unz.1	+											Homo sapiens cDNA FLJ33446 fis, clone BRAMY1000095.																														---	---	---	---
Unknown	0	broad.mit.edu	37	13	22226089	22226091	+	IGR	DEL	TTT	-	-	rs71722122		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:22226089_22226091delTTT								EFHA1 (47782 upstream) : FGF9 (19124 downstream)																																			---	---	---	---
FGF9	2254	broad.mit.edu	37	13	22258471	22258471	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:22258471delT	uc001uog.2	+							NM_002010	NP_002001			fibroblast growth factor 9 precursor						cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|male gonad development|positive regulation of cell division	extracellular space	growth factor activity|heparin binding				0		all_cancers(29;1.23e-20)|all_epithelial(30;9.83e-19)|all_lung(29;9.64e-17)|Lung SC(185;0.0262)|Breast(139;0.106)		all cancers(112;3.92e-05)|Epithelial(112;0.000166)|OV - Ovarian serous cystadenocarcinoma(117;0.00314)|Lung(94;0.163)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	22390342	22390342	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:22390342delT								FGF9 (111702 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	23338691	23338691	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:23338691delA								None (None upstream) : SGCG (416369 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	23368788	23368788	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:23368788delT								None (None upstream) : SGCG (386272 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	23443551	23443551	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:23443551delT								None (None upstream) : SGCG (311509 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	23624135	23624135	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:23624135delA								None (None upstream) : SGCG (130925 downstream)																																			---	---	---	---
SGCG	6445	broad.mit.edu	37	13	23842435	23842435	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:23842435delA	uc001uom.2	+						SGCG_uc009zzv.2_Intron|SGCG_uc009zzw.2_Intron	NM_000231	NP_000222			gamma sarcoglycan						cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0		all_cancers(29;4.34e-23)|all_epithelial(30;4.4e-19)|all_lung(29;2.45e-18)|Lung SC(185;0.0228)|Breast(139;0.188)		all cancers(112;0.00255)|Epithelial(112;0.0129)|OV - Ovarian serous cystadenocarcinoma(117;0.0365)|Lung(94;0.205)														---	---	---	---
SACS	26278	broad.mit.edu	37	13	24007892	24007892	+	5'Flank	DEL	T	-	-	rs79531295		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24007892delT	uc001uon.2	-							NM_014363	NP_055178			sacsin						cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)														---	---	---	---
TNFRSF19	55504	broad.mit.edu	37	13	24193701	24193701	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24193701delA	uc001uov.1	+						TNFRSF19_uc001uot.2_Intron|TNFRSF19_uc010tcu.1_Intron|TNFRSF19_uc001uow.2_Intron	NM_018647	NP_061117			tumor necrosis factor receptor superfamily,						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	24273845	24273845	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24273845delT								TNFRSF19 (23614 upstream) : MIPEP (30484 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	24278390	24278390	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24278390delT								TNFRSF19 (28159 upstream) : MIPEP (25939 downstream)																																			---	---	---	---
MIPEP	4285	broad.mit.edu	37	13	24365839	24365842	+	Intron	DEL	TCAG	-	-	rs111553918		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24365839_24365842delTCAG	uc001uox.3	-							NM_005932	NP_005923			mitochondrial intermediate peptidase precursor						protein processing involved in protein targeting to mitochondrion|proteolysis	mitochondrial matrix	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		all_cancers(29;1.83e-22)|all_epithelial(30;8.75e-19)|all_lung(29;9.17e-18)|Lung SC(185;0.0225)|Breast(139;0.14)		all cancers(112;0.00389)|Epithelial(112;0.0266)|OV - Ovarian serous cystadenocarcinoma(117;0.0717)|Lung(94;0.207)|GBM - Glioblastoma multiforme(144;0.232)														---	---	---	---
MIPEP	4285	broad.mit.edu	37	13	24366222	24366222	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24366222delT	uc001uox.3	-							NM_005932	NP_005923			mitochondrial intermediate peptidase precursor						protein processing involved in protein targeting to mitochondrion|proteolysis	mitochondrial matrix	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		all_cancers(29;1.83e-22)|all_epithelial(30;8.75e-19)|all_lung(29;9.17e-18)|Lung SC(185;0.0225)|Breast(139;0.14)		all cancers(112;0.00389)|Epithelial(112;0.0266)|OV - Ovarian serous cystadenocarcinoma(117;0.0717)|Lung(94;0.207)|GBM - Glioblastoma multiforme(144;0.232)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	25651466	25651466	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25651466delT								TPTE2P1 (108859 upstream) : PABPC3 (18810 downstream)																																			---	---	---	---
ATP8A2	51761	broad.mit.edu	37	13	26163246	26163246	+	Intron	DEL	A	-	-	rs71685370		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:26163246delA	uc001uqk.2	+						ATP8A2_uc010tdi.1_Intron|ATP8A2_uc010tdj.1_Intron|ATP8A2_uc010aaj.1_Intron	NM_016529	NP_057613			ATPase, aminophospholipid transporter-like,						ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)														---	---	---	---
ATP8A2	51761	broad.mit.edu	37	13	26517750	26517751	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:26517750_26517751insC	uc001uqk.2	+						ATP8A2_uc010tdi.1_Intron|ATP8A2_uc010tdj.1_Intron	NM_016529	NP_057613			ATPase, aminophospholipid transporter-like,						ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	26616521	26616522	+	IGR	INS	-	AAACA	AAACA	rs140709352	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:26616521_26616522insAAACA								ATP8A2 (21102 upstream) : SHISA2 (2213 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	27018626	27018626	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:27018626delA								CDK8 (40057 upstream) : WASF3 (113214 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	27046325	27046325	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:27046325delT								CDK8 (67756 upstream) : WASF3 (85515 downstream)																																			---	---	---	---
WASF3	10810	broad.mit.edu	37	13	27181777	27181777	+	Intron	DEL	T	-	-	rs77389948		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:27181777delT	uc001uqv.2	+						WASF3_uc001uqw.2_Intron	NM_006646	NP_006637			WAS protein family, member 3						actin filament polymerization	cytoplasm|cytoskeleton	actin binding			pancreas(1)	1	Colorectal(5;0.000247)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.0114)|Epithelial(112;0.046)|OV - Ovarian serous cystadenocarcinoma(117;0.0547)|Lung(94;0.105)|LUSC - Lung squamous cell carcinoma(192;0.155)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	27525417	27525417	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:27525417delT								GPR12 (190495 upstream) : USP12 (117021 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	27817966	27817966	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:27817966delA								USP12 (71937 upstream) : RPL21 (7726 downstream)																																			---	---	---	---
POLR1D	51082	broad.mit.edu	37	13	28237881	28237883	+	Intron	DEL	AGA	-	-	rs147383149		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:28237881_28237883delAGA	uc001urp.2	+						POLR1D_uc010aam.2_Intron|POLR1D_uc001urq.2_Intron	NM_152705	NP_689918			polymerase (RNA) I polypeptide D isoform 2						termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein dimerization activity				0		Lung SC(185;0.0161)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.0758)|OV - Ovarian serous cystadenocarcinoma(117;0.1)|Epithelial(112;0.213)														---	---	---	---
FLT3	2322	broad.mit.edu	37	13	28635910	28635910	+	Intron	DEL	A	-	-	rs78564726		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:28635910delA	uc001urw.2	-						FLT3_uc010aao.2_Intron|FLT3_uc010tdn.1_Intron	NM_004119	NP_004110			fms-related tyrosine kinase 3 precursor						positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)			Mis|O		AML|ALL								---	---	---	---
PAN3	255967	broad.mit.edu	37	13	28781043	28781043	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:28781043delT	uc001urz.2	+						PAN3_uc010tdo.1_Intron|PAN3_uc001ury.2_Intron|PAN3_uc001urx.2_Intron	NM_175854	NP_787050			PABP1-dependent poly A-specific ribonuclease						nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)														---	---	---	---
PAN3	255967	broad.mit.edu	37	13	28845155	28845155	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:28845155delA	uc001urz.2	+						PAN3_uc010tdo.1_Intron|PAN3_uc001ury.2_Intron|PAN3_uc001urx.2_Intron	NM_175854	NP_787050			PABP1-dependent poly A-specific ribonuclease						nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)														---	---	---	---
FLT1	2321	broad.mit.edu	37	13	28958197	28958197	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:28958197delT	uc001usb.3	-						FLT1_uc010aar.1_Intron	NM_002019	NP_002010			fms-related tyrosine kinase 1 isoform 1						cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)													---	---	---	---
Unknown	0	broad.mit.edu	37	13	29084993	29084993	+	IGR	DEL	A	-	-	rs75354609		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:29084993delA								FLT1 (15728 upstream) : POMP (148248 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	29188219	29188219	+	IGR	DEL	T	-	-	rs72432647		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:29188219delT								FLT1 (118954 upstream) : POMP (45022 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	29556484	29556484	+	IGR	DEL	A	-	-	rs113013216		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:29556484delA								SLC46A3 (263334 upstream) : MTUS2 (42264 downstream)																																			---	---	---	---
MTUS2	23281	broad.mit.edu	37	13	29870335	29870338	+	Intron	DEL	TTTG	-	-	rs35252540		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:29870335_29870338delTTTG	uc001usl.3	+							NM_001033602	NP_001028774			hypothetical protein LOC23281 isoform a							cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	13	31265797	31265798	+	IGR	INS	-	ACACACACAC	ACACACACAC	rs138991136	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:31265797_31265798insACACACACAC								USPL1 (32111 upstream) : ALOX5AP (21817 downstream)																																			---	---	---	---
EEF1DP3	196549	broad.mit.edu	37	13	32486804	32486804	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32486804delT	uc001utu.2	+						EEF1DP3_uc010tdv.1_Intron					Homo sapiens similar to hypothetical protein FLJ20897, mRNA (cDNA clone IMAGE:5267252).												0																		---	---	---	---
EEF1DP3	196549	broad.mit.edu	37	13	32519157	32519158	+	Intron	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32519157_32519158delGA	uc001utu.2	+						EEF1DP3_uc010tdv.1_Intron					Homo sapiens similar to hypothetical protein FLJ20897, mRNA (cDNA clone IMAGE:5267252).												0																		---	---	---	---
FRY	10129	broad.mit.edu	37	13	32658903	32658903	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32658903delT	uc001utx.2	+						FRY_uc010tdw.1_Intron	NM_023037	NP_075463			furry homolog						regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)														---	---	---	---
FRY	10129	broad.mit.edu	37	13	32833990	32833990	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32833990delA	uc001utx.2	+						FRY_uc010tdw.1_Intron|FRY_uc001uty.2_Intron|FRY_uc001utz.2_5'Flank	NM_023037	NP_075463			furry homolog						regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)														---	---	---	---
N4BP2L2	10443	broad.mit.edu	37	13	33025504	33025504	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:33025504delA	uc010abe.1	-						N4BP2L2_uc001uug.2_Intron|N4BP2L2_uc010abd.1_Intron|N4BP2L2_uc001uuh.2_Intron|N4BP2L2_uc001uuj.2_Intron|N4BP2L2_uc010tdz.1_Intron	NM_033111	NP_149102			phosphonoformate immuno-associated protein 5												0		Lung SC(185;0.0262)		all cancers(112;9.5e-07)|Epithelial(112;5.07e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00196)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.243)														---	---	---	---
PDS5B	23047	broad.mit.edu	37	13	33184038	33184039	+	Intron	DEL	AA	-	-	rs113024952		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:33184038_33184039delAA	uc010abf.2	+						PDS5B_uc001uun.2_Intron|PDS5B_uc001uuo.2_Intron|PDS5B_uc010abg.2_Intron	NM_015032	NP_055847			PDS5, regulator of cohesion maintenance, homolog						cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	33585538	33585538	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:33585538delA								PDS5B (233383 upstream) : KL (4663 downstream)																																			---	---	---	---
STARD13	90627	broad.mit.edu	37	13	34081736	34081736	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:34081736delA	uc001uux.2	-							NM_052851	NP_443083			StAR-related lipid transfer (START) domain						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	34794585	34794585	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:34794585delA								RFC3 (253891 upstream) : NBEA (721871 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	34880109	34880110	+	IGR	INS	-	A	A	rs140429896	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:34880109_34880110insA								RFC3 (339415 upstream) : NBEA (636346 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	35078032	35078032	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:35078032delT								RFC3 (537338 upstream) : NBEA (438424 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	35152158	35152158	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:35152158delA								RFC3 (611464 upstream) : NBEA (364298 downstream)																																			---	---	---	---
NBEA	26960	broad.mit.edu	37	13	35677553	35677554	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:35677553_35677554delTT	uc001uvb.2	+							NM_015678	NP_056493			neurobeachin							cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)														---	---	---	---
NBEA	26960	broad.mit.edu	37	13	36076637	36076637	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36076637delT	uc001uvb.2	+						NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_Intron|NBEA_uc010teg.1_Intron	NM_015678	NP_056493			neurobeachin							cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)														---	---	---	---
NBEA	26960	broad.mit.edu	37	13	36169479	36169479	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36169479delT	uc001uvb.2	+						NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_Intron|NBEA_uc010teg.1_Intron|NBEA_uc001uvd.2_Intron	NM_015678	NP_056493			neurobeachin							cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)														---	---	---	---
NBEA	26960	broad.mit.edu	37	13	36219988	36219988	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36219988delT	uc001uvb.2	+						NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_Intron|NBEA_uc001uvd.2_Intron	NM_015678	NP_056493			neurobeachin							cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)														---	---	---	---
NBEA	26960	broad.mit.edu	37	13	36242470	36242470	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36242470delT	uc001uvb.2	+						NBEA_uc010abi.2_Intron|NBEA_uc010tef.1_Intron|NBEA_uc001uvd.2_Intron	NM_015678	NP_056493			neurobeachin							cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	36287454	36287454	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36287454delA								NBEA (40582 upstream) : DCLK1 (55669 downstream)																																			---	---	---	---
DCLK1	9201	broad.mit.edu	37	13	36611323	36611323	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36611323delA	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)														---	---	---	---
SPG20	23111	broad.mit.edu	37	13	36937489	36937490	+	Intron	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36937489_36937490delTC	uc001uvq.2	-							NM_001142294	NP_001135766			spartin						cell death	cytoplasm	ubiquitin protein ligase binding				0		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;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	36969813	36969815	+	IGR	DEL	TTC	-	-	rs4943368	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36969813_36969815delTTC								SPG20 (25496 upstream) : CCNA1 (35842 downstream)																																			---	---	---	---
RFXAP	5994	broad.mit.edu	37	13	37396566	37396566	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:37396566delT	uc001uvu.1	+							NM_000538	NP_000529			regulatory factor X-associated protein							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)		all cancers(112;3.5e-07)|Epithelial(112;1.27e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.0069)|BRCA - Breast invasive adenocarcinoma(63;0.0116)|GBM - Glioblastoma multiforme(144;0.0405)														---	---	---	---
RFXAP	5994	broad.mit.edu	37	13	37401948	37401948	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:37401948delT	uc001uvu.1	+	3						NM_000538	NP_000529			regulatory factor X-associated protein							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)		all cancers(112;3.5e-07)|Epithelial(112;1.27e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.0069)|BRCA - Breast invasive adenocarcinoma(63;0.0116)|GBM - Glioblastoma multiforme(144;0.0405)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	37730126	37730126	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:37730126delT								CSNK1A1L (50325 upstream) : POSTN (406594 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	38027199	38027200	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:38027199_38027200delTT								CSNK1A1L (347398 upstream) : POSTN (109520 downstream)																																			---	---	---	---
TRPC4	7223	broad.mit.edu	37	13	38265248	38265248	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:38265248delT	uc001uws.2	-						TRPC4_uc010abv.2_Intron|TRPC4_uc001uwt.2_Intron|TRPC4_uc010tey.1_Intron|TRPC4_uc010abw.2_Intron|TRPC4_uc010abx.2_Intron|TRPC4_uc010aby.2_Intron	NM_016179	NP_057263			transient receptor potential cation channel,						axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	38852551	38852551	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:38852551delT								TRPC4 (408612 upstream) : UFM1 (71391 downstream)																																			---	---	---	---
FREM2	341640	broad.mit.edu	37	13	39322261	39322261	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:39322261delA	uc001uwv.2	+							NM_207361	NP_997244			FRAS1-related extracellular matrix protein 2						cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)														---	---	---	---
NHLRC3	387921	broad.mit.edu	37	13	39618052	39618052	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:39618052delA	uc001uxc.2	+						NHLRC3_uc001uxb.1_Intron|NHLRC3_uc001uxd.2_Intron|NHLRC3_uc001uxe.2_Intron	NM_001012754	NP_001012772			NHL repeat containing 3 isoform a							extracellular region				skin(1)	1		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;2.37e-08)|Epithelial(112;3.14e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00101)|BRCA - Breast invasive adenocarcinoma(63;0.00335)|GBM - Glioblastoma multiforme(144;0.0128)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	39635142	39635142	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:39635142delT								NHLRC3 (10900 upstream) : LHFP (281888 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	39641304	39641304	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:39641304delT								NHLRC3 (17062 upstream) : LHFP (275726 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	39743614	39743614	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:39743614delA								NHLRC3 (119372 upstream) : LHFP (173416 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	39745537	39745537	+	IGR	DEL	T	-	-	rs66922499		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:39745537delT								NHLRC3 (121295 upstream) : LHFP (171493 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	39797525	39797525	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:39797525delA								NHLRC3 (173283 upstream) : LHFP (119505 downstream)																																			---	---	---	---
LHFP	10186	broad.mit.edu	37	13	39917882	39917882	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:39917882delT	uc001uxf.2	-	4						NM_005780	NP_005771			lipoma HMGIC fusion partner precursor							integral to membrane	DNA binding		HMGA2/LHFP(2)	soft_tissue(2)|lung(1)|breast(1)	4		Lung NSC(96;3.55e-06)|Breast(139;0.00408)|Ovarian(182;0.0107)|Prostate(109;0.0118)|Lung SC(185;0.0719)|Hepatocellular(188;0.114)		OV - Ovarian serous cystadenocarcinoma(117;6.48e-46)|Epithelial(112;8.43e-42)|all cancers(112;1.42e-36)|GBM - Glioblastoma multiforme(144;0.00187)|BRCA - Breast invasive adenocarcinoma(63;0.00886)|KIRC - Kidney renal clear cell carcinoma(186;0.048)|Kidney(163;0.0601)|LUSC - Lung squamous cell carcinoma(192;0.105)				T	HMGA2	lipoma								---	---	---	---
LHFP	10186	broad.mit.edu	37	13	40006009	40006009	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:40006009delT	uc001uxf.2	-							NM_005780	NP_005771			lipoma HMGIC fusion partner precursor							integral to membrane	DNA binding		HMGA2/LHFP(2)	soft_tissue(2)|lung(1)|breast(1)	4		Lung NSC(96;3.55e-06)|Breast(139;0.00408)|Ovarian(182;0.0107)|Prostate(109;0.0118)|Lung SC(185;0.0719)|Hepatocellular(188;0.114)		OV - Ovarian serous cystadenocarcinoma(117;6.48e-46)|Epithelial(112;8.43e-42)|all cancers(112;1.42e-36)|GBM - Glioblastoma multiforme(144;0.00187)|BRCA - Breast invasive adenocarcinoma(63;0.00886)|KIRC - Kidney renal clear cell carcinoma(186;0.048)|Kidney(163;0.0601)|LUSC - Lung squamous cell carcinoma(192;0.105)				T	HMGA2	lipoma								---	---	---	---
LHFP	10186	broad.mit.edu	37	13	40075525	40075526	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:40075525_40075526insT	uc001uxf.2	-							NM_005780	NP_005771			lipoma HMGIC fusion partner precursor							integral to membrane	DNA binding		HMGA2/LHFP(2)	soft_tissue(2)|lung(1)|breast(1)	4		Lung NSC(96;3.55e-06)|Breast(139;0.00408)|Ovarian(182;0.0107)|Prostate(109;0.0118)|Lung SC(185;0.0719)|Hepatocellular(188;0.114)		OV - Ovarian serous cystadenocarcinoma(117;6.48e-46)|Epithelial(112;8.43e-42)|all cancers(112;1.42e-36)|GBM - Glioblastoma multiforme(144;0.00187)|BRCA - Breast invasive adenocarcinoma(63;0.00886)|KIRC - Kidney renal clear cell carcinoma(186;0.048)|Kidney(163;0.0601)|LUSC - Lung squamous cell carcinoma(192;0.105)				T	HMGA2	lipoma								---	---	---	---
LHFP	10186	broad.mit.edu	37	13	40122701	40122701	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:40122701delA	uc001uxf.2	-							NM_005780	NP_005771			lipoma HMGIC fusion partner precursor							integral to membrane	DNA binding		HMGA2/LHFP(2)	soft_tissue(2)|lung(1)|breast(1)	4		Lung NSC(96;3.55e-06)|Breast(139;0.00408)|Ovarian(182;0.0107)|Prostate(109;0.0118)|Lung SC(185;0.0719)|Hepatocellular(188;0.114)		OV - Ovarian serous cystadenocarcinoma(117;6.48e-46)|Epithelial(112;8.43e-42)|all cancers(112;1.42e-36)|GBM - Glioblastoma multiforme(144;0.00187)|BRCA - Breast invasive adenocarcinoma(63;0.00886)|KIRC - Kidney renal clear cell carcinoma(186;0.048)|Kidney(163;0.0601)|LUSC - Lung squamous cell carcinoma(192;0.105)				T	HMGA2	lipoma								---	---	---	---
Unknown	0	broad.mit.edu	37	13	40423257	40423257	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:40423257delT								COG6 (57455 upstream) : LOC646982 (498016 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	40462865	40462865	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:40462865delA								COG6 (97063 upstream) : LOC646982 (458408 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	40467359	40467360	+	IGR	INS	-	GT	GT	rs147586157	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:40467359_40467360insGT								COG6 (101557 upstream) : LOC646982 (453913 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	40865111	40865112	+	IGR	INS	-	AC	AC	rs142017285	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:40865111_40865112insAC								COG6 (499309 upstream) : LOC646982 (56161 downstream)																																			---	---	---	---
FOXO1	2308	broad.mit.edu	37	13	41163242	41163242	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:41163242delA	uc001uxl.3	-						FOXO1_uc010acc.1_Intron	NM_002015	NP_002006			forkhead box O1						anti-apoptosis|blood vessel development|embryo development|endocrine pancreas development|insulin receptor signaling pathway|negative regulation of stress-activated MAPK cascade|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|response to DNA damage stimulus|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding		PAX3/FOXO1(749)|PAX7/FOXO1(197)	soft_tissue(946)|lung(1)|central_nervous_system(1)	948		Lung NSC(96;1.18e-05)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;7.32e-09)|Epithelial(112;2.87e-06)|OV - Ovarian serous cystadenocarcinoma(117;6.98e-05)|GBM - Glioblastoma multiforme(144;0.00394)|BRCA - Breast invasive adenocarcinoma(63;0.0815)														---	---	---	---
FOXO1	2308	broad.mit.edu	37	13	41192221	41192221	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:41192221delT	uc001uxl.3	-							NM_002015	NP_002006			forkhead box O1						anti-apoptosis|blood vessel development|embryo development|endocrine pancreas development|insulin receptor signaling pathway|negative regulation of stress-activated MAPK cascade|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|response to DNA damage stimulus|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding		PAX3/FOXO1(749)|PAX7/FOXO1(197)	soft_tissue(946)|lung(1)|central_nervous_system(1)	948		Lung NSC(96;1.18e-05)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;7.32e-09)|Epithelial(112;2.87e-06)|OV - Ovarian serous cystadenocarcinoma(117;6.98e-05)|GBM - Glioblastoma multiforme(144;0.00394)|BRCA - Breast invasive adenocarcinoma(63;0.0815)														---	---	---	---
SLC25A15	10166	broad.mit.edu	37	13	41362881	41362881	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:41362881delT	uc001uxn.2	+						SLC25A15_uc010tfb.1_5'Flank	NM_014252	NP_055067			mitochondrial ornithine transporter 1						cellular amino acid metabolic process|mitochondrial ornithine transport|urea cycle	integral to membrane|mitochondrial inner membrane	L-ornithine transmembrane transporter activity				0		Lung NSC(96;3.55e-06)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;1.48e-08)|Epithelial(112;7.51e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000191)|GBM - Glioblastoma multiforme(144;0.00231)|BRCA - Breast invasive adenocarcinoma(63;0.0704)	L-Ornithine(DB00129)													---	---	---	---
ELF1	1997	broad.mit.edu	37	13	41559860	41559860	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:41559860delA	uc001uxs.2	-							NM_172373	NP_758961			E74-like factor 1 (ets domain transcription						positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung NSC(96;8.3e-05)|Prostate(109;0.0233)|Breast(139;0.0296)|Lung SC(185;0.0367)		all cancers(112;1.87e-08)|Epithelial(112;8.45e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000202)|GBM - Glioblastoma multiforme(144;0.00266)|BRCA - Breast invasive adenocarcinoma(63;0.072)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	41727916	41727916	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:41727916delA	uc001uxv.1	+											Homo sapiens cDNA FLJ31620 fis, clone NT2RI2003184.																														---	---	---	---
NAA16	79612	broad.mit.edu	37	13	41930163	41930163	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:41930163delT	uc001uyf.2	+						NAA16_uc010tfg.1_Intron|NAA16_uc001uye.3_Intron|NAA16_uc001uyd.3_Intron	NM_024561	NP_078837			NMDA receptor regulated 1-like protein isoform						N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent	cytoplasm|transcription factor complex	binding			central_nervous_system(1)	1																		---	---	---	---
NAA16	79612	broad.mit.edu	37	13	41941505	41941505	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:41941505delT	uc001uyf.2	+						NAA16_uc010tfg.1_Intron	NM_024561	NP_078837			NMDA receptor regulated 1-like protein isoform						N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent	cytoplasm|transcription factor complex	binding			central_nervous_system(1)	1																		---	---	---	---
KIAA0564	23078	broad.mit.edu	37	13	42249231	42249231	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:42249231delA	uc001uyj.2	-							NM_015058	NP_055873			hypothetical protein LOC23078 isoform a							extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)														---	---	---	---
KIAA0564	23078	broad.mit.edu	37	13	42407413	42407414	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:42407413_42407414insA	uc001uyj.2	-						KIAA0564_uc001uyk.2_Intron	NM_015058	NP_055873			hypothetical protein LOC23078 isoform a							extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)														---	---	---	---
DGKH	160851	broad.mit.edu	37	13	42692353	42692353	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:42692353delA	uc001uyl.1	+						DGKH_uc010tfh.1_Intron|DGKH_uc001uym.1_Intron	NM_178009	NP_821077			diacylglycerol kinase, eta isoform 2						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)														---	---	---	---
ENOX1	55068	broad.mit.edu	37	13	43856589	43856589	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:43856589delT	uc001uza.3	-						ENOX1_uc001uzb.3_Intron|ENOX1_uc001uzc.3_Intron|ENOX1_uc001uyz.3_Intron	NM_001127615	NP_001121087			ecto-NOX disulfide-thiol exchanger 1						electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)														---	---	---	---
ENOX1	55068	broad.mit.edu	37	13	43906170	43906170	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:43906170delA	uc001uza.3	-						ENOX1_uc001uzb.3_Intron|ENOX1_uc001uzc.3_Intron|ENOX1_uc001uyz.3_Intron|ENOX1_uc010tfm.1_Intron	NM_001127615	NP_001121087			ecto-NOX disulfide-thiol exchanger 1						electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)														---	---	---	---
ENOX1	55068	broad.mit.edu	37	13	44035103	44035103	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:44035103delA	uc001uza.3	-						ENOX1_uc001uzb.3_Intron|ENOX1_uc001uzc.3_Intron	NM_001127615	NP_001121087			ecto-NOX disulfide-thiol exchanger 1						electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)														---	---	---	---
ENOX1	55068	broad.mit.edu	37	13	44212116	44212116	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:44212116delA	uc001uzb.3	-						ENOX1_uc001uzc.3_Intron	NM_017993	NP_060463			ecto-NOX disulfide-thiol exchanger 1						electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)														---	---	---	---
C13orf31	144811	broad.mit.edu	37	13	44460702	44460702	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:44460702delA	uc010acg.2	+						C13orf31_uc001uzf.3_Intron	NM_001128303	NP_001121775			hypothetical protein LOC144811												0		Lung NSC(96;0.000163)|all_hematologic(4;0.0127)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Breast(139;0.0364)|Lung SC(185;0.0367)|Acute lymphoblastic leukemia(4;0.138)		GBM - Glioblastoma multiforme(144;0.000573)|BRCA - Breast invasive adenocarcinoma(63;0.121)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	44620986	44620988	+	IGR	DEL	TCT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:44620986_44620988delTCT								LOC121838 (16388 upstream) : SERP2 (326990 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	45005300	45005301	+	IGR	DEL	CA	-	-	rs68151892		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:45005300_45005301delCA								SERP2 (33451 upstream) : TSC22D1 (2360 downstream)																																			---	---	---	---
TSC22D1	8848	broad.mit.edu	37	13	45049231	45049231	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:45049231delA	uc001uzn.3	-						TSC22D1_uc001uzo.1_Intron	NM_183422	NP_904358			TSC22 domain family, member 1 isoform 1						transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(4;8.74e-08)|Acute lymphoblastic leukemia(4;1.78e-07)|Lung NSC(96;2.21e-05)|Breast(139;0.000625)|Prostate(109;0.000947)|Hepatocellular(98;0.0202)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000522)|BRCA - Breast invasive adenocarcinoma(63;0.118)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	45202821	45202822	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:45202821_45202822delTC								TSC22D1 (52120 upstream) : NUFIP1 (310562 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	46023787	46023788	+	IGR	DEL	TT	-	-	rs77594266		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46023787_46023788delTT								SLC25A30 (31271 upstream) : COG3 (15283 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	46475392	46475394	+	IGR	DEL	AAA	-	-	rs78026667		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46475392_46475394delAAA								SIAH3 (49546 upstream) : ZC3H13 (54411 downstream)																																			---	---	---	---
CPB2	1361	broad.mit.edu	37	13	46635913	46635914	+	Intron	INS	-	AC	AC	rs138116857	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46635913_46635914insAC	uc001vaw.2	-						uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Intron	NM_001872	NP_001863			plasma carboxypeptidase B2 isoform a						blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	46846953	46846953	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46846953delA								LCP1 (90494 upstream) : C13orf18 (69186 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	46895548	46895549	+	IGR	INS	-	CA	CA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46895548_46895549insCA								LCP1 (139089 upstream) : C13orf18 (20590 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	46909206	46909208	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46909206_46909208delTTT								LCP1 (152747 upstream) : C13orf18 (6931 downstream)																																			---	---	---	---
LRCH1	23143	broad.mit.edu	37	13	47157900	47157900	+	Intron	DEL	T	-	-	rs66914519		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:47157900delT	uc001vbj.2	+						LRCH1_uc010acp.2_Intron|LRCH1_uc001vbk.2_Intron|LRCH1_uc001vbl.3_Intron	NM_015116	NP_055931			leucine-rich repeats and calponin homology (CH)											ovary(1)|central_nervous_system(1)	2		all_lung(13;5.61e-07)|Lung NSC(96;0.000117)|Breast(56;0.000141)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000123)														---	---	---	---
LRCH1	23143	broad.mit.edu	37	13	47212922	47212923	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:47212922_47212923insT	uc001vbj.2	+						LRCH1_uc010acp.2_Intron|LRCH1_uc001vbk.2_Intron|LRCH1_uc001vbl.3_Intron	NM_015116	NP_055931			leucine-rich repeats and calponin homology (CH)											ovary(1)|central_nervous_system(1)	2		all_lung(13;5.61e-07)|Lung NSC(96;0.000117)|Breast(56;0.000141)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000123)														---	---	---	---
HTR2A	3356	broad.mit.edu	37	13	47430730	47430730	+	Intron	DEL	A	-	-	rs34758371		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:47430730delA	uc001vbq.2	-						HTR2A_uc001vbr.2_Intron|HTR2A_uc010acr.2_Intron	NM_000621	NP_000612			5-hydroxytryptamine receptor 2A isoform 1						ERK1 and ERK2 cascade|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	integral to plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|serotonin binding|serotonin receptor activity			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		all_lung(13;7.2e-10)|Lung NSC(96;3.77e-07)|Breast(56;2.06e-05)|Prostate(109;0.00116)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Myeloproliferative disorder(33;0.0333)		GBM - Glioblastoma multiforme(144;4.67e-05)|COAD - Colon adenocarcinoma(199;0.224)	Aripiprazole(DB01238)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cisapride(DB00604)|Clomipramine(DB01242)|Clozapine(DB00363)|Cyclobenzaprine(DB00924)|Cyproheptadine(DB00434)|Dihydroergotamine(DB00320)|Donepezil(DB00843)|Epinastine(DB00751)|Ergotamine(DB00696)|Fluvoxamine(DB00176)|Mesoridazine(DB00933)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Nefazodone(DB01149)|Olanzapine(DB00334)|Paliperidone(DB01267)|Paroxetine(DB00715)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)													---	---	---	---
Unknown	0	broad.mit.edu	37	13	47491610	47491610	+	IGR	DEL	T	-	-	rs74472380		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:47491610delT								HTR2A (20560 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	47507910	47507910	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:47507910delT								HTR2A (36860 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	48012475	48012475	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:48012475delT								HTR2A (541425 upstream) : SUCLA2 (504317 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	48211720	48211721	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:48211720_48211721delAA								HTR2A (740670 upstream) : SUCLA2 (305071 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	48421402	48421402	+	IGR	DEL	G	-	-	rs35733410		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:48421402delG								HTR2A (950352 upstream) : SUCLA2 (95390 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	48728566	48728566	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:48728566delT								MED4 (59315 upstream) : ITM2B (78708 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	48864945	48864945	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:48864945delT								ITM2B (28713 upstream) : RB1 (12938 downstream)																																			---	---	---	---
CYSLTR2	57105	broad.mit.edu	37	13	49231532	49231532	+	Intron	DEL	T	-	-	rs113164510		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:49231532delT	uc010acx.1	+						CYSLTR2_uc010acy.1_Intron|CYSLTR2_uc010acz.1_Intron|CYSLTR2_uc010ada.1_Intron|CYSLTR2_uc010adb.1_Intron|CYSLTR2_uc010adc.1_Intron|CYSLTR2_uc010add.1_Intron|CYSLTR2_uc010acw.1_Intron	NM_020377	NP_065110			cysteinyl leukotriene receptor 2						immune response	integral to membrane|plasma membrane				lung(2)	2		all_cancers(8;1.66e-53)|all_epithelial(8;1.96e-19)|all_lung(13;9.94e-09)|all_hematologic(8;7.13e-07)|Lung NSC(96;1.72e-06)|Breast(56;1.53e-05)|Acute lymphoblastic leukemia(8;6.86e-05)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0416)|Lung SC(185;0.0787)		GBM - Glioblastoma multiforme(99;1.19e-09)	Nedocromil(DB00716)													---	---	---	---
CAB39L	81617	broad.mit.edu	37	13	49925398	49925399	+	Intron	INS	-	TG	TG	rs139545619	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:49925398_49925399insTG	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	50183536	50183536	+	IGR	DEL	T	-	-	rs67655848		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:50183536delT								RCBTB1 (23817 upstream) : ARL11 (19088 downstream)																																			---	---	---	---
KPNA3	3839	broad.mit.edu	37	13	50306922	50306922	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:50306922delA	uc001vdj.2	-							NM_002267	NP_002258			karyopherin alpha 3						interspecies interaction between organisms|NLS-bearing substrate import into nucleus|protein complex assembly	cytoplasm|nuclear pore	nuclear localization sequence binding|protein transporter activity				0		Lung NSC(96;2.46e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.42e-09)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	50384343	50384343	+	IGR	DEL	A	-	-	rs35892035		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:50384343delA								KPNA3 (17286 upstream) : LOC220429 (80202 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	50431027	50431029	+	IGR	DEL	TTT	-	-	rs67589239	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:50431027_50431029delTTT								KPNA3 (63970 upstream) : LOC220429 (33516 downstream)																																			---	---	---	---
DLEU1	10301	broad.mit.edu	37	13	50730085	50730085	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:50730085delT	uc010adl.1	+						DLEU1_uc001vee.1_Intron|DLEU1_uc010adm.1_Intron|DLEU1_uc010adn.1_Intron|DLEU1_uc001vef.1_Intron|DLEU1_uc001veg.1_Intron|DLEU1_uc010tgn.1_Intron|DLEU1_uc001vei.1_Intron|DLEU1_uc010ado.1_Intron|DLEU1_uc010adp.1_Intron					Homo sapiens XTP6 (XTP6) mRNA, complete cds.												0																		---	---	---	---
DLEU1	10301	broad.mit.edu	37	13	50958188	50958192	+	Intron	DEL	AAAAC	-	-	rs67079025		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:50958188_50958192delAAAAC	uc010adl.1	+						DLEU1_uc001vee.1_Intron|DLEU1_uc010adm.1_Intron|DLEU1_uc010adn.1_Intron|DLEU1_uc001vef.1_Intron|DLEU1_uc001veg.1_Intron|DLEU1_uc010tgn.1_Intron|DLEU1_uc001vei.1_Intron|DLEU1_uc010ado.1_Intron|DLEU1_uc010adp.1_Intron|uc001vek.1_Intron|uc001vel.1_Intron|uc001vem.1_Intron|uc001ven.1_Intron|uc001veo.1_Intron|uc001vep.1_Intron					Homo sapiens XTP6 (XTP6) mRNA, complete cds.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	13	51225845	51225845	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:51225845delA								DLEU1 (123175 upstream) : DLEU7 (60914 downstream)																																			---	---	---	---
RNASEH2B	79621	broad.mit.edu	37	13	51499349	51499349	+	Intron	DEL	T	-	-	rs35802230		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:51499349delT	uc001vfa.3	+						RNASEH2B_uc001vfb.3_Intron	NM_024570	NP_078846			ribonuclease H2, subunit B isoform 1						RNA catabolic process	nucleus|ribonuclease H2 complex					0		Acute lymphoblastic leukemia(7;1.03e-07)|Breast(56;0.00122)|Lung NSC(96;0.00143)|Prostate(109;0.0047)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;9e-08)														---	---	---	---
SERPINE3	647174	broad.mit.edu	37	13	51922093	51922093	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:51922093delC	uc001vfh.2	+						SERPINE3_uc010tgp.1_Intron	NM_001101320	NP_001094790			nexin-related serine protease inhibitor						regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)	2																		---	---	---	---
UTP14C	9724	broad.mit.edu	37	13	52598258	52598258	+	Intron	DEL	T	-	-	rs140780888		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52598258delT	uc001vgb.2	+						UTP14C_uc001vga.2_Frame_Shift_Del_p.V131fs|UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677			UTP14, U3 small nucleolar ribonucleoprotein,						cell differentiation|meiosis|multicellular organismal development|rRNA processing|spermatogenesis	nucleolus|small-subunit processome				ovary(3)|large_intestine(1)|breast(1)	5		Breast(56;0.00173)|Lung NSC(96;0.0108)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.3e-08)														---	---	---	---
THSD1	55901	broad.mit.edu	37	13	52954465	52954466	+	Intron	INS	-	C	C	rs142372001	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52954465_52954466insC	uc001vgo.2	-						THSD1_uc001vgp.2_Intron|THSD1_uc010tgz.1_Intron|THSD1_uc010aea.2_Intron	NM_018676	NP_061146			thrombospondin type I domain-containing 1							extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)														---	---	---	---
HNRNPA1L2	144983	broad.mit.edu	37	13	53216459	53216459	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:53216459delA	uc001vgx.1	+						HNRNPA1L2_uc001vgy.1_Intron|HNRNPA1L2_uc001vgz.1_Intron	NM_001011724	NP_001011724			heterogeneous nuclear ribonucleoprotein A1-like						mRNA processing|mRNA transport|RNA splicing	cytoplasm|spliceosomal complex	nucleotide binding|RNA binding				0																		---	---	---	---
SUGT1	10910	broad.mit.edu	37	13	53245866	53245866	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:53245866delG	uc001vhc.2	+						SUGT1_uc001vha.2_Intron|SUGT1_uc001vhb.2_Intron|SUGT1_uc010thb.1_Intron|SUGT1_uc001vhd.2_Intron	NM_001130912	NP_001124384			suppressor of G2 allele of SKP1 isoform a						mitosis	kinetochore|ubiquitin ligase complex	binding				0		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.25e-08)														---	---	---	---
LECT1	11061	broad.mit.edu	37	13	53300646	53300646	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:53300646delA	uc001vhf.2	-						LECT1_uc001vhg.2_Intron|LECT1_uc001vhh.2_Intron	NM_007015	NP_008946			leukocyte cell derived chemotaxin 1 isoform 1						cartilage development|proteoglycan metabolic process	endomembrane system|extracellular region|integral to membrane				ovary(2)	2		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.38e-08)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	53666784	53666784	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:53666784delT								OLFM4 (40598 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	53911038	53911038	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:53911038delT								OLFM4 (284852 upstream) : MIR1297 (975069 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	53913301	53913301	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:53913301delA								OLFM4 (287115 upstream) : MIR1297 (972806 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	53949661	53949661	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:53949661delT								OLFM4 (323475 upstream) : MIR1297 (936446 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	54190467	54190467	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:54190467delT								OLFM4 (564281 upstream) : MIR1297 (695640 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	54269851	54269851	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:54269851delA								OLFM4 (643665 upstream) : MIR1297 (616256 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	54395747	54395747	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:54395747delT								OLFM4 (769561 upstream) : MIR1297 (490360 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	54793457	54793458	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:54793457_54793458insG								None (None upstream) : MIR1297 (92649 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	55291565	55291565	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:55291565delT								MIR1297 (405382 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	55833506	55833506	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:55833506delT								MIR1297 (947323 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	55853915	55853915	+	IGR	DEL	A	-	-	rs34810330		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:55853915delA								MIR1297 (967732 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	56291665	56291665	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:56291665delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	56326076	56326076	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:56326076delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	56750549	56750550	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:56750549_56750550delAA								None (None upstream) : PRR20C (964502 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	56902803	56902804	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:56902803_56902804insT								None (None upstream) : PRR20C (812248 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	57158427	57158427	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:57158427delT								None (None upstream) : PRR20C (556625 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	57847711	57847711	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:57847711delG								PRR20B (103359 upstream) : PCDH17 (358078 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	58817488	58817488	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:58817488delA								PCDH17 (514423 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	58849814	58849814	+	IGR	DEL	T	-	-	rs76862393		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:58849814delT								PCDH17 (546749 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	58903808	58903808	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:58903808delA								PCDH17 (600743 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	60033167	60033167	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:60033167delA								None (None upstream) : DIAPH3 (206558 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	60753106	60753106	+	IGR	DEL	T	-	-	rs67313590		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:60753106delT								DIAPH3 (14987 upstream) : TDRD3 (217485 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	60907245	60907245	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:60907245delA								DIAPH3 (169126 upstream) : TDRD3 (63346 downstream)																																			---	---	---	---
TDRD3	81550	broad.mit.edu	37	13	60969295	60969295	+	5'Flank	DEL	T	-	-	rs147064004		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:60969295delT	uc001via.2	+						TDRD3_uc010aef.2_5'Flank|TDRD3_uc001vhz.3_5'Flank|TDRD3_uc010aeg.2_5'Flank	NM_030794	NP_110421			tudor domain containing 3 isoform 2						chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	61206373	61206374	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:61206373_61206374delGT								TDRD3 (58361 upstream) : PCDH20 (777447 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	61332178	61332178	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:61332178delT								TDRD3 (184166 upstream) : PCDH20 (651643 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	61503480	61503480	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:61503480delT	uc001vic.1	+											Homo sapiens cDNA FLJ40497 fis, clone TESTI2044892.																														---	---	---	---
Unknown	0	broad.mit.edu	37	13	61796317	61796317	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:61796317delC								TDRD3 (648305 upstream) : PCDH20 (187504 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	61850953	61850953	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:61850953delA								TDRD3 (702941 upstream) : PCDH20 (132868 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	62005287	62005287	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:62005287delT								PCDH20 (3208 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	62054303	62054303	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:62054303delG								PCDH20 (52224 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	62325674	62325674	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:62325674delT								PCDH20 (323595 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	62392717	62392718	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:62392717_62392718insA								PCDH20 (390638 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	62923265	62923265	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:62923265delA								PCDH20 (921186 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	62968690	62968690	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:62968690delT								PCDH20 (966611 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	63387197	63387198	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:63387197_63387198delTT								None (None upstream) : OR7E156P (924370 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	63465453	63465453	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:63465453delA								None (None upstream) : OR7E156P (846115 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	63535474	63535474	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:63535474delA								None (None upstream) : OR7E156P (776094 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	63602900	63602901	+	IGR	INS	-	A	A	rs143717938	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:63602900_63602901insA								None (None upstream) : OR7E156P (708667 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	63862580	63862581	+	IGR	INS	-	G	G	rs71102427		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:63862580_63862581insG								None (None upstream) : OR7E156P (448987 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	64135081	64135081	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:64135081delA								None (None upstream) : OR7E156P (176487 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	64173735	64173735	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:64173735delT								None (None upstream) : OR7E156P (137833 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	64391523	64391523	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:64391523delT								OR7E156P (74822 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	64748137	64748137	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:64748137delA								OR7E156P (431436 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	64873238	64873238	+	IGR	DEL	A	-	-	rs77371600		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:64873238delA								OR7E156P (556537 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	65356867	65356868	+	IGR	INS	-	A	A	rs78340947		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:65356867_65356868insA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	65427980	65427980	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:65427980delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	66566855	66566855	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:66566855delC								None (None upstream) : PCDH9 (310112 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	66715067	66715067	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:66715067delT								None (None upstream) : PCDH9 (161900 downstream)																																			---	---	---	---
PCDH9	5101	broad.mit.edu	37	13	67425708	67425709	+	Intron	DEL	CA	-	-	rs71207609		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:67425708_67425709delCA	uc001vik.2	-						PCDH9_uc010aei.2_Intron|PCDH9_uc001vil.2_Intron|PCDH9_uc010thl.1_Intron	NM_203487	NP_982354			protocadherin 9 isoform 1 precursor						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)														---	---	---	---
PCDH9	5101	broad.mit.edu	37	13	67428756	67428756	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:67428756delT	uc001vik.2	-						PCDH9_uc010aei.2_Intron|PCDH9_uc001vil.2_Intron|PCDH9_uc010thl.1_Intron	NM_203487	NP_982354			protocadherin 9 isoform 1 precursor						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)														---	---	---	---
PCDH9	5101	broad.mit.edu	37	13	67649112	67649113	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:67649112_67649113delTT	uc001vik.2	-						PCDH9_uc001vil.2_Intron|PCDH9_uc010thl.1_Intron	NM_203487	NP_982354			protocadherin 9 isoform 1 precursor						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)														---	---	---	---
PCDH9	5101	broad.mit.edu	37	13	67799412	67799412	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:67799412delT	uc001vik.2	-						PCDH9_uc001vil.2_Intron|PCDH9_uc010thl.1_Intron|PCDH9_uc001vin.3_3'UTR	NM_203487	NP_982354			protocadherin 9 isoform 1 precursor						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)														---	---	---	---
PCDH9	5101	broad.mit.edu	37	13	67806904	67806904	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:67806904delA	uc001vik.2	-						PCDH9_uc001vil.2_5'Flank|PCDH9_uc010thl.1_5'Flank|PCDH9_uc001vin.3_5'Flank	NM_203487	NP_982354			protocadherin 9 isoform 1 precursor						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	68327596	68327597	+	IGR	DEL	TT	-	-	rs74596495		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:68327596_68327597delTT								PCDH9 (523128 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	68752632	68752632	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:68752632delA								PCDH9 (948164 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	69935697	69935697	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:69935697delA								None (None upstream) : KLHL1 (339029 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	69987415	69987416	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:69987415_69987416delAA								None (None upstream) : KLHL1 (287310 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	71153800	71153800	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:71153800delT								ATXN8OS (439915 upstream) : DACH1 (858298 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	71273883	71273883	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:71273883delA								ATXN8OS (559998 upstream) : DACH1 (738215 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	71517432	71517433	+	IGR	INS	-	G	G	rs141152785	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:71517432_71517433insG								ATXN8OS (803547 upstream) : DACH1 (494665 downstream)																																			---	---	---	---
DACH1	1602	broad.mit.edu	37	13	72292708	72292710	+	Intron	DEL	AAA	-	-	rs11345161		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:72292708_72292710delAAA	uc010thn.1	-						DACH1_uc010tho.1_Intron|DACH1_uc010thp.1_Intron	NM_080759	NP_542937			dachshund homolog 1 isoform a						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	72577211	72577212	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:72577211_72577212delCT								DACH1 (135881 upstream) : C13orf37 (705283 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	72718716	72718716	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:72718716delA								DACH1 (277386 upstream) : C13orf37 (563779 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	73257937	73257937	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:73257937delC								DACH1 (816607 upstream) : C13orf37 (24558 downstream)																																			---	---	---	---
PIBF1	10464	broad.mit.edu	37	13	73402141	73402141	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:73402141delT	uc001vjc.2	+						PIBF1_uc001vja.1_Intron|PIBF1_uc010aeo.1_Intron|PIBF1_uc001vjb.2_Intron|PIBF1_uc010aep.2_Intron	NM_006346	NP_006337			progesterone-induced blocking factor 1							centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)														---	---	---	---
PIBF1	10464	broad.mit.edu	37	13	73457594	73457594	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:73457594delT	uc001vjc.2	+						PIBF1_uc010aeo.1_Intron|PIBF1_uc001vjb.2_Intron|PIBF1_uc010aep.2_Intron	NM_006346	NP_006337			progesterone-induced blocking factor 1							centrosome				ovary(1)|breast(1)	2		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	73611164	73611164	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:73611164delA								PIBF1 (20575 upstream) : KLF5 (17950 downstream)																																			---	---	---	---
KLF5	688	broad.mit.edu	37	13	73650112	73650112	+	3'UTR	DEL	C	-	-	rs9573097	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:73650112delC	uc001vje.2	+	4					KLF5_uc001vjd.2_3'UTR	NM_001730	NP_001721			Kruppel-like factor 5						transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|pancreas(1)	3		Prostate(6;0.00187)|Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.0011)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	73723922	73723922	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:73723922delA								KLF5 (72247 upstream) : KLF12 (536228 downstream)																																			---	---	---	---
KLF12	11278	broad.mit.edu	37	13	74516141	74516141	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:74516141delA	uc001vjf.2	-						KLF12_uc010aeq.2_Intron|KLF12_uc001vjg.3_Intron	NM_007249	NP_009180			Kruppel-like factor 12						negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Prostate(6;0.00217)|Breast(118;0.0838)		GBM - Glioblastoma multiforme(99;0.00677)														---	---	---	---
KLF12	11278	broad.mit.edu	37	13	74618624	74618624	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:74618624delA	uc001vjf.2	-						KLF12_uc010aeq.2_Intron|KLF12_uc001vjg.3_Intron	NM_007249	NP_009180			Kruppel-like factor 12						negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Prostate(6;0.00217)|Breast(118;0.0838)		GBM - Glioblastoma multiforme(99;0.00677)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	75030033	75030034	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:75030033_75030034delAA								KLF12 (321639 upstream) : LOC647288 (781856 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	75773310	75773310	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:75773310delT								None (None upstream) : LOC647288 (38580 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	75847966	75847966	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:75847966delG								LOC647288 (33449 upstream) : TBC1D4 (10843 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	76063881	76063884	+	IGR	DEL	AAAA	-	-	rs76215282		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:76063881_76063884delAAAA								TBC1D4 (7631 upstream) : COMMD6 (35466 downstream)																																			---	---	---	---
LMO7	4008	broad.mit.edu	37	13	76377072	76377072	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:76377072delA	uc001vjv.2	+						LMO7_uc010thv.1_Intron|LMO7_uc001vjt.1_Intron|LMO7_uc010thw.1_Intron|LMO7_uc001vjw.1_5'Flank|LMO7_uc001vju.1_Intron	NM_015842	NP_056667			LIM domain only 7 isoform 2							cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	76487378	76487378	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:76487378delA								LMO7 (53374 upstream) : KCTD12 (966926 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	76855816	76855817	+	IGR	DEL	AA	-	-	rs35349315		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:76855816_76855817delAA								LMO7 (421812 upstream) : KCTD12 (598487 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	77124369	77124369	+	IGR	DEL	A	-	-	rs138161903		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:77124369delA								LMO7 (690365 upstream) : KCTD12 (329935 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	77375901	77375902	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:77375901_77375902insA								LMO7 (941897 upstream) : KCTD12 (78402 downstream)																																			---	---	---	---
MYCBP2	23077	broad.mit.edu	37	13	77629910	77629910	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:77629910delA	uc001vkf.2	-						MYCBP2_uc010aev.2_Intron|MYCBP2_uc001vke.2_Intron	NM_015057	NP_055872			MYC binding protein 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)														---	---	---	---
MYCBP2	23077	broad.mit.edu	37	13	77644557	77644557	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:77644557delT	uc001vkf.2	-						MYCBP2_uc010aev.2_Intron|MYCBP2_uc001vke.2_Intron	NM_015057	NP_055872			MYC binding protein 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)														---	---	---	---
MYCBP2	23077	broad.mit.edu	37	13	77843765	77843765	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:77843765delA	uc001vkf.2	-						MYCBP2_uc010aev.2_Intron	NM_015057	NP_055872			MYC binding protein 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	78025429	78025430	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:78025429_78025430delTT								MYCBP2 (124252 upstream) : SCEL (84379 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	79649960	79649961	+	IGR	INS	-	AA	AA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:79649960_79649961insAA								RNF219 (415260 upstream) : RBM26 (244139 downstream)																																			---	---	---	---
NDFIP2	54602	broad.mit.edu	37	13	80095144	80095144	+	Intron	DEL	T	-	-	rs71875241		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:80095144delT	uc001vlf.2	+						NDFIP2_uc010tib.1_Intron|NDFIP2_uc001vlg.2_Intron	NM_019080	NP_061953			Nedd4 family interacting protein 2 isoform 1						negative regulation of gene expression|negative regulation of protein transport|negative regulation of transporter activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of protein ubiquitination	endoplasmic reticulum|Golgi membrane|integral to membrane|mitochondrion|multivesicular body membrane|perinuclear region of cytoplasm	signal transducer activity|WW domain binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.205)		GBM - Glioblastoma multiforme(99;0.0196)														---	---	---	---
NDFIP2	54602	broad.mit.edu	37	13	80111003	80111003	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:80111003delA	uc001vlf.2	+						NDFIP2_uc010tib.1_Intron|NDFIP2_uc001vlg.2_Intron	NM_019080	NP_061953			Nedd4 family interacting protein 2 isoform 1						negative regulation of gene expression|negative regulation of protein transport|negative regulation of transporter activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of protein ubiquitination	endoplasmic reticulum|Golgi membrane|integral to membrane|mitochondrion|multivesicular body membrane|perinuclear region of cytoplasm	signal transducer activity|WW domain binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.205)		GBM - Glioblastoma multiforme(99;0.0196)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	80337357	80337357	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:80337357delT								NDFIP2 (207152 upstream) : SPRY2 (572757 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	80511047	80511047	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:80511047delT								NDFIP2 (380842 upstream) : SPRY2 (399067 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	80934893	80934893	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:80934893delT								SPRY2 (19807 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	81430021	81430022	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:81430021_81430022delAA								SPRY2 (514935 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	81781236	81781236	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:81781236delT								SPRY2 (866150 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	82560061	82560061	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:82560061delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	83018054	83018055	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:83018054_83018055delTG								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	84019255	84019256	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:84019255_84019256insA								None (None upstream) : SLITRK1 (432088 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	84579674	84579674	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:84579674delT								SLITRK1 (123146 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	84780330	84780330	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:84780330delT								SLITRK1 (323802 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	85138747	85138748	+	IGR	INS	-	A	A	rs148635454	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:85138747_85138748insA								SLITRK1 (682219 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	85146612	85146613	+	IGR	INS	-	C	C	rs151274814	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:85146612_85146613insC								SLITRK1 (690084 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	85175574	85175575	+	IGR	DEL	CA	-	-	rs9602512	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:85175574_85175575delCA								SLITRK1 (719046 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	86054035	86054038	+	IGR	DEL	TGTA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:86054035_86054038delTGTA								None (None upstream) : SLITRK6 (312884 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	86400184	86400184	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:86400184delA								SLITRK6 (26701 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	86483081	86483081	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:86483081delT								SLITRK6 (109598 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	86514727	86514728	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:86514727_86514728delCT								SLITRK6 (141244 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	86644229	86644229	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:86644229delT								SLITRK6 (270746 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	86730071	86730071	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:86730071delA								SLITRK6 (356588 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	86992804	86992804	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:86992804delT								SLITRK6 (619321 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	87411022	87411022	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:87411022delC								None (None upstream) : SLITRK5 (913848 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	87814140	87814140	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:87814140delA								None (None upstream) : SLITRK5 (510730 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	87990061	87990061	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:87990061delA								None (None upstream) : SLITRK5 (334809 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	88372543	88372543	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:88372543delA								SLITRK5 (40675 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	88380450	88380450	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:88380450delT								SLITRK5 (48582 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	88444302	88444302	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:88444302delA								SLITRK5 (112434 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	88782142	88782143	+	IGR	DEL	TT	-	-	rs11302749		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:88782142_88782143delTT								SLITRK5 (450274 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	88882582	88882583	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:88882582_88882583insA								SLITRK5 (550714 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	88910881	88910881	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:88910881delT								SLITRK5 (579013 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	88949566	88949566	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:88949566delT								SLITRK5 (617698 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	89238060	89238060	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:89238060delA								SLITRK5 (906192 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	89673810	89673811	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:89673810_89673811insT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	90212870	90212870	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:90212870delA								None (None upstream) : MIR622 (670566 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	90813664	90813664	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:90813664delA								None (None upstream) : MIR622 (69772 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	90921916	90921916	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:90921916delA								MIR622 (38385 upstream) : LOC144776 (621292 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	91136253	91136253	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:91136253delT								MIR622 (252722 upstream) : LOC144776 (406955 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	91756156	91756157	+	IGR	DEL	AT	-	-	rs138355753		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:91756156_91756157delAT								LOC144776 (177305 upstream) : MIR17HG (243917 downstream)																																			---	---	---	---
GPC5	2262	broad.mit.edu	37	13	92983936	92983937	+	Intron	DEL	TT	-	-	rs147954918		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:92983936_92983937delTT	uc010tif.1	+							NM_004466	NP_004457			glypican 5 precursor							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)																---	---	---	---
GPC5	2262	broad.mit.edu	37	13	93119953	93119953	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:93119953delT	uc010tif.1	+							NM_004466	NP_004457			glypican 5 precursor							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)																---	---	---	---
GPC5	2262	broad.mit.edu	37	13	93190717	93190717	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:93190717delT	uc010tif.1	+							NM_004466	NP_004457			glypican 5 precursor							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)																---	---	---	---
GPC5	2262	broad.mit.edu	37	13	93275419	93275420	+	Intron	DEL	AA	-	-	rs76188645		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:93275419_93275420delAA	uc010tif.1	+							NM_004466	NP_004457			glypican 5 precursor							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)																---	---	---	---
Unknown	0	broad.mit.edu	37	13	93577176	93577176	+	IGR	DEL	T	-	-	rs78306870		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:93577176delT								GPC5 (57691 upstream) : GPC6 (301902 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	93820447	93820447	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:93820447delA								GPC5 (300962 upstream) : GPC6 (58631 downstream)																																			---	---	---	---
GPC6	10082	broad.mit.edu	37	13	94087714	94087714	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:94087714delT	uc001vlt.2	+						GPC6_uc010tig.1_Intron	NM_005708	NP_005699			glypican 6 precursor							anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)																---	---	---	---
GPC6	10082	broad.mit.edu	37	13	94251945	94251945	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:94251945delT	uc001vlt.2	+						GPC6_uc010tig.1_Intron|GPC6_uc001vlu.1_Intron	NM_005708	NP_005699			glypican 6 precursor							anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)																---	---	---	---
GPR180	160897	broad.mit.edu	37	13	95271970	95271970	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:95271970delT	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)																	---	---	---	---
Unknown	0	broad.mit.edu	37	13	95340845	95340845	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:95340845delA								GPR180 (58901 upstream) : SOX21 (21037 downstream)																																			---	---	---	---
ABCC4	10257	broad.mit.edu	37	13	95727562	95727562	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:95727562delA	uc001vmd.3	-						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)													---	---	---	---
UGGT2	55757	broad.mit.edu	37	13	96488296	96488296	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:96488296delT	uc001vmt.2	-						UGGT2_uc001vms.2_Intron	NM_020121	NP_064506			UDP-glucose ceramide glucosyltransferase-like 2						post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	13	98328757	98328757	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:98328757delA								RAP2A (208506 upstream) : IPO5 (277172 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	98486904	98486905	+	IGR	INS	-	TT	TT	rs145940110	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:98486904_98486905insTT								RAP2A (366653 upstream) : IPO5 (119024 downstream)																																			---	---	---	---
IPO5	3843	broad.mit.edu	37	13	98631961	98631961	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:98631961delT	uc001vnf.1	+						IPO5_uc001vne.2_Intron|IPO5_uc010tik.1_Intron|IPO5_uc010til.1_Intron	NM_002271	NP_002262			importin 5						interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3																		---	---	---	---
IPO5	3843	broad.mit.edu	37	13	98636112	98636112	+	Intron	DEL	T	-	-	rs72418879		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:98636112delT	uc001vnf.1	+						IPO5_uc001vne.2_Intron|IPO5_uc010tik.1_Intron|IPO5_uc010til.1_Intron	NM_002271	NP_002262			importin 5						interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	13	98703067	98703067	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:98703067delT								IPO5 (26518 upstream) : FARP1 (91749 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	98704237	98704237	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:98704237delA								IPO5 (27688 upstream) : FARP1 (90579 downstream)																																			---	---	---	---
DOCK9	23348	broad.mit.edu	37	13	99498685	99498685	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:99498685delT	uc001vnt.2	-						DOCK9_uc001vnw.2_Intron|DOCK9_uc001vnv.1_Intron|DOCK9_uc010tir.1_Intron|DOCK9_uc001vnq.2_5'UTR|DOCK9_uc001vnr.2_5'UTR|DOCK9_uc010tin.1_5'UTR|DOCK9_uc001vns.2_Intron|DOCK9_uc010tio.1_Intron|DOCK9_uc010tip.1_Intron|DOCK9_uc001vnu.1_Intron|DOCK9_uc010tiq.1_Intron	NM_015296	NP_056111			dedicator of cytokinesis 9 isoform a						blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)																	---	---	---	---
UBAC2	337867	broad.mit.edu	37	13	99951717	99951718	+	Intron	DEL	CA	-	-	rs34984315		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:99951717_99951718delCA	uc001voa.3	+						UBAC2_uc010tiu.1_Intron|UBAC2_uc001vob.3_Intron|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Intron|UBAC2_uc001voc.2_Intron|UBAC2_uc010tiw.1_Intron|GPR183_uc001vog.2_Intron	NM_001144072	NP_001137544			UBA domain containing 2 isoform 1							integral to membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)																	---	---	---	---
UBAC2	337867	broad.mit.edu	37	13	99983487	99983488	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:99983487_99983488insT	uc001voa.3	+						UBAC2_uc010tiu.1_Intron|UBAC2_uc001vob.3_Intron|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Intron|UBAC2_uc001voc.2_Intron|UBAC2_uc010tiw.1_Intron|UBAC2_uc001voh.2_Intron	NM_001144072	NP_001137544			UBA domain containing 2 isoform 1							integral to membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)																	---	---	---	---
UBAC2	337867	broad.mit.edu	37	13	100023410	100023410	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100023410delT	uc001voa.3	+						UBAC2_uc010tiu.1_Intron|UBAC2_uc001vob.3_Intron|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Intron|UBAC2_uc001voc.2_Intron|UBAC2_uc010tiw.1_Intron|UBAC2_uc001voh.2_Intron	NM_001144072	NP_001137544			UBA domain containing 2 isoform 1							integral to membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)																	---	---	---	---
TM9SF2	9375	broad.mit.edu	37	13	100191477	100191477	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100191477delA	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)																	---	---	---	---
TM9SF2	9375	broad.mit.edu	37	13	100196011	100196011	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100196011delA	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)																	---	---	---	---
CLYBL	171425	broad.mit.edu	37	13	100328854	100328854	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100328854delT	uc001vok.2	+						CLYBL_uc010tix.1_Intron|CLYBL_uc010tiy.1_Intron	NM_206808	NP_996531			citrate lyase beta like precursor						cellular aromatic compound metabolic process	citrate lyase complex|mitochondrion	citrate (pro-3S)-lyase activity|metal ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)																	---	---	---	---
CLYBL	171425	broad.mit.edu	37	13	100390139	100390139	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100390139delT	uc001vok.2	+						CLYBL_uc010tix.1_Intron|CLYBL_uc010tiy.1_Intron	NM_206808	NP_996531			citrate lyase beta like precursor						cellular aromatic compound metabolic process	citrate lyase complex|mitochondrion	citrate (pro-3S)-lyase activity|metal ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)																	---	---	---	---
CLYBL	171425	broad.mit.edu	37	13	100497672	100497672	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100497672delA	uc001vok.2	+						CLYBL_uc010tix.1_Intron|CLYBL_uc010tiy.1_Intron	NM_206808	NP_996531			citrate lyase beta like precursor						cellular aromatic compound metabolic process	citrate lyase complex|mitochondrion	citrate (pro-3S)-lyase activity|metal ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)																	---	---	---	---
Unknown	0	broad.mit.edu	37	13	100575040	100575040	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100575040delG								CLYBL (30217 upstream) : ZIC5 (40235 downstream)																																			---	---	---	---
ZIC5	85416	broad.mit.edu	37	13	100622275	100622275	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100622275delA	uc001vom.1	-							NM_033132	NP_149123			zinc finger protein of the cerebellum 5						cell differentiation	nucleus	DNA binding|zinc ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)																	---	---	---	---
Unknown	0	broad.mit.edu	37	13	100645403	100645404	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100645403_100645404delTT								ZIC2 (6385 upstream) : PCCA (95933 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	100670231	100670231	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100670231delA								ZIC2 (31213 upstream) : PCCA (71106 downstream)																																			---	---	---	---
PCCA	5095	broad.mit.edu	37	13	100743392	100743393	+	Intron	INS	-	G	G	rs72517241	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100743392_100743393insG	uc001voo.2	+						PCCA_uc010aga.2_Intron|PCCA_uc010tiz.1_Intron	NM_000282	NP_000273			propionyl-Coenzyme A carboxylase, alpha						fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)													---	---	---	---
PCCA	5095	broad.mit.edu	37	13	100750278	100750278	+	Intron	DEL	A	-	-	rs141788385		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100750278delA	uc001voo.2	+						PCCA_uc010aga.2_Intron|PCCA_uc010tiz.1_Intron	NM_000282	NP_000273			propionyl-Coenzyme A carboxylase, alpha						fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)													---	---	---	---
PCCA	5095	broad.mit.edu	37	13	101104227	101104243	+	Intron	DEL	TCTCCCTCTCTCTCTTT	-	-	rs116683526	by1000genomes;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:101104227_101104243delTCTCCCTCTCTCTCTTT	uc001voo.2	+						PCCA_uc010aga.2_Intron|PCCA_uc010tiz.1_Intron|PCCA_uc001vop.2_Intron	NM_000282	NP_000273			propionyl-Coenzyme A carboxylase, alpha						fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)													---	---	---	---
Unknown	0	broad.mit.edu	37	13	101699793	101699793	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:101699793delA								TMTC4 (372690 upstream) : NALCN (6337 downstream)																																			---	---	---	---
NALCN	259232	broad.mit.edu	37	13	102062596	102062596	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:102062596delT	uc001vox.1	-						NALCN_uc001voy.2_Intron|NALCN_uc001voz.2_Intron|NALCN_uc001vpa.2_Intron	NM_052867	NP_443099			voltage gated channel like 1							integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)																	---	---	---	---
ITGBL1	9358	broad.mit.edu	37	13	102247853	102247853	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:102247853delA	uc001vpb.2	+						ITGBL1_uc010agb.2_Intron|ITGBL1_uc001vpc.3_Intron	NM_004791	NP_004782			integrin, beta-like 1 (with EGF-like repeat						cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)																	---	---	---	---
Unknown	0	broad.mit.edu	37	13	103238525	103238527	+	IGR	DEL	TGA	-	-	rs139586707	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:103238525_103238527delTGA								FGF14 (184401 upstream) : TPP2 (10759 downstream)																																			---	---	---	---
LOC643677	643677	broad.mit.edu	37	13	103390904	103390905	+	Frame_Shift_Ins	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:103390904_103390905insT	uc001vpm.2	-	4	12282_12283	c.12142_12143insA	c.(12142-12144)ATTfs	p.I4048fs		NM_001146197	NP_001139669			hypothetical protein LOC643677												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	13	103726068	103726068	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:103726068delT								SLC10A2 (6872 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	104614228	104614228	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:104614228delT								SLC10A2 (895032 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	104669763	104669763	+	IGR	DEL	T	-	-	rs113668887		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:104669763delT								SLC10A2 (950567 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	105559481	105559481	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:105559481delT								None (None upstream) : DAOA (558735 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	106104639	106104639	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:106104639delA								None (None upstream) : DAOA (13577 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	106748067	106748068	+	IGR	DEL	AT	-	-	rs68013120		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:106748067_106748068delAT								DAOA (604685 upstream) : EFNB2 (394030 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	106814376	106814376	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:106814376delA								DAOA (670994 upstream) : EFNB2 (327722 downstream)																																			---	---	---	---
EFNB2	1948	broad.mit.edu	37	13	107142382	107142382	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:107142382delT	uc001vqi.2	-	5						NM_004093	NP_004084			ephrin B2 precursor						cell differentiation|cell-cell signaling|interspecies interaction between organisms|nervous system development	integral to plasma membrane	ephrin receptor binding			ovary(1)	1	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)																	---	---	---	---
Unknown	0	broad.mit.edu	37	13	107409613	107409616	+	IGR	DEL	GGAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:107409613_107409616delGGAA								ARGLU1 (189099 upstream) : FAM155A (411264 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	107482642	107482642	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:107482642delA								ARGLU1 (262128 upstream) : FAM155A (338238 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	107643758	107643758	+	IGR	DEL	T	-	-	rs77449327		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:107643758delT								ARGLU1 (423244 upstream) : FAM155A (177122 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	107752688	107752688	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:107752688delA								ARGLU1 (532174 upstream) : FAM155A (68192 downstream)																																			---	---	---	---
FAM155A	728215	broad.mit.edu	37	13	108491087	108491087	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:108491087delA	uc001vql.2	-							NM_001080396	NP_001073865			family with sequence similarity 155, member A							integral to membrane	binding			skin(1)	1																		---	---	---	---
FAM155A	728215	broad.mit.edu	37	13	108503252	108503252	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:108503252delA	uc001vql.2	-							NM_001080396	NP_001073865			family with sequence similarity 155, member A							integral to membrane	binding			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	13	109031963	109031964	+	IGR	DEL	TT	-	-	rs71858481		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:109031963_109031964delTT								TNFSF13B (72599 upstream) : MYO16 (216536 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	109240306	109240306	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:109240306delT								TNFSF13B (280942 upstream) : MYO16 (8194 downstream)																																			---	---	---	---
MYO16	23026	broad.mit.edu	37	13	109700758	109700758	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:109700758delT	uc001vqt.1	+						MYO16_uc010agk.1_Intron|MYO16_uc001vqu.1_Intron|MYO16_uc010tjh.1_Intron	NM_015011	NP_055826			myosin heavy chain Myr 8						cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)															---	---	---	---
Unknown	0	broad.mit.edu	37	13	111573483	111573485	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:111573483_111573485delAAA								ANKRD10 (6067 upstream) : ARHGEF7 (194139 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	112169461	112169461	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:112169461delA								C13orf16 (172868 upstream) : SOX1 (552452 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	112509742	112509742	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:112509742delC								C13orf16 (513149 upstream) : SOX1 (212171 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	112592217	112592218	+	IGR	DEL	TG	-	-	rs66479132		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:112592217_112592218delTG								C13orf16 (595624 upstream) : SOX1 (129695 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	112647199	112647199	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:112647199delC								C13orf16 (650606 upstream) : SOX1 (74714 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	13	112700802	112700803	+	IGR	DEL	TT	-	-	rs78614076		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:112700802_112700803delTT								C13orf16 (704209 upstream) : SOX1 (21110 downstream)																																			---	---	---	---
SOX1	6656	broad.mit.edu	37	13	112724862	112724862	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:112724862delA	uc001vsb.1	+	1						NM_005986	NP_005977			SRY (sex determining region Y)-box 1						chromatin organization	nucleus	core promoter sequence-specific DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	all_lung(23;0.000652)|Lung NSC(43;0.017)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	all_cancers(25;0.000331)|Lung NSC(25;0.0496)|all_lung(25;0.0831)|all_epithelial(44;0.0868)|Breast(118;0.231)		OV - Ovarian serous cystadenocarcinoma(48;0.132)														---	---	---	---
C13orf35	400165	broad.mit.edu	37	13	113321088	113321089	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:113321088_113321089delGT	uc001vsh.1	+							NM_207440	NP_997323			hypothetical protein LOC400165											ovary(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)		all cancers(43;0.201)															---	---	---	---
ATP11A	23250	broad.mit.edu	37	13	113523923	113523923	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:113523923delG	uc001vsi.3	+						ATP11A_uc001vsj.3_Intron|ATP11A_uc010ago.2_Intron	NM_015205	NP_056020			ATPase, class VI, type 11A isoform a						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			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)																---	---	---	---
LAMP1	3916	broad.mit.edu	37	13	113964899	113964900	+	Intron	DEL	TT	-	-	rs75356760		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:113964899_113964900delTT	uc001vtm.1	+						LAMP1_uc010tka.1_Intron	NM_005561	NP_005552			lysosomal-associated membrane protein 1							endosome membrane|integral to plasma membrane|lysosomal membrane|membrane fraction				central_nervous_system(2)	2	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)															---	---	---	---
Unknown	0	broad.mit.edu	37	13	114041191	114041191	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:114041191delT								GRTP1 (22728 upstream) : ADPRHL1 (35069 downstream)																																			---	---	---	---
DCUN1D2	55208	broad.mit.edu	37	13	114132650	114132650	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:114132650delT	uc001vtr.1	-						DCUN1D2_uc001vts.1_Intron|DCUN1D2_uc010agw.1_Intron	NM_001014283	NP_001014305			DCN1, defective in cullin neddylation 1, domain												0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0395)|all_epithelial(44;0.011)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.029)|GBM - Glioblastoma multiforme(44;0.234)															---	---	---	---
TMCO3	55002	broad.mit.edu	37	13	114149206	114149206	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:114149206delT	uc001vtu.3	+						TMCO3_uc001vtt.3_Intron	NM_017905	NP_060375			transmembrane and coiled-coil domains 3							integral to membrane	solute:hydrogen antiporter activity				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0145)|all_epithelial(44;0.00286)|all_lung(25;0.0273)|Breast(118;0.0411)|Lung NSC(25;0.0983)	all cancers(43;0.0317)															---	---	---	---
Unknown	0	broad.mit.edu	37	13	114205690	114205690	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:114205690delT								TMCO3 (1148 upstream) : TFDP1 (33313 downstream)																																			---	---	---	---
CDC16	8881	broad.mit.edu	37	13	115009890	115009890	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:115009890delT	uc001vuk.1	+						CDC16_uc001vul.1_Intron|CDC16_uc001vum.1_Intron|CDC16_uc001vun.1_Intron|CDC16_uc001vuo.1_Intron	NM_003903	NP_003894			anaphase-promoting complex, subunit 6						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cell proliferation|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|centrosome|cytosol|nucleoplasm|spindle microtubule	binding				0	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)															---	---	---	---
CDC16	8881	broad.mit.edu	37	13	115012399	115012399	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:115012399delT	uc001vuk.1	+						CDC16_uc001vul.1_Intron|CDC16_uc001vum.1_Intron|CDC16_uc001vun.1_Intron|CDC16_uc001vuo.1_Intron	NM_003903	NP_003894			anaphase-promoting complex, subunit 6						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cell proliferation|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|centrosome|cytosol|nucleoplasm|spindle microtubule	binding				0	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)															---	---	---	---
Unknown	0	broad.mit.edu	37	14	19794208	19794208	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:19794208delA								POTEG (209266 upstream) : P704P (189746 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	19809822	19809822	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:19809822delT								POTEG (224880 upstream) : P704P (174132 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	19865618	19865618	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:19865618delG	uc001vvq.1	-											Homo sapiens cDNA FLJ12852 fis, clone NT2RP2003445.																														---	---	---	---
Unknown	0	broad.mit.edu	37	14	20033541	20033541	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20033541delA								P704P (13269 upstream) : OR4Q3 (182046 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	20047744	20047747	+	IGR	DEL	AGTC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20047744_20047747delAGTC								P704P (27472 upstream) : OR4Q3 (167840 downstream)																																			---	---	---	---
TEP1	7011	broad.mit.edu	37	14	20845375	20845376	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20845375_20845376delAA	uc001vxe.2	-						TEP1_uc010ahk.2_Intron|TEP1_uc010tlf.1_Intron|TEP1_uc010tlg.1_Intron|TEP1_uc010tlh.1_Intron	NM_007110	NP_009041			telomerase-associated protein 1						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)														---	---	---	---
TEP1	7011	broad.mit.edu	37	14	20874171	20874173	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20874171_20874173delAAA	uc001vxe.2	-						TEP1_uc010tlf.1_Intron|TEP1_uc010tlg.1_Intron	NM_007110	NP_009041			telomerase-associated protein 1						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	21223975	21223975	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21223975delT								EDDM3A (7437 upstream) : EDDM3B (12611 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	21302182	21302182	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21302182delA								RNASE1 (31146 upstream) : RNASE3 (57380 downstream)																																			---	---	---	---
METT11D1	64745	broad.mit.edu	37	14	21461941	21461941	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21461941delT	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	21657704	21657704	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21657704delA								OR5AU1 (33520 upstream) : HNRNPC (19594 downstream)																																			---	---	---	---
RPGRIP1	57096	broad.mit.edu	37	14	21778400	21778401	+	Intron	DEL	TT	-	-	rs74540044		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21778400_21778401delTT	uc001wag.2	+							NM_020366	NP_065099			retinitis pigmentosa GTPase regulator						response to stimulus|visual perception	cilium				ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)														---	---	---	---
TOX4	9878	broad.mit.edu	37	14	21964624	21964624	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21964624delA	uc001waz.2	+						TOX4_uc001wba.2_Intron|TOX4_uc010tlu.1_Intron|TOX4_uc010tlv.1_Intron	NM_014828	NP_055643			epidermal Langerhans cell protein LCP1							chromatin|nucleus|PTW/PP1 phosphatase complex	DNA binding|protein binding			ovary(1)	1	all_cancers(95;0.000465)		Epithelial(56;6.61e-06)|all cancers(55;5.15e-05)	GBM - Glioblastoma multiforme(265;0.0149)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	22173841	22173841	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22173841delT								OR4E2 (39605 upstream) : DAD1 (859966 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	22279966	22279966	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22279966delT	uc010tmf.1	+						uc001wbv.2_5'Flank					SubName: Full=Putative uncharacterized protein ENSP00000374943;																														---	---	---	---
Unknown	0	broad.mit.edu	37	14	22313963	22313963	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22313963delT	uc010tmf.1	+						uc001wbw.2_Intron|uc010tmg.1_Intron|uc001wby.2_Intron|uc010ait.1_5'Flank|uc001wbz.1_5'Flank					SubName: Full=Putative uncharacterized protein ENSP00000374943;																														---	---	---	---
Unknown	0	broad.mit.edu	37	14	22892202	22892202	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22892202delA	uc001wbw.2	+						uc010aja.1_Intron|uc010tmk.1_Intron|uc010tmo.1_Intron|uc001wco.2_Intron|uc010aje.1_Intron|uc001wcp.2_Intron|uc001wcr.1_Intron|uc001wcs.1_Intron|uc010ajf.1_Intron|uc010ajg.1_Intron|uc001wcx.3_Intron|uc001wdd.2_Intron|uc010ajj.1_Intron|uc001wde.1_Intron|uc001wdf.2_Intron|uc010ajk.1_Intron|uc001wdg.1_Intron|uc010ajl.1_Intron|uc001wdj.2_Intron|uc010ajo.1_Intron|uc010ajp.1_Intron|uc001wds.1_Intron|uc001wdv.3_Intron|uc001wdt.1_Intron					SubName: Full=Alpha-chain C region; Flags: Fragment;																														---	---	---	---
SLC7A7	9056	broad.mit.edu	37	14	23244457	23244472	+	Intron	DEL	GTACCATTCCTTAGAG	-	-	rs151185590	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23244457_23244472delGTACCATTCCTTAGAG	uc001wgr.3	-						SLC7A7_uc001wgs.3_Intron|SLC7A7_uc001wgt.3_Intron|SLC7A7_uc001wgu.3_Intron|SLC7A7_uc001wgv.3_Intron	NM_003982	NP_003973			solute carrier family 7 member 7						blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	basolateral plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity			ovary(1)|breast(1)	2	all_cancers(95;8.44e-05)			GBM - Glioblastoma multiforme(265;0.00741)														---	---	---	---
C14orf93	60686	broad.mit.edu	37	14	23471933	23471933	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23471933delT	uc001wib.1	-						C14orf93_uc001wic.1_5'Flank|C14orf93_uc001wid.1_Intron|C14orf93_uc001wig.2_Intron|C14orf93_uc001wih.2_Intron|C14orf93_uc001wie.2_Intron|C14orf93_uc001wia.3_Intron|C14orf93_uc001wif.2_Intron	NM_021944	NP_068763			hypothetical protein LOC60686 precursor							extracellular region				ovary(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.0127)														---	---	---	---
PSMB5	5693	broad.mit.edu	37	14	23502434	23502434	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)													---	---	---	---
Unknown	0	broad.mit.edu	37	14	23715801	23715801	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23715801delA								SLC7A8 (62952 upstream) : HOMEZ (27043 downstream)																																			---	---	---	---
DHRS4	10901	broad.mit.edu	37	14	24461902	24461902	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24461902delA	uc001wlc.3	+						DHRS4L2_uc001wld.3_Intron|DHRS4L2_uc001wle.3_Intron|DHRS4L2_uc001wlg.3_Intron|DHRS4L2_uc001wlh.3_Intron|DHRS4L2_uc010tnt.1_Intron|DHRS4L2_uc001wli.3_Intron|DHRS4L2_uc010alb.2_5'Flank	NM_021004	NP_066284			peroxisomal short-chain alcohol dehydrogenase							mitochondrion|nuclear membrane|peroxisome	binding|carbonyl reductase (NADPH) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00962)	Vitamin A(DB00162)													---	---	---	---
Unknown	0	broad.mit.edu	37	14	24488238	24488238	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24488238delA								DHRS4 (12623 upstream) : DHRS4L1 (17472 downstream)																																			---	---	---	---
REC8	9985	broad.mit.edu	37	14	24640424	24640425	+	5'Flank	DEL	AA	-	-	rs137898712		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24640424_24640425delAA	uc001wmr.2	+						REC8_uc001wms.2_5'Flank	NM_005132	NP_005123			REC8 homolog						mitotic metaphase/anaphase transition|mitotic prometaphase|reciprocal meiotic recombination|sister chromatid cohesion	nucleoplasm					0				GBM - Glioblastoma multiforme(265;0.00839)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	25075542	25075542	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:25075542delA								CTSG (30076 upstream) : GZMH (151 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	25252802	25252802	+	IGR	DEL	C	-	-	rs145620952	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:25252802delC								GZMB (149370 upstream) : STXBP6 (28506 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	25552416	25552416	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:25552416delT								STXBP6 (33245 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	25754655	25754655	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:25754655delA								STXBP6 (235484 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	25827413	25827413	+	IGR	DEL	T	-	-	rs71121825		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:25827413delT								STXBP6 (308242 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	26265716	26265716	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:26265716delA								STXBP6 (746545 upstream) : NOVA1 (649374 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	26349408	26349408	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:26349408delA								STXBP6 (830237 upstream) : NOVA1 (565682 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	26540955	26540955	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:26540955delT								None (None upstream) : NOVA1 (374135 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	26662956	26662956	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:26662956delT								None (None upstream) : NOVA1 (252134 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	26889118	26889118	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:26889118delT								None (None upstream) : NOVA1 (25972 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	26893429	26893429	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:26893429delA								None (None upstream) : NOVA1 (21661 downstream)																																			---	---	---	---
NOVA1	4857	broad.mit.edu	37	14	27064470	27064470	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:27064470delT	uc001wpy.2	-						NOVA1_uc001wpz.2_Intron|NOVA1_uc001wqa.2_Intron|NOVA1_uc001wqb.2_Intron	NM_002515	NP_002506			neuro-oncological ventral antigen 1 isoform 1						locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)														---	---	---	---
NOVA1	4857	broad.mit.edu	37	14	27066756	27066756	+	5'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:27066756delT	uc001wpy.2	-	1					NOVA1_uc001wpz.2_5'UTR|NOVA1_uc001wqa.2_5'UTR|NOVA1_uc001wqb.2_5'UTR	NM_002515	NP_002506			neuro-oncological ventral antigen 1 isoform 1						locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	27267567	27267568	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:27267567_27267568delAA								NOVA1 (200607 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	27707759	27707759	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:27707759delT								NOVA1 (640799 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	28249397	28249397	+	IGR	DEL	A	-	-	rs74551614		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:28249397delA								None (None upstream) : FOXG1 (986890 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	28731078	28731078	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:28731078delA	uc001wqd.2	+											SubName: Full=cDNA FLJ60537, highly similar to BCL2/adenovirus E1B 19 kDa protein-interacting protein 3;																														---	---	---	---
Unknown	0	broad.mit.edu	37	14	29332483	29332483	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:29332483delT								C14orf23 (68484 upstream) : PRKD1 (713206 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	29359727	29359727	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:29359727delA								C14orf23 (95728 upstream) : PRKD1 (685962 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	29363699	29363699	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:29363699delA								C14orf23 (99700 upstream) : PRKD1 (681990 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	29412793	29412793	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:29412793delC								C14orf23 (148794 upstream) : PRKD1 (632896 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	30007213	30007214	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:30007213_30007214delGT								C14orf23 (743214 upstream) : PRKD1 (38475 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	30414592	30414592	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:30414592delA								PRKD1 (17693 upstream) : G2E3 (613737 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	30753800	30753800	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:30753800delT								PRKD1 (356901 upstream) : G2E3 (274529 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	30786187	30786188	+	IGR	DEL	AC	-	-	rs112354331		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:30786187_30786188delAC								PRKD1 (389288 upstream) : G2E3 (242141 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	30881821	30881821	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:30881821delA								PRKD1 (484922 upstream) : G2E3 (146508 downstream)																																			---	---	---	---
SCFD1	23256	broad.mit.edu	37	14	31103119	31103119	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31103119delA	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)														---	---	---	---
SCFD1	23256	broad.mit.edu	37	14	31126732	31126732	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31126732delT	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)														---	---	---	---
SCFD1	23256	broad.mit.edu	37	14	31132567	31132568	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31132567_31132568insT	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)														---	---	---	---
SCFD1	23256	broad.mit.edu	37	14	31139633	31139633	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31139633delT	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	31297807	31297807	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31297807delC								SCFD1 (92789 upstream) : COCH (45934 downstream)																																			---	---	---	---
AP4S1	11154	broad.mit.edu	37	14	31553965	31553965	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31553965delT	uc001wqy.3	+						AP4S1_uc001wqw.3_Intron|AP4S1_uc001wqx.3_Intron|AP4S1_uc010amh.2_Intron|AP4S1_uc001wqz.3_Intron	NM_001128126	NP_001121598			adaptor-related protein complex 4, sigma 1							coated pit|Golgi apparatus	protein transporter activity				0	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.221)	GBM - Glioblastoma multiforme(265;0.00553)														---	---	---	---
HECTD1	25831	broad.mit.edu	37	14	31640617	31640617	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31640617delA	uc001wrc.1	-						HECTD1_uc001wrd.1_5'Flank	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)														---	---	---	---
HEATR5A	25938	broad.mit.edu	37	14	31819967	31819970	+	Intron	DEL	TTTG	-	-	rs72055697		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31819967_31819970delTTTG	uc001wrf.3	-						HEATR5A_uc010ami.2_Intron|HEATR5A_uc001wrg.1_Intron|HEATR5A_uc010tpk.1_Intron	NM_015473	NP_056288			HEAT repeat containing 5A								binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	31944093	31944094	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31944093_31944094insT								HEATR5A (17413 upstream) : NUBPL (86497 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	32340525	32340526	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:32340525_32340526insA								NUBPL (10108 upstream) : C14orf128 (204100 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	32647980	32647980	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:32647980delT								ARHGAP5 (19048 upstream) : AKAP6 (150499 downstream)																																			---	---	---	---
AKAP6	9472	broad.mit.edu	37	14	33026128	33026128	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:33026128delT	uc001wrq.2	+						AKAP6_uc010aml.2_Intron	NM_004274	NP_004265			A-kinase anchor protein 6						protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)														---	---	---	---
NPAS3	64067	broad.mit.edu	37	14	33408505	33408505	+	5'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:33408505delA	uc001wru.2	+	1					NPAS3_uc001wrs.2_5'UTR|NPAS3_uc001wrt.2_5'UTR|NPAS3_uc001wrv.2_5'UTR	NM_173159	NP_071406			neuronal PAS domain protein 3 isoform 3						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)														---	---	---	---
NPAS3	64067	broad.mit.edu	37	14	33422115	33422116	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:33422115_33422116insA	uc001wru.2	+						NPAS3_uc001wrs.2_Intron|NPAS3_uc001wrt.2_Intron|NPAS3_uc001wrv.2_Intron	NM_173159	NP_071406			neuronal PAS domain protein 3 isoform 3						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)														---	---	---	---
NPAS3	64067	broad.mit.edu	37	14	33443757	33443757	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:33443757delT	uc001wru.2	+						NPAS3_uc001wrs.2_Intron|NPAS3_uc001wrt.2_Intron|NPAS3_uc001wrv.2_Intron	NM_173159	NP_071406			neuronal PAS domain protein 3 isoform 3						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)														---	---	---	---
NPAS3	64067	broad.mit.edu	37	14	33467618	33467618	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:33467618delT	uc001wru.2	+						NPAS3_uc001wrs.2_Intron|NPAS3_uc001wrt.2_Intron|NPAS3_uc001wrv.2_Intron	NM_173159	NP_071406			neuronal PAS domain protein 3 isoform 3						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)														---	---	---	---
NPAS3	64067	broad.mit.edu	37	14	33671609	33671609	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:33671609delA	uc001wru.2	+						NPAS3_uc001wrs.2_Intron|NPAS3_uc001wrt.2_Intron|NPAS3_uc001wrv.2_Intron	NM_173159	NP_071406			neuronal PAS domain protein 3 isoform 3						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)														---	---	---	---
NPAS3	64067	broad.mit.edu	37	14	33817079	33817080	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:33817079_33817080delTT	uc001wru.2	+						NPAS3_uc001wrs.2_Intron|NPAS3_uc001wrt.2_Intron|NPAS3_uc001wrv.2_Intron|NPAS3_uc001wrw.2_Intron	NM_173159	NP_071406			neuronal PAS domain protein 3 isoform 3						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	34494150	34494150	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:34494150delT								EGLN3 (73863 upstream) : C14orf147 (407995 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	34566046	34566046	+	IGR	DEL	A	-	-	rs33993495		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:34566046delA								EGLN3 (145759 upstream) : C14orf147 (336099 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	34810642	34810642	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:34810642delA								EGLN3 (390355 upstream) : C14orf147 (91503 downstream)																																			---	---	---	---
SNX6	58533	broad.mit.edu	37	14	35083643	35083643	+	Intron	DEL	A	-	-	rs77673238		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35083643delA	uc001wsf.1	-						SNX6_uc001wse.1_Intron|SNX6_uc010tpm.1_Intron|SNX6_uc010amm.1_Intron	NM_152233	NP_689419			sorting nexin 6 isoform b						cell communication|intracellular protein transport|negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent|negative regulation of transforming growth factor beta receptor signaling pathway|retrograde transport, endosome to Golgi	cytoplasmic vesicle membrane|early endosome membrane|nucleus	phosphatidylinositol binding|protein homodimerization activity				0	Breast(36;0.0473)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00199)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.0245)														---	---	---	---
SNX6	58533	broad.mit.edu	37	14	35086291	35086291	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35086291delA	uc001wsf.1	-						SNX6_uc001wse.1_Intron|SNX6_uc010tpm.1_Intron|SNX6_uc010amm.1_Intron	NM_152233	NP_689419			sorting nexin 6 isoform b						cell communication|intracellular protein transport|negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent|negative regulation of transforming growth factor beta receptor signaling pathway|retrograde transport, endosome to Golgi	cytoplasmic vesicle membrane|early endosome membrane|nucleus	phosphatidylinositol binding|protein homodimerization activity				0	Breast(36;0.0473)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00199)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.0245)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	35353403	35353403	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35353403delA								BAZ1A (8550 upstream) : C14orf19 (55725 downstream)																																			---	---	---	---
SRP54	6729	broad.mit.edu	37	14	35470316	35470316	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35470316delT	uc001wso.2	+						SRP54_uc010tpp.1_Intron|SRP54_uc010tpq.1_Intron	NM_003136	NP_003127			signal recognition particle 54kDa isoform 1						GTP catabolic process|response to drug|SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition|SRP-dependent cotranslational protein targeting to membrane, translocation	cytosol|nuclear speck|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|drug binding|endoplasmic reticulum signal peptide binding|GDP binding|GTP binding|nucleoside-triphosphatase activity|ribonucleoprotein binding			ovary(1)	1	Breast(36;0.0545)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;2.48e-05)|Lung(238;3.13e-05)|Epithelial(34;0.0314)|all cancers(34;0.0797)|BRCA - Breast invasive adenocarcinoma(188;0.243)	GBM - Glioblastoma multiforme(112;0.0396)														---	---	---	---
KIAA0391	9692	broad.mit.edu	37	14	35662188	35662188	+	Intron	DEL	A	-	-	rs112023792		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35662188delA	uc001wsy.1	+						KIAA0391_uc010tps.1_Intron|KIAA0391_uc001wsz.1_Intron|KIAA0391_uc001wta.2_Intron|KIAA0391_uc001wtb.1_Intron|KIAA0391_uc001wtc.1_Intron	NM_014672	NP_055487			mitochondrial RNase P protein 3 precursor						tRNA processing	mitochondrion					0	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;2.93e-05)|LUAD - Lung adenocarcinoma(48;3.86e-05)|Epithelial(34;0.0114)|all cancers(34;0.0277)	GBM - Glioblastoma multiforme(112;0.0593)														---	---	---	---
KIAA0391	9692	broad.mit.edu	37	14	35665034	35665034	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35665034delA	uc001wsy.1	+						KIAA0391_uc010tps.1_Intron|KIAA0391_uc001wsz.1_Intron|KIAA0391_uc001wta.2_Intron|KIAA0391_uc001wtb.1_Intron|KIAA0391_uc001wtc.1_Intron	NM_014672	NP_055487			mitochondrial RNase P protein 3 precursor						tRNA processing	mitochondrion					0	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;2.93e-05)|LUAD - Lung adenocarcinoma(48;3.86e-05)|Epithelial(34;0.0114)|all cancers(34;0.0277)	GBM - Glioblastoma multiforme(112;0.0593)														---	---	---	---
KIAA0391	9692	broad.mit.edu	37	14	35702917	35702917	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35702917delT	uc001wsy.1	+						KIAA0391_uc010tps.1_Intron|KIAA0391_uc001wsz.1_Intron|KIAA0391_uc001wta.2_Intron|KIAA0391_uc001wtb.1_Intron|KIAA0391_uc001wtc.1_Intron	NM_014672	NP_055487			mitochondrial RNase P protein 3 precursor						tRNA processing	mitochondrion					0	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;2.93e-05)|LUAD - Lung adenocarcinoma(48;3.86e-05)|Epithelial(34;0.0114)|all cancers(34;0.0277)	GBM - Glioblastoma multiforme(112;0.0593)														---	---	---	---
PSMA6	5687	broad.mit.edu	37	14	35782290	35782290	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35782290delT	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)														---	---	---	---
RALGAPA1	253959	broad.mit.edu	37	14	36094781	36094781	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:36094781delA	uc001wti.2	-						RALGAPA1_uc010amp.2_Intron|RALGAPA1_uc001wtj.2_Intron|RALGAPA1_uc010tpv.1_Intron|RALGAPA1_uc010tpw.1_Intron	NM_014990	NP_055805			Ral GTPase activating protein, alpha subunit 1						activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	14	36632631	36632631	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:36632631delA								BRMS1L (291463 upstream) : MBIP (135133 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	36704510	36704512	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:36704510_36704512delTTT								BRMS1L (363342 upstream) : MBIP (63252 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	36918427	36918427	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:36918427delT								MBIP (128545 upstream) : SFTA3 (24069 downstream)																																			---	---	---	---
SLC25A21	89874	broad.mit.edu	37	14	37192042	37192042	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:37192042delT	uc001wtz.1	-							NM_030631	NP_085134			solute carrier family 25 (mitochondrial						lysine catabolic process	integral to membrane|mitochondrial inner membrane	alpha-ketoglutarate transmembrane transporter activity|binding			skin(1)	1	Esophageal squamous(585;0.164)|Breast(36;0.179)|Hepatocellular(127;0.213)		Lung(8;2.16e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.0112)|all cancers(34;0.0274)|LUSC - Lung squamous cell carcinoma(13;0.149)	GBM - Glioblastoma multiforme(112;0.00204)														---	---	---	---
SLC25A21	89874	broad.mit.edu	37	14	37384232	37384232	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:37384232delT	uc001wtz.1	-							NM_030631	NP_085134			solute carrier family 25 (mitochondrial						lysine catabolic process	integral to membrane|mitochondrial inner membrane	alpha-ketoglutarate transmembrane transporter activity|binding			skin(1)	1	Esophageal squamous(585;0.164)|Breast(36;0.179)|Hepatocellular(127;0.213)		Lung(8;2.16e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.0112)|all cancers(34;0.0274)|LUSC - Lung squamous cell carcinoma(13;0.149)	GBM - Glioblastoma multiforme(112;0.00204)														---	---	---	---
SLC25A21	89874	broad.mit.edu	37	14	37628421	37628421	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:37628421delA	uc001wtz.1	-							NM_030631	NP_085134			solute carrier family 25 (mitochondrial						lysine catabolic process	integral to membrane|mitochondrial inner membrane	alpha-ketoglutarate transmembrane transporter activity|binding			skin(1)	1	Esophageal squamous(585;0.164)|Breast(36;0.179)|Hepatocellular(127;0.213)		Lung(8;2.16e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.0112)|all cancers(34;0.0274)|LUSC - Lung squamous cell carcinoma(13;0.149)	GBM - Glioblastoma multiforme(112;0.00204)														---	---	---	---
MIPOL1	145282	broad.mit.edu	37	14	37705135	37705137	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:37705135_37705137delTTT	uc001wuc.2	+						MIPOL1_uc010amr.2_Intron|MIPOL1_uc001wub.3_Intron|MIPOL1_uc001wud.2_Intron|MIPOL1_uc010ams.2_Intron|MIPOL1_uc001wue.2_Intron|MIPOL1_uc010amt.2_Intron	NM_138731	NP_620059			mirror-image polydactyly 1											ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)														---	---	---	---
MIPOL1	145282	broad.mit.edu	37	14	37938375	37938375	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:37938375delA	uc001wuc.2	+						MIPOL1_uc010amr.2_Intron|MIPOL1_uc001wub.3_Intron|MIPOL1_uc001wud.2_Intron|MIPOL1_uc010ams.2_Intron|MIPOL1_uc001wue.2_Intron|MIPOL1_uc010amt.2_Intron	NM_138731	NP_620059			mirror-image polydactyly 1											ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)														---	---	---	---
MIPOL1	145282	broad.mit.edu	37	14	37943060	37943067	+	Intron	DEL	ATACTAAA	-	-	rs146367877		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:37943060_37943067delATACTAAA	uc001wuc.2	+						MIPOL1_uc010amr.2_Intron|MIPOL1_uc001wub.3_Intron|MIPOL1_uc001wud.2_Intron|MIPOL1_uc010ams.2_Intron|MIPOL1_uc001wue.2_Intron|MIPOL1_uc010amt.2_Intron	NM_138731	NP_620059			mirror-image polydactyly 1											ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)														---	---	---	---
MIPOL1	145282	broad.mit.edu	37	14	38016070	38016070	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38016070delT	uc001wuc.2	+						MIPOL1_uc001wud.2_Intron|MIPOL1_uc010ams.2_Intron|MIPOL1_uc001wue.2_Intron|MIPOL1_uc010amt.2_Intron	NM_138731	NP_620059			mirror-image polydactyly 1											ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	38222257	38222257	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38222257delT	uc001wug.2	+											Homo sapiens chromosome 14 open reading frame 25, mRNA (cDNA clone IMAGE:5268731), partial cds.																														---	---	---	---
Unknown	0	broad.mit.edu	37	14	38292836	38292836	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38292836delT	uc001wug.2	+						uc001wuh.2_Intron|uc001wui.2_Intron|uc001wuj.2_Intron					Homo sapiens chromosome 14 open reading frame 25, mRNA (cDNA clone IMAGE:5268731), partial cds.																														---	---	---	---
Unknown	0	broad.mit.edu	37	14	38745835	38745835	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38745835delC								CLEC14A (20261 upstream) : SEC23A (755288 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	38953863	38953864	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38953863_38953864delAA								CLEC14A (228289 upstream) : SEC23A (547259 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	38981207	38981208	+	IGR	DEL	AA	-	-	rs75622562		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38981207_38981208delAA								CLEC14A (255633 upstream) : SEC23A (519915 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	39093399	39093399	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:39093399delA								CLEC14A (367825 upstream) : SEC23A (407724 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	39097773	39097774	+	IGR	INS	-	AA	AA	rs150728414	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:39097773_39097774insAA								CLEC14A (372199 upstream) : SEC23A (403349 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	39452399	39452399	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:39452399delT								CLEC14A (726825 upstream) : SEC23A (48724 downstream)																																			---	---	---	---
SEC23A	10484	broad.mit.edu	37	14	39536740	39536740	+	Intron	DEL	A	-	-	rs11322514		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:39536740delA	uc001wup.1	-						SEC23A_uc010tqa.1_Intron|SEC23A_uc010tqb.1_Intron|SEC23A_uc010tqc.1_Intron	NM_006364	NP_006355			SEC23-related protein A						COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)														---	---	---	---
SIP1	8487	broad.mit.edu	37	14	39585254	39585255	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:39585254_39585255delTT	uc001wuq.2	+						SIP1_uc001wur.2_Intron|SIP1_uc001wus.2_Intron|SIP1_uc010amx.2_Intron	NM_003616	NP_003607			SMN-interacting protein 1 isoform alpha						ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	Cajal body|cytosol|spliceosomal complex	protein binding				0	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0121)														---	---	---	---
SIP1	8487	broad.mit.edu	37	14	39594135	39594135	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:39594135delA	uc001wuq.2	+						SIP1_uc001wur.2_Intron|SIP1_uc001wus.2_Intron|SIP1_uc010amx.2_Intron	NM_003616	NP_003607			SMN-interacting protein 1 isoform alpha						ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	Cajal body|cytosol|spliceosomal complex	protein binding				0	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0121)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	40202831	40202831	+	IGR	DEL	T	-	-	rs112006332		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:40202831delT								FBXO33 (301127 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	40278635	40278635	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:40278635delA								FBXO33 (376931 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	40384090	40384090	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:40384090delA								FBXO33 (482386 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	40548472	40548473	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:40548472_40548473insT								FBXO33 (646768 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	40918644	40918644	+	IGR	DEL	T	-	-	rs74862769	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:40918644delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	42071863	42071863	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:42071863delA								None (None upstream) : LRFN5 (4901 downstream)																																			---	---	---	---
LRFN5	145581	broad.mit.edu	37	14	42101366	42101366	+	Intron	DEL	A	-	-	rs11356568		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:42101366delA	uc001wvm.2	+							NM_152447	NP_689660			leucine rich repeat and fibronectin type III							integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)											HNSCC(30;0.082)			---	---	---	---
Unknown	0	broad.mit.edu	37	14	42535067	42535067	+	IGR	DEL	T	-	-	rs79005153		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:42535067delT								LRFN5 (161317 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	42595337	42595337	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:42595337delA								LRFN5 (221587 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	42673894	42673899	+	IGR	DEL	TTTTCT	-	-	rs57323382		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:42673894_42673899delTTTTCT								LRFN5 (300144 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	43039222	43039223	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:43039222_43039223insA								LRFN5 (665472 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	43865244	43865244	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:43865244delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	43958741	43958742	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:43958741_43958742delAA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	44055552	44055552	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:44055552delT								None (None upstream) : FSCB (917803 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	44138765	44138765	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:44138765delA								None (None upstream) : FSCB (834590 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	44634521	44634521	+	IGR	DEL	C	-	-	rs7145881	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:44634521delC								None (None upstream) : FSCB (338834 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	45265568	45265569	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45265568_45265569insT								FSCB (289069 upstream) : C14orf28 (100938 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	45348736	45348736	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45348736delA								FSCB (372237 upstream) : C14orf28 (17771 downstream)																																			---	---	---	---
FAM179B	23116	broad.mit.edu	37	14	45504609	45504609	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45504609delA	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																		---	---	---	---
FAM179B	23116	broad.mit.edu	37	14	45512382	45512382	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45512382delT	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																		---	---	---	---
FAM179B	23116	broad.mit.edu	37	14	45540826	45540826	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45540826delT	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																		---	---	---	---
FANCM	57697	broad.mit.edu	37	14	45609431	45609431	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45609431delT	uc001wwd.3	+						FANCM_uc001wwc.2_Intron|FANCM_uc010anf.2_Intron	NM_020937	NP_065988			Fanconi anemia, complementation group M						DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7													Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				---	---	---	---
Unknown	0	broad.mit.edu	37	14	45962728	45962729	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45962728_45962729delTG								C14orf106 (240123 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	46242822	46242822	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:46242822delT								C14orf106 (520217 upstream) : RPL10L (877400 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	46801657	46801658	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:46801657_46801658delAA								None (None upstream) : RPL10L (318564 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	46834257	46834257	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:46834257delA								None (None upstream) : RPL10L (285965 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	47125272	47125272	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47125272delA								RPL10L (4244 upstream) : MDGA2 (183558 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	47126437	47126437	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47126437delA								RPL10L (5409 upstream) : MDGA2 (182393 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	47126911	47126911	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47126911delA								RPL10L (5883 upstream) : MDGA2 (181919 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	47296804	47296804	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47296804delA								RPL10L (175776 upstream) : MDGA2 (12026 downstream)																																			---	---	---	---
MDGA2	161357	broad.mit.edu	37	14	47567366	47567366	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47567366delT	uc001wwj.3	-						MDGA2_uc001wwi.3_Intron|MDGA2_uc010ani.2_Intron	NM_001113498	NP_001106970			MAM domain containing 1 isoform 1						spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6																		---	---	---	---
MDGA2	161357	broad.mit.edu	37	14	47627141	47627141	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47627141delT	uc001wwj.3	-						MDGA2_uc001wwi.3_Intron|MDGA2_uc010ani.2_Intron	NM_001113498	NP_001106970			MAM domain containing 1 isoform 1						spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6																		---	---	---	---
MDGA2	161357	broad.mit.edu	37	14	47640481	47640482	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47640481_47640482insT	uc001wwj.3	-						MDGA2_uc001wwi.3_Intron|MDGA2_uc010ani.2_Intron	NM_001113498	NP_001106970			MAM domain containing 1 isoform 1						spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6																		---	---	---	---
MDGA2	161357	broad.mit.edu	37	14	47973877	47973877	+	Intron	DEL	A	-	-	rs116476734	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47973877delA	uc001wwj.3	-						MDGA2_uc010ani.2_Intron	NM_001113498	NP_001106970			MAM domain containing 1 isoform 1						spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	14	48365418	48365418	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:48365418delA								MDGA2 (221430 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	48700907	48700907	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:48700907delT								MDGA2 (556919 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	49252851	49252852	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:49252851_49252852delAA								None (None upstream) : SDCCAG1 (780175 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	49418274	49418274	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:49418274delT								None (None upstream) : SDCCAG1 (614753 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	49784621	49784621	+	IGR	DEL	A	-	-	rs138985820		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:49784621delA								None (None upstream) : SDCCAG1 (248406 downstream)																																			---	---	---	---
SDCCAG1	9147	broad.mit.edu	37	14	50062738	50062741	+	Intron	DEL	GGAG	-	-	rs72459400		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50062738_50062741delGGAG	uc010anj.1	-						PPIL5_uc001wwn.2_5'Flank|PPIL5_uc001wwo.2_5'Flank|PPIL5_uc010ank.2_5'Flank|PPIL5_uc001wwp.2_5'Flank	NM_004713	NP_004704			serologically defined colon cancer antigen 1							cytoplasm|nucleus					0	all_epithelial(31;0.000822)|Breast(41;0.0117)	all_lung(585;1.02e-05)		OV - Ovarian serous cystadenocarcinoma(311;5.99e-34)														---	---	---	---
SDCCAG1	9147	broad.mit.edu	37	14	50086480	50086480	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50086480delA	uc010anj.1	-						RPL36AL_uc001wwq.1_Intron|MGAT2_uc001wwr.2_5'Flank	NM_004713	NP_004704			serologically defined colon cancer antigen 1							cytoplasm|nucleus					0	all_epithelial(31;0.000822)|Breast(41;0.0117)	all_lung(585;1.02e-05)		OV - Ovarian serous cystadenocarcinoma(311;5.99e-34)														---	---	---	---
SDCCAG1	9147	broad.mit.edu	37	14	50146309	50146310	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50146309_50146310insA	uc010anj.1	-						POLE2_uc001wwu.2_Intron|POLE2_uc001wwv.2_Intron	NM_004713	NP_004704			serologically defined colon cancer antigen 1							cytoplasm|nucleus					0	all_epithelial(31;0.000822)|Breast(41;0.0117)	all_lung(585;1.02e-05)		OV - Ovarian serous cystadenocarcinoma(311;5.99e-34)														---	---	---	---
SDCCAG1	9147	broad.mit.edu	37	14	50248509	50248509	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50248509delA	uc010anj.1	-						KLHDC2_uc001wwx.2_Intron|KLHDC2_uc001wwy.2_Intron|KLHDC2_uc010anp.2_Intron	NM_004713	NP_004704			serologically defined colon cancer antigen 1							cytoplasm|nucleus					0	all_epithelial(31;0.000822)|Breast(41;0.0117)	all_lung(585;1.02e-05)		OV - Ovarian serous cystadenocarcinoma(311;5.99e-34)														---	---	---	---
SDCCAG1	9147	broad.mit.edu	37	14	50298000	50298000	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50298000delT	uc001wxc.2	-						SDCCAG1_uc010anj.1_Intron|SDCCAG1_uc010tqi.1_Intron|SDCCAG1_uc001wxe.2_Intron|SDCCAG1_uc001wxd.1_Intron|SDCCAG1_uc010anq.1_Intron	NM_004713	NP_004704			serologically defined colon cancer antigen 1							cytoplasm|nucleus					0	all_epithelial(31;0.000822)|Breast(41;0.0117)	all_lung(585;1.02e-05)		OV - Ovarian serous cystadenocarcinoma(311;5.99e-34)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	50326628	50326631	+	IGR	DEL	TTTT	-	-	rs74549702		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50326628_50326631delTTTT								SDCCAG1 (7089 upstream) : ARF6 (33105 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	50415585	50415586	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50415585_50415586delAA	uc001wxh.1	-											Homo sapiens cDNA FLJ35270 fis, clone PROST2005630.																														---	---	---	---
SOS2	6655	broad.mit.edu	37	14	50585617	50585617	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50585617delA	uc001wxs.3	-						SOS2_uc010ans.2_Intron|SOS2_uc010tql.1_Intron|C14orf138_uc001wxn.1_5'Flank|C14orf138_uc001wxo.1_5'Flank|C14orf138_uc001wxp.1_5'Flank|C14orf138_uc001wxq.1_5'Flank	NM_006939	NP_008870			son of sevenless homolog 2						apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)																	---	---	---	---
L2HGDH	79944	broad.mit.edu	37	14	50756987	50756987	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50756987delA	uc001wxu.2	-						L2HGDH_uc010tqn.1_Intron|L2HGDH_uc010tqo.1_Intron	NM_024884	NP_079160			L-2-hydroxyglutarate dehydrogenase precursor						2-oxoglutarate metabolic process|cellular protein metabolic process	integral to mitochondrial inner membrane	2-hydroxyglutarate dehydrogenase activity			ovary(2)	2	all_epithelial(31;0.000599)|Breast(41;0.0102)																	---	---	---	---
CDKL1	8814	broad.mit.edu	37	14	50836512	50836512	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50836512delT	uc010anu.1	-						CDKL1_uc001wxz.2_Intron	NM_004196	NP_004187			cyclin-dependent kinase-like 1							cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(1)|stomach(1)	2	all_epithelial(31;0.000746)|Breast(41;0.0102)																	---	---	---	---
Unknown	0	broad.mit.edu	37	14	51415313	51415313	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:51415313delT								PYGL (4065 upstream) : TRIM9 (26669 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	51569462	51569469	+	IGR	DEL	CTCTCTCT	-	-	rs72283286		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:51569462_51569469delCTCTCTCT								TRIM9 (7040 upstream) : TMX1 (137417 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	51830997	51830997	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:51830997delT								TMX1 (106627 upstream) : FRMD6 (124858 downstream)																																			---	---	---	---
FRMD6	122786	broad.mit.edu	37	14	51979334	51979335	+	Intron	INS	-	T	T	rs75986729		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:51979334_51979335insT	uc001wzb.2	+							NM_001042481	NP_001035946			FERM domain containing 6							cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)																	---	---	---	---
FRMD6	122786	broad.mit.edu	37	14	52167757	52167757	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52167757delT	uc001wzd.2	+						FRMD6_uc001wzb.2_Intron|FRMD6_uc001wzc.2_Intron|FRMD6_uc001wze.2_Intron	NM_152330	NP_689543			FERM domain containing 6							cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)																	---	---	---	---
FRMD6	122786	broad.mit.edu	37	14	52175162	52175162	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52175162delT	uc001wzd.2	+						FRMD6_uc001wzb.2_Intron|FRMD6_uc001wzc.2_Intron|FRMD6_uc001wze.2_Intron	NM_152330	NP_689543			FERM domain containing 6							cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)																	---	---	---	---
GNG2	54331	broad.mit.edu	37	14	52321762	52321762	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52321762delA	uc001wzh.2	+											Homo sapiens guanine nucleotide binding protein gamma 2 (GNG2) mRNA, complete cds.						cellular response to glucagon stimulus|energy reserve metabolic process|platelet activation|synaptic transmission	heterotrimeric G-protein complex	protein binding|signal transducer activity				0	all_epithelial(31;0.0659)|Breast(41;0.0684)				Halothane(DB01159)													---	---	---	---
GNG2	54331	broad.mit.edu	37	14	52396692	52396692	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52396692delA	uc001wzi.2	+						GNG2_uc001wzh.2_Intron|GNG2_uc010aoc.1_Intron|GNG2_uc001wzj.2_Intron|GNG2_uc001wzk.2_Intron|GNG2_uc010aob.1_Intron	NM_053064	NP_444292			guanine nucleotide binding protein (G protein),						cellular response to glucagon stimulus|energy reserve metabolic process|platelet activation|synaptic transmission	heterotrimeric G-protein complex	protein binding|signal transducer activity				0	all_epithelial(31;0.0659)|Breast(41;0.0684)				Halothane(DB01159)													---	---	---	---
NID2	22795	broad.mit.edu	37	14	52512362	52512362	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52512362delA	uc001wzo.2	-						NID2_uc010tqs.1_Intron|NID2_uc010tqt.1_Intron|NID2_uc001wzp.2_Intron	NM_007361	NP_031387			nidogen 2 precursor							basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)																	---	---	---	---
NID2	22795	broad.mit.edu	37	14	52520070	52520070	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52520070delA	uc001wzo.2	-						NID2_uc010tqs.1_Intron|NID2_uc010tqt.1_Intron|NID2_uc001wzp.2_Intron	NM_007361	NP_031387			nidogen 2 precursor							basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)																	---	---	---	---
TXNDC16	57544	broad.mit.edu	37	14	52965124	52965125	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52965124_52965125delCA	uc001wzs.2	-						TXNDC16_uc010tqu.1_Intron|TXNDC16_uc010aoe.2_Intron	NM_020784	NP_065835			thioredoxin domain containing 16 isoform 1						cell redox homeostasis	extracellular region					0	Breast(41;0.0716)																	---	---	---	---
PSMC6	5706	broad.mit.edu	37	14	53174547	53174547	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:53174547delT	uc010tqx.1	+						PSMC6_uc010tqv.1_Intron|PSMC6_uc010tqw.1_Intron	NM_002806	NP_002797			proteasome 26S ATPase subunit 6						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding, bridging			lung(1)	1	Breast(41;0.176)																	---	---	---	---
GNPNAT1	64841	broad.mit.edu	37	14	53248198	53248198	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:53248198delT	uc001xab.2	-							NM_198066	NP_932332			glucosamine-phosphate N-acetyltransferase 1						dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol|endosome membrane|Golgi membrane	glucosamine 6-phosphate N-acetyltransferase activity				0	Breast(41;0.176)																	---	---	---	---
FERMT2	10979	broad.mit.edu	37	14	53341920	53341920	+	Intron	DEL	A	-	-	rs141261474		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:53341920delA	uc001xad.2	-						FERMT2_uc001xac.2_Intron|FERMT2_uc001xae.2_Intron|FERMT2_uc001xaf.2_Intron	NM_006832	NP_006823			fermitin family homolog 2 isoform 1						actin cytoskeleton organization|cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytosol|focal adhesion|stress fiber	binding				0	Breast(41;0.0342)																	---	---	---	---
DDHD1	80821	broad.mit.edu	37	14	53539230	53539230	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:53539230delA	uc001xai.2	-						DDHD1_uc001xaj.2_Intron|DDHD1_uc001xah.2_Intron|DDHD1_uc001xag.2_Intron	NM_001160148	NP_001153620			DDHD domain containing 1 isoform c						lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)																	---	---	---	---
DDHD1	80821	broad.mit.edu	37	14	53539593	53539593	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:53539593delA	uc001xai.2	-						DDHD1_uc001xaj.2_Intron|DDHD1_uc001xah.2_Intron|DDHD1_uc001xag.2_Intron	NM_001160148	NP_001153620			DDHD domain containing 1 isoform c						lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)																	---	---	---	---
Unknown	0	broad.mit.edu	37	14	53906866	53906867	+	IGR	DEL	AA	-	-	rs35823495		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:53906866_53906867delAA								DDHD1 (286820 upstream) : BMP4 (509590 downstream)																																			---	---	---	---
BMP4	652	broad.mit.edu	37	14	54416700	54416701	+	3'UTR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:54416700_54416701delGT	uc001xal.3	-	3					BMP4_uc010aoh.2_3'UTR|BMP4_uc001xao.3_3'UTR|BMP4_uc001xan.3_3'UTR	NM_130851	NP_570912			bone morphogenetic protein 4 preproprotein						activation of MAPKK activity|blood vessel endothelial cell proliferation involved in sprouting angiogenesis|BMP signaling pathway involved in heart induction|BMP signaling pathway involved in nephric duct formation|branching involved in ureteric bud morphogenesis|bronchus development|bud dilation involved in lung branching|cardiac septum development|cartilage development|endocardial cushion development|epithelial cell proliferation involved in lung morphogenesis|intermediate mesodermal cell differentiation|lung alveolus development|lymphoid progenitor cell differentiation|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|negative regulation of branch elongation involved in ureteric bud branching by BMP signaling pathway|negative regulation of branching involved in ureteric bud morphogenesis|negative regulation of cell proliferation involved in heart morphogenesis|negative regulation of glomerular mesangial cell proliferation|negative regulation of glomerulus development|negative regulation of immature T cell proliferation in thymus|negative regulation of MAP kinase activity|negative regulation of metanephric comma-shaped body morphogenesis|negative regulation of metanephric S-shaped body morphogenesis|negative regulation of mitosis|negative regulation of myoblast differentiation|negative regulation of phosphorylation|negative regulation of striated muscle tissue development|negative regulation of thymocyte apoptosis|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cardiac muscle fiber development|positive regulation of cartilage development|positive regulation of collagen biosynthetic process|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of kidney development|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|protein localization to nucleus|pulmonary artery endothelial tube morphogenesis|secondary heart field specification|SMAD protein signal transduction|specification of ureteric bud anterior/posterior symmetry by BMP signaling pathway|steroid hormone mediated signaling pathway	extracellular space|proteinaceous extracellular matrix	BMP receptor binding|chemoattractant activity|cytokine activity|growth factor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	14	54587114	54587114	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:54587114delT								BMP4 (163560 upstream) : CDKN3 (276559 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	54685324	54685325	+	IGR	INS	-	AAC	AAC	rs148666388	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:54685324_54685325insAAC								BMP4 (261770 upstream) : CDKN3 (178348 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	54714801	54714801	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:54714801delT								BMP4 (291247 upstream) : CDKN3 (148872 downstream)																																			---	---	---	---
CDKN3	1033	broad.mit.edu	37	14	54876608	54876609	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:54876608_54876609insA	uc001xap.2	+						CDKN3_uc001xar.2_Intron|CDKN3_uc001xaq.2_Intron|CDKN3_uc001xas.1_Intron|CDKN3_uc010aoj.1_Intron	NM_005192	NP_005183			cyclin-dependent kinase inhibitor 3 isoform 1						cell cycle arrest|G1/S transition of mitotic cell cycle|negative regulation of cell proliferation|regulation of cyclin-dependent protein kinase activity	perinuclear region of cytoplasm	protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0																		---	---	---	---
GMFB	2764	broad.mit.edu	37	14	54952007	54952007	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:54952007delA	uc010tqz.1	-						GMFB_uc001xaw.1_5'Flank	NM_004124	NP_004115			glia maturation factor, beta						nervous system development|protein phosphorylation	intracellular	actin binding|enzyme activator activity|growth factor activity|protein kinase inhibitor activity|signal transducer activity				0																		---	---	---	---
SAMD4A	23034	broad.mit.edu	37	14	55173330	55173335	+	Intron	DEL	AAAAAG	-	-	rs141532878		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:55173330_55173335delAAAAAG	uc001xbb.2	+						SAMD4A_uc001xbc.2_Intron|SAMD4A_uc001xbf.1_Intron	NM_015589	NP_056404			sterile alpha motif domain containing 4 isoform						positive regulation of translation	cell junction|cytoplasm|dendrite|synapse|synaptosome	translation repressor activity				0																		---	---	---	---
LGALS3	3958	broad.mit.edu	37	14	55603031	55603031	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:55603031delA	uc001xbr.2	+							NM_002306	NP_002297			galectin 3						cell differentiation|innate immune response|mRNA processing|RNA splicing	mitochondrial inner membrane|plasma membrane|spliceosomal complex	IgE binding|sugar binding				0																		---	---	---	---
DLGAP5	9787	broad.mit.edu	37	14	55629651	55629653	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:55629651_55629653delAAA	uc001xbs.2	-						DLGAP5_uc001xbt.2_Intron	NM_014750	NP_055565			discs large homolog 7 isoform a						cell proliferation|cell-cell signaling|mitotic chromosome movement towards spindle pole|positive regulation of mitotic metaphase/anaphase transition	nucleus|spindle pole centrosome	phosphoprotein phosphatase activity|protein binding			ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	14	55679224	55679224	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:55679224delA								DLGAP5 (20828 upstream) : FBXO34 (58797 downstream)																																			---	---	---	---
KTN1	3895	broad.mit.edu	37	14	56150981	56150981	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:56150981delA	uc001xcb.2	+	46					KTN1_uc001xce.2_3'UTR|KTN1_uc001xcc.2_3'UTR|KTN1_uc001xcd.2_3'UTR|KTN1_uc010trb.1_3'UTR|KTN1_uc010aoq.2_3'UTR|KTN1_uc010trc.1_3'UTR|KTN1_uc001xcg.2_3'UTR	NM_182926	NP_891556			kinectin 1 isoform a						microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7								T	RET	papillary thryoid								---	---	---	---
C14orf34	645687	broad.mit.edu	37	14	56262755	56262755	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:56262755delA	uc010trd.1	-						C14orf34_uc010tre.1_Intron	NR_026796				Homo sapiens chromosome 14 open reading frame 34 (C14orf34), transcript variant 1, non-coding RNA.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	14	56295098	56295099	+	IGR	INS	-	T	T	rs149713609	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:56295098_56295099insT								C14orf34 (31706 upstream) : PELI2 (289994 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	56420688	56420689	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:56420688_56420689delAA								C14orf34 (157296 upstream) : PELI2 (164404 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	56513749	56513749	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:56513749delA								C14orf34 (250357 upstream) : PELI2 (71344 downstream)																																			---	---	---	---
PELI2	57161	broad.mit.edu	37	14	56727754	56727755	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:56727754_56727755delTT	uc001xch.2	+							NM_021255	NP_067078			pellino 2						innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			ovary(1)	1																		---	---	---	---
PELI2	57161	broad.mit.edu	37	14	56764181	56764183	+	3'UTR	DEL	TTT	-	-	rs66499431		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:56764181_56764183delTTT	uc001xch.2	+	6						NM_021255	NP_067078			pellino 2						innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	14	57260681	57260681	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:57260681delA								C14orf101 (144451 upstream) : OTX2 (6746 downstream)																																			---	---	---	---
EXOC5	10640	broad.mit.edu	37	14	57714315	57714315	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:57714315delA	uc001xct.2	-						EXOC5_uc010trg.1_Intron|EXOC5_uc010trh.1_Intron	NM_006544	NP_006535			SEC10 protein						exocytosis|post-Golgi vesicle-mediated transport|protein transport|vesicle docking	cytoplasm				ovary(2)|breast(1)	3																		---	---	---	---
C14orf37	145407	broad.mit.edu	37	14	58568358	58568359	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:58568358_58568359delTT	uc001xdc.2	-						C14orf37_uc010tro.1_Intron|C14orf37_uc001xdd.2_Intron	NM_001001872	NP_001001872			hypothetical protein LOC145407 precursor							integral to membrane	binding				0																		---	---	---	---
KIAA0586	9786	broad.mit.edu	37	14	58940629	58940629	+	Intron	DEL	A	-	-	rs80244208		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:58940629delA	uc001xdv.3	+						KIAA0586_uc010trr.1_Intron|KIAA0586_uc001xdt.3_Intron|KIAA0586_uc001xdu.3_Intron|KIAA0586_uc010trs.1_Intron|KIAA0586_uc010trt.1_Intron|KIAA0586_uc010tru.1_Intron	NM_014749	NP_055564			talpid3 protein											ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	14	59240999	59240999	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:59240999delA								DACT1 (125963 upstream) : DAAM1 (414400 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	59256803	59256803	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:59256803delT								DACT1 (141767 upstream) : DAAM1 (398596 downstream)																																			---	---	---	---
DAAM1	23002	broad.mit.edu	37	14	59789409	59789409	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:59789409delT	uc001xdz.1	+						DAAM1_uc001xea.1_Intron|DAAM1_uc001xeb.1_Intron	NM_014992	NP_055807			dishevelled-associated activator of						actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)														---	---	---	---
DAAM1	23002	broad.mit.edu	37	14	59835967	59835968	+	3'UTR	DEL	AC	-	-	rs74057123	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:59835967_59835968delAC	uc001xdz.1	+	26					DAAM1_uc001xea.1_3'UTR|DAAM1_uc001xec.1_RNA	NM_014992	NP_055807			dishevelled-associated activator of						actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	59992100	59992100	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:59992100delT								JKAMP (20020 upstream) : RTN1 (70594 downstream)																																			---	---	---	---
RTN1	6252	broad.mit.edu	37	14	60083715	60083715	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:60083715delC	uc001xen.1	-						RTN1_uc001xem.1_Intron|RTN1_uc001xek.1_Intron|RTN1_uc001xel.1_Intron|RTN1_uc010apl.1_Intron	NM_021136	NP_066959			reticulon 1 isoform A						neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)														---	---	---	---
C14orf39	317761	broad.mit.edu	37	14	60912111	60912111	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:60912111delA	uc001xez.3	-						C14orf39_uc010apo.2_Intron	NM_174978	NP_777638			hypothetical protein LOC317761											ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0448)														---	---	---	---
C14orf39	317761	broad.mit.edu	37	14	60934658	60934658	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:60934658delT	uc001xez.3	-						C14orf39_uc010apo.2_Intron	NM_174978	NP_777638			hypothetical protein LOC317761											ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0448)														---	---	---	---
C14orf39	317761	broad.mit.edu	37	14	60953419	60953419	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:60953419delT	uc001xez.3	-						C14orf39_uc010apo.2_5'Flank	NM_174978	NP_777638			hypothetical protein LOC317761											ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0448)														---	---	---	---
SIX4	51804	broad.mit.edu	37	14	61177313	61177313	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:61177313delT	uc001xfc.2	-	3						NM_017420	NP_059116			sine oculis homeobox homolog 4							nucleus				breast(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0275)														---	---	---	---
MNAT1	4331	broad.mit.edu	37	14	61207066	61207067	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:61207066_61207067insT	uc001xfd.2	+						MNAT1_uc010apq.1_Intron|MNAT1_uc001xfe.2_Intron	NM_002431	NP_002422			menage a trois 1 (CAK assembly factor)						cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein complex assembly|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|S phase of mitotic cell cycle|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	cytoplasm|holo TFIIH complex	protein N-terminus binding|zinc ion binding			ovary(1)|lung(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.0174)									Direct_reversal_of_damage|NER					---	---	---	---
MNAT1	4331	broad.mit.edu	37	14	61316358	61316358	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:61316358delT	uc001xfd.2	+						MNAT1_uc001xfe.2_Intron	NM_002431	NP_002422			menage a trois 1 (CAK assembly factor)						cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein complex assembly|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|S phase of mitotic cell cycle|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	cytoplasm|holo TFIIH complex	protein N-terminus binding|zinc ion binding			ovary(1)|lung(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.0174)									Direct_reversal_of_damage|NER					---	---	---	---
SLC38A6	145389	broad.mit.edu	37	14	61508678	61508678	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:61508678delT	uc001xfg.1	+						SLC38A6_uc001xfh.1_Intron|SLC38A6_uc001xfi.2_Intron|SLC38A6_uc001xfj.1_Intron|SLC38A6_uc001xfk.2_Intron|SLC38A6_uc010trz.1_Intron	NM_153811	NP_722518			solute carrier family 38, member 6						amino acid transport|sodium ion transport	integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(108;0.0981)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	62020426	62020426	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:62020426delA								PRKCH (2731 upstream) : HIF1A (141693 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	62143037	62143037	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:62143037delC								PRKCH (125342 upstream) : HIF1A (19082 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	62441879	62441879	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:62441879delA								SNAPC1 (178734 upstream) : SYT16 (11924 downstream)																																			---	---	---	---
SYT16	83851	broad.mit.edu	37	14	62523418	62523418	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:62523418delA	uc001xfu.1	+						SYT16_uc010tsd.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)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	62808491	62808491	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:62808491delT								FLJ43390 (211259 upstream) : KCNH5 (365456 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	62968852	62968852	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:62968852delT								FLJ43390 (371620 upstream) : KCNH5 (205095 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	63150001	63150001	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:63150001delT								FLJ43390 (552769 upstream) : KCNH5 (23946 downstream)																																			---	---	---	---
KCNH5	27133	broad.mit.edu	37	14	63258080	63258080	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:63258080delA	uc001xfx.2	-						KCNH5_uc001xfy.2_Intron|KCNH5_uc001xfz.1_Intron	NM_139318	NP_647479			potassium voltage-gated channel, subfamily H,						regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)														---	---	---	---
KCNH5	27133	broad.mit.edu	37	14	63508838	63508839	+	Intron	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:63508838_63508839delTC	uc001xfx.2	-						KCNH5_uc001xfy.2_Intron|KCNH5_uc001xfz.1_Intron|KCNH5_uc001xga.2_Intron	NM_139318	NP_647479			potassium voltage-gated channel, subfamily H,						regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)														---	---	---	---
PPP2R5E	5529	broad.mit.edu	37	14	63964485	63964486	+	Intron	INS	-	AA	AA	rs151045786	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:63964485_63964486insAA	uc001xgd.1	-						PPP2R5E_uc010tsf.1_Intron|PPP2R5E_uc010tsg.1_Intron|PPP2R5E_uc001xge.2_Intron|PPP2R5E_uc010tsh.1_Intron|PPP2R5E_uc001xgf.1_Intron|PPP2R5E_uc001xgg.3_Intron	NM_006246	NP_006237			epsilon isoform of regulatory subunit B56,						signal transduction	cytoplasm|intracellular membrane-bounded organelle|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00197)|all cancers(60;0.0153)|BRCA - Breast invasive adenocarcinoma(234;0.128)														---	---	---	---
SYNE2	23224	broad.mit.edu	37	14	64354374	64354374	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64354374delT	uc001xgm.2	+						SYNE2_uc001xgk.2_Intron|SYNE2_uc001xgl.2_Intron	NM_015180	NP_055995			spectrin repeat containing, nuclear envelope 2						centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)														---	---	---	---
SYNE2	23224	broad.mit.edu	37	14	64379066	64379066	+	Intron	DEL	A	-	-	rs79931116		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64379066delA	uc001xgm.2	+						SYNE2_uc001xgk.2_Intron|SYNE2_uc001xgl.2_Intron	NM_015180	NP_055995			spectrin repeat containing, nuclear envelope 2						centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)														---	---	---	---
SYNE2	23224	broad.mit.edu	37	14	64605665	64605672	+	Intron	DEL	GTGTGTGT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64605665_64605672delGTGTGTGT	uc001xgm.2	+						SYNE2_uc001xgl.2_Intron|SYNE2_uc010apy.2_Intron|SYNE2_uc001xgn.2_5'Flank|SYNE2_uc001xgo.2_5'Flank	NM_015180	NP_055995			spectrin repeat containing, nuclear envelope 2						centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)														---	---	---	---
SYNE2	23224	broad.mit.edu	37	14	64652209	64652210	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64652209_64652210delTT	uc001xgm.2	+						SYNE2_uc001xgl.2_Intron|SYNE2_uc010apy.2_Intron|SYNE2_uc001xgn.2_Intron|SYNE2_uc001xgo.2_Intron|SYNE2_uc010aqa.2_Intron|SYNE2_uc001xgq.2_Intron	NM_015180	NP_055995			spectrin repeat containing, nuclear envelope 2						centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)														---	---	---	---
MTHFD1	4522	broad.mit.edu	37	14	64867679	64867679	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64867679delT	uc001xhb.2	+						MTHFD1_uc010aqe.2_Intron|MTHFD1_uc010aqf.2_Intron	NM_005956	NP_005947			methylenetetrahydrofolate dehydrogenase 1						folic acid metabolic process|folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process	cytosol|mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|methylenetetrahydrofolate dehydrogenase|protein binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(108;8.7e-12)|all cancers(60;3.29e-11)|BRCA - Breast invasive adenocarcinoma(234;0.0488)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)													---	---	---	---
Unknown	0	broad.mit.edu	37	14	65349877	65349877	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:65349877delA								SPTB (3276 upstream) : CHURC1 (31263 downstream)																																			---	---	---	---
FNTB	2342	broad.mit.edu	37	14	65391330	65391330	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:65391330delT	uc010tsl.1	+						CHURC1_uc010tsj.1_Intron|CHURC1_uc010tsk.1_Intron|FNTB_uc010tsm.1_Intron|CHURC1_uc001xhv.1_Intron|CHURC1_uc001xhw.1_Intron	NM_002028	NP_002019			farnesyltransferase, CAAX box, beta						protein farnesylation	microtubule associated complex	protein binding|protein farnesyltransferase activity			ovary(1)	1				all cancers(60;0.00115)|OV - Ovarian serous cystadenocarcinoma(108;0.00412)|BRCA - Breast invasive adenocarcinoma(234;0.011)														---	---	---	---
MAX	4149	broad.mit.edu	37	14	65537865	65537865	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:65537865delT	uc001xic.1	-							NM_197957	NP_932061			MAX protein isoform f						transcription from RNA polymerase II promoter	cytoplasm|MLL1 complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			lung(1)	1				all cancers(60;0.000776)|OV - Ovarian serous cystadenocarcinoma(108;0.00359)|BRCA - Breast invasive adenocarcinoma(234;0.00999)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	65590424	65590424	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:65590424delA								MAX (21197 upstream) : LOC645431 (286889 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	65759721	65759723	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:65759721_65759723delTTT								MAX (190494 upstream) : LOC645431 (117590 downstream)																																			---	---	---	---
FUT8	2530	broad.mit.edu	37	14	66083545	66083545	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:66083545delT	uc001xin.2	+						FUT8_uc001xio.2_Intron|FUT8_uc010tsp.1_Intron|FUT8_uc001xir.3_Intron|FUT8_uc001xip.2_Intron|FUT8_uc001xiq.2_Intron	NM_178155	NP_835368			fucosyltransferase 8 isoform a						in utero embryonic development|L-fucose catabolic process|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in Golgi|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	glycoprotein 6-alpha-L-fucosyltransferase activity|SH3 domain binding			ovary(1)	1				all cancers(60;0.00109)|OV - Ovarian serous cystadenocarcinoma(108;0.00242)|BRCA - Breast invasive adenocarcinoma(234;0.0114)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	66431043	66431044	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:66431043_66431044delCA								FUT8 (221082 upstream) : C14orf53 (522065 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	66516267	66516267	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:66516267delA								FUT8 (306306 upstream) : C14orf53 (436842 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	66798760	66798761	+	IGR	INS	-	TG	TG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:66798760_66798761insTG								FUT8 (588799 upstream) : C14orf53 (154348 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	66804805	66804805	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:66804805delA								FUT8 (594844 upstream) : C14orf53 (148304 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	66821991	66821991	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:66821991delA								FUT8 (612030 upstream) : C14orf53 (131118 downstream)																																			---	---	---	---
C14orf53	440184	broad.mit.edu	37	14	66964778	66964784	+	Intron	DEL	TTTTTTC	-	-	rs55645960	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:66964778_66964784delTTTTTTC	uc001xiu.3	+						C14orf53_uc010tsq.1_Intron|C14orf53_uc001xiv.3_Intron|uc010tsr.1_Intron	NR_024338				Homo sapiens similar to CG32662-PA, mRNA (cDNA clone IMAGE:5163906).												0																		---	---	---	---
GPHN	10243	broad.mit.edu	37	14	67239698	67239698	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:67239698delT	uc001xiy.2	+						GPHN_uc001xiw.2_Intron|GPHN_uc001xix.2_Intron|GPHN_uc010tss.1_Intron|GPHN_uc010tst.1_Intron	NM_001024218	NP_001019389			gephyrin isoform 2						Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)				T	MLL	AL								---	---	---	---
GPHN	10243	broad.mit.edu	37	14	67331491	67331491	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:67331491delA	uc001xiy.2	+						GPHN_uc001xiw.2_Intron|GPHN_uc001xix.2_Intron|GPHN_uc010tss.1_Intron|GPHN_uc010tst.1_Intron|GPHN_uc010tsu.1_Intron	NM_001024218	NP_001019389			gephyrin isoform 2						Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)				T	MLL	AL								---	---	---	---
PLEKHH1	57475	broad.mit.edu	37	14	68044489	68044489	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68044489delT	uc001xjl.1	+						PLEKHH1_uc010tsw.1_Intron|PLEKHH1_uc001xjn.1_Intron|PLEKHH1_uc010tsx.1_5'Flank	NM_020715	NP_065766			pleckstrin homology domain containing, family H							cytoskeleton	binding				0				all cancers(60;0.000771)|OV - Ovarian serous cystadenocarcinoma(108;0.00502)|BRCA - Breast invasive adenocarcinoma(234;0.011)														---	---	---	---
PIGH	5283	broad.mit.edu	37	14	68067705	68067705	+	5'Flank	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68067705delC	uc001xjr.1	-						PIGH_uc010tsy.1_5'Flank	NM_004569	NP_004560			phosphatidylinositol glycan anchor biosynthesis,						C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|mitochondrion|nucleolus	phosphatidylinositol N-acetylglucosaminyltransferase activity			ovary(1)	1				all cancers(60;0.000592)|OV - Ovarian serous cystadenocarcinoma(108;0.00395)|BRCA - Breast invasive adenocarcinoma(234;0.00933)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	68082998	68082998	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68082998delT								PIGH (15981 upstream) : ARG2 (3581 downstream)																																			---	---	---	---
ZFYVE26	23503	broad.mit.edu	37	14	68244576	68244577	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68244576_68244577delTT	uc001xka.2	-						ZFYVE26_uc010tsz.1_Intron|ZFYVE26_uc001xkc.3_Intron	NM_015346	NP_056161			zinc finger, FYVE domain containing 26						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)														---	---	---	---
RAD51L1	5890	broad.mit.edu	37	14	68294181	68294181	+	Intron	DEL	T	-	-	rs33911115		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68294181delT	uc001xkf.1	+						RAD51L1_uc010aqq.2_Intron|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					---	---	---	---
RAD51L1	5890	broad.mit.edu	37	14	68321956	68321957	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68321956_68321957delTT	uc001xkf.1	+						RAD51L1_uc010aqq.2_Intron|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					---	---	---	---
RAD51L1	5890	broad.mit.edu	37	14	68794095	68794099	+	Intron	DEL	TGTTG	-	-	rs149463959	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68794095_68794099delTGTTG	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					---	---	---	---
Unknown	0	broad.mit.edu	37	14	69299933	69299933	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:69299933delG								C14orf181 (36743 upstream) : ACTN1 (40908 downstream)																																			---	---	---	---
ACTN1	87	broad.mit.edu	37	14	69441269	69441270	+	Intron	INS	-	CA	CA	rs147500352	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:69441269_69441270insCA	uc001xkl.2	-						ACTN1_uc010ttb.1_Intron|ACTN1_uc001xkm.2_Intron|ACTN1_uc001xkn.2_Intron|ACTN1_uc001xko.1_Intron|ACTN1_uc010ttd.1_Intron	NM_001102	NP_001093			actinin, alpha 1 isoform b						focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)														---	---	---	---
DCAF5	8816	broad.mit.edu	37	14	69597979	69597979	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:69597979delT	uc001xkp.2	-						DCAF5_uc001xkq.2_Intron|DCAF5_uc001xkr.3_Intron|DCAF5_uc001xks.2_Intron	NM_003861	NP_003852			WD repeat domain 22							CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2																		---	---	---	---
EXD2	55218	broad.mit.edu	37	14	69660776	69660777	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:69660776_69660777insT	uc001xkt.2	+						EXD2_uc001xku.2_Intron|EXD2_uc001xkv.2_Intron|EXD2_uc001xkw.2_Intron|EXD2_uc001xkx.2_Intron|EXD2_uc010aqt.2_Intron|EXD2_uc010tte.1_Intron	NM_018199	NP_060669			exonuclease 3'-5' domain containing 2						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0																		---	---	---	---
EXD2	55218	broad.mit.edu	37	14	69680389	69680389	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:69680389delT	uc001xkt.2	+						EXD2_uc001xku.2_Intron|EXD2_uc001xkv.2_Intron|EXD2_uc001xkw.2_Intron|EXD2_uc001xkx.2_Intron|EXD2_uc010aqt.2_Intron|EXD2_uc010tte.1_Intron|EXD2_uc001xky.2_Intron	NM_018199	NP_060669			exonuclease 3'-5' domain containing 2						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0																		---	---	---	---
ERH	2079	broad.mit.edu	37	14	69853393	69853393	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:69853393delA	uc001xlc.2	-							NM_004450	NP_004441			enhancer of rudimentary homolog						cell cycle|pyrimidine nucleoside metabolic process	midbody	protein binding				0				all cancers(60;0.00365)|BRCA - Breast invasive adenocarcinoma(234;0.0137)|OV - Ovarian serous cystadenocarcinoma(108;0.0507)														---	---	---	---
KIAA0247	9766	broad.mit.edu	37	14	70166257	70166260	+	Intron	DEL	TTTT	-	-	rs79830349		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:70166257_70166260delTTTT	uc001xlk.2	+						KIAA0247_uc010aqz.2_Intron	NM_014734	NP_055549			hypothetical protein LOC9766 precursor							integral to membrane				ovary(3)	3				all cancers(60;0.00155)|BRCA - Breast invasive adenocarcinoma(234;0.0164)|OV - Ovarian serous cystadenocarcinoma(108;0.0196)														---	---	---	---
SMOC1	64093	broad.mit.edu	37	14	70351984	70351985	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:70351984_70351985delTT	uc001xls.1	+						SMOC1_uc001xlt.1_Intron	NM_022137	NP_071420			secreted modular calcium-binding protein 1						cell differentiation|eye development|limb development|regulation of osteoblast differentiation|signal transduction	basement membrane	calcium ion binding			upper_aerodigestive_tract(1)|pancreas(1)	2				all cancers(60;0.00417)|BRCA - Breast invasive adenocarcinoma(234;0.0119)|OV - Ovarian serous cystadenocarcinoma(108;0.028)														---	---	---	---
SMOC1	64093	broad.mit.edu	37	14	70375607	70375608	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:70375607_70375608delGT	uc001xls.1	+						SMOC1_uc001xlt.1_Intron	NM_022137	NP_071420			secreted modular calcium-binding protein 1						cell differentiation|eye development|limb development|regulation of osteoblast differentiation|signal transduction	basement membrane	calcium ion binding			upper_aerodigestive_tract(1)|pancreas(1)	2				all cancers(60;0.00417)|BRCA - Breast invasive adenocarcinoma(234;0.0119)|OV - Ovarian serous cystadenocarcinoma(108;0.028)														---	---	---	---
SMOC1	64093	broad.mit.edu	37	14	70379478	70379478	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:70379478delT	uc001xls.1	+						SMOC1_uc001xlt.1_Intron	NM_022137	NP_071420			secreted modular calcium-binding protein 1						cell differentiation|eye development|limb development|regulation of osteoblast differentiation|signal transduction	basement membrane	calcium ion binding			upper_aerodigestive_tract(1)|pancreas(1)	2				all cancers(60;0.00417)|BRCA - Breast invasive adenocarcinoma(234;0.0119)|OV - Ovarian serous cystadenocarcinoma(108;0.028)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	70767446	70767447	+	IGR	DEL	GG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:70767446_70767447delGG								ADAM21P1 (52928 upstream) : COX16 (24352 downstream)																																			---	---	---	---
SYNJ2BP	55333	broad.mit.edu	37	14	70867893	70867893	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:70867893delA	uc001xmc.3	-						SYNJ2BP_uc010arc.2_Intron	NM_018373	NP_060843			synaptojanin 2 binding protein							integral to membrane|mitochondrial outer membrane					0				all cancers(60;0.00367)|BRCA - Breast invasive adenocarcinoma(234;0.00716)|OV - Ovarian serous cystadenocarcinoma(108;0.0377)														---	---	---	---
ADAM20	8748	broad.mit.edu	37	14	70999095	70999095	+	Intron	DEL	C	-	-	rs7154904	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:70999095delC	uc001xme.2	-							NM_003814	NP_003805			ADAM metallopeptidase domain 20 preproprotein						proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	71158685	71158685	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:71158685delT								TTC9 (16608 upstream) : MAP3K9 (36171 downstream)																																			---	---	---	---
PCNX	22990	broad.mit.edu	37	14	71493712	71493712	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:71493712delA	uc001xmo.2	+						PCNX_uc010are.1_Intron|PCNX_uc010arf.1_Intron	NM_014982	NP_055797			pecanex-like 1							integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	71893954	71893954	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:71893954delT								SNORD56B (28831 upstream) : SIPA1L1 (39948 downstream)																																			---	---	---	---
SIPA1L1	26037	broad.mit.edu	37	14	72124899	72124899	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:72124899delA	uc001xms.2	+						SIPA1L1_uc001xmt.2_Intron|SIPA1L1_uc001xmu.2_Intron|SIPA1L1_uc001xmv.2_Intron|SIPA1L1_uc010ttm.1_Intron	NM_015556	NP_056371			signal-induced proliferation-associated 1 like						actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)														---	---	---	---
SIPA1L1	26037	broad.mit.edu	37	14	72157381	72157382	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:72157381_72157382delTT	uc001xms.2	+						SIPA1L1_uc001xmt.2_Intron|SIPA1L1_uc001xmu.2_Intron|SIPA1L1_uc001xmv.2_Intron|SIPA1L1_uc010ttm.1_Intron	NM_015556	NP_056371			signal-induced proliferation-associated 1 like						actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	72271632	72271632	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:72271632delG								SIPA1L1 (65514 upstream) : RGS6 (127524 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	72285359	72285360	+	IGR	DEL	TT	-	-	rs78846311		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:72285359_72285360delTT								SIPA1L1 (79241 upstream) : RGS6 (113796 downstream)																																			---	---	---	---
RGS6	9628	broad.mit.edu	37	14	72573961	72573961	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:72573961delA	uc001xna.3	+						RGS6_uc010ttn.1_Intron|RGS6_uc001xmx.3_Intron|RGS6_uc010tto.1_Intron|RGS6_uc001xmy.3_Intron	NM_004296	NP_004287			regulator of G-protein signalling 6						G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)														---	---	---	---
RGS6	9628	broad.mit.edu	37	14	72798327	72798328	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:72798327_72798328delCT	uc001xna.3	+						RGS6_uc010ttn.1_Intron|RGS6_uc001xmx.3_Intron|RGS6_uc010tto.1_Intron|RGS6_uc001xmy.3_Intron	NM_004296	NP_004287			regulator of G-protein signalling 6						G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	73521993	73521994	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:73521993_73521994delAA								ZFYVE1 (28154 upstream) : RBM25 (3227 downstream)																																			---	---	---	---
RBM25	58517	broad.mit.edu	37	14	73586614	73586614	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:73586614delT	uc001xno.2	+	19					RBM25_uc010ttu.1_3'UTR|RBM25_uc001xnp.2_3'UTR	NM_021239	NP_067062			RNA binding motif protein 25						apoptosis|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|RNA splicing	cytoplasm|nuclear speck	mRNA binding|nucleotide binding|protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00362)|OV - Ovarian serous cystadenocarcinoma(108;0.0688)														---	---	---	---
DNAL1	83544	broad.mit.edu	37	14	74153808	74153808	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74153808delA	uc001xoq.3	+						DNAL1_uc010aru.2_Intron|DNAL1_uc010arv.2_Intron	NM_031427	NP_113615			axonemal dynein light chain 1												0				BRCA - Breast invasive adenocarcinoma(234;0.00384)|KIRC - Kidney renal clear cell carcinoma(182;0.095)														---	---	---	---
PTGR2	145482	broad.mit.edu	37	14	74342053	74342054	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74342053_74342054delTT	uc001xow.2	+						PTGR2_uc010tue.1_Intron|PTGR2_uc001xox.2_Intron|ZNF410_uc001xoy.1_Intron	NM_001146154	NP_001139626			prostaglandin reductase 2						prostaglandin metabolic process		15-oxoprostaglandin 13-oxidase activity|zinc ion binding				0																		---	---	---	---
ZNF410	57862	broad.mit.edu	37	14	74373525	74373525	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74373525delT	uc001xoz.1	+						ZNF410_uc001xoy.1_Intron|ZNF410_uc010tuf.1_Intron|ZNF410_uc010tug.1_Intron|ZNF410_uc010tuh.1_Intron|ZNF410_uc010tui.1_Intron|ZNF410_uc010arz.1_Intron|ZNF410_uc001xpa.1_Intron|ZNF410_uc001xpb.1_Intron|ZNF410_uc001xpc.1_Intron|ZNF410_uc010tuj.1_Intron	NM_021188	NP_067011			zinc finger protein 410						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00369)														---	---	---	---
ZNF410	57862	broad.mit.edu	37	14	74386990	74386990	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74386990delA	uc001xoz.1	+						ZNF410_uc001xoy.1_Intron|ZNF410_uc010tuf.1_Intron|ZNF410_uc010tug.1_Intron|ZNF410_uc010tuh.1_Intron|ZNF410_uc010tui.1_Intron|ZNF410_uc010arz.1_Intron|ZNF410_uc001xpa.1_Intron|ZNF410_uc001xpb.1_Intron|ZNF410_uc001xpc.1_Intron|ZNF410_uc010tuj.1_Intron	NM_021188	NP_067011			zinc finger protein 410						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00369)														---	---	---	---
ENTPD5	957	broad.mit.edu	37	14	74435482	74435482	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74435482delA	uc010tuo.1	-						ENTPD5_uc001xpi.2_Intron	NM_001249	NP_001240			ectonucleoside triphosphate diphosphohydrolase 5						'de novo' posttranslational protein folding|ATP metabolic process|cell growth|cell proliferation|glycolysis|protein N-linked glycosylation|regulation of phosphatidylinositol 3-kinase cascade	endoplasmic reticulum lumen	guanosine-diphosphatase activity|uridine-diphosphatase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00394)														---	---	---	---
ABCD4	5826	broad.mit.edu	37	14	74772359	74772359	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	74793028	74793028	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74793028delT								ABCD4 (23261 upstream) : C14orf115 (22138 downstream)																																			---	---	---	---
LTBP2	4053	broad.mit.edu	37	14	75028916	75028916	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75028916delA	uc001xqa.2	-							NM_000428	NP_000419			latent transforming growth factor beta binding						protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)														---	---	---	---
MLH3	27030	broad.mit.edu	37	14	75499535	75499535	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75499535delA	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					---	---	---	---
MLH3	27030	broad.mit.edu	37	14	75518376	75518376	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75518376delT	uc001xrd.1	-						MLH3_uc001xre.1_5'Flank|MLH3_uc010tuy.1_5'Flank	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					---	---	---	---
NEK9	91754	broad.mit.edu	37	14	75553608	75553608	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75553608delA	uc001xrl.2	-						NEK9_uc001xrj.2_Intron|NEK9_uc001xrk.2_Intron	NM_033116	NP_149107			NIMA-related kinase 9						cell division|mitosis	mitochondrion|nucleus	ATP binding|metal ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(2)|stomach(2)|ovary(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00718)														---	---	---	---
TMED10	10972	broad.mit.edu	37	14	75630501	75630502	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75630501_75630502delTT	uc001xrm.1	-						TMED10_uc010ash.1_Intron	NM_006827	NP_006818			transmembrane emp24 domain-containing protein 10						protein transport|regulated secretory pathway|vesicle targeting, to, from or within Golgi	cis-Golgi network|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|melanosome|microsome|zymogen granule membrane	protein binding				0				BRCA - Breast invasive adenocarcinoma(234;0.0126)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	75756180	75756181	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75756180_75756181delAA								FOS (7245 upstream) : JDP2 (138328 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	75824298	75824299	+	IGR	INS	-	TA	TA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75824298_75824299insTA								FOS (75363 upstream) : JDP2 (70210 downstream)																																			---	---	---	---
FLVCR2	55640	broad.mit.edu	37	14	76075415	76075415	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76075415delT	uc001xrs.2	+						FLVCR2_uc010tvd.1_Intron	NM_017791	NP_060261			feline leukemia virus subgroup C cellular						transmembrane transport	integral to membrane|plasma membrane	heme binding|heme transporter activity				0				BRCA - Breast invasive adenocarcinoma(234;0.029)														---	---	---	---
TTLL5	23093	broad.mit.edu	37	14	76182946	76182946	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76182946delT	uc001xrx.2	+						TTLL5_uc010ask.1_Intron|TTLL5_uc001xry.1_Intron	NM_015072	NP_055887			tubulin tyrosine ligase-like family, member 5						protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)														---	---	---	---
TTLL5	23093	broad.mit.edu	37	14	76352963	76352963	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76352963delT	uc001xrx.2	+						TTLL5_uc010ask.1_Intron|TTLL5_uc001xrz.2_Intron|TTLL5_uc001xsa.2_Intron	NM_015072	NP_055887			tubulin tyrosine ligase-like family, member 5						protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)														---	---	---	---
TTLL5	23093	broad.mit.edu	37	14	76394950	76394950	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76394950delA	uc001xrx.2	+						TTLL5_uc001xsa.2_Intron	NM_015072	NP_055887			tubulin tyrosine ligase-like family, member 5						protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)														---	---	---	---
TGFB3	7043	broad.mit.edu	37	14	76447772	76447772	+	5'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76447772delA	uc001xsc.2	-	1					TGFB3_uc001xsd.2_5'UTR	NM_003239	NP_003230			transforming growth factor, beta 3 precursor						cell growth|cell-cell junction organization|detection of hypoxia|face morphogenesis|in utero embryonic development|induction of apoptosis|lung alveolus development|mammary gland development|menstrual cycle phase|negative regulation of cell proliferation|negative regulation of DNA replication|negative regulation of macrophage cytokine production|negative regulation of neuron apoptosis|odontogenesis|ossification involved in bone remodeling|palate development|platelet activation|platelet degranulation|positive regulation of bone mineralization|positive regulation of cell division|positive regulation of collagen biosynthetic process|positive regulation of DNA replication|positive regulation of epithelial to mesenchymal transition|positive regulation of filopodium assembly|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein secretion|positive regulation of SMAD protein import into nucleus|positive regulation of transcription from RNA polymerase II promoter|response to progesterone stimulus|salivary gland morphogenesis|transforming growth factor beta receptor signaling pathway	extracellular matrix|platelet alpha granule lumen	growth factor activity|identical protein binding|transforming growth factor beta binding|type I transforming growth factor beta receptor binding|type II transforming growth factor beta receptor binding			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0169)														---	---	---	---
ESRRB	2103	broad.mit.edu	37	14	76914607	76914607	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76914607delT	uc001xsq.1	+						ESRRB_uc001xsr.2_Intron|ESRRB_uc001xso.2_Intron	NM_004452	NP_004443			estrogen-related receptor beta							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)														---	---	---	---
ESRRB	2103	broad.mit.edu	37	14	76944085	76944086	+	Intron	INS	-	T	T	rs144454433	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76944085_76944086insT	uc001xsq.1	+						ESRRB_uc001xsr.2_Intron|ESRRB_uc001xso.2_Intron	NM_004452	NP_004443			estrogen-related receptor beta							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)														---	---	---	---
ESRRB	2103	broad.mit.edu	37	14	76965492	76965493	+	Intron	INS	-	C	C	rs150374889	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76965492_76965493insC	uc001xsr.2	+						ESRRB_uc001xso.2_Intron	NM_004452	NP_004443			estrogen-related receptor beta							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	77096777	77096777	+	IGR	DEL	C	-	-	rs1676275	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:77096777delC								ESRRB (128599 upstream) : VASH1 (131458 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	77614488	77614488	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:77614488delT								ZDHHC22 (6354 upstream) : TMEM63C (33614 downstream)																																			---	---	---	---
VIPAR	63894	broad.mit.edu	37	14	77903814	77903814	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:77903814delA	uc001xtt.1	-						VIPAR_uc001xtu.1_Intron|VIPAR_uc010tvj.1_Intron|VIPAR_uc001xtv.1_Intron	NM_022067	NP_071350			hypothetical protein LOC63894						endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1																		---	---	---	---
VIPAR	63894	broad.mit.edu	37	14	77917935	77917935	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:77917935delT	uc001xtt.1	-						VIPAR_uc001xtu.1_Intron|VIPAR_uc010tvj.1_Intron|VIPAR_uc001xtv.1_Intron	NM_022067	NP_071350			hypothetical protein LOC63894						endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	14	78506645	78506646	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:78506645_78506646insT								ADCK1 (106349 upstream) : NRXN3 (130282 downstream)																																			---	---	---	---
NRXN3	9369	broad.mit.edu	37	14	78671949	78671949	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:78671949delA	uc001xum.1	+											Homo sapiens mRNA for KIAA0743 protein, partial cds.						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)														---	---	---	---
NRXN3	9369	broad.mit.edu	37	14	78734330	78734330	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:78734330delA	uc001xum.1	+											Homo sapiens mRNA for KIAA0743 protein, partial cds.						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)														---	---	---	---
NRXN3	9369	broad.mit.edu	37	14	78905513	78905513	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:78905513delA	uc001xun.2	+						NRXN3_uc001xum.1_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)														---	---	---	---
NRXN3	9369	broad.mit.edu	37	14	78945258	78945258	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:78945258delT	uc001xun.2	+						NRXN3_uc001xum.1_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)														---	---	---	---
NRXN3	9369	broad.mit.edu	37	14	79067601	79067601	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:79067601delA	uc001xun.2	+						NRXN3_uc001xum.1_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)														---	---	---	---
NRXN3	9369	broad.mit.edu	37	14	79126058	79126065	+	Intron	DEL	AAAAAAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:79126058_79126065delAAAAAAAA	uc001xun.2	+						NRXN3_uc001xum.1_Intron|NRXN3_uc010asv.1_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)														---	---	---	---
NRXN3	9369	broad.mit.edu	37	14	79236167	79236167	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:79236167delA	uc001xun.2	+						NRXN3_uc001xum.1_Intron|NRXN3_uc010asv.1_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)														---	---	---	---
NRXN3	9369	broad.mit.edu	37	14	79714240	79714240	+	Intron	DEL	A	-	-	rs113266849		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:79714240delA	uc001xun.2	+						NRXN3_uc001xum.1_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)														---	---	---	---
NRXN3	9369	broad.mit.edu	37	14	79806504	79806505	+	Intron	DEL	GT	-	-	rs34245681		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:79806504_79806505delGT	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)														---	---	---	---
NRXN3	9369	broad.mit.edu	37	14	79959889	79959889	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:79959889delA	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)														---	---	---	---
NRXN3	9369	broad.mit.edu	37	14	79989816	79989817	+	Intron	INS	-	A	A	rs147918126	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:79989816_79989817insA	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	80360743	80360743	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:80360743delT								NRXN3 (29985 upstream) : DIO2 (303127 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	80655222	80655222	+	IGR	DEL	A	-	-	rs140523399		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:80655222delA								NRXN3 (324464 upstream) : DIO2 (8648 downstream)																																			---	---	---	---
C14orf145	145508	broad.mit.edu	37	14	81228833	81228833	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:81228833delA	uc001xux.2	-						C14orf145_uc010asz.1_Intron	NM_152446	NP_689659			hypothetical protein LOC145508							centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)														---	---	---	---
C14orf145	145508	broad.mit.edu	37	14	81251990	81251990	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:81251990delA	uc001xux.2	-						C14orf145_uc010asz.1_Intron	NM_152446	NP_689659			hypothetical protein LOC145508							centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)														---	---	---	---
TSHR	7253	broad.mit.edu	37	14	81494014	81494014	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:81494014delA	uc001xvd.1	+						TSHR_uc001xvb.1_Intron|TSHR_uc001xvc.2_Intron|TSHR_uc010tvs.1_Intron	NM_000369	NP_000360			thyroid stimulating hormone receptor isoform 1						cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						---	---	---	---
TSHR	7253	broad.mit.edu	37	14	81607490	81607491	+	Intron	INS	-	CA	CA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:81607490_81607491insCA	uc001xvd.1	+							NM_000369	NP_000360			thyroid stimulating hormone receptor isoform 1						cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						---	---	---	---
TSHR	7253	broad.mit.edu	37	14	81608734	81608734	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:81608734delT	uc001xvd.1	+							NM_000369	NP_000360			thyroid stimulating hormone receptor isoform 1						cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						---	---	---	---
SEL1L	6400	broad.mit.edu	37	14	81952993	81952994	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:81952993_81952994delAA	uc010tvv.1	-							NM_005065	NP_005056			sel-1 suppressor of lin-12-like precursor						Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	82102799	82102801	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:82102799_82102801delTTT								SEL1L (102594 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	82334526	82334526	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:82334526delA								SEL1L (334321 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	82381733	82381733	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:82381733delA								SEL1L (381528 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	82657466	82657466	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:82657466delT								SEL1L (657261 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	83001554	83001555	+	IGR	INS	-	G	G	rs143217015	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:83001554_83001555insG								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	83299792	83299792	+	IGR	DEL	C	-	-	rs59025057		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:83299792delC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	83319868	83319868	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:83319868delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	83938956	83938956	+	IGR	DEL	T	-	-	rs74068399	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:83938956delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	84198221	84198221	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:84198221delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	84325953	84325953	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:84325953delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	84617250	84617251	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:84617250_84617251insA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	84850866	84850866	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:84850866delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	85281094	85281094	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:85281094delT								None (None upstream) : FLRT2 (715394 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	85542149	85542149	+	IGR	DEL	A	-	-	rs111489669		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:85542149delA								None (None upstream) : FLRT2 (454339 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	85733390	85733390	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:85733390delA								None (None upstream) : FLRT2 (263098 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	85765778	85765778	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:85765778delC								None (None upstream) : FLRT2 (230710 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	85959225	85959225	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:85959225delA								None (None upstream) : FLRT2 (37263 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	86327146	86327146	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:86327146delT								FLRT2 (232877 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	86404559	86404559	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:86404559delT								FLRT2 (310290 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	86601146	86601146	+	IGR	DEL	A	-	-	rs34013627		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:86601146delA								FLRT2 (506877 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	86777339	86777339	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:86777339delT								FLRT2 (683070 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	86856213	86856213	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:86856213delT								FLRT2 (761944 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	86865801	86865801	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:86865801delA								FLRT2 (771532 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	86931169	86931169	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:86931169delT								FLRT2 (836900 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	86931999	86931999	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:86931999delA								FLRT2 (837730 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	87028074	87028074	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:87028074delT								FLRT2 (933805 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	87627727	87627727	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:87627727delT								None (None upstream) : GALC (676437 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	88186136	88186136	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:88186136delA								None (None upstream) : GALC (118028 downstream)																																			---	---	---	---
KCNK10	54207	broad.mit.edu	37	14	88782666	88782666	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:88782666delA	uc001xwo.2	-						KCNK10_uc001xwn.2_Intron	NM_021161	NP_066984			potassium channel, subfamily K, member 10						signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5																		---	---	---	---
EML5	161436	broad.mit.edu	37	14	89109197	89109197	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:89109197delA	uc001xxg.2	-						EML5_uc001xxf.2_Intron|EML5_uc001xxh.1_Intron	NM_183387	NP_899243			echinoderm microtubule associated protein like							cytoplasm|microtubule				ovary(3)	3																		---	---	---	---
EML5	161436	broad.mit.edu	37	14	89134779	89134779	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:89134779delA	uc001xxg.2	-						EML5_uc001xxf.2_5'Flank|EML5_uc001xxh.1_Intron	NM_183387	NP_899243			echinoderm microtubule associated protein like							cytoplasm|microtubule				ovary(3)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	14	89276958	89276959	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:89276958_89276959delCA								EML5 (17801 upstream) : TTC8 (13538 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	89360998	89360998	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:89360998delT								TTC8 (16664 upstream) : FOXN3 (261519 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	89380369	89380369	+	IGR	DEL	G	-	-	rs35041700		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:89380369delG								TTC8 (36035 upstream) : FOXN3 (242148 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	89522197	89522198	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:89522197_89522198delAA								TTC8 (177863 upstream) : FOXN3 (100319 downstream)																																			---	---	---	---
FOXN3	1112	broad.mit.edu	37	14	89728452	89728452	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:89728452delA	uc001xxo.3	-						FOXN3_uc001xxn.3_Intron|FOXN3_uc010atk.2_Intron	NM_001085471	NP_001078940			checkpoint suppressor 1 isoform 1						DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(2)|ovary(1)	3																		---	---	---	---
FOXN3	1112	broad.mit.edu	37	14	90037855	90037856	+	Intron	DEL	AA	-	-	rs79713669		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:90037855_90037856delAA	uc001xxo.3	-						FOXN3_uc010atk.2_Intron|FOXN3_uc001xxp.2_Intron	NM_001085471	NP_001078940			checkpoint suppressor 1 isoform 1						DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(2)|ovary(1)	3																		---	---	---	---
C14orf143	90141	broad.mit.edu	37	14	90304788	90304789	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:90304788_90304789delAA	uc001xxt.2	-						C14orf143_uc001xxs.2_Intron|C14orf143_uc001xxv.1_Intron|uc001xxu.2_5'Flank	NM_145231	NP_660274			hypothetical protein LOC90141								calcium ion binding				0		all_cancers(154;0.136)		Epithelial(152;0.194)														---	---	---	---
C14orf143	90141	broad.mit.edu	37	14	90330778	90330778	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:90330778delT	uc001xxt.2	-						C14orf143_uc001xxs.2_Intron|C14orf143_uc001xxv.1_Intron	NM_145231	NP_660274			hypothetical protein LOC90141								calcium ion binding				0		all_cancers(154;0.136)		Epithelial(152;0.194)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	90825774	90825774	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:90825774delT								C14orf102 (27495 upstream) : CALM1 (37599 downstream)																																			---	---	---	---
TTC7B	145567	broad.mit.edu	37	14	91014129	91014129	+	Intron	DEL	A	-	-	rs76556635	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:91014129delA	uc001xyp.2	-						TTC7B_uc001xyo.2_Intron|TTC7B_uc010ats.2_Intron	NM_001010854	NP_001010854			tetratricopeptide repeat domain 7B								binding			ovary(2)	2		Melanoma(154;0.222)																---	---	---	---
TTC7B	145567	broad.mit.edu	37	14	91214839	91214839	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:91214839delT	uc001xyp.2	-							NM_001010854	NP_001010854			tetratricopeptide repeat domain 7B								binding			ovary(2)	2		Melanoma(154;0.222)																---	---	---	---
Unknown	0	broad.mit.edu	37	14	91543610	91543611	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:91543610_91543611delAG								RPS6KA5 (16617 upstream) : C14orf159 (36746 downstream)																																			---	---	---	---
C14orf159	80017	broad.mit.edu	37	14	91608194	91608195	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:91608194_91608195insT	uc001xzb.2	+						C14orf159_uc010atu.1_Intron|C14orf159_uc010atv.1_Intron|C14orf159_uc001xyy.2_Intron|C14orf159_uc001xyx.2_Intron|C14orf159_uc001xyw.2_Intron|C14orf159_uc001xzc.2_Intron|C14orf159_uc001xza.2_Intron|C14orf159_uc001xyv.2_Intron|C14orf159_uc001xyz.2_Intron|C14orf159_uc010twj.1_Intron|C14orf159_uc001xze.2_Intron	NM_001102366	NP_001095836			hypothetical protein LOC80017 isoform a							mitochondrion				central_nervous_system(2)|ovary(1)	3		all_cancers(154;0.0191)|all_epithelial(191;0.241)		Epithelial(152;0.141)|OV - Ovarian serous cystadenocarcinoma(161;0.207)														---	---	---	---
CATSPERB	79820	broad.mit.edu	37	14	92050408	92050408	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:92050408delT	uc001xzs.1	-						CATSPERB_uc010aub.1_Intron	NM_024764	NP_079040			cation channel, sperm-associated, beta						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)																---	---	---	---
TRIP11	9321	broad.mit.edu	37	14	92455673	92455674	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:92455673_92455674insT	uc001xzy.2	-						TRIP11_uc010auf.1_Intron	NM_004239	NP_004230			thyroid hormone receptor interactor 11						transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)				T	PDGFRB	AML								---	---	---	---
SLC24A4	123041	broad.mit.edu	37	14	92935852	92935852	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:92935852delA	uc001yak.2	+						SLC24A4_uc001yai.2_Intron|SLC24A4_uc010twm.1_Intron|SLC24A4_uc001yaj.2_Intron|SLC24A4_uc010auj.2_Intron|SLC24A4_uc010twn.1_Intron|SLC24A4_uc001yan.2_Intron	NM_153646	NP_705932			solute carrier family 24 member 4 isoform 1							integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)														---	---	---	---
SLC24A4	123041	broad.mit.edu	37	14	92952011	92952011	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:92952011delA	uc001yak.2	+						SLC24A4_uc001yai.2_Intron|SLC24A4_uc010twm.1_Intron|SLC24A4_uc001yaj.2_Intron|SLC24A4_uc010auj.2_Intron|SLC24A4_uc010twn.1_Intron|SLC24A4_uc001yan.2_Intron	NM_153646	NP_705932			solute carrier family 24 member 4 isoform 1							integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)														---	---	---	---
PPP4R4	57718	broad.mit.edu	37	14	94702886	94702886	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94702886delT	uc001ycs.1	+							NM_058237	NP_478144			HEAT-like repeat-containing protein isoform 1							cytoplasm|protein serine/threonine phosphatase complex	protein binding			skin(3)|upper_aerodigestive_tract(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	14	95283790	95283791	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95283790_95283791insA								GSC (47291 upstream) : DICER1 (268774 downstream)																																			---	---	---	---
CLMN	79789	broad.mit.edu	37	14	95670829	95670829	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95670829delA	uc001yef.2	-							NM_024734	NP_079010			calmin							integral to membrane	actin binding				0				Epithelial(152;0.193)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	96195455	96195455	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96195455delA	uc001yfd.1	+											human full-length cDNA clone CS0DG006YJ19 of B cells (Ramos cell line) of Homo sapiens (human).																														---	---	---	---
Unknown	0	broad.mit.edu	37	14	96335555	96335555	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96335555delA								TCL1A (155022 upstream) : C14orf132 (170107 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	96344356	96344356	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96344356delG	uc001yfe.2	+											Homo sapiens cDNA FLJ12965 fis, clone NT2RP2005741.																														---	---	---	---
C14orf132	56967	broad.mit.edu	37	14	96542073	96542074	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96542073_96542074insT	uc001yff.3	+							NR_023938				Homo sapiens clone 25027 mRNA sequence.												0																		---	---	---	---
BDKRB1	623	broad.mit.edu	37	14	96720856	96720856	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96720856delA	uc001yfh.2	+						BDKRB1_uc010avn.2_5'Flank	NM_000710	NP_000701			bradykinin receptor B1						elevation of cytosolic calcium ion concentration	endoplasmic reticulum|integral to plasma membrane	bradykinin receptor activity			ovary(3)	3		all_cancers(154;0.0677)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.208)|Epithelial(152;0.226)														---	---	---	---
ATG2B	55102	broad.mit.edu	37	14	96798758	96798758	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96798758delT	uc001yfi.2	-							NM_018036	NP_060506			ATG2 autophagy related 2 homolog B											ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	97654793	97654793	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:97654793delT								VRK1 (306843 upstream) : C14orf64 (737154 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	97682084	97682085	+	IGR	DEL	TT	-	-	rs112187768		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:97682084_97682085delTT								VRK1 (334134 upstream) : C14orf64 (709862 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	97891388	97891388	+	IGR	DEL	A	-	-	rs72108730		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:97891388delA								VRK1 (543438 upstream) : C14orf64 (500559 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	98099393	98099396	+	RNA	DEL	TGTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:98099393_98099396delTGTG	uc001yfv.1	-	4		c.1258_1261delCACA								human full-length cDNA clone CS0DI087YB20 of Placenta of Homo sapiens (human).																														---	---	---	---
Unknown	0	broad.mit.edu	37	14	98269421	98269422	+	IGR	INS	-	CA	CA	rs147580245	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:98269421_98269422insCA								VRK1 (921471 upstream) : C14orf64 (122525 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	98270314	98270314	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:98270314delA								VRK1 (922364 upstream) : C14orf64 (121633 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	98331877	98331877	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:98331877delT								VRK1 (983927 upstream) : C14orf64 (60070 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	98967515	98967515	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:98967515delT								C14orf64 (523054 upstream) : C14orf177 (210435 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	99320485	99320485	+	IGR	DEL	A	-	-	rs34556473		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:99320485delA								C14orf177 (136388 upstream) : BCL11B (315142 downstream)																																			---	---	---	---
BCL11B	64919	broad.mit.edu	37	14	99668326	99668326	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:99668326delT	uc001yga.2	-						BCL11B_uc001ygb.2_Intron	NM_138576	NP_612808			B-cell CLL/lymphoma 11B isoform 1							nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)				T	TLX3	T-ALL								---	---	---	---
EML1	2009	broad.mit.edu	37	14	100376558	100376558	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:100376558delT	uc001ygs.2	+						EML1_uc010tww.1_Intron|EML1_uc001ygq.2_Intron|EML1_uc001ygr.2_Intron	NM_004434	NP_004425			echinoderm microtubule associated protein like 1							cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)																---	---	---	---
EML1	2009	broad.mit.edu	37	14	100401807	100401807	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:100401807delA	uc001ygs.2	+						EML1_uc010tww.1_Intron|EML1_uc001ygr.2_Intron	NM_004434	NP_004425			echinoderm microtubule associated protein like 1							cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)																---	---	---	---
YY1	7528	broad.mit.edu	37	14	100728965	100728965	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:100728965delT	uc001ygy.1	+							NM_003403	NP_003394			YY1 transcription factor						cell differentiation|cellular response to UV|double-strand break repair via homologous recombination|negative regulation of transcription from RNA polymerase II promoter|response to UV-C|spermatogenesis	Ino80 complex|nuclear matrix|plasma membrane	four-way junction DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding				0		Melanoma(154;0.152)																---	---	---	---
WDR25	79446	broad.mit.edu	37	14	100861304	100861304	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:100861304delA	uc010avx.2	+						WDR25_uc001yhm.2_Intron|WDR25_uc001yhn.2_Intron|WDR25_uc010avy.2_Intron|WDR25_uc001yho.2_Intron	NM_001161476	NP_001154948			WD repeat domain 25												0		Melanoma(154;0.212)																---	---	---	---
WDR25	79446	broad.mit.edu	37	14	100881259	100881259	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:100881259delA	uc010avx.2	+						WDR25_uc001yhm.2_Intron|WDR25_uc001yhn.2_Intron|WDR25_uc010avy.2_Intron|WDR25_uc001yho.2_Intron	NM_001161476	NP_001154948			WD repeat domain 25												0		Melanoma(154;0.212)																---	---	---	---
Unknown	0	broad.mit.edu	37	14	101489858	101489858	+	5'Flank	DEL	C	-	-	rs12892719	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:101489858delC	uc001yjx.1	+						MIR299_hsa-mir-299|MI0000744_5'Flank|uc010awb.1_5'Flank|MIR380_hsa-mir-380|MI0000788_5'Flank|MIR1197_hsa-mir-1197|MI0006656_5'Flank|uc001yjy.1_5'Flank|MIR323_hsa-mir-323|MI0000807_5'Flank|MIR758_hsa-mir-758|MI0003757_5'Flank					DM004490																														---	---	---	---
Unknown	0	broad.mit.edu	37	14	101511106	101511106	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:101511106delT	uc010awd.2	+						MIR381_hsa-mir-381|MI0000789_5'Flank|MIR487B_hsa-mir-487b|MI0003530_5'Flank|MIR539_hsa-mir-539|MI0003514_5'Flank					DM004803																														---	---	---	---
Unknown	0	broad.mit.edu	37	14	102125881	102125881	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102125881delT								DIO3 (96092 upstream) : C14orf72 (70893 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	102152814	102152815	+	IGR	INS	-	A	A	rs140328678	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102152814_102152815insA								DIO3 (123025 upstream) : C14orf72 (43959 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	102159198	102159198	+	IGR	DEL	A	-	-	rs35616639		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102159198delA								DIO3 (129409 upstream) : C14orf72 (37576 downstream)																																			---	---	---	---
HSP90AA1	3320	broad.mit.edu	37	14	102572413	102572414	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102572413_102572414delAA	uc001ykv.3	-							NM_001017963	NP_001017963			heat shock 90kDa protein 1, alpha isoform 1						axon guidance|cellular chaperone-mediated protein complex assembly|G2/M transition of mitotic cell cycle|nitric oxide metabolic process|positive regulation of nitric oxide biosynthetic process|protein import into mitochondrial outer membrane|protein refolding|regulation of nitric-oxide synthase activity|response to unfolded protein|signal transduction	cytosol|melanosome|plasma membrane	ATP binding|ATPase activity|nitric-oxide synthase regulator activity|protein homodimerization activity|TPR domain binding|unfolded protein binding			ovary(2)|central_nervous_system(2)|prostate(1)|lung(1)|breast(1)	7					Rifabutin(DB00615)													---	---	---	---
RCOR1	23186	broad.mit.edu	37	14	103063672	103063673	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103063672_103063673delTT	uc001ymb.2	+							NM_015156	NP_055971			REST corepressor 1						blood coagulation|histone H4 deacetylation|interspecies interaction between organisms	transcriptional repressor complex	protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription regulatory region DNA binding			ovary(1)	1																		---	---	---	---
RCOR1	23186	broad.mit.edu	37	14	103066144	103066145	+	Intron	DEL	TG	-	-	rs143198676	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103066144_103066145delTG	uc001ymb.2	+							NM_015156	NP_055971			REST corepressor 1						blood coagulation|histone H4 deacetylation|interspecies interaction between organisms	transcriptional repressor complex	protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription regulatory region DNA binding			ovary(1)	1																		---	---	---	---
RCOR1	23186	broad.mit.edu	37	14	103102591	103102591	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103102591delA	uc001ymb.2	+							NM_015156	NP_055971			REST corepressor 1						blood coagulation|histone H4 deacetylation|interspecies interaction between organisms	transcriptional repressor complex	protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription regulatory region DNA binding			ovary(1)	1																		---	---	---	---
RCOR1	23186	broad.mit.edu	37	14	103175145	103175145	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103175145delT	uc001ymb.2	+							NM_015156	NP_055971			REST corepressor 1						blood coagulation|histone H4 deacetylation|interspecies interaction between organisms	transcriptional repressor complex	protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription regulatory region DNA binding			ovary(1)	1																		---	---	---	---
CDC42BPB	9578	broad.mit.edu	37	14	103425947	103425947	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103425947delA	uc001ymi.1	-						CDC42BPB_uc001ymj.1_Intron	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)														---	---	---	---
MARK3	4140	broad.mit.edu	37	14	103879217	103879217	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103879217delT	uc001ymz.3	+						MARK3_uc001ymx.3_Intron|MARK3_uc001ymw.3_Intron|MARK3_uc001yna.3_Intron|MARK3_uc001ymy.3_Intron|MARK3_uc010awp.2_Intron	NM_001128918	NP_001122390			MAP/microtubule affinity-regulating kinase 3								ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)															---	---	---	---
MARK3	4140	broad.mit.edu	37	14	103886733	103886734	+	Intron	INS	-	T	T	rs146248192	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103886733_103886734insT	uc001ymz.3	+						MARK3_uc001ymx.3_Intron|MARK3_uc001ymw.3_Intron|MARK3_uc001yna.3_Intron|MARK3_uc001ymy.3_Intron|MARK3_uc010awp.2_Intron	NM_001128918	NP_001122390			MAP/microtubule affinity-regulating kinase 3								ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)															---	---	---	---
Unknown	0	broad.mit.edu	37	14	104995566	104995566	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:104995566delA								KIF26A (348332 upstream) : C14orf180 (50490 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	105152873	105152873	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105152873delG								TMEM179 (81776 upstream) : INF2 (3070 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	105475380	105475381	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105475380_105475381insT								C14orf79 (13525 upstream) : CDCA4 (529 downstream)																																			---	---	---	---
ADAM6	8755	broad.mit.edu	37	14	106897728	106897728	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106897728delA	uc010tyt.1	-						uc010tyu.1_Intron					Parts of antibodies, mostly variable regions.												0																		---	---	---	---
ADAM6	8755	broad.mit.edu	37	14	107188286	107188287	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:107188286_107188287delAC	uc010tyt.1	-											Parts of antibodies, mostly variable regions.												0																		---	---	---	---
ADAM6	8755	broad.mit.edu	37	14	107277749	107277749	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:107277749delT	uc010tyt.1	-											Parts of antibodies, mostly variable regions.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	20047678	20047679	+	IGR	INS	-	TT	TT	rs140453555	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20047678_20047679insTT								None (None upstream) : GOLGA6L6 (689415 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	20439542	20439542	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20439542delT								None (None upstream) : GOLGA6L6 (297552 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	20608954	20608954	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20608954delT	uc001ytg.2	-						uc010tyx.1_Intron					RecName: Full=Putative HERC2-like protein 3;																														---	---	---	---
Unknown	0	broad.mit.edu	37	15	20837900	20837901	+	IGR	INS	-	A	A	rs137959894		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20837900_20837901insA								GOLGA8C (56874 upstream) : BCL8 (32155 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	20860339	20860339	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20860339delT								GOLGA8C (79313 upstream) : BCL8 (9717 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	21017330	21017330	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:21017330delA								BCL8 (55850 upstream) : POTEB (23371 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	21022260	21022263	+	IGR	DEL	GGGG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:21022260_21022263delGGGG								BCL8 (60780 upstream) : POTEB (18438 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	21168125	21168125	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:21168125delG	uc001ytw.1	+											Homo sapiens hypothetical protein LOC348120, mRNA (cDNA clone IMAGE:4838061).																														---	---	---	---
POTEB	339010	broad.mit.edu	37	15	22058463	22058463	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22058463delT	uc010tzr.1	-						POTEB_uc010tzq.1_Intron	NM_207355	NP_997238			protein expressed in prostate, ovary, testis,												0																		---	---	---	---
OR4N4	283694	broad.mit.edu	37	15	22304110	22304110	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22304110delT	uc001yuc.1	+						LOC727924_uc001ytz.1_Intron|LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron	NM_001005241	NP_001005241			olfactory receptor, family 4, subfamily N,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	22489087	22489088	+	IGR	INS	-	G	G	rs138574900	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22489087_22489088insG								OR4N3P (74702 upstream) : MIR1268 (24141 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	22519155	22519155	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22519155delA								MIR1268 (5875 upstream) : GOLGA8DP (183130 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	22521924	22521924	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22521924delT								MIR1268 (8644 upstream) : GOLGA8DP (180361 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	22551671	22551671	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22551671delT								MIR1268 (38391 upstream) : GOLGA8DP (150614 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	22581369	22581370	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22581369_22581370delTT								MIR1268 (68089 upstream) : GOLGA8DP (120915 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	22771818	22771818	+	IGR	DEL	C	-	-	rs79456162		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22771818delC								GOLGA6L1 (25816 upstream) : TUBGCP5 (61577 downstream)																																			---	---	---	---
CYFIP1	23191	broad.mit.edu	37	15	22958137	22958137	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22958137delT	uc001yus.2	+						CYFIP1_uc001yut.2_Intron|CYFIP1_uc010aya.1_Intron|CYFIP1_uc001yuu.2_Intron	NM_014608	NP_055423			cytoplasmic FMR1 interacting protein 1 isoform						axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	23169974	23169974	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:23169974delG								NIPA1 (83131 upstream) : WHAMML1 (17757 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	23636201	23636201	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:23636201delA								GOLGA8E (187778 upstream) : MKRN3 (174253 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	23745413	23745413	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:23745413delT								GOLGA8E (296990 upstream) : MKRN3 (65041 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	24050301	24050302	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:24050301_24050302insT								NDN (117851 upstream) : PWRN2 (359624 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	24131996	24131997	+	IGR	INS	-	C	C	rs144539931	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:24131996_24131997insC								NDN (199546 upstream) : PWRN2 (277929 downstream)																																			---	---	---	---
SNRPN	6638	broad.mit.edu	37	15	25227367	25227367	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25227367delT	uc001ywz.1	+						PAR-SN_uc001yxa.1_RNA|PAR-SN_uc001yxc.2_RNA|PAR-SN_uc001yxb.3_RNA|PAR5_uc001yxd.2_5'Flank					Homo sapiens SNRPN upstream reading frame protein (SNURF) mRNA, complete cds.						RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)										Prader-Willi_syndrome				---	---	---	---
UBE3A	7337	broad.mit.edu	37	15	25600932	25600932	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25600932delT	uc001zaq.2	-						uc001zae.2_Intron|UBE3A_uc001zar.2_Intron|UBE3A_uc001zas.2_Intron|UBE3A_uc001zat.2_Intron	NM_000462	NP_000453			ubiquitin protein ligase E3A isoform 2						brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)														---	---	---	---
ATP10A	57194	broad.mit.edu	37	15	26072316	26072316	+	Intron	DEL	A	-	-	rs35162193		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:26072316delA	uc010ayu.2	-							NM_024490	NP_077816			ATPase, class V, type 10A						ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	26179484	26179484	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:26179484delT								ATP10A (69167 upstream) : GABRB3 (609211 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	26524988	26524988	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:26524988delT								ATP10A (414671 upstream) : GABRB3 (263707 downstream)																																			---	---	---	---
GABRB3	2562	broad.mit.edu	37	15	26860129	26860129	+	Intron	DEL	C	-	-	rs113348784		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:26860129delC	uc001zaz.2	-						GABRB3_uc010uae.1_Intron|GABRB3_uc001zba.2_Intron|GABRB3_uc001zbb.2_Intron	NM_000814	NP_000805			gamma-aminobutyric acid (GABA) A receptor, beta						synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)													---	---	---	---
GABRB3	2562	broad.mit.edu	37	15	26880666	26880666	+	Intron	DEL	A	-	-	rs67094938		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:26880666delA	uc001zaz.2	-						GABRB3_uc001zba.2_Intron|GABRB3_uc001zbb.2_Intron	NM_000814	NP_000805			gamma-aminobutyric acid (GABA) A receptor, beta						synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)													---	---	---	---
GABRG3	2567	broad.mit.edu	37	15	27274009	27274010	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:27274009_27274010insA	uc001zbg.1	+						GABRG3_uc001zbf.2_Intron	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)														---	---	---	---
OCA2	4948	broad.mit.edu	37	15	28129928	28129928	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28129928delT	uc001zbh.3	-						OCA2_uc010ayv.2_Intron	NM_000275	NP_000266			oculocutaneous albinism II						eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)										Oculocutaneous_Albinism				---	---	---	---
HERC2	8924	broad.mit.edu	37	15	28491745	28491746	+	Intron	DEL	AA	-	-	rs139539730		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28491745_28491746delAA	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)														---	---	---	---
HERC2	8924	broad.mit.edu	37	15	28564441	28564441	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28564441delT	uc001zbj.2	-						HERC2_uc001zbl.1_Intron	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	28641666	28641666	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28641666delA								GOLGA8G (4495 upstream) : WHAMML2 (341063 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	28953431	28953432	+	5'Flank	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28953431_28953432insT	uc001zcg.2	+											DQ598668																														---	---	---	---
Unknown	0	broad.mit.edu	37	15	29108946	29108946	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:29108946delT								WHAMML2 (84661 upstream) : APBA2 (22222 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	29988919	29988919	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:29988919delA								FAM189A1 (125992 upstream) : TJP1 (3440 downstream)																																			---	---	---	---
TJP1	7082	broad.mit.edu	37	15	30012361	30012362	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:30012361_30012362delAA	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)														---	---	---	---
DKFZP434L187	26082	broad.mit.edu	37	15	30506847	30506847	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:30506847delA	uc001zds.2	+											Homo sapiens cDNA FLJ43588 fis, clone SKNSH2009991.												0																		---	---	---	---
CHRFAM7A	89832	broad.mit.edu	37	15	30675594	30675595	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:30675594_30675595delAA	uc001zdt.1	-						CHRFAM7A_uc001zdu.1_Intron|CHRFAM7A_uc010azn.2_Intron	NM_139320	NP_647536			CHRNA7-FAM7A fusion isoform 1							integral to membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity			skin(1)	1		all_lung(180;3.42e-11)|Breast(32;0.000153)		all cancers(64;1.9e-15)|Epithelial(43;3.59e-12)|GBM - Glioblastoma multiforme(186;9e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)|Lung(196;0.153)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	30712998	30712998	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:30712998delA								CHRFAM7A (27134 upstream) : FAM7A2 (151760 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	31010979	31010979	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:31010979delT	uc001zev.2	+											Homo sapiens hypothetical LOC440261, mRNA (cDNA clone IMAGE:7479697), complete cds.																														---	---	---	---
TRPM1	4308	broad.mit.edu	37	15	31359898	31359898	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:31359898delT	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	31593996	31593996	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:31593996delT								TRPM1 (200072 upstream) : KLF13 (25087 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	31726589	31726589	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:31726589delG								KLF13 (56488 upstream) : OTUD7A (48741 downstream)																																			---	---	---	---
OTUD7A	161725	broad.mit.edu	37	15	32088345	32088346	+	Intron	INS	-	GT	GT	rs145581747	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:32088345_32088346insGT	uc001zfr.2	-						OTUD7A_uc001zfs.1_Intron|OTUD7A_uc010baa.1_Intron	NM_130901	NP_570971			OTU domain containing 7A							cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)														---	---	---	---
OTUD7A	161725	broad.mit.edu	37	15	32164530	32164530	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:32164530delA	uc001zfr.2	-						OTUD7A_uc001zfs.1_5'Flank|OTUD7A_uc010baa.1_5'Flank	NM_130901	NP_570971			OTU domain containing 7A							cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)														---	---	---	---
CHRNA7	1139	broad.mit.edu	37	15	32355922	32355922	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:32355922delC	uc001zft.2	+						CHRNA7_uc010bab.1_Intron|CHRNA7_uc010bac.1_Intron|CHRNA7_uc010bad.1_Intron|CHRNA7_uc010bae.1_Intron|CHRNA7_uc010baf.2_Intron|CHRNA7_uc010bag.1_Intron|CHRNA7_uc010bah.1_Intron	NM_000746	NP_000737			cholinergic receptor, nicotinic, alpha 7						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)													---	---	---	---
ARHGAP11A	9824	broad.mit.edu	37	15	32915923	32915923	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:32915923delT	uc001zgy.1	+						ARHGAP11A_uc010ubw.1_Intron|ARHGAP11A_uc001zgw.2_Intron|ARHGAP11A_uc001zgx.2_Intron|ARHGAP11A_uc010ubx.1_Intron	NM_014783	NP_055598			Rho GTPase activating protein 11A isoform 1						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			skin(3)|breast(2)|urinary_tract(1)	6		all_lung(180;1.3e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	33041837	33041837	+	IGR	DEL	T	-	-	rs57911783		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33041837delT								GREM1 (14971 upstream) : FMN1 (24510 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	33043836	33043836	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33043836delT								GREM1 (16970 upstream) : FMN1 (22511 downstream)																																			---	---	---	---
FMN1	342184	broad.mit.edu	37	15	33068281	33068281	+	Intron	DEL	A	-	-	rs78588052	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33068281delA	uc001zhf.3	-							NM_001103184	NP_001096654			formin 1						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)														---	---	---	---
FMN1	342184	broad.mit.edu	37	15	33191987	33191988	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33191987_33191988delAA	uc001zhf.3	-							NM_001103184	NP_001096654			formin 1						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)														---	---	---	---
FMN1	342184	broad.mit.edu	37	15	33265778	33265779	+	Intron	INS	-	A	A	rs72049601		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33265778_33265779insA	uc001zhf.3	-							NM_001103184	NP_001096654			formin 1						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)														---	---	---	---
FMN1	342184	broad.mit.edu	37	15	33302086	33302086	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33302086delT	uc001zhf.3	-							NM_001103184	NP_001096654			formin 1						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	33391317	33391317	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33391317delA								FMN1 (31232 upstream) : RYR3 (211860 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	33400509	33400509	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33400509delA								FMN1 (40424 upstream) : RYR3 (202668 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	33555983	33555983	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33555983delT								FMN1 (195898 upstream) : RYR3 (47194 downstream)																																			---	---	---	---
RYR3	6263	broad.mit.edu	37	15	33819858	33819859	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33819858_33819859insA	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)														---	---	---	---
RYR3	6263	broad.mit.edu	37	15	33836470	33836471	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33836470_33836471delTT	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)														---	---	---	---
RYR3	6263	broad.mit.edu	37	15	33876436	33876436	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33876436delA	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)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	34512924	34512924	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34512924delA								C15orf29 (10627 upstream) : TMEM85 (4321 downstream)																																			---	---	---	---
SLC12A6	9990	broad.mit.edu	37	15	34530410	34530410	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34530410delA	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)													---	---	---	---
SLC12A6	9990	broad.mit.edu	37	15	34542948	34542948	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34542948delA	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_5'Flank|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)													---	---	---	---
SLC12A6	9990	broad.mit.edu	37	15	34543443	34543443	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34543443delT	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_5'Flank|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)													---	---	---	---
Unknown	0	broad.mit.edu	37	15	34940997	34940997	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34940997delA								GOLGA8B (112775 upstream) : GJD2 (103682 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	35066148	35066149	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35066148_35066149delAA	uc001zit.1	+											Homo sapiens cDNA FLJ34768 fis, clone NT2NE2002791.																														---	---	---	---
AQR	9716	broad.mit.edu	37	15	35160531	35160531	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35160531delA	uc001ziv.2	-							NM_014691	NP_055506			aquarius							catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)														---	---	---	---
AQR	9716	broad.mit.edu	37	15	35186432	35186432	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35186432delA	uc001ziv.2	-							NM_014691	NP_055506			aquarius							catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)														---	---	---	---
AQR	9716	broad.mit.edu	37	15	35198600	35198600	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35198600delC	uc001ziv.2	-							NM_014691	NP_055506			aquarius							catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)														---	---	---	---
AQR	9716	broad.mit.edu	37	15	35228245	35228245	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35228245delT	uc001ziv.2	-							NM_014691	NP_055506			aquarius							catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	35466010	35466010	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35466010delG								ZNF770 (185556 upstream) : LOC723972 (63517 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	35567122	35567122	+	IGR	DEL	T	-	-	rs111503678		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35567122delT								LOC723972 (36860 upstream) : ATPBD4 (96049 downstream)																																			---	---	---	---
ATPBD4	89978	broad.mit.edu	37	15	35668024	35668024	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35668024delA	uc001zja.2	-						ATPBD4_uc001ziz.2_Intron	NM_080650	NP_542381			ATP binding domain 4 isoform 1												0		all_epithelial(112;2.11e-09)|Lung NSC(122;2.38e-08)|all_lung(180;3.65e-07)		all cancers(64;9.9e-19)|GBM - Glioblastoma multiforme(113;2.01e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)														---	---	---	---
ATPBD4	89978	broad.mit.edu	37	15	35824946	35824946	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35824946delT	uc001zja.2	-						ATPBD4_uc001ziz.2_Intron|ATPBD4_uc001zjb.2_Intron	NM_080650	NP_542381			ATP binding domain 4 isoform 1												0		all_epithelial(112;2.11e-09)|Lung NSC(122;2.38e-08)|all_lung(180;3.65e-07)		all cancers(64;9.9e-19)|GBM - Glioblastoma multiforme(113;2.01e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	35877269	35877270	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35877269_35877270delAA	uc001zjc.2	+											Homo sapiens, Similar to LOC161538, clone IMAGE:5199550, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	15	35969953	35969953	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35969953delA	uc001zjc.2	+											Homo sapiens, Similar to LOC161538, clone IMAGE:5199550, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	15	36231919	36231919	+	IGR	DEL	A	-	-	rs67725639		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:36231919delA								ATPBD4 (393515 upstream) : C15orf41 (639893 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	36421532	36421533	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:36421532_36421533delAA								ATPBD4 (583128 upstream) : C15orf41 (450279 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	36547952	36547952	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:36547952delA								ATPBD4 (709548 upstream) : C15orf41 (323860 downstream)																																			---	---	---	---
C15orf41	84529	broad.mit.edu	37	15	37062519	37062519	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:37062519delA	uc001zje.3	+						C15orf41_uc001zjd.2_Intron|C15orf41_uc010bbb.1_Intron|C15orf41_uc001zjf.2_Intron|C15orf41_uc010uci.1_Intron	NM_001130010	NP_001123482			hypothetical protein LOC84529 isoform 1								protein binding			pancreas(1)	1		all_epithelial(112;3.06e-10)|Lung NSC(122;6.48e-08)|all_lung(180;8.31e-07)|Melanoma(134;0.222)		all cancers(64;1.76e-19)|GBM - Glioblastoma multiforme(113;5.03e-07)|BRCA - Breast invasive adenocarcinoma(123;0.11)														---	---	---	---
MEIS2	4212	broad.mit.edu	37	15	37186541	37186542	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:37186541_37186542delTT	uc001zjr.2	-						MEIS2_uc001zjl.2_Intron|MEIS2_uc010ucj.1_Intron|MEIS2_uc001zjm.2_Intron|MEIS2_uc001zjn.2_Intron|MEIS2_uc001zjo.2_Intron|MEIS2_uc001zjp.2_Intron|MEIS2_uc001zjs.2_Intron|MEIS2_uc001zju.2_Intron|MEIS2_uc001zjt.2_Intron|MEIS2_uc001zjj.2_Intron|MEIS2_uc001zjk.2_Intron	NM_170675	NP_733775			Meis homeobox 2 isoform c						negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)														---	---	---	---
MEIS2	4212	broad.mit.edu	37	15	37328865	37328865	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:37328865delA	uc001zjr.2	-						MEIS2_uc001zjl.2_Intron|MEIS2_uc010ucj.1_Intron|MEIS2_uc001zjm.2_Intron|MEIS2_uc001zjn.2_Intron|MEIS2_uc001zjo.2_Intron|MEIS2_uc001zjp.2_Intron|MEIS2_uc001zjs.2_Intron|MEIS2_uc001zju.2_Intron|MEIS2_uc001zjt.2_Intron	NM_170675	NP_733775			Meis homeobox 2 isoform c						negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)														---	---	---	---
MEIS2	4212	broad.mit.edu	37	15	37343892	37343892	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:37343892delA	uc001zjr.2	-						MEIS2_uc001zjl.2_Intron|MEIS2_uc010ucj.1_Intron|MEIS2_uc001zjm.2_Intron|MEIS2_uc001zjn.2_Intron|MEIS2_uc001zjo.2_Intron|MEIS2_uc001zjp.2_Intron|MEIS2_uc001zjs.2_Intron|MEIS2_uc001zju.2_Intron|MEIS2_uc001zjt.2_Intron	NM_170675	NP_733775			Meis homeobox 2 isoform c						negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	37888841	37888841	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:37888841delT								MEIS2 (495341 upstream) : TMCO5A (337986 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	38002416	38002416	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:38002416delA								MEIS2 (608916 upstream) : TMCO5A (224411 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	38149195	38149195	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:38149195delA								MEIS2 (755695 upstream) : TMCO5A (77632 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	38423205	38423205	+	IGR	DEL	G	-	-	rs150891456	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:38423205delG								TMCO5A (163280 upstream) : SPRED1 (121847 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	38476817	38476817	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:38476817delA	uc001zjy.2	-											Homo sapiens, clone IMAGE:3923347, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	15	38477891	38477891	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:38477891delT	uc001zjy.2	-											Homo sapiens, clone IMAGE:3923347, mRNA.																														---	---	---	---
SPRED1	161742	broad.mit.edu	37	15	38598190	38598190	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:38598190delT	uc001zka.3	+							NM_152594	NP_689807			sprouty-related protein 1 with EVH-1 domain						inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)										Legius_syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	15	38728597	38728598	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:38728597_38728598insT								SPRED1 (79148 upstream) : FAM98B (17730 downstream)																																			---	---	---	---
FAM98B	283742	broad.mit.edu	37	15	38743998	38743998	+	5'Flank	DEL	T	-	-	rs11435441		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:38743998delT	uc001zkb.1	+						FAM98B_uc001zkc.2_5'Flank	NM_001042429	NP_001035894			family with sequence similarity 98, member B							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)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	39216771	39216771	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:39216771delT								C15orf53 (224532 upstream) : C15orf54 (326114 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	39375703	39375703	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:39375703delT								C15orf53 (383464 upstream) : C15orf54 (167182 downstream)																																			---	---	---	---
THBS1	7057	broad.mit.edu	37	15	39882587	39882587	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:39882587delA	uc001zkh.2	+						THBS1_uc010bbi.2_Intron	NM_003246	NP_003237			thrombospondin 1 precursor						activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)													---	---	---	---
FSIP1	161835	broad.mit.edu	37	15	39966777	39966777	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:39966777delA	uc001zki.2	-							NM_152597	NP_689810			fibrous sheath interacting protein 1											ovary(2)|skin(1)	3		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)														---	---	---	---
FSIP1	161835	broad.mit.edu	37	15	40067695	40067695	+	Intron	DEL	A	-	-	rs35283109		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40067695delA	uc001zki.2	-							NM_152597	NP_689810			fibrous sheath interacting protein 1											ovary(2)|skin(1)	3		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)														---	---	---	---
C15orf57	90416	broad.mit.edu	37	15	40836587	40836587	+	Intron	DEL	T	-	-	rs72127727		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40836587delT	uc001zly.2	-						uc001zlx.1_Intron|MRPL42P5_uc010bbq.1_Intron	NM_052849	NP_443081			coiled-coil domain containing 32 isoform a											ovary(1)	1																		---	---	---	---
CASC5	57082	broad.mit.edu	37	15	40923495	40923495	+	Intron	DEL	A	-	-	rs112826725		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40923495delA	uc010bbs.1	+						CASC5_uc010bbt.1_Intron	NM_170589	NP_733468			cancer susceptibility candidate 5 isoform 1						acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	41169612	41169613	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41169612_41169613delAA								RHOV (3125 upstream) : VPS18 (17015 downstream)																																			---	---	---	---
EXD1	161829	broad.mit.edu	37	15	41485647	41485648	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41485647_41485648delAA	uc001znk.2	-						EXD1_uc010ucv.1_Intron	NM_152596	NP_689809			exonuclease 3'-5' domain containing 1						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding			ovary(1)	1																		---	---	---	---
CHP	11261	broad.mit.edu	37	15	41556335	41556335	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41556335delT	uc001znl.2	+							NM_007236	NP_009167			calcium binding protein P22						potassium ion transport|small GTPase mediated signal transduction		potassium channel regulator activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;5.87e-16)|Lung NSC(122;8.86e-12)|all_lung(180;2.47e-10)|Melanoma(134;0.0574)|Colorectal(260;0.0946)|Ovarian(310;0.143)		GBM - Glioblastoma multiforme(113;1.68e-06)|LUSC - Lung squamous cell carcinoma(244;0.008)|Lung(196;0.00802)|BRCA - Breast invasive adenocarcinoma(123;0.169)														---	---	---	---
NUSAP1	51203	broad.mit.edu	37	15	41657070	41657071	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41657070_41657071delAA	uc001zns.3	+						NUSAP1_uc001znq.3_Intron|NUSAP1_uc001znr.3_Intron|NUSAP1_uc010bce.2_Intron|NUSAP1_uc001znt.3_Intron|NUSAP1_uc001znv.3_Intron|NUSAP1_uc001znu.3_Intron|NUSAP1_uc010ucw.1_Intron|NUSAP1_uc001znw.3_Intron	NM_016359	NP_057443			nucleolar and spindle associated protein 1						cytokinesis after mitosis|establishment of mitotic spindle localization|mitotic chromosome condensation|positive regulation of mitosis	chromosome|cytoplasm|nucleolus	DNA binding				0		all_cancers(109;5.07e-19)|all_epithelial(112;2.43e-16)|Lung NSC(122;1.81e-11)|all_lung(180;4.81e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;9.63e-17)|GBM - Glioblastoma multiforme(113;1.59e-06)|BRCA - Breast invasive adenocarcinoma(123;0.168)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	41844906	41844906	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41844906delA								RPAP1 (8442 upstream) : TYRO3 (6326 downstream)																																			---	---	---	---
MGA	23269	broad.mit.edu	37	15	42026919	42026919	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42026919delA	uc010ucy.1	+						MGA_uc010ucz.1_Intron|MGA_uc010uda.1_Intron	NM_001164273	NP_001157745			MAX-interacting protein isoform 1							MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	42408615	42408615	+	IGR	DEL	C	-	-	rs776708	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42408615delC								PLA2G4D (21863 upstream) : PLA2G4F (24784 downstream)																																			---	---	---	---
GANC	2595	broad.mit.edu	37	15	42579747	42579747	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)														---	---	---	---
CAPN3	825	broad.mit.edu	37	15	42668749	42668751	+	Intron	DEL	TTT	-	-	rs35473621		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42668749_42668751delTTT	uc001zpn.1	+						CAPN3_uc001zpk.1_Intron|CAPN3_uc001zpl.1_Intron|CAPN3_uc010udf.1_Intron|CAPN3_uc010udg.1_Intron|CAPN3_uc001zpo.1_Intron|CAPN3_uc001zpp.1_Intron	NM_000070	NP_000061			calpain 3 isoform a						muscle organ development|proteolysis	cytoplasm	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|signal transducer activity			central_nervous_system(1)	1		all_cancers(109;1.65e-16)|all_epithelial(112;8.34e-15)|Lung NSC(122;3.56e-09)|all_lung(180;1.68e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;7.36e-07)														---	---	---	---
TTBK2	146057	broad.mit.edu	37	15	43040660	43040661	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43040660_43040661delAA	uc001zqo.2	-						TTBK2_uc010bcy.2_Intron	NM_173500	NP_775771			tau tubulin kinase 2						cell death		ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|stomach(1)|pancreas(1)|skin(1)	7		all_cancers(109;6.11e-16)|all_epithelial(112;5.5e-14)|Lung NSC(122;1.76e-08)|all_lung(180;6.04e-08)|Melanoma(134;0.0179)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;3.23e-07)														---	---	---	---
UBR1	197131	broad.mit.edu	37	15	43256668	43256668	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43256668delA	uc001zqq.2	-							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)														---	---	---	---
UBR1	197131	broad.mit.edu	37	15	43273689	43273689	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43273689delT	uc001zqq.2	-							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)														---	---	---	---
TMEM62	80021	broad.mit.edu	37	15	43473707	43473708	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43473707_43473708delTT	uc001zqr.2	+						TMEM62_uc010bda.2_Intron|TMEM62_uc001zqt.2_Intron	NM_024956	NP_079232			transmembrane protein 62							integral to membrane				ovary(1)|breast(1)	2		all_cancers(109;1.16e-10)|all_epithelial(112;2.01e-09)|Lung NSC(122;8.91e-07)|all_lung(180;8.8e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;4.23e-07)														---	---	---	---
CCNDBP1	23582	broad.mit.edu	37	15	43484903	43484903	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43484903delT	uc001zqv.2	+						CCNDBP1_uc001zqu.2_Intron|CCNDBP1_uc010bdc.2_Intron|CCNDBP1_uc010bdb.2_Intron|CCNDBP1_uc010udl.1_Intron|CCNDBP1_uc001zqw.2_Intron|CCNDBP1_uc001zqx.2_Intron|CCNDBP1_uc010bdd.2_Intron|CCNDBP1_uc001zqy.2_Intron	NM_012142	NP_036274			cyclin D-type binding-protein 1 isoform 1						cell cycle	cytoplasm|nucleus	protein binding			ovary(1)|kidney(1)	2		all_cancers(109;3.31e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.42e-07)														---	---	---	---
TUBGCP4	27229	broad.mit.edu	37	15	43676006	43676006	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43676006delT	uc001zro.2	+						TUBGCP4_uc001zrn.2_Intron|TUBGCP4_uc010bdh.2_Intron	NM_014444	NP_055259			tubulin, gamma complex associated protein 4						G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	structural constituent of cytoskeleton			ovary(3)	3		all_cancers(109;1.27e-10)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.72e-06)|all_lung(180;1.59e-05)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;3.53e-07)														---	---	---	---
ELL3	80237	broad.mit.edu	37	15	44065717	44065717	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44065717delA	uc001zsw.1	-						ELL3_uc001zsv.1_Intron|ELL3_uc001zsx.1_Intron|uc001zsy.2_5'Flank	NM_025165	NP_079441			elongation factor RNA polymerase II-like 3						positive regulation of transcription elongation, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				ovary(1)	1		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;7.81e-07)														---	---	---	---
WDR76	79968	broad.mit.edu	37	15	44140281	44140281	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44140281delA	uc001zti.1	+							NM_024908	NP_079184			WD repeat domain 76												0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		all cancers(107;3.78e-21)|GBM - Glioblastoma multiforme(94;5.04e-07)														---	---	---	---
FRMD5	84978	broad.mit.edu	37	15	44426324	44426324	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44426324delT	uc001ztl.2	-						FRMD5_uc001ztk.1_Intron|FRMD5_uc001ztm.2_Intron|FRMD5_uc001ztn.2_Intron	NM_032892	NP_116281			FERM domain containing 5 isoform 2							cytoplasm|cytoskeleton|extrinsic to membrane|integral to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(109;2.29e-15)|all_epithelial(112;9.98e-13)|Lung NSC(122;4.89e-08)|all_lung(180;5.08e-07)|Melanoma(134;0.0275)		all cancers(107;8.63e-20)|GBM - Glioblastoma multiforme(94;3.63e-06)														---	---	---	---
FRMD5	84978	broad.mit.edu	37	15	44474213	44474214	+	Intron	DEL	TT	-	-	rs34329034		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44474213_44474214delTT	uc001ztl.2	-						FRMD5_uc001ztk.1_Intron|FRMD5_uc001ztm.2_Intron|FRMD5_uc001ztn.2_Intron	NM_032892	NP_116281			FERM domain containing 5 isoform 2							cytoplasm|cytoskeleton|extrinsic to membrane|integral to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(109;2.29e-15)|all_epithelial(112;9.98e-13)|Lung NSC(122;4.89e-08)|all_lung(180;5.08e-07)|Melanoma(134;0.0275)		all cancers(107;8.63e-20)|GBM - Glioblastoma multiforme(94;3.63e-06)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	44542216	44542216	+	IGR	DEL	A	-	-	rs77963389		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44542216delA								FRMD5 (54787 upstream) : CASC4 (38713 downstream)																																			---	---	---	---
CASC4	113201	broad.mit.edu	37	15	44624758	44624759	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44624758_44624759delAA	uc001zto.1	+						CASC4_uc001ztp.2_Intron|CASC4_uc001ztq.2_Intron|CASC4_uc010bdu.1_Intron	NM_138423	NP_612432			cancer susceptibility candidate 4 isoform a							integral to membrane				ovary(1)	1		all_cancers(109;1.69e-13)|all_epithelial(112;3.94e-11)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.027)		all cancers(107;2.91e-20)|GBM - Glioblastoma multiforme(94;1.57e-06)|COAD - Colon adenocarcinoma(120;0.217)|Colorectal(105;0.237)														---	---	---	---
CASC4	113201	broad.mit.edu	37	15	44701482	44701483	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44701482_44701483delAA	uc001ztp.2	+						CASC4_uc001ztq.2_Intron	NM_138423	NP_612432			cancer susceptibility candidate 4 isoform a							integral to membrane				ovary(1)	1		all_cancers(109;1.69e-13)|all_epithelial(112;3.94e-11)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.027)		all cancers(107;2.91e-20)|GBM - Glioblastoma multiforme(94;1.57e-06)|COAD - Colon adenocarcinoma(120;0.217)|Colorectal(105;0.237)														---	---	---	---
CTDSPL2	51496	broad.mit.edu	37	15	44811330	44811330	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44811330delT	uc001ztr.2	+						CTDSPL2_uc001zts.2_Intron|CTDSPL2_uc001ztt.2_Intron|CTDSPL2_uc010bdv.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)														---	---	---	---
SPG11	80208	broad.mit.edu	37	15	44900810	44900810	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44900810delA	uc001ztx.2	-						SPG11_uc010ueh.1_Intron|SPG11_uc010uei.1_Intron	NM_025137	NP_079413			spatacsin isoform 1						cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	45099207	45099207	+	IGR	DEL	A	-	-	rs35309280		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45099207delA								TRIM69 (39182 upstream) : C15orf43 (149696 downstream)																																			---	---	---	---
DUOX2	50506	broad.mit.edu	37	15	45400084	45400084	+	Intron	DEL	A	-	-	rs11366449		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45400084delA	uc010bea.2	-						DUOX2_uc001zun.2_Intron	NM_014080	NP_054799			dual oxidase 2 precursor						cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	45717710	45717710	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45717710delA								SPATA5L1 (4096 upstream) : C15orf48 (5053 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	46596199	46596200	+	IGR	DEL	AA	-	-	rs35170757		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:46596199_46596200delAA								SQRDL (612721 upstream) : SEMA6D (880203 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	46840965	46840965	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:46840965delA								SQRDL (857487 upstream) : SEMA6D (635438 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	47149874	47149875	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:47149874_47149875insA								None (None upstream) : SEMA6D (326528 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	47326009	47326010	+	IGR	INS	-	T	T	rs144854831	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:47326009_47326010insT								None (None upstream) : SEMA6D (150393 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	47356780	47356781	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:47356780_47356781delAC								None (None upstream) : SEMA6D (119622 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	47394902	47394902	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:47394902delA								None (None upstream) : SEMA6D (81501 downstream)																																			---	---	---	---
SEMA6D	80031	broad.mit.edu	37	15	47732123	47732123	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:47732123delA	uc001zvw.2	+							NM_020858	NP_065909			semaphorin 6D isoform 1 precursor						axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)														---	---	---	---
SEMA6D	80031	broad.mit.edu	37	15	47761497	47761498	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:47761497_47761498delGT	uc001zvw.2	+							NM_020858	NP_065909			semaphorin 6D isoform 1 precursor						axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)														---	---	---	---
SEMA6D	80031	broad.mit.edu	37	15	47794068	47794069	+	Intron	DEL	TG	-	-	rs145393374	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:47794068_47794069delTG	uc001zvw.2	+							NM_020858	NP_065909			semaphorin 6D isoform 1 precursor						axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)														---	---	---	---
SEMA6D	80031	broad.mit.edu	37	15	47827318	47827318	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:47827318delA	uc001zvw.2	+							NM_020858	NP_065909			semaphorin 6D isoform 1 precursor						axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)														---	---	---	---
SEMA6D	80031	broad.mit.edu	37	15	48059138	48059140	+	Intron	DEL	TTT	-	-	rs35781153		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48059138_48059140delTTT	uc010bek.2	+						SEMA6D_uc001zvw.2_Intron|SEMA6D_uc001zvy.2_Intron|SEMA6D_uc001zvz.2_Intron|SEMA6D_uc001zwa.2_Intron|SEMA6D_uc001zwb.2_Intron|SEMA6D_uc001zwc.2_Intron	NM_153618	NP_705871			semaphorin 6D isoform 4 precursor						axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)														---	---	---	---
DUT	1854	broad.mit.edu	37	15	48634415	48634415	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48634415delT	uc001zws.2	+	7					DUT_uc001zwt.2_3'UTR|DUT_uc001zwu.2_RNA|DUT_uc001zwv.2_3'UTR|DUT_uc001zww.2_3'UTR	NM_001025248	NP_001020419			deoxyuridine triphosphatase isoform 1 precursor						DNA replication|dUTP metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside biosynthetic process	mitochondrion|nucleoplasm	dUTP diphosphatase activity|protein binding				0		all_lung(180;0.00265)		all cancers(107;2.66e-09)|GBM - Glioblastoma multiforme(94;6.76e-07)									Modulation_of_nucleotide_pools					---	---	---	---
FBN1	2200	broad.mit.edu	37	15	48713280	48713280	+	Intron	DEL	T	-	-	rs71901887		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48713280delT	uc001zwx.1	-						FBN1_uc010beo.1_Intron	NM_000138	NP_000129			fibrillin 1 precursor						heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	49006621	49006621	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49006621delT								FBN1 (68703 upstream) : CEP152 (23728 downstream)																																			---	---	---	---
SHC4	399694	broad.mit.edu	37	15	49176727	49176727	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49176727delT	uc001zxb.1	-							NM_203349	NP_976224			rai-like protein						intracellular signal transduction	cell junction|postsynaptic membrane				ovary(3)|pancreas(2)	5		all_lung(180;0.00466)		all cancers(107;9.4e-08)|GBM - Glioblastoma multiforme(94;5.94e-07)														---	---	---	---
COPS2	9318	broad.mit.edu	37	15	49426048	49426048	+	Intron	DEL	G	-	-	rs11858814	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49426048delG	uc001zxf.2	-						COPS2_uc001zxh.2_Intron|COPS2_uc010ufa.1_Intron	NM_004236	NP_004227			COP9 constitutive photomorphogenic homolog						cullin deneddylation|transcription from RNA polymerase II promoter	cytoplasm|signalosome	protein binding|signal transducer activity			lung(1)	1		all_lung(180;0.0428)		all cancers(107;1.34e-07)|GBM - Glioblastoma multiforme(94;3.02e-05)														---	---	---	---
GALK2	2585	broad.mit.edu	37	15	49483050	49483050	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49483050delT	uc001zxj.1	+						GALK2_uc001zxi.1_Intron|GALK2_uc010ufb.1_Intron|GALK2_uc001zxk.2_Intron|GALK2_uc010ufc.1_Intron	NM_002044	NP_002035			galactokinase 2 isoform 1						galactose metabolic process	cytoplasm	ATP binding|galactokinase activity|N-acetylgalactosamine kinase activity			breast(1)	1		all_lung(180;0.000325)		all cancers(107;3.71e-08)|GBM - Glioblastoma multiforme(94;7e-05)														---	---	---	---
GALK2	2585	broad.mit.edu	37	15	49488016	49488016	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49488016delT	uc001zxj.1	+						GALK2_uc001zxi.1_Intron|GALK2_uc010ufb.1_Intron|GALK2_uc001zxk.2_Intron|GALK2_uc010ufc.1_Intron	NM_002044	NP_002035			galactokinase 2 isoform 1						galactose metabolic process	cytoplasm	ATP binding|galactokinase activity|N-acetylgalactosamine kinase activity			breast(1)	1		all_lung(180;0.000325)		all cancers(107;3.71e-08)|GBM - Glioblastoma multiforme(94;7e-05)														---	---	---	---
GALK2	2585	broad.mit.edu	37	15	49595352	49595352	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49595352delA	uc001zxj.1	+						GALK2_uc001zxi.1_Intron|GALK2_uc010ufb.1_Intron|GALK2_uc001zxk.2_Intron|GALK2_uc010ufc.1_Intron	NM_002044	NP_002035			galactokinase 2 isoform 1						galactose metabolic process	cytoplasm	ATP binding|galactokinase activity|N-acetylgalactosamine kinase activity			breast(1)	1		all_lung(180;0.000325)		all cancers(107;3.71e-08)|GBM - Glioblastoma multiforme(94;7e-05)														---	---	---	---
C15orf33	196951	broad.mit.edu	37	15	49658246	49658246	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	49940002	49940002	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49940002delA								DTWD1 (2670 upstream) : ATP8B4 (210434 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	50031248	50031248	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:50031248delA								DTWD1 (93916 upstream) : ATP8B4 (119188 downstream)																																			---	---	---	---
GABPB1	2553	broad.mit.edu	37	15	50585475	50585475	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:50585475delT	uc001zyb.2	-						GABPB1_uc001zya.2_Intron|GABPB1_uc010ufg.1_Intron|GABPB1_uc001zyc.2_Intron|GABPB1_uc001zyd.2_Intron|GABPB1_uc001zye.2_Intron|GABPB1_uc001zyf.2_Intron	NM_005254	NP_005245			GA binding protein transcription factor, beta						positive regulation of transcription from RNA polymerase II promoter	nucleus	protein binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)	1																		---	---	---	---
GABPB1	2553	broad.mit.edu	37	15	50617647	50617648	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:50617647_50617648delAA	uc001zyb.2	-						GABPB1_uc001zya.2_Intron|GABPB1_uc010ufg.1_Intron|GABPB1_uc001zyc.2_Intron|GABPB1_uc001zyd.2_Intron|GABPB1_uc001zye.2_Intron|GABPB1_uc001zyf.2_Intron	NM_005254	NP_005245			GA binding protein transcription factor, beta						positive regulation of transcription from RNA polymerase II promoter	nucleus	protein binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	51062071	51062071	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:51062071delT								SPPL2A (4161 upstream) : AP4E1 (138875 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	51086876	51086876	+	IGR	DEL	A	-	-	rs35395664		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:51086876delA								SPPL2A (28966 upstream) : AP4E1 (114070 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	51178716	51178716	+	IGR	DEL	A	-	-	rs75357934		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:51178716delA								SPPL2A (120806 upstream) : AP4E1 (22230 downstream)																																			---	---	---	---
GLDN	342035	broad.mit.edu	37	15	51665913	51665913	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:51665913delG	uc002aba.2	+						GLDN_uc010bez.1_Intron	NM_181789	NP_861454			gliomedin						cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)														---	---	---	---
DMXL2	23312	broad.mit.edu	37	15	51784695	51784695	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:51784695delT	uc002abf.2	-						DMXL2_uc010ufy.1_Intron|DMXL2_uc010bfa.2_Intron	NM_015263	NP_056078			Dmx-like 2							cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)														---	---	---	---
TMOD3	29766	broad.mit.edu	37	15	52216688	52216688	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52216688delA	uc010bfc.1	+							NM_014547				tropomodulin 3 (ubiquitous)							cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(1)	1				all cancers(107;0.00194)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	52271304	52271304	+	IGR	DEL	A	-	-	rs77297518		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52271304delA								LEO1 (7346 upstream) : MAPK6 (40107 downstream)																																			---	---	---	---
MYO5C	55930	broad.mit.edu	37	15	52565361	52565361	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52565361delA	uc010bff.2	-						MYO5C_uc010uga.1_Intron|MYO5C_uc010ugb.1_Intron|MYO5C_uc010ugc.1_Intron	NM_018728	NP_061198			myosin VC							myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)														---	---	---	---
KIAA1370	56204	broad.mit.edu	37	15	52876875	52876875	+	Intron	DEL	A	-	-	rs12324699	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52876875delA	uc002acg.3	-						KIAA1370_uc002ach.3_Intron|KIAA1370_uc002acf.3_Intron|KIAA1370_uc010ugf.1_Intron	NM_019600	NP_062546			hypothetical protein LOC56204												0				all cancers(107;0.0803)														---	---	---	---
ONECUT1	3175	broad.mit.edu	37	15	53069935	53069935	+	Intron	DEL	A	-	-	rs57187579		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:53069935delA	uc002aci.1	-							NM_004498	NP_004489			one cut homeobox 1						endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	53148268	53148269	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:53148268_53148269insT								ONECUT1 (66059 upstream) : WDR72 (657669 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	53353867	53353868	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:53353867_53353868delTT								ONECUT1 (271658 upstream) : WDR72 (452070 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	53460154	53460155	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:53460154_53460155delAA								ONECUT1 (377945 upstream) : WDR72 (345783 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	53526132	53526132	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:53526132delC								ONECUT1 (443923 upstream) : WDR72 (279806 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	53606468	53606468	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:53606468delT								ONECUT1 (524259 upstream) : WDR72 (199470 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	53676220	53676221	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:53676220_53676221insA								ONECUT1 (594011 upstream) : WDR72 (129717 downstream)																																			---	---	---	---
UNC13C	440279	broad.mit.edu	37	15	54340288	54340288	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:54340288delT	uc002ack.2	+							NM_001080534	NP_001074003			unc-13 homolog C						exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)														---	---	---	---
UNC13C	440279	broad.mit.edu	37	15	54607145	54607145	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:54607145delT	uc002ack.2	+						UNC13C_uc002acl.2_Intron	NM_001080534	NP_001074003			unc-13 homolog C						exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)														---	---	---	---
UNC13C	440279	broad.mit.edu	37	15	54766670	54766670	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:54766670delT	uc002ack.2	+							NM_001080534	NP_001074003			unc-13 homolog C						exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	54938440	54938440	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:54938440delA								UNC13C (17635 upstream) : RSL24D1 (535081 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	54946699	54946699	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:54946699delA								UNC13C (25894 upstream) : RSL24D1 (526822 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	55159624	55159624	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:55159624delA								UNC13C (238819 upstream) : RSL24D1 (313897 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	55470416	55470416	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:55470416delA								UNC13C (549611 upstream) : RSL24D1 (3105 downstream)																																			---	---	---	---
PRTG	283659	broad.mit.edu	37	15	55905281	55905281	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:55905281delA	uc002adg.2	-	20						NM_173814	NP_776175			protogenin precursor						multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)														---	---	---	---
PRTG	283659	broad.mit.edu	37	15	55917654	55917654	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:55917654delT	uc002adg.2	-							NM_173814	NP_776175			protogenin precursor						multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	56057153	56057154	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:56057153_56057154delAA								PRTG (21976 upstream) : NEDD4 (61977 downstream)																																			---	---	---	---
NEDD4	4734	broad.mit.edu	37	15	56192267	56192268	+	Intron	DEL	TT	-	-	rs113523545		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:56192267_56192268delTT	uc002adj.2	-						NEDD4_uc002adl.2_Intron|NEDD4_uc002adi.2_Intron|NEDD4_uc010ugj.1_Intron|NEDD4_uc010bfm.2_Intron|NEDD4_uc002adk.2_Intron	NM_198400	NP_006145			neural precursor cell expressed, developmentally						development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)														---	---	---	---
TEX9	374618	broad.mit.edu	37	15	56704485	56704485	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:56704485delT	uc002adp.2	+						TEX9_uc010ugl.1_Intron	NM_198524	NP_940926			testis expressed 9												0				all cancers(107;0.0394)|GBM - Glioblastoma multiforme(80;0.056)														---	---	---	---
TCF12	6938	broad.mit.edu	37	15	57279307	57279307	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:57279307delT	uc002aec.2	+						TCF12_uc010ugm.1_Intron|TCF12_uc010ugn.1_Intron|TCF12_uc002aea.2_Intron|TCF12_uc010bfs.2_Intron|TCF12_uc002aeb.2_Intron|TCF12_uc002aed.2_Intron	NM_207038	NP_996921			transcription factor 12 isoform b						immune response|muscle organ development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(2)|lung(1)	8		Colorectal(260;0.0907)		all cancers(107;0.000313)|GBM - Glioblastoma multiforme(80;0.00878)|STAD - Stomach adenocarcinoma(283;0.239)				T	TEC	extraskeletal myxoid chondrosarcoma								---	---	---	---
TCF12	6938	broad.mit.edu	37	15	57305234	57305234	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:57305234delT	uc002aec.2	+						TCF12_uc010ugm.1_Intron|TCF12_uc010ugn.1_Intron|TCF12_uc002aea.2_Intron|TCF12_uc010bfs.2_Intron|TCF12_uc002aeb.2_Intron|TCF12_uc002aed.2_Intron	NM_207038	NP_996921			transcription factor 12 isoform b						immune response|muscle organ development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(2)|lung(1)	8		Colorectal(260;0.0907)		all cancers(107;0.000313)|GBM - Glioblastoma multiforme(80;0.00878)|STAD - Stomach adenocarcinoma(283;0.239)				T	TEC	extraskeletal myxoid chondrosarcoma								---	---	---	---
TCF12	6938	broad.mit.edu	37	15	57408051	57408052	+	Intron	INS	-	T	T	rs148659069	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:57408051_57408052insT	uc002aec.2	+						TCF12_uc010ugm.1_Intron|TCF12_uc010ugn.1_Intron|TCF12_uc002aea.2_Intron|TCF12_uc010bfs.2_Intron|TCF12_uc002aeb.2_Intron|TCF12_uc002aed.2_Intron	NM_207038	NP_996921			transcription factor 12 isoform b						immune response|muscle organ development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(2)|lung(1)	8		Colorectal(260;0.0907)		all cancers(107;0.000313)|GBM - Glioblastoma multiforme(80;0.00878)|STAD - Stomach adenocarcinoma(283;0.239)				T	TEC	extraskeletal myxoid chondrosarcoma								---	---	---	---
TCF12	6938	broad.mit.edu	37	15	57482029	57482029	+	Intron	DEL	A	-	-	rs35483528		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:57482029delA	uc002aec.2	+						TCF12_uc010ugm.1_Intron|TCF12_uc010ugn.1_Intron|TCF12_uc002aea.2_Intron|TCF12_uc010bfs.2_Intron|TCF12_uc002aeb.2_Intron|TCF12_uc002aed.2_Intron	NM_207038	NP_996921			transcription factor 12 isoform b						immune response|muscle organ development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(2)|lung(1)	8		Colorectal(260;0.0907)		all cancers(107;0.000313)|GBM - Glioblastoma multiforme(80;0.00878)|STAD - Stomach adenocarcinoma(283;0.239)				T	TEC	extraskeletal myxoid chondrosarcoma								---	---	---	---
GCOM1	145781	broad.mit.edu	37	15	57976330	57976330	+	Intron	DEL	G	-	-	rs77817588		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:57976330delG	uc002aei.2	+						GCOM1_uc002aej.2_Intron|GCOM1_uc002aek.2_Intron|GCOM1_uc002ael.2_Intron|GCOM1_uc002aem.2_Intron|GCOM1_uc002aeq.2_Intron|GCOM1_uc002aen.2_Intron|GCOM1_uc010bfy.2_Intron|GCOM1_uc002aeo.2_Intron|GCOM1_uc002aep.2_Intron|GCOM1_uc010bfx.2_Intron|GCOM1_uc002aer.1_Intron|GRINL1A_uc002aes.2_Intron	NM_001018100	NP_001018110			GRINL1A upstream protein isoform 7						intracellular signal transduction	extrinsic to internal side of plasma membrane|I band				ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	58021701	58021703	+	IGR	DEL	GCA	-	-	rs72082872		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:58021701_58021703delGCA								GCOM1 (11949 upstream) : ALDH1A2 (223925 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	58874419	58874419	+	IGR	DEL	A	-	-	rs12440246	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:58874419delA								LIPC (13347 upstream) : ADAM10 (14091 downstream)																																			---	---	---	---
ADAM10	102	broad.mit.edu	37	15	58957172	58957172	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:58957172delA	uc002afd.1	-						ADAM10_uc010bgc.1_Intron|ADAM10_uc010ugz.1_Intron|ADAM10_uc002afe.1_Intron|ADAM10_uc002afg.2_Intron	NM_001110	NP_001101			ADAM metallopeptidase domain 10 precursor						cell-cell signaling|constitutive protein ectodomain proteolysis|epidermal growth factor receptor signaling pathway|in utero embryonic development|integrin-mediated signaling pathway|monocyte activation|negative regulation of cell adhesion|Notch receptor processing|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of T cell chemotaxis|protein phosphorylation|response to tumor necrosis factor	cell surface|endomembrane system|Golgi-associated vesicle|integral to membrane|nucleus|plasma membrane	integrin binding|metalloendopeptidase activity|protein homodimerization activity|protein kinase binding|SH3 domain binding|zinc ion binding			skin(2)	2				GBM - Glioblastoma multiforme(80;0.202)														---	---	---	---
ADAM10	102	broad.mit.edu	37	15	58965027	58965027	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:58965027delA	uc002afd.1	-						ADAM10_uc010bgc.1_Intron|ADAM10_uc010ugz.1_Intron|ADAM10_uc002afe.1_Intron|ADAM10_uc002afg.2_Intron	NM_001110	NP_001101			ADAM metallopeptidase domain 10 precursor						cell-cell signaling|constitutive protein ectodomain proteolysis|epidermal growth factor receptor signaling pathway|in utero embryonic development|integrin-mediated signaling pathway|monocyte activation|negative regulation of cell adhesion|Notch receptor processing|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of T cell chemotaxis|protein phosphorylation|response to tumor necrosis factor	cell surface|endomembrane system|Golgi-associated vesicle|integral to membrane|nucleus|plasma membrane	integrin binding|metalloendopeptidase activity|protein homodimerization activity|protein kinase binding|SH3 domain binding|zinc ion binding			skin(2)	2				GBM - Glioblastoma multiforme(80;0.202)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	59047731	59047732	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59047731_59047732delTT								ADAM10 (5554 upstream) : FAM63B (15661 downstream)																																			---	---	---	---
FAM63B	54629	broad.mit.edu	37	15	59077560	59077560	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59077560delA	uc002afj.2	+						FAM63B_uc002afi.2_Intron|FAM63B_uc002afk.2_Intron|FAM63B_uc002afl.2_Intron	NM_001040450	NP_001035540			hypothetical protein LOC54629 isoform a											central_nervous_system(1)	1																		---	---	---	---
FAM63B	54629	broad.mit.edu	37	15	59106594	59106594	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59106594delT	uc002afj.2	+						FAM63B_uc002afi.2_Intron|FAM63B_uc002afk.2_Intron|FAM63B_uc002afl.2_Intron	NM_001040450	NP_001035540			hypothetical protein LOC54629 isoform a											central_nervous_system(1)	1																		---	---	---	---
MYO1E	4643	broad.mit.edu	37	15	59547299	59547299	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59547299delT	uc002aga.2	-							NM_004998	NP_004989			myosin IE						actin filament-based movement	myosin complex	actin binding|ATP binding|ATPase activity, coupled|calmodulin binding|microfilament motor activity			central_nervous_system(3)	3				all cancers(107;0.207)														---	---	---	---
MYO1E	4643	broad.mit.edu	37	15	59649110	59649110	+	Intron	DEL	T	-	-	rs113832609		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59649110delT	uc002aga.2	-							NM_004998	NP_004989			myosin IE						actin filament-based movement	myosin complex	actin binding|ATP binding|ATPase activity, coupled|calmodulin binding|microfilament motor activity			central_nervous_system(3)	3				all cancers(107;0.207)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	59830471	59830471	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59830471delT								FAM81A (14720 upstream) : GCNT3 (73511 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	59917719	59917719	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59917719delT								GCNT3 (5510 upstream) : GTF2A2 (12544 downstream)																																			---	---	---	---
GTF2A2	2958	broad.mit.edu	37	15	59942804	59942804	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59942804delA	uc002agg.2	-							NM_004492	NP_004483			general transcription factor IIA, 2, 12kDa						interspecies interaction between organisms|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	transcription factor TFIIA complex	protein heterodimerization activity|protein homodimerization activity|TBP-class protein binding|transcription coactivator activity			central_nervous_system(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	60261619	60261619	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:60261619delA								BNIP2 (279977 upstream) : FOXB1 (34802 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	60445353	60445353	+	IGR	DEL	A	-	-	rs72304780		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:60445353delA								FOXB1 (116945 upstream) : ANXA2 (193998 downstream)																																			---	---	---	---
ANXA2	302	broad.mit.edu	37	15	60644743	60644743	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:60644743delA	uc002agn.2	-						ANXA2_uc002agk.2_Intron|ANXA2_uc002agl.2_Intron|ANXA2_uc002agm.2_Intron|ANXA2_uc010uhd.1_Intron	NM_001136015	NP_001129487			annexin A2 isoform 2						angiogenesis|positive regulation of vesicle fusion|skeletal system development	basement membrane|melanosome|midbody|soluble fraction	calcium ion binding|calcium-dependent phospholipid binding|cytoskeletal protein binding|phospholipase inhibitor activity			ovary(1)	1					Alteplase(DB00009)|Anistreplase(DB00029)|Tenecteplase(DB00031)													---	---	---	---
ANXA2	302	broad.mit.edu	37	15	60649686	60649686	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:60649686delT	uc002agn.2	-						ANXA2_uc002agk.2_Intron|ANXA2_uc002agl.2_Intron|ANXA2_uc002agm.2_Intron|ANXA2_uc010uhd.1_Intron|ANXA2_uc010bgj.2_Intron	NM_001136015	NP_001129487			annexin A2 isoform 2						angiogenesis|positive regulation of vesicle fusion|skeletal system development	basement membrane|melanosome|midbody|soluble fraction	calcium ion binding|calcium-dependent phospholipid binding|cytoskeletal protein binding|phospholipase inhibitor activity			ovary(1)	1					Alteplase(DB00009)|Anistreplase(DB00029)|Tenecteplase(DB00031)													---	---	---	---
Unknown	0	broad.mit.edu	37	15	60701118	60701119	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:60701118_60701119insG								ANXA2 (10933 upstream) : NARG2 (10690 downstream)																																			---	---	---	---
RORA	6095	broad.mit.edu	37	15	60878655	60878656	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:60878655_60878656delGT	uc002agv.2	-						RORA_uc002agt.3_Intron|RORA_uc002agw.2_Intron|RORA_uc002agx.2_Intron	NM_134260	NP_599022			RAR-related orphan receptor A isoform b						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																		---	---	---	---
RORA	6095	broad.mit.edu	37	15	60923827	60923827	+	Intron	DEL	A	-	-	rs35636703		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:60923827delA	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																		---	---	---	---
RORA	6095	broad.mit.edu	37	15	60936245	60936245	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:60936245delA	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																		---	---	---	---
RORA	6095	broad.mit.edu	37	15	60944310	60944312	+	Intron	DEL	TTT	-	-	rs77209052		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:60944310_60944312delTTT	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																		---	---	---	---
RORA	6095	broad.mit.edu	37	15	61447903	61447903	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:61447903delA	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	61950561	61950562	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:61950561_61950562insT								RORA (429059 upstream) : VPS13C (194030 downstream)																																			---	---	---	---
VPS13C	54832	broad.mit.edu	37	15	62182074	62182075	+	Intron	DEL	AC	-	-	rs72490391		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:62182074_62182075delAC	uc002agz.2	-						VPS13C_uc002aha.2_Intron|VPS13C_uc002ahb.1_Intron|VPS13C_uc002ahc.1_Intron	NM_020821	NP_065872			vacuolar protein sorting 13C protein isoform 2A						protein localization					ovary(2)	2																		---	---	---	---
VPS13C	54832	broad.mit.edu	37	15	62333337	62333337	+	Intron	DEL	A	-	-	rs35028366		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:62333337delA	uc002agz.2	-						VPS13C_uc002aha.2_Intron|VPS13C_uc002ahb.1_Intron|VPS13C_uc002ahc.1_Intron	NM_020821	NP_065872			vacuolar protein sorting 13C protein isoform 2A						protein localization					ovary(2)	2																		---	---	---	---
TLN2	83660	broad.mit.edu	37	15	63004925	63004926	+	Intron	DEL	GT	-	-	rs72282237		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63004925_63004926delGT	uc002alb.3	+							NM_015059	NP_055874			talin 2						cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11																		---	---	---	---
TLN2	83660	broad.mit.edu	37	15	63129171	63129172	+	Intron	INS	-	TGAT	TGAT	rs143186455	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63129171_63129172insTGAT	uc002alb.3	+						TLN2_uc002alc.3_Intron|TLN2_uc010uic.1_Intron|uc002ale.1_5'Flank	NM_015059	NP_055874			talin 2						cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11																		---	---	---	---
TPM1	7168	broad.mit.edu	37	15	63344969	63344969	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63344969delA	uc002alg.2	+						TPM1_uc002alh.2_Intron|TPM1_uc010bgn.2_Intron|TPM1_uc002ali.2_Intron|TPM1_uc002alj.2_Intron|TPM1_uc002alk.2_Intron|TPM1_uc002all.2_Intron|TPM1_uc002alm.2_Intron|TPM1_uc010uie.1_Intron|TPM1_uc002alp.2_Intron|TPM1_uc010uif.1_Intron|TPM1_uc002alr.2_Intron|TPM1_uc002als.2_Intron|TPM1_uc010uig.1_Intron|TPM1_uc002alt.2_Intron|TPM1_uc010bgp.2_Intron	NM_001018005	NP_001018005			tropomyosin 1 alpha chain isoform 1						cardiac muscle contraction|cellular component movement|cellular response to reactive oxygen species|muscle filament sliding|negative regulation of cell migration|positive regulation of ATPase activity|positive regulation of cell adhesion|positive regulation of heart rate by epinephrine|positive regulation of stress fiber assembly|regulation of muscle contraction|ruffle organization|sarcomere organization|ventricular cardiac muscle tissue morphogenesis|wound healing	bleb|cytosol|muscle thin filament tropomyosin|ruffle membrane|stress fiber	actin binding|structural constituent of cytoskeleton|structural constituent of muscle				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	63476445	63476446	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63476445_63476446delAA								RPS27L (26704 upstream) : RAB8B (5282 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	63774563	63774563	+	IGR	DEL	T	-	-	rs113035161		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63774563delT								CA12 (100488 upstream) : USP3 (22247 downstream)																																			---	---	---	---
USP3	9960	broad.mit.edu	37	15	63835499	63835499	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63835499delA	uc002amf.2	+						USP3_uc010uii.1_Intron|USP3_uc002amg.2_Intron|USP3_uc002amh.2_Intron|USP3_uc010uij.1_Intron|USP3_uc010uik.1_Intron|USP3_uc010bgs.2_Intron|USP3_uc002ami.2_Intron	NM_006537	NP_006528			ubiquitin thiolesterase 3						DNA repair|histone deubiquitination|mitotic cell cycle|regulation of protein stability|ubiquitin-dependent protein catabolic process	nuclear chromatin	histone binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(80;0.0187)														---	---	---	---
HERC1	8925	broad.mit.edu	37	15	64015557	64015557	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:64015557delA	uc002amp.2	-						HERC1_uc010uil.1_Intron	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																		---	---	---	---
DAPK2	23604	broad.mit.edu	37	15	64334553	64334553	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:64334553delA	uc002amr.2	-						DAPK2_uc010uim.1_5'Flank|DAPK2_uc010bgu.1_Intron	NM_014326	NP_055141			death-associated kinase 2						apoptosis|induction of apoptosis|intracellular protein kinase cascade	cytoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|identical protein binding			stomach(1)|central_nervous_system(1)	2				LUAD - Lung adenocarcinoma(2;0.215)														---	---	---	---
SNX22	79856	broad.mit.edu	37	15	64445350	64445350	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:64445350delT	uc002anc.1	+						SNX22_uc002amz.1_Intron|SNX22_uc002ana.1_3'UTR|SNX22_uc002anb.1_Intron	NM_024798	NP_079074			sorting nexin 22						cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding				0																		---	---	---	---
ZNF609	23060	broad.mit.edu	37	15	64923741	64923741	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:64923741delT	uc002ann.2	+							NM_015042	NP_055857			zinc finger protein 609							nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3																		---	---	---	---
ZNF609	23060	broad.mit.edu	37	15	64934697	64934697	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:64934697delA	uc002ann.2	+							NM_015042	NP_055857			zinc finger protein 609							nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3																		---	---	---	---
RBPMS2	348093	broad.mit.edu	37	15	65046903	65046904	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65046903_65046904delAA	uc002anq.2	-							NM_194272	NP_919248			RNA binding protein with multiple splicing 2								nucleic acid binding|nucleotide binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	65166978	65166978	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65166978delT								PLEKHO2 (6779 upstream) : ANKDD1A (37123 downstream)																																			---	---	---	---
ANKDD1A	348094	broad.mit.edu	37	15	65246443	65246447	+	Intron	DEL	TCTTT	-	-	rs150846909	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65246443_65246447delTCTTT	uc002aoa.2	+						ANKDD1A_uc002aoc.2_Intron|ANKDD1A_uc010bha.2_Intron	NM_182703	NP_874362			ankyrin repeat and death domain containing 1A						signal transduction					ovary(1)	1																		---	---	---	---
ANKDD1A	348094	broad.mit.edu	37	15	65246699	65246706	+	Intron	DEL	CTTTTCTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65246699_65246706delCTTTTCTT	uc002aoa.2	+						ANKDD1A_uc002aoc.2_Intron|ANKDD1A_uc010bha.2_Intron	NM_182703	NP_874362			ankyrin repeat and death domain containing 1A						signal transduction					ovary(1)	1																		---	---	---	---
SPG21	51324	broad.mit.edu	37	15	65258073	65258073	+	Intron	DEL	T	-	-	rs78862472		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65258073delT	uc002aod.2	-						SPG21_uc002aoe.2_Intron|SPG21_uc010bhb.2_Intron|SPG21_uc010bhc.2_Intron	NM_001127889	NP_001121361			spastic paraplegia 21 isoform a						cell death	cytosol|endosome membrane|trans-Golgi network transport vesicle	CD4 receptor binding				0																		---	---	---	---
MTFMT	123263	broad.mit.edu	37	15	65308675	65308675	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65308675delT	uc002aof.3	-							NM_139242	NP_640335			mitochondrial methionyl-tRNA formyltransferase							mitochondrion	methionyl-tRNA formyltransferase activity|methyltransferase activity			ovary(2)	2					Tetrahydrofolic acid(DB00116)													---	---	---	---
Unknown	0	broad.mit.edu	37	15	65345625	65345625	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65345625delT								OSTBETA (87 upstream) : RASL12 (50 downstream)																																			---	---	---	---
PARP16	54956	broad.mit.edu	37	15	65563598	65563598	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65563598delT	uc002aoo.2	-						PARP16_uc002aop.2_Intron|PARP16_uc002aoq.2_Intron	NM_017851	NP_060321			poly (ADP-ribose) polymerase family, member 16							integral to membrane	NAD+ ADP-ribosyltransferase activity			lung(2)	2																		---	---	---	---
SLC24A1	9187	broad.mit.edu	37	15	65926549	65926550	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65926549_65926550delAA	uc010ujf.1	+						SLC24A1_uc010ujd.1_Intron|SLC24A1_uc010uje.1_Intron|SLC24A1_uc010ujg.1_Intron|SLC24A1_uc010ujh.1_Intron	NM_004727	NP_004718			solute carrier family 24						response to light intensity|visual perception	integral to plasma membrane|membrane fraction|outer membrane	calcium, potassium:sodium antiporter activity|protein binding|symporter activity				0																		---	---	---	---
DIS3L	115752	broad.mit.edu	37	15	66619270	66619271	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:66619270_66619271delTT	uc010ujm.1	+						DIS3L_uc002app.2_Intron|DIS3L_uc010bho.2_Intron	NM_001143688	NP_001137160			DIS3 mitotic control homolog (S.						rRNA catabolic process	cytoplasm|exosome (RNase complex)	exonuclease activity|protein binding|ribonuclease activity|RNA binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	66659105	66659107	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:66659105_66659107delAAA								TIPIN (10051 upstream) : MAP2K1 (20104 downstream)																																			---	---	---	---
ZWILCH	55055	broad.mit.edu	37	15	66828014	66828014	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:66828014delA	uc002aqb.2	+						ZWILCH_uc010bhu.1_Intron|ZWILCH_uc002aqa.2_Intron|ZWILCH_uc010bhv.2_Intron	NM_017975	NP_060445			Zwilch						cell division|mitotic cell cycle checkpoint|mitotic prometaphase	condensed chromosome kinetochore|cytosol	protein binding			ovary(1)	1																		---	---	---	---
SMAD3	4088	broad.mit.edu	37	15	67434592	67434592	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:67434592delT	uc002aqj.2	+						SMAD3_uc010ujr.1_Intron|SMAD3_uc010ujs.1_Intron	NM_005902	NP_005893			mothers against decapentaplegic homolog 3						activation of caspase activity|cell cycle arrest|cell-cell junction organization|evasion of host defenses by virus|immune response|induction of apoptosis|negative regulation of cell growth|negative regulation of mitotic cell cycle|negative regulation of protein catabolic process|negative regulation of protein phosphorylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|protein stabilization|regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|transport|wound healing	cytosol|nuclear inner membrane|receptor complex	beta-catenin binding|co-SMAD binding|metal ion binding|protein homodimerization activity|protein kinase binding|R-SMAD binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transforming growth factor beta receptor binding|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|ubiquitin protein ligase binding			large_intestine(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5				Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(7;0.125)														---	---	---	---
IQCH	64799	broad.mit.edu	37	15	67634449	67634450	+	Intron	DEL	AA	-	-	rs111370208		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:67634449_67634450delAA	uc002aqo.1	+						IQCH_uc010ujv.1_Intron|IQCH_uc002aqn.1_Intron|IQCH_uc002aqq.1_Intron|IQCH_uc002aqp.1_Intron	NM_001031715	NP_001026885			IQ motif containing H isoform 1											skin(3)|ovary(1)	4				Colorectal(3;0.0856)														---	---	---	---
IQCH	64799	broad.mit.edu	37	15	67748488	67748488	+	Intron	DEL	T	-	-	rs71717159		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:67748488delT	uc002aqo.1	+						IQCH_uc002aqq.1_Intron|IQCH_uc002aqp.1_Intron|uc002aqr.1_Intron	NM_001031715	NP_001026885			IQ motif containing H isoform 1											skin(3)|ovary(1)	4				Colorectal(3;0.0856)														---	---	---	---
MAP2K5	5607	broad.mit.edu	37	15	67864333	67864333	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:67864333delA	uc002aqu.2	+						MAP2K5_uc002aqt.1_Intron|MAP2K5_uc002aqv.2_Intron|MAP2K5_uc010ujw.1_Intron	NM_145160	NP_660143			mitogen-activated protein kinase kinase 5						nerve growth factor receptor signaling pathway		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)	2																		---	---	---	---
MAP2K5	5607	broad.mit.edu	37	15	67907330	67907330	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:67907330delT	uc002aqu.2	+						MAP2K5_uc002aqt.1_Intron|MAP2K5_uc002aqv.2_Intron|MAP2K5_uc002aqw.2_Intron	NM_145160	NP_660143			mitogen-activated protein kinase kinase 5						nerve growth factor receptor signaling pathway		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)	2																		---	---	---	---
MAP2K5	5607	broad.mit.edu	37	15	67914869	67914869	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:67914869delT	uc002aqu.2	+						MAP2K5_uc002aqt.1_Intron|MAP2K5_uc002aqv.2_Intron|MAP2K5_uc002aqw.2_Intron	NM_145160	NP_660143			mitogen-activated protein kinase kinase 5						nerve growth factor receptor signaling pathway		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)	2																		---	---	---	---
MAP2K5	5607	broad.mit.edu	37	15	68003562	68003562	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:68003562delT	uc002aqu.2	+						MAP2K5_uc002aqv.2_Intron|MAP2K5_uc002aqw.2_Intron|MAP2K5_uc002aqx.2_Intron	NM_145160	NP_660143			mitogen-activated protein kinase kinase 5						nerve growth factor receptor signaling pathway		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)	2																		---	---	---	---
PIAS1	8554	broad.mit.edu	37	15	68438921	68438921	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:68438921delA	uc002aqz.2	+	6	807	c.711delA	c.(709-711)ACAfs	p.T237fs	PIAS1_uc010ujx.1_Frame_Shift_Del_p.T237fs	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	237	PINIT.				androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	68551662	68551664	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:68551662_68551664delTTT								CLN6 (2218 upstream) : FEM1B (18477 downstream)																																			---	---	---	---
ITGA11	22801	broad.mit.edu	37	15	68696435	68696435	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:68696435delT	uc002ari.2	-						ITGA11_uc010bib.2_Intron	NM_001004439	NP_001004439			integrin, alpha 11 precursor						cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)													---	---	---	---
Unknown	0	broad.mit.edu	37	15	69062419	69062419	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69062419delT								CORO2B (42277 upstream) : ANP32A (8458 downstream)																																			---	---	---	---
NOX5	79400	broad.mit.edu	37	15	69315022	69315022	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69315022delA	uc002ars.1	+						NOX5_uc002arp.1_Intron|NOX5_uc002arq.1_Intron|NOX5_uc010bid.1_Intron|NOX5_uc002arr.1_Intron|NOX5_uc010bie.1_Intron|NOX5_uc002aro.2_RNA	NM_024505	NP_078781			NADPH oxidase, EF-hand calcium binding domain 5						angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	69404068	69404068	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69404068delA								TMEM84 (15907 upstream) : GLCE (48905 downstream)																																			---	---	---	---
GLCE	26035	broad.mit.edu	37	15	69556736	69556737	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69556736_69556737delCA	uc002ary.1	+							NM_015554	NP_056369			D-glucuronyl C5-epimerase						heparan sulfate proteoglycan biosynthetic process|heparin biosynthetic process	Golgi membrane|integral to membrane	UDP-glucuronate 5'-epimerase activity			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	69577484	69577484	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69577484delA								GLCE (12940 upstream) : PAQR5 (13810 downstream)																																			---	---	---	---
LOC145837	145837	broad.mit.edu	37	15	69763790	69763790	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69763790delT	uc002asf.1	+						LOC145837_uc002asg.1_Intron|LOC145837_uc010bij.1_Intron					Homo sapiens cDNA clone IMAGE:5189446.												0																		---	---	---	---
LOC145837	145837	broad.mit.edu	37	15	69808462	69808462	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69808462delA	uc002asf.1	+						LOC145837_uc002asg.1_Intron|LOC145837_uc010bij.1_Intron					Homo sapiens cDNA clone IMAGE:5189446.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	70105251	70105251	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:70105251delG								LOC145837 (241472 upstream) : C15orf50 (22322 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	70227873	70227873	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:70227873delA								C15orf50 (92568 upstream) : TLE3 (112670 downstream)																																			---	---	---	---
TLE3	7090	broad.mit.edu	37	15	70340572	70340572	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:70340572delA	uc002asm.2	-	20					TLE3_uc002ask.2_3'UTR|TLE3_uc002asl.2_3'UTR|TLE3_uc010ukd.1_3'UTR|TLE3_uc010bik.1_3'UTR|TLE3_uc010bil.1_3'UTR|TLE3_uc002asn.2_3'UTR|TLE3_uc002asp.2_3'UTR|TLE3_uc002aso.2_3'UTR	NM_005078	NP_005069			transducin-like enhancer protein 3 isoform a						organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	70616455	70616455	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:70616455delT								TLE3 (226199 upstream) : UACA (330440 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	70784373	70784373	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:70784373delA								TLE3 (394117 upstream) : UACA (162522 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	70851320	70851321	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:70851320_70851321delCA								TLE3 (461064 upstream) : UACA (95574 downstream)																																			---	---	---	---
LRRC49	54839	broad.mit.edu	37	15	71236320	71236320	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:71236320delT	uc002asw.2	+						LRRC49_uc002asu.2_Intron|LRRC49_uc002asx.2_Intron|LRRC49_uc010ukf.1_Intron|LRRC49_uc002asy.2_Intron|LRRC49_uc002asz.2_Intron	NM_017691	NP_060161			leucine rich repeat containing 49							cytoplasm|microtubule				ovary(1)	1																		---	---	---	---
THSD4	79875	broad.mit.edu	37	15	71511357	71511358	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:71511357_71511358delTT	uc002atb.1	+							NM_024817	NP_079093			thrombospondin, type I, domain containing 4							proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2																		---	---	---	---
MYO9A	4649	broad.mit.edu	37	15	72252471	72252471	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72252471delA	uc002atl.3	-						MYO9A_uc010biq.2_Intron|MYO9A_uc002ato.2_Intron|MYO9A_uc002atn.1_Intron	NM_006901	NP_008832			myosin IXA						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3																		---	---	---	---
SENP8	123228	broad.mit.edu	37	15	72421710	72421710	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72421710delT	uc002atp.2	+							NM_145204	NP_660205			SUMO/sentrin specific peptidase family member 8						proteolysis		cysteine-type peptidase activity|protein binding			ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	72672594	72672594	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72672594delT								C15orf34 (1465 upstream) : TMEM202 (18074 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	72728760	72728760	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72728760delA								TMEM202 (28053 upstream) : ARIH1 (37907 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	72741730	72741732	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72741730_72741732delTTT								TMEM202 (41023 upstream) : ARIH1 (24935 downstream)																																			---	---	---	---
ARIH1	25820	broad.mit.edu	37	15	72810386	72810386	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72810386delT	uc002aut.3	+							NM_005744	NP_005735			ariadne ubiquitin-conjugating enzyme E2 binding						ubiquitin-dependent protein catabolic process	cytoplasm|ubiquitin ligase complex	ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	73042029	73042029	+	IGR	DEL	A	-	-	rs76825990		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73042029delA								BBS4 (11213 upstream) : ADPGK (1681 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	73331002	73331002	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73331002delC								ADPGK (254335 upstream) : NEO1 (13873 downstream)																																			---	---	---	---
NEO1	4756	broad.mit.edu	37	15	73517199	73517200	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73517199_73517200insG	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																		---	---	---	---
NEO1	4756	broad.mit.edu	37	15	73580386	73580386	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73580386delA	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																		---	---	---	---
C15orf60	283677	broad.mit.edu	37	15	73820231	73820231	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73820231delA	uc002avq.2	+						C15orf60_uc010bjb.2_Intron	NM_001042367	NP_001035826			hypothetical protein LOC283677											pancreas(1)	1																		---	---	---	---
NPTN	27020	broad.mit.edu	37	15	73906035	73906035	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73906035delT	uc002avs.2	-						NPTN_uc010bjc.2_Intron|NPTN_uc002avt.2_Intron|NPTN_uc002avr.2_Intron|NPTN_uc010ula.1_Intron	NM_012428	NP_036560			neuroplastin isoform b precursor						elevation of cytosolic calcium ion concentration|homophilic cell adhesion|long-term synaptic potentiation|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of long-term neuronal synaptic plasticity|positive regulation of neuron projection development|positive regulation of protein phosphorylation	integral to membrane|plasma membrane|presynaptic membrane	cell adhesion molecule binding|type 1 fibroblast growth factor receptor binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	74218299	74218299	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:74218299delT	uc002awa.1	-						uc002awb.1_Intron|LOXL1_uc002awc.1_5'Flank					Homo sapiens cDNA FLJ10302 fis, clone NT2RM2000042.																														---	---	---	---
COX5A	9377	broad.mit.edu	37	15	75228656	75228656	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75228656delA	uc002azi.3	-							NM_004255	NP_004246			cytochrome c oxidase subunit Va precursor						respiratory electron transport chain	mitochondrial inner membrane	cytochrome-c oxidase activity|electron carrier activity|metal ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	75374154	75374154	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75374154delA								PPCDC (31088 upstream) : C15orf39 (117079 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	75388131	75388131	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75388131delT								PPCDC (45065 upstream) : C15orf39 (103102 downstream)																																			---	---	---	---
SIN3A	25942	broad.mit.edu	37	15	75702076	75702076	+	Intron	DEL	A	-	-	rs74625735		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75702076delA	uc002bai.2	-						SIN3A_uc002baj.2_Intron|SIN3A_uc010uml.1_Intron	NM_015477	NP_056292			transcriptional co-repressor Sin3A						blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5																		---	---	---	---
UBE2Q2	92912	broad.mit.edu	37	15	76149283	76149285	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76149283_76149285delAAA	uc002bbg.2	+						UBE2Q2_uc002bbh.2_Intron|UBE2Q2_uc010umn.1_Intron|UBE2Q2_uc002bbi.2_5'Flank	NM_173469	NP_775740			ubiquitin-conjugating enzyme E2Q 2 isoform 1						protein K48-linked ubiquitination	cytoplasm	ATP binding|ubiquitin-protein ligase activity			ovary(2)	2																		---	---	---	---
UBE2Q2	92912	broad.mit.edu	37	15	76168239	76168240	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76168239_76168240delAA	uc002bbg.2	+						UBE2Q2_uc002bbh.2_Intron|UBE2Q2_uc010umn.1_Intron|UBE2Q2_uc002bbi.2_Intron	NM_173469	NP_775740			ubiquitin-conjugating enzyme E2Q 2 isoform 1						protein K48-linked ubiquitination	cytoplasm	ATP binding|ubiquitin-protein ligase activity			ovary(2)	2																		---	---	---	---
NRG4	145957	broad.mit.edu	37	15	76329558	76329558	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76329558delA	uc010bko.2	-											Homo sapiens cDNA, FLJ97310.							extracellular region|integral to membrane|plasma membrane	growth factor activity				0																		---	---	---	---
SCAPER	49855	broad.mit.edu	37	15	76646649	76646649	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76646649delA	uc002bby.2	-						SCAPER_uc010bkr.2_Intron|SCAPER_uc002bbx.2_Intron	NM_020843	NP_065894			S-phase cyclin A-associated protein in the ER							endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3																		---	---	---	---
SCAPER	49855	broad.mit.edu	37	15	76854058	76854058	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76854058delT	uc002bby.2	-						SCAPER_uc010bkr.2_Intron|SCAPER_uc002bbx.2_Intron|SCAPER_uc002bbz.1_Intron	NM_020843	NP_065894			S-phase cyclin A-associated protein in the ER							endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3																		---	---	---	---
SCAPER	49855	broad.mit.edu	37	15	77066093	77066094	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:77066093_77066094insA	uc002bby.2	-						SCAPER_uc002bbx.2_Intron|SCAPER_uc002bbz.1_Intron|SCAPER_uc002bca.1_Intron|SCAPER_uc002bcb.1_Intron|SCAPER_uc002bcc.1_Intron	NM_020843	NP_065894			S-phase cyclin A-associated protein in the ER							endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3																		---	---	---	---
TSPAN3	10099	broad.mit.edu	37	15	77339295	77339295	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:77339295delA	uc002bcj.2	-						TSPAN3_uc002bck.2_Intron|TSPAN3_uc010ump.1_Intron|TSPAN3_uc010bkx.2_Intron	NM_005724	NP_005715			transmembrane 4 superfamily member 8 isoform 1							integral to membrane					0				all cancers(203;1.14e-19)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	78058719	78058719	+	IGR	DEL	A	-	-	rs71447164		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78058719delA								LINGO1 (70244 upstream) : LOC645752 (147840 downstream)																																			---	---	---	---
TBC1D2B	23102	broad.mit.edu	37	15	78310307	78310308	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78310307_78310308delAA	uc002bcy.3	-						TBC1D2B_uc010bla.2_Intron|TBC1D2B_uc002bda.2_5'Flank	NM_144572	NP_653173			TBC1 domain family, member 2B isoform a							intracellular	protein binding|Rab GTPase activator activity			ovary(1)|large_intestine(1)|breast(1)	3																		---	---	---	---
TBC1D2B	23102	broad.mit.edu	37	15	78311922	78311923	+	Intron	DEL	TT	-	-	rs77008279		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78311922_78311923delTT	uc002bcy.3	-						TBC1D2B_uc010bla.2_Intron|TBC1D2B_uc002bda.2_5'Flank	NM_144572	NP_653173			TBC1 domain family, member 2B isoform a							intracellular	protein binding|Rab GTPase activator activity			ovary(1)|large_intestine(1)|breast(1)	3																		---	---	---	---
SH2D7	646892	broad.mit.edu	37	15	78393050	78393050	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78393050delA	uc010blb.1	+							NM_001101404	NP_001094874			SH2 domain containing 7												0																		---	---	---	---
CIB2	10518	broad.mit.edu	37	15	78405799	78405801	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78405799_78405801delTTT	uc002bdb.1	-						CIB2_uc002bdc.1_Intron|CIB2_uc010ums.1_Intron	NM_006383	NP_006374			DNA-dependent protein kinase catalytic								calcium ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	78437485	78437485	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78437485delT								CIB2 (13607 upstream) : IDH3A (4234 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	78649610	78649610	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78649610delA								CRABP1 (9038 upstream) : IREB2 (80908 downstream)																																			---	---	---	---
IREB2	3658	broad.mit.edu	37	15	78751455	78751455	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78751455delA	uc002bdr.2	+						IREB2_uc010unb.1_Intron|IREB2_uc002bdq.2_Intron	NM_004136	NP_004127			iron-responsive element binding protein 2								4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)														---	---	---	---
IREB2	3658	broad.mit.edu	37	15	78758544	78758544	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78758544delT	uc002bdr.2	+						IREB2_uc010unb.1_Intron|IREB2_uc002bdq.2_Intron	NM_004136	NP_004127			iron-responsive element binding protein 2								4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)														---	---	---	---
CHRNA5	1138	broad.mit.edu	37	15	78876608	78876609	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78876608_78876609insT	uc002bdy.2	+						CHRNA5_uc002bdz.2_Intron	NM_000745	NP_000736			cholinergic receptor, nicotinic, alpha 5						behavioral response to nicotine	cell junction|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	79161854	79161856	+	IGR	DEL	AAA	-	-	rs33941321		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79161854_79161856delAAA								ADAMTS7 (58081 upstream) : MORF4L1 (3316 downstream)																																			---	---	---	---
MORF4L1	10933	broad.mit.edu	37	15	79177694	79177694	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79177694delA	uc002bel.2	+						MORF4L1_uc010bli.1_Intron|MORF4L1_uc010blj.1_Intron|MORF4L1_uc002bem.2_Intron|MORF4L1_uc010une.1_Intron	NM_206839	NP_996670			MORF-related gene 15 isoform 2						double-strand break repair via homologous recombination|histone deacetylation|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|Sin3 complex	protein N-terminus binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	79785424	79785425	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79785424_79785425delAA								KIAA1024 (20782 upstream) : MTHFS (351895 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	79798420	79798420	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79798420delT								KIAA1024 (33778 upstream) : MTHFS (338900 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	79830315	79830316	+	IGR	DEL	AA	-	-	rs113035027		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79830315_79830316delAA								KIAA1024 (65673 upstream) : MTHFS (307004 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	79854087	79854087	+	IGR	DEL	A	-	-	rs77091701		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79854087delA								KIAA1024 (89445 upstream) : MTHFS (283233 downstream)																																			---	---	---	---
ZFAND6	54469	broad.mit.edu	37	15	80411103	80411104	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:80411103_80411104insT	uc002bfe.1	+						ZFAND6_uc002bff.1_Intron|ZFAND6_uc002bfg.1_Intron|ZFAND6_uc002bfh.1_Intron|ZFAND6_uc002bfi.1_Intron	NM_019006	NP_061879			zinc finger, AN1-type domain 6								DNA binding|zinc ion binding				0																		---	---	---	---
ZFAND6	54469	broad.mit.edu	37	15	80430027	80430027	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:80430027delT	uc002bfe.1	+	7					ZFAND6_uc002bff.1_3'UTR|ZFAND6_uc002bfg.1_3'UTR|ZFAND6_uc002bfh.1_3'UTR|ZFAND6_uc002bfi.1_3'UTR	NM_019006	NP_061879			zinc finger, AN1-type domain 6								DNA binding|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	80544764	80544764	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:80544764delA								FAH (66082 upstream) : ARNT2 (151928 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	80608639	80608639	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:80608639delA	uc002bfo.2	-											Homo sapiens cDNA FLJ40463 fis, clone TESTI2042149.																														---	---	---	---
ARNT2	9915	broad.mit.edu	37	15	80839478	80839478	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:80839478delT	uc002bfr.2	+						ARNT2_uc010unm.1_Intron|ARNT2_uc002bfs.2_Intron	NM_014862	NP_055677			aryl hydrocarbon receptor nuclear translocator						central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)															---	---	---	---
Unknown	0	broad.mit.edu	37	15	80923145	80923145	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:80923145delT								ARNT2 (32873 upstream) : FAM108C1 (64507 downstream)																																			---	---	---	---
KIAA1199	57214	broad.mit.edu	37	15	81183800	81183801	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:81183800_81183801delAA	uc002bfw.1	+						KIAA1199_uc010unn.1_Intron	NM_018689	NP_061159			KIAA1199 precursor											upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	81750915	81750916	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:81750915_81750916delTT								TMC3 (84497 upstream) : MEX3B (583212 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	81907169	81907169	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:81907169delA								TMC3 (240751 upstream) : MEX3B (426959 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	81935222	81935223	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:81935222_81935223delCA								TMC3 (268804 upstream) : MEX3B (398905 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	82152805	82152806	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:82152805_82152806delCA								TMC3 (486387 upstream) : MEX3B (181322 downstream)																																			---	---	---	---
EFTUD1	79631	broad.mit.edu	37	15	82423362	82423362	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:82423362delA	uc002bgt.1	-						EFTUD1_uc002bgs.1_Intron|EFTUD1_uc002bgu.1_Intron	NM_024580	NP_078856			elongation factor Tu GTP binding domain						mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1																		---	---	---	---
FSD2	123722	broad.mit.edu	37	15	83453164	83453164	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83453164delT	uc002bjd.2	-						FSD2_uc010uol.1_Intron|FSD2_uc010uom.1_Intron	NM_001007122	NP_001007123			fibronectin type III and SPRY domain containing											central_nervous_system(1)	1																		---	---	---	---
HOMER2	9455	broad.mit.edu	37	15	83574618	83574618	+	Intron	DEL	A	-	-	rs116330078	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83574618delA	uc002bjg.2	-						HOMER2_uc002bjh.2_Intron|HOMER2_uc002bjj.2_Intron|HOMER2_uc002bji.2_Intron	NM_199330	NP_955362			homer 2 isoform 2						metabotropic glutamate receptor signaling pathway	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane					0																		---	---	---	---
BTBD1	53339	broad.mit.edu	37	15	83686744	83686745	+	3'UTR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83686744_83686745insT	uc002bjn.2	-	8					BTBD1_uc002bjo.2_3'UTR	NM_025238	NP_079514			BTB (POZ) domain containing 1 isoform 1							cytoplasmic mRNA processing body|protein complex	protein binding			ovary(1)|central_nervous_system(1)	2				all cancers(203;0.000186)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	84080473	84080473	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84080473delT								BNC1 (127005 upstream) : SH3GL3 (35618 downstream)																																			---	---	---	---
SH3GL3	6457	broad.mit.edu	37	15	84193896	84193896	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84193896delT	uc002bjw.2	+						SH3GL3_uc010bms.2_Intron|SH3GL3_uc010uot.1_Intron|SH3GL3_uc002bjx.2_Intron|SH3GL3_uc002bju.2_Intron|SH3GL3_uc002bjv.2_Intron	NM_003027	NP_003018			SH3-domain GRB2-like 3						central nervous system development|endocytosis|signal transduction	early endosome membrane	identical protein binding|lipid binding			pancreas(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	84297593	84297593	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84297593delA								SH3GL3 (10102 upstream) : ADAMTSL3 (25245 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	84310057	84310058	+	IGR	INS	-	T	T	rs138489008	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84310057_84310058insT								SH3GL3 (22566 upstream) : ADAMTSL3 (12780 downstream)																																			---	---	---	---
ADAMTSL3	57188	broad.mit.edu	37	15	84452507	84452507	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84452507delA	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	84492801	84492801	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84492801delT	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	84518854	84518854	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84518854delA	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	84539810	84539810	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84539810delT	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)															---	---	---	---
ADAMTSL3	57188	broad.mit.edu	37	15	84622151	84622152	+	Intron	DEL	AC	-	-	rs147029676		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84622151_84622152delAC	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	84802088	84802088	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84802088delT								ADAMTSL3 (93497 upstream) : LOC388152 (65512 downstream)																																			---	---	---	---
SEC11A	23478	broad.mit.edu	37	15	85261219	85261219	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:85261219delA	uc002blb.1	-						SEC11A_uc002blc.1_5'Flank	NM_014300	NP_055115			SEC11-like 1						energy reserve metabolic process|regulation of insulin secretion|signal peptide processing	endoplasmic reticulum membrane|integral to membrane|microsome	protein binding|serine-type peptidase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(143;0.199)															---	---	---	---
SLC28A1	9154	broad.mit.edu	37	15	85433093	85433093	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:85433093delT	uc002blg.2	+						SLC28A1_uc010upd.1_Intron|SLC28A1_uc010bnb.2_Intron|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Intron|SLC28A1_uc010upg.1_Intron|SLC28A1_uc002blf.2_Intron	NM_004213	NP_004204			solute carrier family 28, member 1 isoform 1						nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)															---	---	---	---
PDE8A	5151	broad.mit.edu	37	15	85619082	85619082	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:85619082delT	uc002blh.2	+						PDE8A_uc002bli.2_Intron|PDE8A_uc010bnc.2_Intron|PDE8A_uc010bnd.2_Intron|PDE8A_uc002blj.2_Intron|PDE8A_uc002blk.2_Intron	NM_002605	NP_002596			phosphodiesterase 8A isoform 1						cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)															---	---	---	---
KLHL25	64410	broad.mit.edu	37	15	86314433	86314437	+	Intron	DEL	AAAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:86314433_86314437delAAAAA	uc002bly.2	-						MIR1276_hsa-mir-1276|MI0006416_5'Flank	NM_022480	NP_071925			BTB/POZ KELCH domain protein							cytoplasm				ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	86675180	86675183	+	IGR	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:86675180_86675183delAAAA								KLHL25 (336991 upstream) : AGBL1 (10059 downstream)																																			---	---	---	---
AGBL1	123624	broad.mit.edu	37	15	86869412	86869412	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:86869412delT	uc002blz.1	+							NM_152336	NP_689549			ATP/GTP binding protein-like 1						C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0																		---	---	---	---
AGBL1	123624	broad.mit.edu	37	15	86980758	86980758	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:86980758delT	uc002blz.1	+							NM_152336	NP_689549			ATP/GTP binding protein-like 1						C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	87814988	87814988	+	IGR	DEL	A	-	-	rs78051062		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:87814988delA								AGBL1 (242705 upstream) : NCRNA00052 (305172 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	87943061	87943061	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:87943061delA								AGBL1 (370778 upstream) : NCRNA00052 (177099 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	88127163	88127165	+	IGR	DEL	TCT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:88127163_88127165delTCT								NCRNA00052 (4246 upstream) : NTRK3 (292823 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	88142762	88142762	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:88142762delT								NCRNA00052 (19845 upstream) : NTRK3 (277226 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	88410039	88410039	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:88410039delT								NCRNA00052 (287122 upstream) : NTRK3 (9949 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	88952431	88952431	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:88952431delG								NTRK3 (152770 upstream) : MRPL46 (50277 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	88964983	88964983	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:88964983delA								NTRK3 (165322 upstream) : MRPL46 (37725 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	88978913	88978913	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:88978913delT								NTRK3 (179252 upstream) : MRPL46 (23795 downstream)																																			---	---	---	---
MRPL46	26589	broad.mit.edu	37	15	89005388	89005388	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89005388delA	uc002bmj.2	-						MRPL46_uc002bmi.1_3'UTR|MRPL46_uc002bmk.2_Intron	NM_022163	NP_071446			mitochondrial ribosomal protein L46 precursor							mitochondrion|ribosome	hydrolase activity			central_nervous_system(1)	1	Lung NSC(78;0.203)		BRCA - Breast invasive adenocarcinoma(143;0.188)															---	---	---	---
ACAN	176	broad.mit.edu	37	15	89366645	89366646	+	Intron	DEL	TT	-	-	rs111670752		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89366645_89366646delTT	uc010upo.1	+						ACAN_uc002bmx.2_Intron|ACAN_uc010upp.1_Intron|ACAN_uc002bna.2_Intron	NM_013227	NP_037359			aggrecan isoform 2 precursor						cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)															---	---	---	---
ACAN	176	broad.mit.edu	37	15	89402658	89402658	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89402658delT	uc010upo.1	+						ACAN_uc010upp.1_Intron|ACAN_uc002bna.2_Intron	NM_013227	NP_037359			aggrecan isoform 2 precursor						cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)															---	---	---	---
Unknown	0	broad.mit.edu	37	15	89501124	89501124	+	IGR	DEL	G	-	-	rs12440949	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89501124delG								MFGE8 (44461 upstream) : ABHD2 (130257 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	89549575	89549575	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89549575delA								MFGE8 (92912 upstream) : ABHD2 (81806 downstream)																																			---	---	---	---
ABHD2	11057	broad.mit.edu	37	15	89629269	89629269	+	5'Flank	DEL	T	-	-	rs72385316		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89629269delT	uc002bnj.2	+						ABHD2_uc010ups.1_5'Flank|ABHD2_uc002bnk.2_5'Flank	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)																	---	---	---	---
FANCI	55215	broad.mit.edu	37	15	89854490	89854490	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89854490delA	uc010bnp.1	+						FANCI_uc002bnm.1_Intron|FANCI_uc002bnn.1_Intron|FANCI_uc002bnp.1_Intron|FANCI_uc002bnq.1_Intron	NM_001113378	NP_001106849			Fanconi anemia, complementation group I isoform						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				---	---	---	---
C15orf42	90381	broad.mit.edu	37	15	90159439	90159439	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:90159439delT	uc002boe.2	+							NM_152259	NP_689472			leucine-rich repeat kinase 1						cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)															---	---	---	---
AP3S2	10239	broad.mit.edu	37	15	90385432	90385433	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:90385432_90385433insA	uc002boq.3	-						AP3S2_uc002bos.3_Intron|AP3S2_uc010bns.2_Intron|AP3S2_uc002bor.3_Intron|AP3S2_uc010bnt.2_Intron	NM_005829	NP_005820			adaptor-related protein complex 3, sigma 2						intracellular protein transport|vesicle-mediated transport	cytoplasmic vesicle membrane|Golgi apparatus|membrane coat	protein transporter activity				0	Lung NSC(78;0.0181)|all_lung(78;0.0384)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.223)															---	---	---	---
CRTC3	64784	broad.mit.edu	37	15	91142360	91142360	+	Intron	DEL	T	-	-	rs75983979		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91142360delT	uc002bpp.2	+						CRTC3_uc002bpn.2_3'UTR|CRTC3_uc002bpo.2_Intron	NM_022769	NP_073606			transducer of regulated CREB protein 3 isoform						interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus			CRTC3/MAML2(26)	salivary_gland(26)|ovary(1)	27	Melanoma(11;0.00551)|Lung NSC(78;0.0931)|all_lung(78;0.163)		BRCA - Breast invasive adenocarcinoma(143;0.0745)					T	MAML2	salivary gland mucoepidermoid								---	---	---	---
CRTC3	64784	broad.mit.edu	37	15	91161098	91161098	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91161098delT	uc002bpp.2	+						CRTC3_uc002bpo.2_Intron	NM_022769	NP_073606			transducer of regulated CREB protein 3 isoform						interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus			CRTC3/MAML2(26)	salivary_gland(26)|ovary(1)	27	Melanoma(11;0.00551)|Lung NSC(78;0.0931)|all_lung(78;0.163)		BRCA - Breast invasive adenocarcinoma(143;0.0745)					T	MAML2	salivary gland mucoepidermoid								---	---	---	---
Unknown	0	broad.mit.edu	37	15	91217659	91217659	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91217659delT								CRTC3 (29083 upstream) : BLM (42920 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	91217735	91217735	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91217735delT								CRTC3 (29159 upstream) : BLM (42844 downstream)																																			---	---	---	---
BLM	641	broad.mit.edu	37	15	91308328	91308328	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91308328delT	uc002bpr.2	+						BLM_uc010uqh.1_Intron|BLM_uc010uqi.1_Intron|BLM_uc010bnx.2_Intron|BLM_uc002bps.1_Intron	NM_000057	NP_000048			Bloom syndrome protein						double-strand break repair via homologous recombination|G2 phase of mitotic cell cycle|G2/M transition DNA damage checkpoint|negative regulation of cell division|positive regulation of transcription, DNA-dependent|protein oligomerization|regulation of cyclin-dependent protein kinase activity|replication fork processing|replication fork protection|response to X-ray	cytoplasm|lateral element|nuclear matrix|nucleolus|PML body	ATP binding|bubble DNA binding|DNA strand annealing activity|four-way junction helicase activity|G-quadruplex DNA binding|p53 binding			ovary(3)|skin(2)|breast(1)	6	Lung NSC(78;0.0875)|all_lung(78;0.109)		Lung(145;0.189)					Mis|N|F			leukemia|lymphoma|skin squamous cell |other cancers		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Bloom_syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	15	91613057	91613058	+	IGR	INS	-	C	C	rs145676844	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91613057_91613058insC								VPS33B (47224 upstream) : SV2B (30125 downstream)																																			---	---	---	---
SV2B	9899	broad.mit.edu	37	15	91765008	91765008	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91765008delA	uc010uqv.1	+						SV2B_uc002bqt.2_Intron|SV2B_uc002bqu.3_Intron	NM_014848	NP_055663			synaptic vesicle protein 2B homolog						neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)															---	---	---	---
Unknown	0	broad.mit.edu	37	15	92354598	92354598	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:92354598delA								SV2B (515950 upstream) : SLCO3A1 (42340 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	92822726	92822726	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:92822726delA								SLCO3A1 (107061 upstream) : ST8SIA2 (114414 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	92918427	92918427	+	IGR	DEL	A	-	-	rs74604925		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:92918427delA								SLCO3A1 (202762 upstream) : ST8SIA2 (18713 downstream)																																			---	---	---	---
ST8SIA2	8128	broad.mit.edu	37	15	92977209	92977209	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:92977209delA	uc002bra.2	+						ST8SIA2_uc002brb.2_Intron	NM_006011	NP_006002			ST8 alpha-N-acetyl-neuraminide						axon guidance|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity				0	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0355)|OV - Ovarian serous cystadenocarcinoma(32;0.203)															---	---	---	---
Unknown	0	broad.mit.edu	37	15	93357926	93357927	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93357926_93357927delTT								FAM174B (80622 upstream) : CHD2 (71506 downstream)																																			---	---	---	---
CHD2	1106	broad.mit.edu	37	15	93543498	93543498	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93543498delA	uc002bsp.2	+						CHD2_uc002bso.1_Intron	NM_001271	NP_001262			chromodomain helicase DNA binding protein 2						regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)															---	---	---	---
CHD2	1106	broad.mit.edu	37	15	93558308	93558308	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93558308delT	uc002bsp.2	+						CHD2_uc002bso.1_Intron	NM_001271	NP_001262			chromodomain helicase DNA binding protein 2						regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)															---	---	---	---
Unknown	0	broad.mit.edu	37	15	93747342	93747342	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93747342delG								RGMA (114909 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	93762738	93762738	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93762738delA								RGMA (130305 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	93811449	93811449	+	IGR	DEL	A	-	-	rs11335008		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93811449delA								RGMA (179016 upstream) : MCTP2 (963352 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	94673559	94673559	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:94673559delT								None (None upstream) : MCTP2 (101242 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	95068288	95068288	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:95068288delC								MCTP2 (41108 upstream) : LOC145820 (908034 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	95155175	95155176	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:95155175_95155176delTG								MCTP2 (127995 upstream) : LOC145820 (821146 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	95507644	95507645	+	IGR	INS	-	TTG	TTG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:95507644_95507645insTTG								MCTP2 (480464 upstream) : LOC145820 (468677 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	96285359	96285359	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:96285359delT								LOC145820 (234285 upstream) : NR2F2 (583798 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	96690285	96690285	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:96690285delG								LOC145820 (639211 upstream) : NR2F2 (178872 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	96695773	96695773	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:96695773delT								LOC145820 (644699 upstream) : NR2F2 (173384 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	96751373	96751374	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:96751373_96751374delAA								LOC145820 (700299 upstream) : NR2F2 (117783 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	97784799	97784801	+	IGR	DEL	TTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:97784799_97784801delTTG								SPATA8 (455955 upstream) : LOC91948 (501045 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	97941471	97941471	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:97941471delT								SPATA8 (612627 upstream) : LOC91948 (344375 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	97947065	97947065	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:97947065delT								SPATA8 (618221 upstream) : LOC91948 (338781 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	98048185	98048186	+	IGR	DEL	TA	-	-	rs35983835		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:98048185_98048186delTA								SPATA8 (719341 upstream) : LOC91948 (237660 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	98775946	98775946	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:98775946delA								ARRDC4 (258879 upstream) : FAM169B (204445 downstream)																																			---	---	---	---
FAM169B	283777	broad.mit.edu	37	15	98986159	98986159	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:98986159delA	uc002buk.1	-							NM_182562	NP_872368			hypothetical protein LOC283777												0																		---	---	---	---
FAM169B	283777	broad.mit.edu	37	15	99000941	99000941	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99000941delG	uc002buk.1	-							NM_182562	NP_872368			hypothetical protein LOC283777												0																		---	---	---	---
FAM169B	283777	broad.mit.edu	37	15	99033549	99033549	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99033549delT	uc002buk.1	-							NM_182562	NP_872368			hypothetical protein LOC283777												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	99084279	99084279	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99084279delA								FAM169B (26668 upstream) : IGF1R (108482 downstream)																																			---	---	---	---
IGF1R	3480	broad.mit.edu	37	15	99341099	99341099	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99341099delA	uc002bul.2	+						IGF1R_uc010urq.1_Intron|IGF1R_uc010bon.2_Intron	NM_000875	NP_000866			insulin-like growth factor 1 receptor precursor						anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)													---	---	---	---
LRRC28	123355	broad.mit.edu	37	15	99886197	99886197	+	Intron	DEL	T	-	-	rs2007814	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99886197delT	uc002bva.1	+						LRRC28_uc010urs.1_Intron|LRRC28_uc002bvb.1_Intron|LRRC28_uc010urt.1_Intron|LRRC28_uc002bvc.1_Intron|LRRC28_uc010uru.1_Intron|LRRC28_uc002bvd.1_Intron	NM_144598	NP_653199			leucine rich repeat containing 28												0	Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00106)															---	---	---	---
Unknown	0	broad.mit.edu	37	15	100328515	100328515	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:100328515delT								LYSMD4 (54889 upstream) : C15orf51 (1846 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	100328699	100328700	+	IGR	INS	-	CTCCCTTT	CTCCCTTT	rs146694833	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:100328699_100328700insCTCCCTTT								LYSMD4 (55073 upstream) : C15orf51 (1661 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	100897402	100897403	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:100897402_100897403delAA								FLJ42289 (6479 upstream) : LASS3 (43198 downstream)																																			---	---	---	---
LASS3	204219	broad.mit.edu	37	15	101002193	101002193	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101002193delA	uc002bvz.2	-						LASS3_uc002bwa.2_Intron|LASS3_uc002bwb.2_Intron	NM_178842	NP_849164			LAG1 longevity assurance homolog 3							endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4	Lung NSC(78;0.0018)|all_lung(78;0.00278)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000867)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)															---	---	---	---
Unknown	0	broad.mit.edu	37	15	101228827	101228828	+	IGR	INS	-	CCACT	CCACT	rs143247825	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101228827_101228828insCCACT								ASB7 (36925 upstream) : ALDH1A3 (191181 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	101395406	101395406	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101395406delT								ASB7 (203504 upstream) : ALDH1A3 (24603 downstream)																																			---	---	---	---
LRRK1	79705	broad.mit.edu	37	15	101595032	101595032	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101595032delA	uc002bwr.2	+						LRRK1_uc010usb.1_Intron|LRRK1_uc010usc.1_Intron|LRRK1_uc002bws.2_Intron	NM_024652	NP_078928			leucine-rich repeat kinase 1						small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)															---	---	---	---
CHSY1	22856	broad.mit.edu	37	15	101723352	101723352	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101723352delA	uc002bwt.1	-						CHSY1_uc010usd.1_Intron	NM_014918	NP_055733			chondroitin sulfate synthase 1						chondroitin sulfate biosynthetic process	Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity				0	Lung NSC(78;0.00217)|all_lung(78;0.00271)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)															---	---	---	---
SNRPA1	6627	broad.mit.edu	37	15	101828814	101828814	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101828814delA	uc002bww.2	-						SNRPA1_uc002bwx.2_Intron|SNRPA1_uc010bpc.2_Intron	NM_003090	NP_003081			small nuclear ribonucleoprotein polypeptide A'							catalytic step 2 spliceosome|nucleoplasm|U2 snRNP	protein binding|RNA binding			kidney(1)	1	Lung NSC(78;0.00156)|all_lung(78;0.00195)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00113)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)															---	---	---	---
Unknown	0	broad.mit.edu	37	15	102064308	102064309	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:102064308_102064309insA								PCSK6 (34121 upstream) : TM2D3 (108871 downstream)																																			---	---	---	---
TARSL2	123283	broad.mit.edu	37	15	102244042	102244042	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:102244042delA	uc002bxm.2	-						TARSL2_uc002bxl.2_5'Flank|TARSL2_uc010usi.1_Intron	NM_152334	NP_689547			threonyl-tRNA synthetase-like 2						threonyl-tRNA aminoacylation	cytoplasm	ATP binding|threonine-tRNA ligase activity			ovary(2)	2	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)															---	---	---	---
Unknown	0	broad.mit.edu	37	15	102281909	102281909	+	IGR	DEL	A	-	-	rs78259686		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:102281909delA								TARSL2 (17264 upstream) : OR4F6 (64014 downstream)																																			---	---	---	---
OR4F6	390648	broad.mit.edu	37	15	102345630	102345631	+	5'Flank	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:102345630_102345631delGT	uc010utr.1	+							NM_001005326	NP_001005326			olfactory receptor, family 4, subfamily F,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)															---	---	---	---
ITFG3	83986	broad.mit.edu	37	16	292612	292614	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:292612_292614delTTT	uc002cgf.2	+						ITFG3_uc010bqr.2_Intron|ITFG3_uc002cgg.2_Intron|ITFG3_uc010uud.1_Intron	NM_032039	NP_114428			integrin alpha FG-GAP repeat containing 3							integral to membrane				central_nervous_system(1)	1		all_cancers(16;0.000129)|all_epithelial(16;0.000206)|Hepatocellular(16;0.00264)|Lung NSC(18;0.0626)|all_lung(18;0.13)																---	---	---	---
Unknown	0	broad.mit.edu	37	16	415164	415164	+	IGR	DEL	T	-	-	rs68062084		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:415164delT								AXIN1 (12700 upstream) : MRPL28 (2232 downstream)																																			---	---	---	---
DECR2	26063	broad.mit.edu	37	16	460794	460794	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:460794delC	uc002chb.2	+						DECR2_uc002chc.2_Intron|DECR2_uc010bqv.2_Intron|DECR2_uc002chd.2_Intron|DECR2_uc002che.1_Intron	NM_020664	NP_065715			2,4-dienoyl CoA reductase 2							peroxisome	2,4-dienoyl-CoA reductase (NADPH) activity|binding				0		Hepatocellular(16;0.00015)																---	---	---	---
RAB11FIP3	9727	broad.mit.edu	37	16	538712	538712	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:538712delT	uc002chf.2	+						RAB11FIP3_uc010uuf.1_Intron|RAB11FIP3_uc010uug.1_Intron	NM_014700	NP_055515			rab11-family interacting protein 3 isoform 1						cell cycle|cytokinesis|endocytic recycling|protein transport	centrosome|cleavage furrow|midbody|recycling endosome membrane	ADP-ribosylation factor binding|calcium ion binding|protein homodimerization activity|Rab GTPase binding				0		Hepatocellular(16;0.0218)																---	---	---	---
MSLN	10232	broad.mit.edu	37	16	815527	815527	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:815527delC	uc002cjw.1	+	9	756	c.705delC	c.(703-705)GGCfs	p.G235fs	MSLN_uc002cjt.1_Frame_Shift_Del_p.G235fs|MSLN_uc002cju.1_Frame_Shift_Del_p.G235fs|MSLN_uc010brd.1_Frame_Shift_Del_p.G234fs|MSLN_uc002cjv.1_Frame_Shift_Del_p.G235fs|MSLN_uc002cjx.1_Frame_Shift_Del_p.G235fs|MSLN_uc002cjy.1_5'Flank	NM_013404	NP_037536	Q13421	MSLN_HUMAN	mesothelin isoform 2 preproprotein	235					cell adhesion	anchored to membrane|extracellular region|Golgi apparatus|plasma membrane				pancreas(1)	1		Hepatocellular(780;0.00335)																---	---	---	---
Unknown	0	broad.mit.edu	37	16	864099	864099	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:864099delA								PRR25 (239 upstream) : LMF1 (39536 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	868852	868853	+	IGR	INS	-	TG	TG	rs149509187		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:868852_868853insTG								PRR25 (4992 upstream) : LMF1 (34782 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	1296950	1296953	+	IGR	DEL	GAAG	-	-	rs146915899		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1296950_1296953delGAAG								TPSAB1 (4396 upstream) : TPSD1 (9320 downstream)																																			---	---	---	---
MAPK8IP3	23162	broad.mit.edu	37	16	1768787	1768787	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1768787delA	uc002cmk.2	+						MAPK8IP3_uc002cmi.1_Intron|MAPK8IP3_uc002cmj.1_Intron|MAPK8IP3_uc002cml.2_Intron|MAPK8IP3_uc010uvl.1_Intron	NM_015133	NP_055948			mitogen-activated protein kinase 8 interacting						vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3																		---	---	---	---
ABCA3	21	broad.mit.edu	37	16	2363893	2363894	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2363893_2363894delAA	uc002cpy.1	-						ABCA3_uc010bsk.1_Intron|ABCA3_uc010bsl.1_Intron	NM_001089	NP_001080			ATP-binding cassette, sub-family A member 3						response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)																---	---	---	---
ABCA3	21	broad.mit.edu	37	16	2382818	2382819	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2382818_2382819delTT	uc002cpy.1	-						ABCA3_uc010bsk.1_Intron|ABCA3_uc010bsl.1_Intron|ABCA3_uc002cpz.1_5'Flank	NM_001089	NP_001080			ATP-binding cassette, sub-family A member 3						response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)																---	---	---	---
Unknown	0	broad.mit.edu	37	16	2724590	2724590	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2724590delT	uc002crb.2	-						uc010bsr.1_5'Flank|uc010bss.1_5'Flank					Homo sapiens cDNA FLJ34475 fis, clone HLUNG2003716, moderately similar to RETROVIRUS-RELATED ENV POLYPROTEIN.																														---	---	---	---
TCEB2	6923	broad.mit.edu	37	16	2829890	2829890	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2829890delT	uc002crn.2	-						TCEB2_uc002crm.2_5'Flank	NM_007108	NP_009039			elongin B isoform a						positive regulation of viral transcription|protein complex assembly|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|nucleoplasm	protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	2922840	2922841	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2922840_2922841delAA								PRSS22 (14669 upstream) : FLYWCH2 (10355 downstream)																																			---	---	---	---
CCDC64B	146439	broad.mit.edu	37	16	3083796	3083797	+	Intron	INS	-	A	A	rs149473712	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3083796_3083797insA	uc002ctf.3	-						CCDC64B_uc002cte.3_5'Flank|CCDC64B_uc010bta.1_5'Flank	NM_001103175	NP_001096645			coiled-coil domain containing 64B												0																		---	---	---	---
ZSCAN10	84891	broad.mit.edu	37	16	3145217	3145218	+	5'Flank	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3145217_3145218insA	uc002ctv.1	-						ZSCAN10_uc002cty.1_Intron|ZSCAN10_uc002ctw.1_5'Flank|ZSCAN10_uc002ctx.1_5'Flank	NM_032805	NP_116194			zinc finger and SCAN domain containing 10						negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	3236258	3236259	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3236258_3236259delTG								ZNF213 (43454 upstream) : OR1F1 (17988 downstream)																																			---	---	---	---
ZNF75A	7627	broad.mit.edu	37	16	3361639	3361639	+	Intron	DEL	T	-	-	rs7195571	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3361639delT	uc002cut.3	+						ZNF75A_uc002cuv.3_Intron	NM_153028	NP_694573			zinc finger protein 75a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1																		---	---	---	---
ZNF75A	7627	broad.mit.edu	37	16	3364624	3364624	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3364624delT	uc002cut.3	+						ZNF75A_uc002cuv.3_Intron	NM_153028	NP_694573			zinc finger protein 75a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	3397467	3397468	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3397467_3397468delTT								ZNF75A (28893 upstream) : OR2C1 (8421 downstream)																																			---	---	---	---
CLUAP1	23059	broad.mit.edu	37	16	3581842	3581843	+	Intron	DEL	TT	-	-	rs77288845		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3581842_3581843delTT	uc002cvk.1	+						CLUAP1_uc002cvj.1_Intron|CLUAP1_uc002cvl.1_Intron|CLUAP1_uc002cvm.1_Intron	NM_015041	NP_055856			clusterin associated protein 1 isoform 1							nucleus	protein binding			ovary(1)|breast(1)|pancreas(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	3669676	3669676	+	IGR	DEL	A	-	-	rs112990379		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3669676delA								BTBD12 (8091 upstream) : DNASE1 (33264 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	3696864	3696865	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3696864_3696865insG								BTBD12 (35279 upstream) : DNASE1 (6075 downstream)																																			---	---	---	---
TRAP1	10131	broad.mit.edu	37	16	3769830	3769832	+	5'Flank	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3769830_3769832delAAA	uc002cvt.3	-						TRAP1_uc010uxf.1_5'Flank	NM_016292	NP_057376			TNF receptor-associated protein 1 precursor						cellular response to oxidative stress|protein folding	mitochondrion	ATP binding|tumor necrosis factor receptor binding|unfolded protein binding			central_nervous_system(1)	1		Ovarian(90;0.0261)																---	---	---	---
CREBBP	1387	broad.mit.edu	37	16	3817721	3817721	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3817721delT	uc002cvv.2	-	16	3454	c.3250delA	c.(3250-3252)ATCfs	p.I1084fs	CREBBP_uc002cvw.2_Frame_Shift_Del_p.I1046fs	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1084					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding	p.I1084fs*15(1)		haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)				T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				---	---	---	---
ADCY9	115	broad.mit.edu	37	16	4027728	4027728	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4027728delT	uc002cvx.2	-							NM_001116	NP_001107			adenylate cyclase 9						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 plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6																		---	---	---	---
ADCY9	115	broad.mit.edu	37	16	4126725	4126725	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4126725delT	uc002cvx.2	-							NM_001116	NP_001107			adenylate cyclase 9						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 plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	4338926	4338926	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4338926delA								TFAP4 (15925 upstream) : GLIS2 (43299 downstream)																																			---	---	---	---
DNAJA3	9093	broad.mit.edu	37	16	4473968	4473968	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4473968delT	uc002cwk.2	+						DNAJA3_uc002cwl.2_5'Flank|DNAJA3_uc010uxk.1_5'Flank	NM_005147	NP_005138			DnaJ (Hsp40) homolog, subfamily A, member 3						activation of caspase activity|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of cell proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|neuromuscular junction development|positive regulation of apoptosis|positive regulation of protein ubiquitination|protein folding|protein folding|protein stabilization|response to heat|response to interferon-gamma	cytosol|mitochondrial matrix|mitochondrial nucleoid|nucleus	ATP binding|heat shock protein binding|interferon-gamma receptor binding|metal ion binding|NF-kappaB binding|protein kinase binding			ovary(2)|breast(2)	4																		---	---	---	---
DNAJA3	9093	broad.mit.edu	37	16	4479836	4479838	+	Intron	DEL	AAA	-	-	rs113915084		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4479836_4479838delAAA	uc002cwk.2	+						DNAJA3_uc002cwl.2_Intron|DNAJA3_uc010uxk.1_Intron	NM_005147	NP_005138			DnaJ (Hsp40) homolog, subfamily A, member 3						activation of caspase activity|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of cell proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|neuromuscular junction development|positive regulation of apoptosis|positive regulation of protein ubiquitination|protein folding|protein folding|protein stabilization|response to heat|response to interferon-gamma	cytosol|mitochondrial matrix|mitochondrial nucleoid|nucleus	ATP binding|heat shock protein binding|interferon-gamma receptor binding|metal ion binding|NF-kappaB binding|protein kinase binding			ovary(2)|breast(2)	4																		---	---	---	---
DNAJA3	9093	broad.mit.edu	37	16	4504947	4504947	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4504947delT	uc002cwk.2	+						DNAJA3_uc002cwl.2_Intron|DNAJA3_uc010uxk.1_Intron	NM_005147	NP_005138			DnaJ (Hsp40) homolog, subfamily A, member 3						activation of caspase activity|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of cell proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|neuromuscular junction development|positive regulation of apoptosis|positive regulation of protein ubiquitination|protein folding|protein folding|protein stabilization|response to heat|response to interferon-gamma	cytosol|mitochondrial matrix|mitochondrial nucleoid|nucleus	ATP binding|heat shock protein binding|interferon-gamma receptor binding|metal ion binding|NF-kappaB binding|protein kinase binding			ovary(2)|breast(2)	4																		---	---	---	---
GLYR1	84656	broad.mit.edu	37	16	4860511	4860511	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4860511delA	uc002cxx.3	-						GLYR1_uc002cxy.2_Intron|GLYR1_uc002cxz.1_Intron|GLYR1_uc002cya.2_Intron|GLYR1_uc010uxv.1_Intron	NM_032569	NP_115958			cytokine-like nuclear factor n-pac						pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0																		---	---	---	---
GLYR1	84656	broad.mit.edu	37	16	4871161	4871161	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4871161delA	uc002cxx.3	-						GLYR1_uc002cxy.2_Intron|GLYR1_uc002cxz.1_Intron|GLYR1_uc002cya.2_Intron|GLYR1_uc010uxv.1_Intron	NM_032569	NP_115958			cytokine-like nuclear factor n-pac						pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	5222581	5222582	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:5222581_5222582delAA								FAM86A (74792 upstream) : A2BP1 (846550 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	5638372	5638372	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:5638372delA	uc002cyq.1	+											Homo sapiens cDNA clone IMAGE:5244947, **** WARNING: chimeric clone ****.																														---	---	---	---
Unknown	0	broad.mit.edu	37	16	5979317	5979318	+	IGR	DEL	CT	-	-	rs112397291		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:5979317_5979318delCT								FAM86A (831528 upstream) : A2BP1 (89814 downstream)																																			---	---	---	---
A2BP1	54715	broad.mit.edu	37	16	6162022	6162022	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:6162022delA	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron	NM_018723	NP_061193			ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)														---	---	---	---
A2BP1	54715	broad.mit.edu	37	16	6247275	6247275	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:6247275delT	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron	NM_018723	NP_061193			ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)														---	---	---	---
A2BP1	54715	broad.mit.edu	37	16	6452422	6452422	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:6452422delT	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron	NM_018723	NP_061193			ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)														---	---	---	---
A2BP1	54715	broad.mit.edu	37	16	6472231	6472235	+	Intron	DEL	TTTTT	-	-	rs77800117		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:6472231_6472235delTTTTT	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron	NM_018723	NP_061193			ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)														---	---	---	---
A2BP1	54715	broad.mit.edu	37	16	6586558	6586559	+	Intron	INS	-	T	T	rs147695028	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:6586558_6586559insT	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Intron	NM_018723	NP_061193			ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)														---	---	---	---
A2BP1	54715	broad.mit.edu	37	16	6789241	6789241	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:6789241delA	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Intron	NM_018723	NP_061193			ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)														---	---	---	---
A2BP1	54715	broad.mit.edu	37	16	6844099	6844099	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:6844099delT	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Intron|A2BP1_uc010uyb.1_Intron	NM_018723	NP_061193			ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)														---	---	---	---
A2BP1	54715	broad.mit.edu	37	16	6871426	6871426	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:6871426delT	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Intron|A2BP1_uc010uyb.1_Intron	NM_018723	NP_061193			ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)														---	---	---	---
A2BP1	54715	broad.mit.edu	37	16	6957154	6957154	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:6957154delT	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Intron|A2BP1_uc010uyb.1_Intron	NM_018723	NP_061193			ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)														---	---	---	---
A2BP1	54715	broad.mit.edu	37	16	7212730	7212730	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:7212730delA	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Intron|A2BP1_uc010uyb.1_Intron	NM_018723	NP_061193			ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)														---	---	---	---
A2BP1	54715	broad.mit.edu	37	16	7314705	7314705	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:7314705delT	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Intron|A2BP1_uc010uyb.1_Intron	NM_018723	NP_061193			ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)														---	---	---	---
A2BP1	54715	broad.mit.edu	37	16	7684391	7684391	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:7684391delT	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Intron|A2BP1_uc010uyb.1_Intron|A2BP1_uc002cyw.2_Intron|A2BP1_uc002cyy.2_Intron|A2BP1_uc002cyx.2_Intron|A2BP1_uc010uyc.1_Intron	NM_018723	NP_061193			ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)														---	---	---	---
A2BP1	54715	broad.mit.edu	37	16	7704643	7704643	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:7704643delA	uc002cys.2	+						A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron|A2BP1_uc010uya.1_Intron|A2BP1_uc010uyb.1_Intron|A2BP1_uc002cyw.2_Intron|A2BP1_uc002cyy.2_Intron|A2BP1_uc002cyx.2_Intron|A2BP1_uc010uyc.1_Intron	NM_018723	NP_061193			ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)														---	---	---	---
Unknown	0	broad.mit.edu	37	16	7973813	7973815	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:7973813_7973815delTTT								A2BP1 (210473 upstream) : TMEM114 (645688 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	8001608	8001609	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:8001608_8001609delTC								A2BP1 (238268 upstream) : TMEM114 (617894 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	8237741	8237741	+	IGR	DEL	T	-	-	rs71396253		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:8237741delT								A2BP1 (474401 upstream) : TMEM114 (381762 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	8238131	8238131	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:8238131delA								A2BP1 (474791 upstream) : TMEM114 (381372 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	8309570	8309570	+	IGR	DEL	A	-	-	rs113698898		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:8309570delA								A2BP1 (546230 upstream) : TMEM114 (309933 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	8389650	8389651	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:8389650_8389651delCT								A2BP1 (626310 upstream) : TMEM114 (229852 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	8455431	8455431	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:8455431delA								A2BP1 (692091 upstream) : TMEM114 (164072 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	8567874	8567875	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:8567874_8567875delAA								A2BP1 (804534 upstream) : TMEM114 (51628 downstream)																																			---	---	---	---
ABAT	18	broad.mit.edu	37	16	8771757	8771757	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:8771757delA	uc002czc.3	+							NM_020686	NP_065737			4-aminobutyrate aminotransferase precursor						behavioral response to cocaine|gamma-aminobutyric acid catabolic process|neurotransmitter catabolic process|neurotransmitter secretion	4-aminobutyrate transaminase complex|mitochondrial matrix	(S)-3-amino-2-methylpropionate transaminase activity|4-aminobutyrate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|succinate-semialdehyde dehydrogenase binding			upper_aerodigestive_tract(1)	1					Divalproex sodium(DB00510)|Isoniazid(DB00951)|L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)|Tiagabine(DB00906)|Valproic Acid(DB00313)|Vigabatrin(DB01080)													---	---	---	---
ABAT	18	broad.mit.edu	37	16	8777725	8777726	+	Intron	INS	-	ATTT	ATTT	rs146792826	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:8777725_8777726insATTT	uc002czc.3	+							NM_020686	NP_065737			4-aminobutyrate aminotransferase precursor						behavioral response to cocaine|gamma-aminobutyric acid catabolic process|neurotransmitter catabolic process|neurotransmitter secretion	4-aminobutyrate transaminase complex|mitochondrial matrix	(S)-3-amino-2-methylpropionate transaminase activity|4-aminobutyrate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|succinate-semialdehyde dehydrogenase binding			upper_aerodigestive_tract(1)	1					Divalproex sodium(DB00510)|Isoniazid(DB00951)|L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)|Tiagabine(DB00906)|Valproic Acid(DB00313)|Vigabatrin(DB01080)													---	---	---	---
Unknown	0	broad.mit.edu	37	16	9106265	9106266	+	IGR	INS	-	TGA	TGA	rs142112532	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:9106265_9106266insTGA								USP7 (48924 upstream) : C16orf72 (79271 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	9220810	9220811	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:9220810_9220811delTT								C16orf72 (7265 upstream) : GRIN2A (626456 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	9256835	9256835	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:9256835delT								C16orf72 (43290 upstream) : GRIN2A (590432 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	9697132	9697135	+	IGR	DEL	CACA	-	-	rs144733289		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:9697132_9697135delCACA								C16orf72 (483587 upstream) : GRIN2A (150132 downstream)																																			---	---	---	---
GRIN2A	2903	broad.mit.edu	37	16	9880297	9880297	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:9880297delA	uc002czo.3	-						GRIN2A_uc010uym.1_Intron|GRIN2A_uc010uyn.1_Intron|GRIN2A_uc002czr.3_Intron	NM_001134407	NP_001127879			N-methyl-D-aspartate receptor subunit 2A isoform						response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)													---	---	---	---
GRIN2A	2903	broad.mit.edu	37	16	9958602	9958602	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:9958602delC	uc002czo.3	-						GRIN2A_uc010uym.1_Intron|GRIN2A_uc010uyn.1_Intron|GRIN2A_uc002czr.3_Intron	NM_001134407	NP_001127879			N-methyl-D-aspartate receptor subunit 2A isoform						response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)													---	---	---	---
GRIN2A	2903	broad.mit.edu	37	16	9974241	9974241	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:9974241delT	uc002czo.3	-						GRIN2A_uc010uym.1_Intron|GRIN2A_uc010uyn.1_Intron|GRIN2A_uc002czr.3_Intron	NM_001134407	NP_001127879			N-methyl-D-aspartate receptor subunit 2A isoform						response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)													---	---	---	---
Unknown	0	broad.mit.edu	37	16	10435365	10435365	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10435365delT								GRIN2A (158754 upstream) : ATF7IP2 (44547 downstream)																																			---	---	---	---
EMP2	2013	broad.mit.edu	37	16	10660711	10660711	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10660711delA	uc002czx.2	-							NM_001424	NP_001415			epithelial membrane protein 2						cell proliferation	integral to membrane					0																		---	---	---	---
FAM18A	780776	broad.mit.edu	37	16	10865686	10865686	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10865686delT	uc010buo.1	-						FAM18A_uc010uyr.1_Intron|FAM18A_uc010uys.1_Intron|FAM18A_uc010uyt.1_Intron|FAM18A_uc010bun.2_Intron|FAM18A_uc010uyu.1_Intron|FAM18A_uc002dad.3_Intron|FAM18A_uc002daf.1_Intron|FAM18A_uc002dae.1_Intron	NM_001079512	NP_001072980			hypothetical protein LOC780776							integral to membrane					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	10948457	10948457	+	IGR	DEL	A	-	-	rs145264087		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10948457delA								FAM18A (35836 upstream) : CIITA (22598 downstream)																																			---	---	---	---
CIITA	4261	broad.mit.edu	37	16	10968826	10968826	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10968826delT	uc002dai.3	+						CIITA_uc002daj.3_5'Flank|CIITA_uc002dak.3_5'Flank|CIITA_uc002dag.2_5'Flank|CIITA_uc002dah.2_5'Flank|CIITA_uc010bup.1_5'Flank	NM_000246	NP_000237			class II transactivator						interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1								T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								---	---	---	---
C16orf75	116028	broad.mit.edu	37	16	11400752	11400752	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:11400752delG	uc002daq.1	+						MIR548H-2_hsa-mir-548h-2|MI0006412_5'Flank					Homo sapiens cDNA FLJ41770 fis, clone IMR322007225.						DNA replication	nucleus	DNA binding				0								T	CIITA	PMBL|Hodgkin Lymphona|								---	---	---	---
Unknown	0	broad.mit.edu	37	16	11552202	11552202	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:11552202delA	uc002dax.1	-											Homo sapiens cDNA FLJ44575 fis, clone UTERU3018154.																														---	---	---	---
LITAF	9516	broad.mit.edu	37	16	11645521	11645521	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:11645521delA	uc002daz.2	-						LITAF_uc002dba.2_Intron|LITAF_uc002dbb.2_Intron|LITAF_uc002dbc.2_Intron|LITAF_uc002dbd.2_Intron	NM_004862	NP_004853			lipopolysaccharide-induced TNF-alpha factor						apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|lysosomal membrane	signal transducer activity|WW domain binding			liver(1)	1																		---	---	---	---
RUNDC2A	84127	broad.mit.edu	37	16	12116029	12116029	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12116029delT	uc002dbw.1	+							NM_032167	NP_115543			RUN domain containing 2A											ovary(1)	1								T	CIITA	PMBL|Hodgkin Lymphona|								---	---	---	---
RUNDC2A	84127	broad.mit.edu	37	16	12142103	12142103	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12142103delT	uc002dbw.1	+							NM_032167	NP_115543			RUN domain containing 2A											ovary(1)	1								T	CIITA	PMBL|Hodgkin Lymphona|								---	---	---	---
SNX29	92017	broad.mit.edu	37	16	12270794	12270794	+	Intron	DEL	T	-	-	rs112467182		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12270794delT	uc002dby.3	+						SNX29_uc010uyx.1_Intron	NM_001080530	NP_001073999			sorting nexin 29						cell communication		phosphatidylinositol binding			ovary(1)	1																		---	---	---	---
SNX29	92017	broad.mit.edu	37	16	12369525	12369526	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12369525_12369526insT	uc002dby.3	+							NM_001080530	NP_001073999			sorting nexin 29						cell communication		phosphatidylinositol binding			ovary(1)	1																		---	---	---	---
SNX29	92017	broad.mit.edu	37	16	12492571	12492572	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12492571_12492572delTT	uc002dby.3	+							NM_001080530	NP_001073999			sorting nexin 29						cell communication		phosphatidylinositol binding			ovary(1)	1																		---	---	---	---
SNX29	92017	broad.mit.edu	37	16	12517423	12517423	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12517423delT	uc002dby.3	+							NM_001080530	NP_001073999			sorting nexin 29						cell communication		phosphatidylinositol binding			ovary(1)	1																		---	---	---	---
SNX29	92017	broad.mit.edu	37	16	12525292	12525292	+	Intron	DEL	T	-	-	rs79164118		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12525292delT	uc002dby.3	+							NM_001080530	NP_001073999			sorting nexin 29						cell communication		phosphatidylinositol binding			ovary(1)	1																		---	---	---	---
SNX29	92017	broad.mit.edu	37	16	12589023	12589024	+	Intron	INS	-	T	T	rs28524684		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12589023_12589024insT	uc002dby.3	+							NM_001080530	NP_001073999			sorting nexin 29						cell communication		phosphatidylinositol binding			ovary(1)	1																		---	---	---	---
CPPED1	55313	broad.mit.edu	37	16	12844847	12844847	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12844847delA	uc002dca.3	-						CPPED1_uc002dcb.3_Intron	NM_018340	NP_060810			calcineurin-like phosphoesterase domain								hydrolase activity|metal ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	12936326	12936326	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12936326delT								CPPED1 (38582 upstream) : SHISA9 (59151 downstream)																																			---	---	---	---
SHISA9	729993	broad.mit.edu	37	16	13001500	13001500	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:13001500delC	uc010uyy.1	+						SHISA9_uc002dcd.2_Intron	NM_001145204	NP_001138676			shisa homolog 9 isoform 1						regulation of short-term neuronal synaptic plasticity	cell junction|dendritic spine membrane|ionotropic glutamate receptor complex|synapse					0																		---	---	---	---
SHISA9	729993	broad.mit.edu	37	16	13272184	13272186	+	Intron	DEL	TTT	-	-	rs113336197		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:13272184_13272186delTTT	uc010uyy.1	+							NM_001145204	NP_001138676			shisa homolog 9 isoform 1						regulation of short-term neuronal synaptic plasticity	cell junction|dendritic spine membrane|ionotropic glutamate receptor complex|synapse					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	13356656	13356656	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:13356656delT								SHISA9 (22384 upstream) : ERCC4 (657358 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	13620799	13620799	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:13620799delT								SHISA9 (286527 upstream) : ERCC4 (393215 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	13971745	13971745	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:13971745delT								SHISA9 (637473 upstream) : ERCC4 (42269 downstream)																																			---	---	---	---
MKL2	57496	broad.mit.edu	37	16	14312561	14312561	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14312561delT	uc010uza.1	+						MKL2_uc002dcg.2_Intron|MKL2_uc002dch.2_Intron|MKL2_uc010uzb.1_Intron	NM_014048	NP_054767			megakaryoblastic leukemia 2 protein						cell differentiation|muscle organ development|positive regulation of striated muscle tissue development|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		identical protein binding|nucleic acid binding|transcription coactivator activity			ovary(3)|kidney(1)|pancreas(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	14382111	14382111	+	IGR	DEL	G	-	-	rs187400	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14382111delG								MKL2 (21482 upstream) : MIR193B (15713 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	14416554	14416556	+	IGR	DEL	TTT	-	-	rs112337520		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14416554_14416556delTTT								MIR365-1 (13326 upstream) : PARN (113003 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	14419350	14419350	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14419350delA								MIR365-1 (16122 upstream) : PARN (110209 downstream)																																			---	---	---	---
PARN	5073	broad.mit.edu	37	16	14558626	14558626	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14558626delA	uc010uzd.1	-						PARN_uc010uzc.1_Intron|PARN_uc010uze.1_Intron|PARN_uc010uzf.1_Intron	NM_002582	NP_002573			poly(A)-specific ribonuclease (deadenylation						female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2																		---	---	---	---
PARN	5073	broad.mit.edu	37	16	14576249	14576250	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14576249_14576250delAA	uc010uzd.1	-						PARN_uc010uzc.1_Intron|PARN_uc010uze.1_Intron|PARN_uc010uzf.1_Intron	NM_002582	NP_002573			poly(A)-specific ribonuclease (deadenylation						female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2																		---	---	---	---
PARN	5073	broad.mit.edu	37	16	14683429	14683429	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14683429delA	uc010uzd.1	-						PARN_uc010uzc.1_Intron|PARN_uc010uze.1_Intron|PARN_uc010uzf.1_Intron	NM_002582	NP_002573			poly(A)-specific ribonuclease (deadenylation						female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	15058709	15058709	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:15058709delT								NPIP (12779 upstream) : PDXDC1 (9890 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	15060861	15060862	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:15060861_15060862delAA								NPIP (14931 upstream) : PDXDC1 (7737 downstream)																																			---	---	---	---
C16orf45	89927	broad.mit.edu	37	16	15573975	15573976	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:15573975_15573976insT	uc002ddo.2	+							NM_033201	NP_149978			hypothetical protein LOC89927 isoform 1											ovary(1)	1																		---	---	---	---
KIAA0430	9665	broad.mit.edu	37	16	15713153	15713153	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:15713153delA	uc002ddr.2	-						KIAA0430_uc002ddq.2_Intron|KIAA0430_uc010uzv.1_Intron|KIAA0430_uc010uzw.1_Intron	NM_014647	NP_055462			limkain b1							peroxisome	nucleotide binding|RNA binding				0																		---	---	---	---
MYH11	4629	broad.mit.edu	37	16	15870226	15870226	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:15870226delA	uc002ddy.2	-						MYH11_uc002ddv.2_Intron|MYH11_uc002ddw.2_Intron|MYH11_uc002ddx.2_Intron|MYH11_uc010bvg.2_Intron|MYH11_uc002dea.1_Intron	NM_002474	NP_002465			smooth muscle myosin heavy chain 11 isoform						axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15								T	CBFB	AML								---	---	---	---
ABCC1	4363	broad.mit.edu	37	16	16146288	16146289	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:16146288_16146289delAA	uc010bvi.2	+						ABCC1_uc010bvj.2_Intron|ABCC1_uc010bvk.2_Intron|ABCC1_uc010bvl.2_Intron|ABCC1_uc010bvm.2_Intron|ABCC1_uc002del.3_Intron|ABCC1_uc010bvn.2_Intron	NM_004996	NP_004987			ATP-binding cassette, sub-family C, member 1						hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)													---	---	---	---
ABCC1	4363	broad.mit.edu	37	16	16176680	16176680	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:16176680delT	uc010bvi.2	+						ABCC1_uc010bvj.2_Intron|ABCC1_uc010bvk.2_Intron|ABCC1_uc010bvl.2_Intron|ABCC1_uc010bvm.2_Intron|ABCC1_uc002del.3_Intron	NM_004996	NP_004987			ATP-binding cassette, sub-family C, member 1						hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)													---	---	---	---
Unknown	0	broad.mit.edu	37	16	16739367	16739367	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:16739367delT								LOC339047 (294930 upstream) : XYLT1 (456816 downstream)																																			---	---	---	---
XYLT1	64131	broad.mit.edu	37	16	17444498	17444498	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:17444498delA	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																		---	---	---	---
XYLT1	64131	broad.mit.edu	37	16	17497958	17497958	+	Intron	DEL	G	-	-	rs113530067		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:17497958delG	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	17632099	17632099	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:17632099delT								XYLT1 (67361 upstream) : NOMO2 (879084 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	17768801	17768801	+	IGR	DEL	T	-	-	rs79225678		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:17768801delT								XYLT1 (204063 upstream) : NOMO2 (742382 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	17896777	17896777	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:17896777delT								XYLT1 (332039 upstream) : NOMO2 (614406 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	17927134	17927135	+	IGR	INS	-	TT	TT	rs143551572	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:17927134_17927135insTT								XYLT1 (362396 upstream) : NOMO2 (584048 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	18112806	18112807	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:18112806_18112807delAA								XYLT1 (548068 upstream) : NOMO2 (398376 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	18205202	18205202	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:18205202delA								XYLT1 (640464 upstream) : NOMO2 (305981 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	18731719	18731720	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:18731719_18731720delAC								ABCC6P1 (122114 upstream) : RPS15A (62557 downstream)																																			---	---	---	---
ARL6IP1	23204	broad.mit.edu	37	16	18810349	18810349	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:18810349delT	uc002dfl.1	-						ARL6IP1_uc010van.1_Intron|ARL6IP1_uc010bvz.1_Intron	NM_015161	NP_055976			ADP-ribosylation factor-like 6 interacting							integral to membrane	protein binding				0																		---	---	---	---
SMG1	23049	broad.mit.edu	37	16	18857146	18857147	+	Intron	INS	-	T	T	rs150457031	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:18857146_18857147insT	uc002dfm.2	-						SMG1_uc010bwb.2_Intron|SMG1_uc010bwa.2_Intron|SMG1_uc002dfo.3_Intron	NM_015092	NP_055907			PI-3-kinase-related kinase SMG-1						DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16																		---	---	---	---
SMG1	23049	broad.mit.edu	37	16	18870270	18870270	+	Intron	DEL	A	-	-	rs3752679	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:18870270delA	uc002dfm.2	-						SMG1_uc010bwb.2_Intron|SMG1_uc010bwa.2_Intron	NM_015092	NP_055907			PI-3-kinase-related kinase SMG-1						DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16																		---	---	---	---
SMG1	23049	broad.mit.edu	37	16	18893710	18893712	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:18893710_18893712delAAA	uc002dfm.2	-						SMG1_uc010bwb.2_Intron	NM_015092	NP_055907			PI-3-kinase-related kinase SMG-1						DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	19092715	19092715	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:19092715delA								COQ7 (1365 upstream) : ITPRIPL2 (32539 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	19172141	19172141	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:19172141delA								ITPRIPL2 (39193 upstream) : SYT17 (7497 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	19392043	19392045	+	IGR	DEL	CCT	-	-	rs72296935		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:19392043_19392045delCCT								LOC728276 (76327 upstream) : TMC5 (29816 downstream)																																			---	---	---	---
IQCK	124152	broad.mit.edu	37	16	19799955	19799955	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:19799955delT	uc002dgr.2	+						IQCK_uc002dgs.2_Intron|IQCK_uc010vat.1_Intron|IQCK_uc010bwc.2_Intron|IQCK_uc010vau.1_Intron	NM_153208	NP_694940			IQ motif containing K											skin(1)	1																		---	---	---	---
GPRC5B	51704	broad.mit.edu	37	16	19877261	19877261	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:19877261delT	uc002dgt.2	-						GPRC5B_uc010vav.1_Intron	NM_016235	NP_057319			G protein-coupled receptor, family C, group 5,											lung(1)|breast(1)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	19961416	19961416	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:19961416delA								GPRC5B (64584 upstream) : GPR139 (81627 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	20090658	20090659	+	IGR	INS	-	AG	AG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20090658_20090659insAG								GPR139 (5558 upstream) : GP2 (231153 downstream)																																			---	---	---	---
DNAH3	55567	broad.mit.edu	37	16	21052693	21052693	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21052693delA	uc010vbe.1	-							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	21514921	21514921	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21514921delA	uc002diq.3	+						LOC100271836_uc002dja.2_Intron|LOC100271836_uc002djb.2_Intron					Homo sapiens cDNA FLJ59829 complete cds.																														---	---	---	---
METTL9	51108	broad.mit.edu	37	16	21664118	21664118	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21664118delT	uc002dje.2	+						uc002diq.3_Intron|METTL9_uc002djf.2_Intron|IGSF6_uc002djg.1_5'Flank|IGSF6_uc010vbi.1_5'Flank	NM_016025	NP_057109			methyltransferase like 9 isoform 1											ovary(1)	1				GBM - Glioblastoma multiforme(48;0.0759)														---	---	---	---
Unknown	0	broad.mit.edu	37	16	21689792	21689792	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21689792delA	uc002diq.3	+						OTOA_uc002djh.2_5'Flank					Homo sapiens cDNA FLJ59829 complete cds.																														---	---	---	---
RRN3P1	730092	broad.mit.edu	37	16	21823316	21823316	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21823316delA	uc010vbl.1	-						uc002diq.3_Intron|RRN3P1_uc002djl.2_Intron	NR_003370				SubName: Full=Putative uncharacterized protein ENSP00000219758;												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	21885913	21885916	+	Intron	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21885913_21885916delAAAA	uc002djr.3	-						uc002djs.3_Intron	NM_130464	NP_569731			nuclear pore complex interacting protein-like 3																														---	---	---	---
UQCRC2	7385	broad.mit.edu	37	16	21988677	21988677	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21988677delA	uc002djx.2	+						UQCRC2_uc002djy.2_Intron|UQCRC2_uc010bxa.2_Intron	NM_003366	NP_003357			ubiquinol-cytochrome c reductase core protein II						aerobic respiration|oxidative phosphorylation|proteolysis|respiratory electron transport chain|transport		metalloendopeptidase activity|zinc ion binding			large_intestine(2)	2				GBM - Glioblastoma multiforme(48;0.0264)														---	---	---	---
Unknown	0	broad.mit.edu	37	16	22640718	22640719	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:22640718_22640719insT								LOC653786 (52532 upstream) : HS3ST2 (185141 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	22649746	22649749	+	IGR	DEL	AAAA	-	-	rs112982138		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:22649746_22649749delAAAA								LOC653786 (61560 upstream) : HS3ST2 (176111 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	22961396	22961396	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:22961396delC								HS3ST2 (33739 upstream) : USP31 (111333 downstream)																																			---	---	---	---
USP31	57478	broad.mit.edu	37	16	23098403	23098403	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23098403delT	uc002dll.2	-						USP31_uc010bxm.2_5'Flank	NM_020718	NP_065769			ubiquitin specific peptidase 31						ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)														---	---	---	---
Unknown	0	broad.mit.edu	37	16	23397509	23397510	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23397509_23397510delTT								SCNN1B (4890 upstream) : COG7 (2306 downstream)																																			---	---	---	---
UBFD1	56061	broad.mit.edu	37	16	23580169	23580169	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23580169delA	uc002dlv.2	+							NM_019116	NP_061989			ubiquitin-binding protein homolog												0				GBM - Glioblastoma multiforme(48;0.0331)														---	---	---	---
NDUFAB1	4706	broad.mit.edu	37	16	23595790	23595791	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23595790_23595791delTT	uc002dlw.2	-							NM_005003	NP_004994			NADH dehydrogenase (ubiquinone) 1, alpha/beta						fatty acid biosynthetic process|mitochondrial electron transport, NADH to ubiquinone	mitochondrial matrix|mitochondrial respiratory chain complex I	acyl carrier activity|calcium ion binding|cofactor binding|fatty acid binding|NADH dehydrogenase (ubiquinone) activity|phosphopantetheine binding				0				GBM - Glioblastoma multiforme(48;0.0339)	NADH(DB00157)													---	---	---	---
PALB2	79728	broad.mit.edu	37	16	23635190	23635190	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23635190delT	uc002dlx.1	-							NM_024675	NP_078951			partner and localizer of BRCA2						double-strand break repair via homologous recombination	nucleoplasm	DNA binding|protein binding			lung(3)|breast(3)|ovary(2)|skin(1)|kidney(1)|pancreas(1)	11				GBM - Glioblastoma multiforme(48;0.0167)				F|N|Mis			Wilms tumor|medulloblastoma|AML ,breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia_type_N|Fanconi_Anemia|PALB2-associated_Familial_Breast_and_Pancreatic_Cancer|Pancreatic_Cancer_Familial_Clustering_of				---	---	---	---
PALB2	79728	broad.mit.edu	37	16	23637134	23637134	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23637134delA	uc002dlx.1	-							NM_024675	NP_078951			partner and localizer of BRCA2						double-strand break repair via homologous recombination	nucleoplasm	DNA binding|protein binding			lung(3)|breast(3)|ovary(2)|skin(1)|kidney(1)|pancreas(1)	11				GBM - Glioblastoma multiforme(48;0.0167)				F|N|Mis			Wilms tumor|medulloblastoma|AML ,breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia_type_N|Fanconi_Anemia|PALB2-associated_Familial_Breast_and_Pancreatic_Cancer|Pancreatic_Cancer_Familial_Clustering_of				---	---	---	---
Unknown	0	broad.mit.edu	37	16	23686525	23686526	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23686525_23686526delAA								DCTN5 (5343 upstream) : PLK1 (3675 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	23732424	23732424	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23732424delT								ERN2 (7603 upstream) : CHP2 (33524 downstream)																																			---	---	---	---
PRKCB	5579	broad.mit.edu	37	16	23981852	23981852	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23981852delT	uc002dmd.2	+						PRKCB_uc002dme.2_Intron	NM_212535	NP_997700			protein kinase C, beta isoform 1						apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)													---	---	---	---
Unknown	0	broad.mit.edu	37	16	24498974	24498976	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24498974_24498976delTTT								CACNG3 (125238 upstream) : RBBP6 (50038 downstream)																																			---	---	---	---
LCMT1	51451	broad.mit.edu	37	16	25159968	25159968	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:25159968delA	uc002dnx.1	+						LCMT1_uc002dny.1_Intron|LCMT1_uc002dnz.1_Intron|LCMT1_uc002doa.1_Intron|uc002dob.1_Intron	NM_016309	NP_057393			leucine carboxyl methyltransferase 1 isoform a								protein binding|protein C-terminal carboxyl O-methyltransferase activity|S-adenosylmethionine-dependent methyltransferase activity				0				GBM - Glioblastoma multiforme(48;0.0336)	L-Leucine(DB00149)													---	---	---	---
Unknown	0	broad.mit.edu	37	16	25221236	25221239	+	IGR	DEL	TCCA	-	-	rs72303774		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:25221236_25221239delTCCA								LCMT1 (31685 upstream) : AQP8 (7046 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	25240729	25240729	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:25240729delT								AQP8 (477 upstream) : ZKSCAN2 (6595 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	25282645	25282645	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:25282645delA								ZKSCAN2 (13790 upstream) : HS3ST4 (420702 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	25504457	25504458	+	IGR	INS	-	GT	GT	rs112056398	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:25504457_25504458insGT								ZKSCAN2 (235602 upstream) : HS3ST4 (198889 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	25673187	25673187	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:25673187delT								ZKSCAN2 (404332 upstream) : HS3ST4 (30160 downstream)																																			---	---	---	---
HS3ST4	9951	broad.mit.edu	37	16	25943797	25943797	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:25943797delT	uc002dof.2	+							NM_006040	NP_006031			heparan sulfate D-glucosaminyl						heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)														---	---	---	---
HS3ST4	9951	broad.mit.edu	37	16	26112537	26112537	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:26112537delC	uc002dof.2	+							NM_006040	NP_006031			heparan sulfate D-glucosaminyl						heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)														---	---	---	---
Unknown	0	broad.mit.edu	37	16	26151451	26151453	+	IGR	DEL	ATG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:26151451_26151453delATG								HS3ST4 (2443 upstream) : C16orf82 (926766 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	26396713	26396714	+	IGR	DEL	AC	-	-	rs147506259		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:26396713_26396714delAC								HS3ST4 (247705 upstream) : C16orf82 (681505 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	26400220	26400221	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:26400220_26400221insT								HS3ST4 (251212 upstream) : C16orf82 (677998 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	26451399	26451399	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:26451399delT								HS3ST4 (302391 upstream) : C16orf82 (626820 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	26497325	26497325	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:26497325delT								HS3ST4 (348317 upstream) : C16orf82 (580894 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	26945121	26945122	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:26945121_26945122delAC								HS3ST4 (796113 upstream) : C16orf82 (133097 downstream)																																			---	---	---	---
IL21R	50615	broad.mit.edu	37	16	27434553	27434553	+	Intron	DEL	T	-	-	rs72311278		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27434553delT	uc002doq.1	+						IL21R_uc002dor.1_Intron	NM_181078	NP_851564			interleukin 21 receptor precursor						natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4								T	BCL6	NHL								---	---	---	---
GTF3C1	2975	broad.mit.edu	37	16	27509009	27509009	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27509009delT	uc002dov.1	-	14	2339	c.2299delA	c.(2299-2301)AGTfs	p.S767fs	GTF3C1_uc002dou.2_Frame_Shift_Del_p.S767fs	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	767						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5																		---	---	---	---
GTF3C1	2975	broad.mit.edu	37	16	27509762	27509762	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27509762delT	uc002dov.1	-						GTF3C1_uc002dou.2_Intron	NM_001520	NP_001511			general transcription factor IIIC, polypeptide							transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5																		---	---	---	---
KIAA0556	23247	broad.mit.edu	37	16	27776301	27776302	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27776301_27776302delTT	uc002dow.2	+							NM_015202	NP_056017			hypothetical protein LOC23247											ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8																		---	---	---	---
GSG1L	146395	broad.mit.edu	37	16	27815611	27815611	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27815611delT	uc002doz.2	-						GSG1L_uc010bya.1_Intron|GSG1L_uc010bxz.1_Intron|GSG1L_uc002doy.2_Intron	NM_001109763	NP_001103233			GSG1-like isoform 1							integral to membrane				ovary(1)	1																		---	---	---	---
XPO6	23214	broad.mit.edu	37	16	28157264	28157265	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28157264_28157265insA	uc002dpa.1	-						XPO6_uc002dpb.1_Intron|XPO6_uc010vcp.1_Intron	NM_015171	NP_055986			exportin 6						protein export from nucleus		protein binding|protein transporter activity			ovary(1)|skin(1)	2																		---	---	---	---
XPO6	23214	broad.mit.edu	37	16	28179820	28179820	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28179820delA	uc002dpa.1	-						XPO6_uc002dpb.1_Intron|XPO6_uc010vcp.1_Intron	NM_015171	NP_055986			exportin 6						protein export from nucleus		protein binding|protein transporter activity			ovary(1)|skin(1)	2																		---	---	---	---
SBK1	388228	broad.mit.edu	37	16	28301407	28301410	+	5'Flank	DEL	AAAA	-	-	rs111799155		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28301407_28301410delAAAA	uc002dpd.2	+						uc002dpc.1_Intron	NM_001024401	NP_001019572			SH3-binding kinase 1							cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|kidney(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	28473444	28473445	+	Intron	DEL	TA	-	-	rs143188114		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28473444_28473445delTA	uc010vct.1	-						uc002dpk.2_Intron					RecName: Full=Nuclear pore complex-interacting protein-like 2; Flags: Precursor;																														---	---	---	---
Unknown	0	broad.mit.edu	37	16	28511599	28511600	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28511599_28511600delCT	uc010vct.1	-						IL27_uc002dqc.2_Intron					RecName: Full=Nuclear pore complex-interacting protein-like 2; Flags: Precursor;																														---	---	---	---
Unknown	0	broad.mit.edu	37	16	28599892	28599892	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28599892delT	uc010vct.1	-						CCDC101_uc002dqf.2_Intron					RecName: Full=Nuclear pore complex-interacting protein-like 2; Flags: Precursor;																														---	---	---	---
Unknown	0	broad.mit.edu	37	16	28606578	28606578	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28606578delT	uc010vct.1	-						SULT1A2_uc002dqg.1_Intron|SULT1A2_uc002dqh.1_Intron					RecName: Full=Nuclear pore complex-interacting protein-like 2; Flags: Precursor;																														---	---	---	---
RABEP2	79874	broad.mit.edu	37	16	28923106	28923106	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28923106delA	uc002drq.2	-						uc010vct.1_Intron|RABEP2_uc010vdf.1_Intron|RABEP2_uc010byn.2_Intron|RABEP2_uc002drr.2_Intron	NM_024816	NP_079092			rabaptin, RAB GTPase binding effector protein 2						endocytosis|protein transport	early endosome	growth factor activity|GTPase activator activity			ovary(1)|breast(1)|skin(1)	3																		---	---	---	---
CD19	930	broad.mit.edu	37	16	28950575	28950576	+	3'UTR	DEL	GT	-	-	rs28452041		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28950575_28950576delGT	uc002drs.2	+	15					uc010vct.1_Intron	NM_001770	NP_001761			CD19 antigen precursor						cellular defense response	external side of plasma membrane|integral to plasma membrane	protein binding|receptor signaling protein activity			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
BOLA2	552900	broad.mit.edu	37	16	29877043	29877043	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:29877043delT	uc010bzb.1	-						uc002dtf.2_Intron|CDIPT_uc002dul.2_5'Flank|CDIPT_uc002dum.2_5'Flank|CDIPT_uc002dun.2_5'Flank|LOC440356_uc010veb.1_Intron|LOC440356_uc002duo.2_Intron					SubName: Full=Putative uncharacterized protein ENSP00000369970; Flags: Fragment;												0																		---	---	---	---
BOLA2	552900	broad.mit.edu	37	16	29945077	29945077	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:29945077delA	uc010bzb.1	-						uc002dtf.2_Intron					SubName: Full=Putative uncharacterized protein ENSP00000369970; Flags: Fragment;												0																		---	---	---	---
MYLPF	29895	broad.mit.edu	37	16	30388545	30388545	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30388545delA	uc002dxv.1	+							NM_013292	NP_037424			myosin light chain, phosphorylatable, fast						skeletal muscle tissue development	muscle myosin complex	calcium ion binding|structural constituent of muscle				0			Colorectal(24;0.193)															---	---	---	---
ZNF764	92595	broad.mit.edu	37	16	30568626	30568627	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30568626_30568627delAA	uc002dyq.2	-						ZNF764_uc002dyr.1_Intron	NM_033410	NP_219363			zinc finger protein 764						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
ZNF785	146540	broad.mit.edu	37	16	30598731	30598731	+	5'Flank	DEL	A	-	-	rs111864256		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30598731delA	uc002dyw.1	-						ZNF785_uc002dyv.1_5'Flank|ZNF785_uc010vez.1_5'Flank	NM_152458	NP_689671			zinc finger protein 785						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
STX1B	112755	broad.mit.edu	37	16	31017136	31017136	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31017136delT	uc010cad.2	-						STX1B_uc010vfd.1_Intron	NM_052874	NP_443106			syntaxin 1B						intracellular protein transport|neurotransmitter transport|synaptic transmission	integral to plasma membrane	extracellular-glutamate-gated ion channel activity|SNAP receptor activity				0																		---	---	---	---
PRSS53	339105	broad.mit.edu	37	16	31101198	31101198	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31101198delA	uc002eaq.2	-						PRSS53_uc002ear.2_Intron	NM_001039503	NP_001034592			polyserase 3 precursor						proteolysis	extracellular region	serine-type endopeptidase activity				0																		---	---	---	---
PRSS53	339105	broad.mit.edu	37	16	31106653	31106654	+	5'Flank	DEL	AA	-	-	rs74635928		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31106653_31106654delAA	uc002ear.2	-						VKORC1_uc002eas.2_5'Flank|VKORC1_uc002eat.2_5'Flank|VKORC1_uc002eau.2_5'Flank	NM_001039503	NP_001034592			polyserase 3 precursor						proteolysis	extracellular region	serine-type endopeptidase activity				0																		---	---	---	---
ITGAM	3684	broad.mit.edu	37	16	31342999	31342999	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31342999delG	uc002ebq.2	+	30	3528	c.3430delG	c.(3430-3432)GGGfs	p.G1144fs	ITGAM_uc002ebr.2_Frame_Shift_Del_p.G1145fs|ITGAM_uc010can.2_Frame_Shift_Del_p.G550fs	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	1144	Cytoplasmic (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1																		---	---	---	---
ITGAD	3681	broad.mit.edu	37	16	31405452	31405452	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31405452delA	uc002ebv.1	+						ITGAD_uc010vfl.1_Intron|ITGAD_uc010cap.1_Intron	NM_005353	NP_005344			integrin, alpha D precursor						cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	31547166	31547166	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31547166delA								AHSP (7043 upstream) : CSDAP1 (31922 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	32108533	32108533	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32108533delT								ZNF267 (179907 upstream) : HERC2P4 (54077 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	32527151	32527152	+	IGR	INS	-	TTT	TTT	rs145341404		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32527151_32527152insTTT								HERC2P4 (363277 upstream) : TP53TG3B (157689 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	32544622	32544622	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32544622delT								HERC2P4 (380748 upstream) : TP53TG3B (140219 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	33377849	33377849	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33377849delT								SLC6A10P (481386 upstream) : MIR1826 (587659 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	33534730	33534731	+	IGR	INS	-	AC	AC	rs113915904		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33534730_33534731insAC								SLC6A10P (638267 upstream) : MIR1826 (430777 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	33865492	33865493	+	IGR	INS	-	GGGAT	GGGAT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33865492_33865493insGGGAT								SLC6A10P (969029 upstream) : MIR1826 (100015 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	33918800	33918800	+	IGR	DEL	C	-	-	rs74592802	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33918800delC								None (None upstream) : MIR1826 (46708 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	33920233	33920234	+	IGR	INS	-	T	T	rs138722457		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33920233_33920234insT								None (None upstream) : MIR1826 (45274 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	34014222	34014223	+	IGR	DEL	GT	-	-	rs138674060		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:34014222_34014223delGT								MIR1826 (48630 upstream) : UBE2MP1 (389579 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	34202106	34202106	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:34202106delA								MIR1826 (236514 upstream) : UBE2MP1 (201696 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	34260413	34260413	+	IGR	DEL	T	-	-	rs142068624	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:34260413delT								MIR1826 (294821 upstream) : UBE2MP1 (143389 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	34369264	34369265	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:34369264_34369265delTT								MIR1826 (403672 upstream) : UBE2MP1 (34537 downstream)																																			---	---	---	---
LOC283914	283914	broad.mit.edu	37	16	34611320	34611320	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:34611320delA	uc010vgc.1	+						LOC283914_uc002edw.2_Intron	NR_027080				Homo sapiens cDNA clone IMAGE:5271062.												0																		---	---	---	---
SHCBP1	79801	broad.mit.edu	37	16	46652287	46652287	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:46652287delA	uc002eec.3	-							NM_024745	NP_079021			SHC SH2-domain binding protein 1											ovary(1)|breast(1)	2		all_cancers(37;0.00404)|all_epithelial(9;0.00527)|all_lung(18;0.0413)|Lung NSC(13;0.213)																---	---	---	---
PHKB	5257	broad.mit.edu	37	16	47645546	47645546	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:47645546delT	uc002eev.3	+						PHKB_uc002eeu.3_Intron	NM_000293	NP_000284			phosphorylase kinase, beta isoform a						glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity			ovary(1)|large_intestine(1)|breast(1)	3		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)																---	---	---	---
PHKB	5257	broad.mit.edu	37	16	47667615	47667615	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:47667615delT	uc002eev.3	+						PHKB_uc002eeu.3_Intron	NM_000293	NP_000284			phosphorylase kinase, beta isoform a						glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity			ovary(1)|large_intestine(1)|breast(1)	3		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)																---	---	---	---
PHKB	5257	broad.mit.edu	37	16	47675773	47675773	+	Intron	DEL	A	-	-	rs35974190		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:47675773delA	uc002eev.3	+						PHKB_uc002eeu.3_Intron	NM_000293	NP_000284			phosphorylase kinase, beta isoform a						glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity			ovary(1)|large_intestine(1)|breast(1)	3		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)																---	---	---	---
Unknown	0	broad.mit.edu	37	16	47815073	47815073	+	IGR	DEL	T	-	-	rs112505917		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:47815073delT								PHKB (79640 upstream) : ABCC12 (301811 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	48021058	48021058	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:48021058delA								PHKB (285625 upstream) : ABCC12 (95826 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	48059599	48059599	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:48059599delT								PHKB (324166 upstream) : ABCC12 (57285 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	48394161	48394164	+	Intron	DEL	ATTT	-	-	rs72150748		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:48394161_48394164delATTT	uc002efk.1	+						SIAH1_uc002efl.2_Intron					Homo sapiens cDNA FLJ31489 fis, clone NT2NE2003308.																														---	---	---	---
Unknown	0	broad.mit.edu	37	16	48873692	48873692	+	IGR	DEL	T	-	-	rs11448015		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:48873692delT								N4BP1 (229572 upstream) : CBLN1 (438519 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	49151530	49151530	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:49151530delG								N4BP1 (507410 upstream) : CBLN1 (160681 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	49320643	49320644	+	IGR	DEL	AA	-	-	rs35361774		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:49320643_49320644delAA								CBLN1 (4928 upstream) : C16orf78 (87164 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	49960084	49960084	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:49960084delA								ZNF423 (99166 upstream) : TMEM188 (99105 downstream)																																			---	---	---	---
CYLD	1540	broad.mit.edu	37	16	50791016	50791016	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:50791016delT	uc002egp.1	+						CYLD_uc002egn.1_Intron|CYLD_uc002ego.2_Intron|CYLD_uc010cbs.1_Intron|CYLD_uc002egq.1_Intron|CYLD_uc002egr.1_Intron|CYLD_uc002egs.1_Intron	NM_015247	NP_056062			ubiquitin carboxyl-terminal hydrolase CYLD						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			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				---	---	---	---
Unknown	0	broad.mit.edu	37	16	51199614	51199614	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:51199614delT								SALL1 (14431 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	51338442	51338442	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:51338442delT								SALL1 (153259 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	51435449	51435449	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:51435449delT								SALL1 (250266 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	51590663	51590663	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:51590663delT								SALL1 (405480 upstream) : TOX3 (881255 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	51683100	51683100	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:51683100delT								SALL1 (497917 upstream) : TOX3 (788818 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	51923885	51923886	+	IGR	INS	-	A	A	rs146347964	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:51923885_51923886insA								SALL1 (738702 upstream) : TOX3 (548032 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	51926753	51926753	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:51926753delC								SALL1 (741570 upstream) : TOX3 (545165 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	52618882	52618882	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:52618882delT	uc002egx.2	-											Homo sapiens cDNA clone IMAGE:5172237.																														---	---	---	---
Unknown	0	broad.mit.edu	37	16	52716876	52716877	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:52716876_52716877delTT								TOX3 (135162 upstream) : CHD9 (372068 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	52850434	52850434	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:52850434delT								TOX3 (268720 upstream) : CHD9 (238511 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	53368579	53368579	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:53368579delA								CHD9 (7166 upstream) : RBL2 (99772 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	53413577	53413577	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:53413577delC								CHD9 (52164 upstream) : RBL2 (54774 downstream)																																			---	---	---	---
RBL2	5934	broad.mit.edu	37	16	53479145	53479145	+	Intron	DEL	G	-	-	rs147281869	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:53479145delG	uc002ehi.3	+						RBL2_uc010vgv.1_Intron|RBL2_uc002ehj.2_5'Flank	NM_005611	NP_005602			retinoblastoma-like 2 (p130)						cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5																		---	---	---	---
RBL2	5934	broad.mit.edu	37	16	53504276	53504276	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:53504276delT	uc002ehi.3	+						RBL2_uc002ehj.2_Intron|RBL2_uc010vgw.1_Intron	NM_005611	NP_005602			retinoblastoma-like 2 (p130)						cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	53604929	53604930	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:53604929_53604930delTC								AKTIP (67759 upstream) : RPGRIP1L (28893 downstream)																																			---	---	---	---
RPGRIP1L	23322	broad.mit.edu	37	16	53721714	53721714	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)																---	---	---	---
FTO	79068	broad.mit.edu	37	16	54015990	54015990	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:54015990delA	uc002ehr.2	+						FTO_uc010vha.1_Intron|FTO_uc010cbz.2_Intron|FTO_uc002ehs.2_Intron	NM_001080432	NP_001073901			fat mass and obesity associated						DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation|oxidative single-stranded RNA demethylation|RNA repair	nucleus	DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidative DNA demethylase activity|oxidative RNA demethylase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	54195921	54195921	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:54195921delT								FTO (47543 upstream) : IRX3 (121291 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	54269046	54269047	+	IGR	DEL	GA	-	-	rs144742115		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:54269046_54269047delGA								FTO (120668 upstream) : IRX3 (48165 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	54399504	54399505	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:54399504_54399505delAA								IRX3 (79126 upstream) : IRX5 (565606 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	54754680	54754680	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:54754680delA								IRX3 (434302 upstream) : IRX5 (210431 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	55129452	55129452	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:55129452delT								IRX5 (161059 upstream) : IRX6 (229019 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	55146059	55146059	+	IGR	DEL	A	-	-	rs77171859		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:55146059delA								IRX5 (177666 upstream) : IRX6 (212412 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	55205396	55205396	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:55205396delT								IRX5 (237003 upstream) : IRX6 (153075 downstream)																																			---	---	---	---
LOC283856	283856	broad.mit.edu	37	16	56148143	56148144	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56148143_56148144delTT	uc002eis.1	-							NR_027078				Homo sapiens hypothetical protein LOC283856, mRNA (cDNA clone IMAGE:5263025).												0																		---	---	---	---
LOC283856	283856	broad.mit.edu	37	16	56149471	56149471	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56149471delT	uc002eis.1	-							NR_027078				Homo sapiens hypothetical protein LOC283856, mRNA (cDNA clone IMAGE:5263025).												0																		---	---	---	---
LOC283856	283856	broad.mit.edu	37	16	56202239	56202239	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56202239delT	uc002eis.1	-							NR_027078				Homo sapiens hypothetical protein LOC283856, mRNA (cDNA clone IMAGE:5263025).												0																		---	---	---	---
GNAO1	2775	broad.mit.edu	37	16	56247746	56247746	+	Intron	DEL	A	-	-	rs35086490		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56247746delA	uc002eit.3	+						GNAO1_uc002eiu.3_Intron	NM_138736	NP_620073			guanine nucleotide binding protein, alpha						dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|muscle contraction	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|metabotropic serotonin receptor binding|signal transducer activity			lung(1)|breast(1)	2		all_neural(199;0.159)																---	---	---	---
GNAO1	2775	broad.mit.edu	37	16	56367123	56367126	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56367123_56367126delTTTT	uc002eit.3	+						GNAO1_uc002eiu.3_Intron	NM_138736	NP_620073			guanine nucleotide binding protein, alpha						dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|muscle contraction	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|metabotropic serotonin receptor binding|signal transducer activity			lung(1)|breast(1)	2		all_neural(199;0.159)																---	---	---	---
NLRC5	84166	broad.mit.edu	37	16	57065030	57065030	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57065030delA	uc002ekk.1	+						NLRC5_uc010ccq.1_Intron|NLRC5_uc002ekn.2_Intron|NLRC5_uc002ekl.2_Intron|NLRC5_uc002ekm.2_Intron|NLRC5_uc010ccr.1_Intron	NM_032206	NP_115582			nucleotide-binding oligomerization domains 27						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)																---	---	---	---
CPNE2	221184	broad.mit.edu	37	16	57152976	57152976	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57152976delG	uc002eks.1	+						CPNE2_uc010cct.1_Intron|CPNE2_uc010ccu.1_Intron	NM_152727	NP_689940			copine II											central_nervous_system(1)|skin(1)	2		all_neural(199;0.224)																---	---	---	---
FAM192A	80011	broad.mit.edu	37	16	57206437	57206437	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57206437delA	uc010vhk.1	-						FAM192A_uc002ekz.3_Intron|FAM192A_uc002ekv.3_Intron|FAM192A_uc002ekw.3_Intron|FAM192A_uc002ekx.3_Intron|FAM192A_uc002eky.3_Intron|FAM192A_uc010ccx.2_Intron	NM_024946	NP_079222			NEFA-interacting nuclear protein NIP30							nucleus					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	57330062	57330062	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57330062delT								PLLP (11491 upstream) : CCL22 (62656 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	57435437	57435438	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57435437_57435438delAA								CX3CL1 (16483 upstream) : CCL17 (3241 downstream)																																			---	---	---	---
CNGB1	1258	broad.mit.edu	37	16	57983037	57983037	+	Intron	DEL	T	-	-	rs152141	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57983037delT	uc002emt.2	-						CNGB1_uc010cdh.2_Intron	NM_001297	NP_001288			cyclic nucleotide gated channel beta 1 isoform						sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	58276981	58276981	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58276981delT								CSNK2A2 (45199 upstream) : CCDC113 (6859 downstream)																																			---	---	---	---
CNOT1	23019	broad.mit.edu	37	16	58573529	58573529	+	Intron	DEL	A	-	-	rs66742130		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58573529delA	uc002env.2	-						CNOT1_uc002enw.2_Intron|CNOT1_uc002enu.3_Intron|CNOT1_uc010vik.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)														---	---	---	---
Unknown	0	broad.mit.edu	37	16	58688192	58688192	+	IGR	DEL	C	-	-	rs17241189	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58688192delC								CNOT1 (24442 upstream) : SLC38A7 (12106 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	58730680	58730680	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58730680delT								SLC38A7 (12006 upstream) : GOT2 (10355 downstream)																																			---	---	---	---
GOT2	2806	broad.mit.edu	37	16	58767917	58767918	+	Intron	DEL	GT	-	-	rs143852021		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58767917_58767918delGT	uc002eof.1	-						GOT2_uc010vim.1_Intron	NM_002080	NP_002071			aspartate aminotransferase 2 precursor						aspartate catabolic process|fatty acid transport|gluconeogenesis|response to ethanol	mitochondrial matrix|plasma membrane	L-aspartate:2-oxoglutarate aminotransferase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)													---	---	---	---
Unknown	0	broad.mit.edu	37	16	58940633	58940633	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58940633delA								GOT2 (172387 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	60007470	60007470	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:60007470delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	61288687	61288687	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:61288687delT								None (None upstream) : CDH8 (398548 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	61317076	61317076	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:61317076delT								None (None upstream) : CDH8 (370159 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	61453252	61453252	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:61453252delA								None (None upstream) : CDH8 (233983 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	61627535	61627535	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:61627535delA								None (None upstream) : CDH8 (59700 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	62085244	62085244	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:62085244delA								CDH8 (15208 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	62143426	62143427	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:62143426_62143427insG								CDH8 (73390 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	62726959	62726959	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:62726959delT								CDH8 (656923 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	62953416	62953416	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:62953416delT								CDH8 (883380 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	62965627	62965627	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:62965627delT								CDH8 (895591 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	62983454	62983454	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:62983454delT								CDH8 (913418 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	63041026	63041026	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:63041026delT								CDH8 (970990 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	63079692	63079692	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:63079692delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	63417374	63417374	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:63417374delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	63723997	63723997	+	IGR	DEL	A	-	-	rs79989233		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:63723997delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	64225879	64225882	+	IGR	DEL	TGTG	-	-	rs71828407		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:64225879_64225882delTGTG								None (None upstream) : CDH11 (754803 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	64457400	64457403	+	IGR	DEL	GTGT	-	-	rs34329534		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:64457400_64457403delGTGT								None (None upstream) : CDH11 (523282 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	64921968	64921968	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:64921968delA								None (None upstream) : CDH11 (58717 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	64968329	64968330	+	IGR	INS	-	A	A	rs138151540	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:64968329_64968330insA								None (None upstream) : CDH11 (12355 downstream)																																			---	---	---	---
LOC283867	283867	broad.mit.edu	37	16	65334218	65334218	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:65334218delA	uc010cdo.1	-						LOC283867_uc010cdp.1_Intron|LOC283867_uc002eol.1_Intron					Homo sapiens cDNA clone IMAGE:5276218.												0				OV - Ovarian serous cystadenocarcinoma(108;0.17)														---	---	---	---
LOC283867	283867	broad.mit.edu	37	16	65380261	65380263	+	Intron	DEL	AAA	-	-	rs76269819		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:65380261_65380263delAAA	uc010cdo.1	-						LOC283867_uc010cdp.1_Intron|LOC283867_uc002eol.1_Intron					Homo sapiens cDNA clone IMAGE:5276218.												0				OV - Ovarian serous cystadenocarcinoma(108;0.17)														---	---	---	---
LOC283867	283867	broad.mit.edu	37	16	65578858	65578858	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:65578858delA	uc010cdp.1	-						LOC283867_uc002eol.1_Intron					Homo sapiens cDNA clone IMAGE:5276218.												0				OV - Ovarian serous cystadenocarcinoma(108;0.17)														---	---	---	---
Unknown	0	broad.mit.edu	37	16	65737552	65737552	+	IGR	DEL	A	-	-	rs11342463		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:65737552delA								LOC283867 (127349 upstream) : CDH5 (662973 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	65766237	65766238	+	IGR	INS	-	T	T	rs11439743		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:65766237_65766238insT								LOC283867 (156034 upstream) : CDH5 (634287 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	65825522	65825522	+	IGR	DEL	T	-	-	rs72170507		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:65825522delT								LOC283867 (215319 upstream) : CDH5 (575003 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	65999846	65999846	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:65999846delA								LOC283867 (389643 upstream) : CDH5 (400679 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	66061701	66061701	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66061701delA								LOC283867 (451498 upstream) : CDH5 (338824 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	66096102	66096102	+	IGR	DEL	A	-	-	rs67570905		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66096102delA								LOC283867 (485899 upstream) : CDH5 (304423 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	66207603	66207603	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66207603delA								LOC283867 (597400 upstream) : CDH5 (192922 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	66379651	66379651	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66379651delA								LOC283867 (769448 upstream) : CDH5 (20874 downstream)																																			---	---	---	---
BEAN	146227	broad.mit.edu	37	16	66487246	66487247	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66487246_66487247delAC	uc002eoq.2	+						BEAN_uc002eop.1_Intron	NM_001136106	NP_001129578			brain expressed, associated with Nedd4						cell death	integral to membrane					0																		---	---	---	---
CMTM4	146223	broad.mit.edu	37	16	66723275	66723275	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66723275delT	uc002epz.2	-						CMTM4_uc002eqa.2_Intron	NM_178818	NP_848933			chemokine-like factor superfamily 4 isoform 1						chemotaxis	extracellular space|integral to membrane	cytokine activity			pancreas(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0811)|Epithelial(162;0.214)														---	---	---	---
Unknown	0	broad.mit.edu	37	16	66736991	66736992	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66736991_66736992delAA								CMTM4 (6381 upstream) : DYNC1LI2 (17807 downstream)																																			---	---	---	---
DYNC1LI2	1783	broad.mit.edu	37	16	66775702	66775702	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66775702delA	uc002eqb.1	-						DYNC1LI2_uc010vis.1_Intron|DYNC1LI2_uc010vit.1_Intron|DYNC1LI2_uc010viu.1_Intron	NM_006141	NP_006132			dynein, cytoplasmic, light intermediate						transport	centrosome|cytoplasmic dynein complex|microtubule	ATP binding|motor activity			central_nervous_system(3)|skin(1)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0907)|Epithelial(162;0.212)														---	---	---	---
FAM96B	51647	broad.mit.edu	37	16	66966896	66966896	+	Intron	DEL	T	-	-	rs66689421		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66966896delT	uc002eqp.2	-						CES2_uc002eqq.2_5'Flank|CES2_uc002eqr.2_5'Flank|CES2_uc002eqs.2_5'Flank	NM_016062	NP_057146			hypothetical protein LOC51647						chromosome segregation	cytoplasm|MMXD complex|nucleus	protein binding				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0862)|Epithelial(162;0.198)														---	---	---	---
ZDHHC1	29800	broad.mit.edu	37	16	67432913	67432913	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67432913delG	uc010vjm.1	-							NM_013304	NP_037436			zinc finger, DHHC-type containing 1							integral to membrane	DNA binding|zinc ion binding				0		Ovarian(137;0.223)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0178)|all cancers(182;5.71e-53)|Epithelial(162;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(108;1.53e-29)|Kidney(780;4.37e-05)|BRCA - Breast invasive adenocarcinoma(181;5.8e-05)|GBM - Glioblastoma multiforme(240;0.0022)														---	---	---	---
NUTF2	10204	broad.mit.edu	37	16	67886207	67886207	+	Intron	DEL	A	-	-	rs35082713		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67886207delA	uc002eup.2	+						NUTF2_uc010vkf.1_Intron	NM_005796	NP_005787			nuclear transport factor 2						protein transport	cytosol|nuclear pore	protein binding|transporter activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00443)|Epithelial(162;0.0199)|all cancers(182;0.129)														---	---	---	---
DPEP2	64174	broad.mit.edu	37	16	68022810	68022811	+	Intron	INS	-	AGA	AGA	rs149160038	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68022810_68022811insAGA	uc010cey.2	-						DPEP2_uc002evd.3_Intron|DPEP2_uc002eve.2_Intron|DPEP2_uc002evf.2_Intron	NM_022355	NP_071750			dipeptidase 2 precursor						hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|proteolysis	anchored to membrane|plasma membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			skin(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0489)|all cancers(182;0.239)														---	---	---	---
NFATC3	4775	broad.mit.edu	37	16	68191055	68191055	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68191055delA	uc002evo.1	+						NFATC3_uc010vkl.1_Intron|NFATC3_uc010vkm.1_Intron|NFATC3_uc010vkn.1_Intron|NFATC3_uc010vko.1_Intron|NFATC3_uc010vkp.1_Intron|NFATC3_uc010vkq.1_Intron|NFATC3_uc002evl.2_Intron|NFATC3_uc002evk.2_Intron|NFATC3_uc002evm.1_Intron|NFATC3_uc002evn.1_Intron|NFATC3_uc010vkr.1_Intron|NFATC3_uc010vks.1_Intron|NFATC3_uc010vkt.1_Intron|NFATC3_uc010vku.1_Intron|NFATC3_uc010vkv.1_Intron|NFATC3_uc010vkw.1_Intron|NFATC3_uc010vkx.1_Intron|NFATC3_uc010vky.1_Intron|NFATC3_uc010vkz.1_Intron|NFATC3_uc010vla.1_Intron|NFATC3_uc010vlb.1_Intron|NFATC3_uc010vlc.1_Intron	NM_173165	NP_775188			nuclear factor of activated T-cells,						inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)														---	---	---	---
PLA2G15	23659	broad.mit.edu	37	16	68283590	68283590	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68283590delT	uc002evr.2	+						PLA2G15_uc010vld.1_Intron|PLA2G15_uc010vle.1_Intron|PLA2G15_uc010vlf.1_Intron	NM_012320	NP_036452			lysophospholipase 3 (lysosomal phospholipase A2)						fatty acid catabolic process	extracellular region|lysosome	lysophospholipase activity|phosphatidylcholine-sterol O-acyltransferase activity|phospholipid binding			ovary(1)	1																		---	---	---	---
PLA2G15	23659	broad.mit.edu	37	16	68292869	68292869	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68292869delA	uc002evr.2	+						PLA2G15_uc010vld.1_Intron|PLA2G15_uc010vle.1_Intron|PLA2G15_uc010vlf.1_Intron|PLA2G15_uc002evs.2_Intron	NM_012320	NP_036452			lysophospholipase 3 (lysosomal phospholipase A2)						fatty acid catabolic process	extracellular region|lysosome	lysophospholipase activity|phosphatidylcholine-sterol O-acyltransferase activity|phospholipid binding			ovary(1)	1																		---	---	---	---
SLC7A6	9057	broad.mit.edu	37	16	68302907	68302908	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68302907_68302908insA	uc002evt.1	+						SLC7A6_uc010cfb.1_Intron|SLC7A6_uc002evu.1_Intron|SLC7A6_uc002evv.1_Intron	NM_001076785	NP_001070253			solute carrier family 7 (cationic amino acid						blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	basolateral plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity|antiporter activity			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.0948)														---	---	---	---
Unknown	0	broad.mit.edu	37	16	68659259	68659260	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68659259_68659260insT								ZFP90 (58221 upstream) : CDH3 (18891 downstream)														p.?(1)																					---	---	---	---
TMCO7	79613	broad.mit.edu	37	16	68876042	68876042	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68876042delA	uc002ewi.3	+						TMCO7_uc002ewh.2_5'Flank	NM_024562	NP_078838			transmembrane and coiled-coil domains 7							integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)														---	---	---	---
TMCO7	79613	broad.mit.edu	37	16	68879764	68879764	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68879764delT	uc002ewi.3	+						TMCO7_uc002ewh.2_Intron	NM_024562	NP_078838			transmembrane and coiled-coil domains 7							integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)														---	---	---	---
TMCO7	79613	broad.mit.edu	37	16	69059840	69059840	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:69059840delA	uc002ewi.3	+							NM_024562	NP_078838			transmembrane and coiled-coil domains 7							integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)														---	---	---	---
CIRH1A	84916	broad.mit.edu	37	16	69168606	69168608	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:69168606_69168608delTTT	uc002ews.3	+						CHTF8_uc002ewn.1_5'Flank|CHTF8_uc002ewo.1_5'Flank|CHTF8_uc002ewp.1_5'Flank|CIRH1A_uc002ewr.2_Intron|CIRH1A_uc002ewt.3_Intron|CIRH1A_uc010cfi.2_5'Flank	NM_032830	NP_116219			cirhin							nucleolus	protein binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.125)														---	---	---	---
CIRH1A	84916	broad.mit.edu	37	16	69178600	69178600	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:69178600delT	uc002ews.3	+						CIRH1A_uc002ewr.2_Intron|CIRH1A_uc002ewt.3_Intron|CIRH1A_uc010cfi.2_Intron|CIRH1A_uc010cfj.1_Intron	NM_032830	NP_116219			cirhin							nucleolus	protein binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.125)														---	---	---	---
SNTB2	6645	broad.mit.edu	37	16	69297865	69297865	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:69297865delA	uc002ewu.2	+							NM_006750	NP_006741			basic beta 2 syntrophin							cell junction|dystrophin-associated glycoprotein complex|membrane fraction|microtubule|transport vesicle membrane	actin binding|calmodulin binding|protein binding				0		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.208)														---	---	---	---
TERF2	7014	broad.mit.edu	37	16	69413254	69413254	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:69413254delC	uc002exd.2	-						TERF2_uc002exe.2_Intron	NM_005652	NP_005643			telomeric repeat binding factor 2						age-dependent telomere shortening|cell cycle|cellular senescence|negative regulation of telomere maintenance via semi-conservative replication|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of transcription, DNA-dependent|telomeric loop formation	Golgi apparatus|nuclear telomere cap complex|nucleoplasm	double-stranded telomeric DNA binding|protein C-terminus binding|protein homodimerization activity			lung(1)	1		Ovarian(137;0.101)																---	---	---	---
NFAT5	10725	broad.mit.edu	37	16	69724223	69724223	+	Intron	DEL	A	-	-	rs3826153	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:69724223delA	uc002exm.1	+						NFAT5_uc002exi.2_Intron|NFAT5_uc002exj.1_Intron|NFAT5_uc002exk.1_Intron|NFAT5_uc002exl.1_Intron|NFAT5_uc002exn.1_Intron|NFAT5_uc002exo.1_5'Flank	NM_006599	NP_006590			nuclear factor of activated T-cells 5 isoform c						excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0																		---	---	---	---
WWP2	11060	broad.mit.edu	37	16	69836508	69836508	+	Intron	DEL	T	-	-	rs111581415		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:69836508delT	uc002exu.1	+						WWP2_uc002ext.2_Intron|WWP2_uc002exv.1_Intron	NM_007014	NP_008945			WW domain containing E3 ubiquitin protein ligase						entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6																		---	---	---	---
WWP2	11060	broad.mit.edu	37	16	69873503	69873503	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:69873503delT	uc002exu.1	+						WWP2_uc002ext.2_Intron|WWP2_uc002exv.1_Intron|WWP2_uc010vlm.1_Intron	NM_007014	NP_008945			WW domain containing E3 ubiquitin protein ligase						entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6																		---	---	---	---
PDPR	55066	broad.mit.edu	37	16	70159545	70159545	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70159545delT	uc002eyf.1	+						CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Intron	NM_017990	NP_060460			pyruvate dehydrogenase phosphatase regulatory						glycine catabolic process|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	aminomethyltransferase activity|oxidoreductase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.124)														---	---	---	---
CLEC18C	283971	broad.mit.edu	37	16	70204541	70204541	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70204541delT	uc002exy.2	+						uc002eyi.1_Intron	NM_182619	NP_872425			secretory protein LOC348174 precursor							extracellular region	sugar binding				0																		---	---	---	---
FUK	197258	broad.mit.edu	37	16	70488080	70488080	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70488080delT	uc002eyy.2	+						FUK_uc010vmb.1_5'Flank|FUK_uc010cft.2_5'Flank|FUK_uc002eyz.2_5'Flank	NM_145059	NP_659496			fucokinase							cytoplasm	ATP binding|fucokinase activity			ovary(1)	1		Ovarian(137;0.0694)																---	---	---	---
COG4	25839	broad.mit.edu	37	16	70526565	70526566	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70526565_70526566delAA	uc002ezc.2	-						COG4_uc002eza.2_5'Flank|COG4_uc002ezb.2_Intron|COG4_uc010cfu.2_Intron|COG4_uc002ezd.2_Intron|COG4_uc002eze.2_Intron	NM_015386	NP_056201			component of oligomeric golgi complex 4						Golgi organization|Golgi vesicle prefusion complex stabilization|protein transport|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0		Ovarian(137;0.0694)																---	---	---	---
COG4	25839	broad.mit.edu	37	16	70543040	70543040	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70543040delT	uc002ezc.2	-						COG4_uc002ezb.2_5'UTR|COG4_uc010cfu.2_Intron|COG4_uc002ezd.2_Intron|COG4_uc002eze.2_5'UTR	NM_015386	NP_056201			component of oligomeric golgi complex 4						Golgi organization|Golgi vesicle prefusion complex stabilization|protein transport|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0		Ovarian(137;0.0694)																---	---	---	---
MTSS1L	92154	broad.mit.edu	37	16	70707219	70707220	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70707219_70707220delAG	uc002ezj.2	-							NM_138383	NP_612392			metastasis suppressor 1-like						filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1																		---	---	---	---
VAC14	55697	broad.mit.edu	37	16	70754942	70754942	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70754942delA	uc002ezm.2	-						VAC14_uc010cfw.2_Intron|VAC14_uc002ezn.2_Intron|VAC14_uc002ezl.2_Intron|VAC14_uc010cfx.1_Intron	NM_018052	NP_060522			Vac14 homolog						interspecies interaction between organisms	endoplasmic reticulum|endosome membrane|microsome	protein binding|receptor activity			pancreas(1)|skin(1)	2		Ovarian(137;0.0699)																---	---	---	---
VAC14	55697	broad.mit.edu	37	16	70793533	70793536	+	Intron	DEL	AAAC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70793533_70793536delAAAC	uc002ezm.2	-						VAC14_uc010cfw.2_Intron|VAC14_uc002ezn.2_Intron|uc002ezp.1_Intron	NM_018052	NP_060522			Vac14 homolog						interspecies interaction between organisms	endoplasmic reticulum|endosome membrane|microsome	protein binding|receptor activity			pancreas(1)|skin(1)	2		Ovarian(137;0.0699)																---	---	---	---
HYDIN	54768	broad.mit.edu	37	16	70935161	70935161	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70935161delT	uc002ezr.2	-							NM_032821	NP_116210			hydrocephalus inducing isoform a											ovary(1)|skin(1)	2		Ovarian(137;0.0654)																---	---	---	---
AP1G1	164	broad.mit.edu	37	16	71818460	71818460	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:71818460delT	uc010cgg.2	-						AP1G1_uc002fba.2_Intron|AP1G1_uc002fbb.2_Intron|AP1G1_uc010vmg.1_Intron|AP1G1_uc010vmh.1_Intron	NM_001128	NP_001119			adaptor-related protein complex 1, gamma 1						endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|recycling endosome	kinesin binding|protein transporter activity			ovary(2)	2		Ovarian(137;0.125)																---	---	---	---
PKD1L3	342372	broad.mit.edu	37	16	71987949	71987949	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:71987949delA	uc010vmm.1	-							NM_181536	NP_853514			polycystin 1-like 3 precursor												0																		---	---	---	---
PMFBP1	83449	broad.mit.edu	37	16	72183690	72183691	+	Intron	DEL	AA	-	-	rs79862425		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72183690_72183691delAA	uc002fcc.3	-						PMFBP1_uc002fcd.2_Intron|PMFBP1_uc002fce.2_Intron|PMFBP1_uc002fcf.2_Intron	NM_031293	NP_112583			polyamine modulated factor 1 binding protein 1											ovary(2)	2		Ovarian(137;0.179)																---	---	---	---
Unknown	0	broad.mit.edu	37	16	72502636	72502637	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72502636_72502637delAA	uc002fci.1	+											Homo sapiens cDNA FLJ38299 fis, clone FCBBF3017255.																														---	---	---	---
ZFHX3	463	broad.mit.edu	37	16	72929772	72929773	+	Intron	INS	-	TAGATAGA	TAGATAGA	rs146417471	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72929772_72929773insTAGATAGA	uc002fck.2	-						ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816			zinc finger homeobox 3 isoform A						muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)																---	---	---	---
ZFHX3	463	broad.mit.edu	37	16	72931765	72931766	+	Intron	INS	-	A	A	rs146682192	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72931765_72931766insA	uc002fck.2	-						ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816			zinc finger homeobox 3 isoform A						muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)																---	---	---	---
ZFHX3	463	broad.mit.edu	37	16	73045625	73045625	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:73045625delA	uc002fck.2	-						ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816			zinc finger homeobox 3 isoform A						muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)																---	---	---	---
Unknown	0	broad.mit.edu	37	16	73221766	73221766	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:73221766delT								HTA (94096 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	73731953	73731953	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:73731953delA								HTA (604283 upstream) : PSMD7 (598728 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	73865647	73865649	+	IGR	DEL	AGG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:73865647_73865649delAGG								HTA (737977 upstream) : PSMD7 (465032 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	74044923	74044923	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74044923delA								HTA (917253 upstream) : PSMD7 (285758 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	74223949	74223949	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74223949delT								None (None upstream) : PSMD7 (106732 downstream)																																			---	---	---	---
GLG1	2734	broad.mit.edu	37	16	74620381	74620381	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74620381delT	uc002fcy.3	-						GLG1_uc002fcx.2_Intron|GLG1_uc002fcw.3_Intron|GLG1_uc002fcz.3_Intron	NM_001145667	NP_001139139			golgi apparatus protein 1 isoform 3							Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	74652531	74652531	+	IGR	DEL	T	-	-	rs72792713	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74652531delT								GLG1 (11489 upstream) : RFWD3 (2767 downstream)																																			---	---	---	---
RFWD3	55159	broad.mit.edu	37	16	74682673	74682673	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74682673delA	uc002fda.2	-						RFWD3_uc010cgq.2_Intron	NM_018124	NP_060594			ring finger and WD repeat domain 3						DNA repair|mitotic cell cycle G1/S transition DNA damage checkpoint|response to ionizing radiation	nucleus	MDM2 binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|breast(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	74741581	74741581	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74741581delT								MLKL (6792 upstream) : FA2H (5277 downstream)																																			---	---	---	---
WDR59	79726	broad.mit.edu	37	16	74907551	74907551	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74907551delA	uc002fdh.1	-	26					WDR59_uc002fdf.1_3'UTR|WDR59_uc002fdg.1_3'UTR	NM_030581	NP_085058			WD repeat domain 59											ovary(1)|breast(1)	2																		---	---	---	---
ZNRF1	84937	broad.mit.edu	37	16	75053622	75053622	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:75053622delT	uc002fdk.2	+						ZNRF1_uc010vmz.1_Intron|ZNRF1_uc002fdl.1_Intron|ZNRF1_uc010cgr.1_Intron	NM_032268	NP_115644			zinc and ring finger protein 1							cell junction|endosome|lysosome|synaptic vesicle membrane	ligase activity|protein binding|zinc ion binding				0																		---	---	---	---
ZNRF1	84937	broad.mit.edu	37	16	75085111	75085111	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:75085111delT	uc002fdk.2	+						ZNRF1_uc010vmz.1_Intron|ZNRF1_uc002fdl.1_Intron|ZNRF1_uc010cgr.1_Intron	NM_032268	NP_115644			zinc and ring finger protein 1							cell junction|endosome|lysosome|synaptic vesicle membrane	ligase activity|protein binding|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	75228886	75228886	+	IGR	DEL	G	-	-	rs4888356	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:75228886delG								ZFP1 (22755 upstream) : CTRB2 (9109 downstream)																																			---	---	---	---
CFDP1	10428	broad.mit.edu	37	16	75427953	75427953	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:75427953delA	uc002fdy.2	-						CFDP1_uc002fdz.2_Intron	NM_006324	NP_006315			craniofacial development protein 1						multicellular organismal development					upper_aerodigestive_tract(1)	1																		---	---	---	---
CFDP1	10428	broad.mit.edu	37	16	75455990	75455991	+	Intron	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:75455990_75455991delTC	uc002fdy.2	-						CFDP1_uc002fdz.2_Intron|CFDP1_uc002fea.1_Intron	NM_006324	NP_006315			craniofacial development protein 1						multicellular organismal development					upper_aerodigestive_tract(1)	1																		---	---	---	---
TERF2IP	54386	broad.mit.edu	37	16	75686179	75686179	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:75686179delT	uc002fet.1	+							NM_018975	NP_061848			telomeric repeat binding factor 2, interacting						negative regulation of DNA recombination at telomere|negative regulation of telomere maintenance|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of double-strand break repair via homologous recombination|telomere maintenance via telomerase|transcription, DNA-dependent	cytoplasm|nuclear telomere cap complex|nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	75737386	75737388	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:75737386_75737388delTTT								TERF2IP (46058 upstream) : CNTNAP4 (573788 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	75818690	75818690	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:75818690delT								TERF2IP (127362 upstream) : CNTNAP4 (492486 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	76006801	76006802	+	IGR	INS	-	AC	AC	rs143389987	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:76006801_76006802insAC								TERF2IP (315473 upstream) : CNTNAP4 (304374 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	76268905	76268905	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:76268905delT								TERF2IP (577577 upstream) : CNTNAP4 (42271 downstream)																																			---	---	---	---
CNTNAP4	85445	broad.mit.edu	37	16	76351605	76351606	+	Intron	INS	-	GTGT	GTGT	rs146648270	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:76351605_76351606insGTGT	uc002feu.1	+						CNTNAP4_uc002fev.1_Intron|CNTNAP4_uc010chb.1_Intron|CNTNAP4_uc002fex.1_Intron|CNTNAP4_uc002few.2_Intron	NM_033401	NP_207837			cell recognition protein CASPR4 isoform 1						cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2																		---	---	---	---
CNTNAP4	85445	broad.mit.edu	37	16	76411592	76411592	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:76411592delA	uc002feu.1	+						CNTNAP4_uc002fev.1_Intron|CNTNAP4_uc010chb.1_Intron|CNTNAP4_uc002fex.1_Intron|CNTNAP4_uc002few.2_Intron	NM_033401	NP_207837			cell recognition protein CASPR4 isoform 1						cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2																		---	---	---	---
CNTNAP4	85445	broad.mit.edu	37	16	76427585	76427586	+	Intron	DEL	AA	-	-	rs75331559		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:76427585_76427586delAA	uc002feu.1	+						CNTNAP4_uc002fev.1_Intron|CNTNAP4_uc010chb.1_Intron|CNTNAP4_uc002fex.1_Intron|CNTNAP4_uc002few.2_Intron	NM_033401	NP_207837			cell recognition protein CASPR4 isoform 1						cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	76976256	76976256	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:76976256delA								CNTNAP4 (383121 upstream) : MON1B (248580 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	77202322	77202322	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:77202322delG								CNTNAP4 (609187 upstream) : MON1B (22514 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	77209024	77209025	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:77209024_77209025insA								CNTNAP4 (615889 upstream) : MON1B (15811 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	77263629	77263630	+	IGR	INS	-	C	C	rs146387095	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:77263629_77263630insC								SYCE1L (16653 upstream) : ADAMTS18 (52396 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	77275594	77275594	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:77275594delT								SYCE1L (28618 upstream) : ADAMTS18 (40432 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	77306477	77306477	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:77306477delT								SYCE1L (59501 upstream) : ADAMTS18 (9549 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	77535262	77535262	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:77535262delA								ADAMTS18 (66251 upstream) : NUDT7 (221149 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	78041464	78041465	+	IGR	INS	-	ACAC	ACAC	rs139226401	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:78041464_78041465insACAC								VAT1L (27463 upstream) : CLEC3A (14978 downstream)																																			---	---	---	---
WWOX	51741	broad.mit.edu	37	16	78301654	78301657	+	Intron	DEL	TGAT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:78301654_78301657delTGAT	uc002ffk.2	+						WWOX_uc010vnk.1_Intron|WWOX_uc002ffl.2_Intron|WWOX_uc010che.2_Intron|WWOX_uc002ffj.1_Intron	NM_016373	NP_057457			WW domain-containing oxidoreductase isoform 1						apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)														---	---	---	---
WWOX	51741	broad.mit.edu	37	16	78451415	78451416	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:78451415_78451416insA	uc002ffk.2	+						WWOX_uc010vnk.1_Intron|WWOX_uc002ffl.2_Intron|WWOX_uc010che.2_Intron	NM_016373	NP_057457			WW domain-containing oxidoreductase isoform 1						apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)														---	---	---	---
WWOX	51741	broad.mit.edu	37	16	78565961	78565963	+	Intron	DEL	TTT	-	-	rs71950983		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:78565961_78565963delTTT	uc002ffk.2	+						WWOX_uc010vnk.1_Intron|WWOX_uc002ffl.2_Intron|WWOX_uc010che.2_Intron	NM_016373	NP_057457			WW domain-containing oxidoreductase isoform 1						apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)														---	---	---	---
WWOX	51741	broad.mit.edu	37	16	78719797	78719798	+	Intron	DEL	AC	-	-	rs149315893	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:78719797_78719798delAC	uc002ffk.2	+						WWOX_uc010vnk.1_Intron|WWOX_uc002ffl.2_Intron|WWOX_uc010che.2_Intron	NM_016373	NP_057457			WW domain-containing oxidoreductase isoform 1						apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)														---	---	---	---
WWOX	51741	broad.mit.edu	37	16	78817784	78817785	+	Intron	INS	-	TGA	TGA	rs143137551	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:78817784_78817785insTGA	uc002ffk.2	+						WWOX_uc010vnk.1_Intron|WWOX_uc002ffl.2_Intron|WWOX_uc010che.2_Intron	NM_016373	NP_057457			WW domain-containing oxidoreductase isoform 1						apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)														---	---	---	---
WWOX	51741	broad.mit.edu	37	16	78900336	78900336	+	Intron	DEL	T	-	-	rs67178953		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:78900336delT	uc002ffk.2	+						WWOX_uc010vnk.1_Intron|WWOX_uc002ffl.2_Intron|WWOX_uc010che.2_Intron	NM_016373	NP_057457			WW domain-containing oxidoreductase isoform 1						apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)														---	---	---	---
Unknown	0	broad.mit.edu	37	16	79453810	79453810	+	IGR	DEL	A	-	-	rs113421175		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:79453810delA								WWOX (207247 upstream) : MAF (173936 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	79469144	79469145	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:79469144_79469145delCA								WWOX (222581 upstream) : MAF (158601 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	79861100	79861100	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:79861100delT								MAF (226478 upstream) : DYNLRB2 (713754 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	80067609	80067610	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:80067609_80067610delAA								MAF (432987 upstream) : DYNLRB2 (507244 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	80418396	80418397	+	IGR	DEL	TG	-	-	rs72009898		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:80418396_80418397delTG								MAF (783774 upstream) : DYNLRB2 (156457 downstream)																																			---	---	---	---
CDYL2	124359	broad.mit.edu	37	16	80640754	80640754	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:80640754delT	uc002ffs.2	-							NM_152342	NP_689555			chromodomain protein, Y-like 2							nucleus	catalytic activity|protein binding			central_nervous_system(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	80905804	80905804	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:80905804delA	uc002fft.1	-											Homo sapiens cDNA FLJ35683 fis, clone SPLEN2019131.																														---	---	---	---
BCMO1	53630	broad.mit.edu	37	16	81300029	81300029	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81300029delA	uc002fgn.1	+						BCMO1_uc010vnp.1_Intron	NM_017429	NP_059125			beta-carotene 15,15'-monooxygenase						retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0																		---	---	---	---
BCMO1	53630	broad.mit.edu	37	16	81323931	81323931	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81323931delT	uc002fgn.1	+						BCMO1_uc010vnp.1_Intron	NM_017429	NP_059125			beta-carotene 15,15'-monooxygenase						retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0																		---	---	---	---
GAN	8139	broad.mit.edu	37	16	81397865	81397866	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81397865_81397866delCT	uc002fgo.2	+							NM_022041	NP_071324			gigaxonin						cell death	cytoplasm|neurofilament	protein binding			ovary(2)	2		Colorectal(91;0.153)																---	---	---	---
Unknown	0	broad.mit.edu	37	16	81746280	81746280	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81746280delA								CMIP (915 upstream) : PLCG2 (66650 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	82160313	82160313	+	IGR	DEL	A	-	-	rs34348504		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:82160313delA								HSD17B2 (28175 upstream) : MPHOSPH6 (21455 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	82421814	82421814	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:82421814delA								MPHOSPH6 (217985 upstream) : CDH13 (238764 downstream)																																			---	---	---	---
CDH13	1012	broad.mit.edu	37	16	82859459	82859459	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:82859459delT	uc002fgx.2	+						CDH13_uc010chh.2_Intron|CDH13_uc010vns.1_Intron|CDH13_uc010vnt.1_Intron|CDH13_uc010vnu.1_Intron	NM_001257	NP_001248			cadherin 13 preproprotein						adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)														---	---	---	---
CDH13	1012	broad.mit.edu	37	16	83082273	83082273	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:83082273delA	uc002fgx.2	+						CDH13_uc010chh.2_Intron|CDH13_uc010vns.1_Intron|CDH13_uc010vnt.1_Intron|CDH13_uc010vnu.1_Intron	NM_001257	NP_001248			cadherin 13 preproprotein						adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)														---	---	---	---
CDH13	1012	broad.mit.edu	37	16	83200608	83200608	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:83200608delT	uc002fgx.2	+						CDH13_uc010chh.2_Intron|CDH13_uc010vns.1_Intron|CDH13_uc010vnt.1_Intron|CDH13_uc010vnu.1_Intron	NM_001257	NP_001248			cadherin 13 preproprotein						adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)														---	---	---	---
CDH13	1012	broad.mit.edu	37	16	83644820	83644820	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:83644820delT	uc002fgx.2	+						CDH13_uc010vns.1_Intron|CDH13_uc010vnt.1_Intron|CDH13_uc010vnu.1_Intron	NM_001257	NP_001248			cadherin 13 preproprotein						adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)														---	---	---	---
CDH13	1012	broad.mit.edu	37	16	83818237	83818240	+	Intron	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:83818237_83818240delAAAA	uc002fgx.2	+						CDH13_uc010vns.1_Intron|CDH13_uc010vnt.1_Intron|CDH13_uc010vnu.1_Intron	NM_001257	NP_001248			cadherin 13 preproprotein						adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)														---	---	---	---
SLC38A8	146167	broad.mit.edu	37	16	84071916	84071916	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84071916delA	uc002fhg.1	-							NM_001080442	NP_001073911			solute carrier family 38, member 8						amino acid transport|sodium ion transport	integral to membrane					0																		---	---	---	---
HSDL1	83693	broad.mit.edu	37	16	84162985	84162985	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84162985delA	uc002fhk.2	-						HSDL1_uc010vnv.1_Intron	NM_031463	NP_113651			hydroxysteroid dehydrogenase like 1 isoform a							mitochondrion	oxidoreductase activity|protein binding				0																		---	---	---	---
COTL1	23406	broad.mit.edu	37	16	84612458	84612459	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84612458_84612459delCA	uc002fid.2	-						COTL1_uc002fie.2_Intron|COTL1_uc010chk.2_Intron|COTL1_uc002fif.1_5'Flank	NM_021149	NP_066972			coactosin-like 1							cytoplasm|cytoskeleton	actin binding|enzyme binding			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	85156729	85156729	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:85156729delA								FAM92B (10615 upstream) : KIAA0182 (488300 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	85159116	85159117	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:85159116_85159117insT								FAM92B (13002 upstream) : KIAA0182 (485912 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	85312718	85312719	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:85312718_85312719insT								FAM92B (166604 upstream) : KIAA0182 (332310 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	85460046	85460049	+	IGR	DEL	GGAA	-	-	rs146222646		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:85460046_85460049delGGAA								FAM92B (313932 upstream) : KIAA0182 (184980 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	85623801	85623802	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:85623801_85623802delTG								FAM92B (477687 upstream) : KIAA0182 (21227 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	85794960	85794961	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:85794960_85794961delTT								C16orf74 (10271 upstream) : COX4NB (17272 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	86254286	86254287	+	IGR	INS	-	CA	CA	rs148993686	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:86254286_86254287insCA								IRF8 (298077 upstream) : LOC732275 (111169 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	87149578	87149579	+	Intron	INS	-	C	C	rs141773791		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:87149578_87149579insC	uc002fjt.1	-											Homo sapiens cDNA FLJ43761 fis, clone TESTI2048109.																														---	---	---	---
Unknown	0	broad.mit.edu	37	16	87617788	87617788	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:87617788delG								ZCCHC14 (92328 upstream) : JPH3 (17653 downstream)																																			---	---	---	---
BANP	54971	broad.mit.edu	37	16	88065087	88065087	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88065087delA	uc002fkr.2	+						BANP_uc002fkp.2_Intron|BANP_uc002fkq.2_Intron|BANP_uc010vow.1_Intron|BANP_uc002fks.3_Intron|BANP_uc002fko.1_Intron|BANP_uc010vov.1_Intron	NM_079837	NP_524576			BTG3 associated nuclear protein isoform b						cell cycle|chromatin modification|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0				BRCA - Breast invasive adenocarcinoma(80;0.00551)														---	---	---	---
ZC3H18	124245	broad.mit.edu	37	16	88658599	88658600	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88658599_88658600insT	uc002fky.2	+						ZC3H18_uc010voy.1_Intron|ZC3H18_uc010voz.1_Intron	NM_144604	NP_653205			zinc finger CCCH-type containing 18							nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)														---	---	---	---
CYBA	1535	broad.mit.edu	37	16	88712706	88712712	+	Intron	DEL	GCAGACT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88712706_88712712delGCAGACT	uc002flb.2	-						CYBA_uc002flc.1_5'Flank|CYBA_uc002fld.1_Intron|CYBA_uc010chx.1_3'UTR	NM_000101	NP_000092			cytochrome b, alpha polypeptide						cytochrome complex assembly|electron transport chain|hydrogen peroxide biosynthetic process|inflammatory response|innate immune response|respiratory burst|smooth muscle hypertrophy|superoxide anion generation|transport	NADPH oxidase complex|stored secretory granule	electron carrier activity|heme binding|protein heterodimerization activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0478)														---	---	---	---
MVD	4597	broad.mit.edu	37	16	88729539	88729539	+	5'Flank	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88729539delC	uc002flg.1	-						MGC23284_uc010chy.2_5'Flank|MGC23284_uc002flh.2_5'Flank|MGC23284_uc002fli.3_5'Flank	NM_002461	NP_002452			diphosphomevalonate decarboxylase						cholesterol biosynthetic process|positive regulation of cell proliferation	cytosol	ATP binding|diphosphomevalonate decarboxylase activity|Hsp70 protein binding|kinase activity|protein homodimerization activity				0				BRCA - Breast invasive adenocarcinoma(80;0.0478)														---	---	---	---
FAM38A	9780	broad.mit.edu	37	16	88849253	88849256	+	Intron	DEL	GCAG	-	-	rs66950913		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88849253_88849256delGCAG	uc010vpb.1	-							NM_001142864	NP_001136336			family with sequence similarity 38, member A							endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|integral to membrane|plasma membrane	ion channel activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	88936506	88936506	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88936506delT								PABPN1L (3492 upstream) : CBFA2T3 (4761 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	89104803	89104804	+	IGR	INS	-	TG	TG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89104803_89104804insTG								CBFA2T3 (61402 upstream) : ACSF3 (55450 downstream)																																			---	---	---	---
ANKRD11	29123	broad.mit.edu	37	16	89341474	89341474	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89341474delC	uc002fmx.1	-						ANKRD11_uc002fmy.1_Intron	NM_013275	NP_037407			ankyrin repeat domain 11							nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)														---	---	---	---
Unknown	0	broad.mit.edu	37	16	89564866	89564866	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89564866delT								ANKRD11 (7897 upstream) : SPG7 (9939 downstream)																																			---	---	---	---
C16orf55	124045	broad.mit.edu	37	16	89731718	89731718	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89731718delT	uc002fnw.1	+						C16orf55_uc010vpk.1_Intron|C16orf55_uc002fny.1_Intron	NM_153025	NP_694570			hypothetical protein LOC124045												0		all_lung(18;0.000665)|all_hematologic(23;0.0355)		BRCA - Breast invasive adenocarcinoma(80;0.0274)														---	---	---	---
SPATA2L	124044	broad.mit.edu	37	16	89765200	89765200	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89765200delT	uc002foj.2	-						SPATA2L_uc002fok.2_Intron	NM_152339	NP_689552			spermatogenesis associated 2-like												0		Lung NSC(15;0.00043)|all_lung(18;0.000665)|all_hematologic(23;0.0355)		BRCA - Breast invasive adenocarcinoma(80;0.0272)														---	---	---	---
DOC2B	8447	broad.mit.edu	37	17	33319	33319	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:33319delA	uc010vpx.1	-							NM_003585	NP_003576			double C2-like domains, beta						calcium ion-dependent exocytosis of neurotransmitter|positive regulation of calcium ion-dependent exocytosis|positive regulation of insulin secretion|positive regulation of vesicle fusion|protein localization	plasma membrane|synaptic vesicle	calcium-dependent phospholipid binding|transporter activity				0																		---	---	---	---
RPH3AL	9501	broad.mit.edu	37	17	159304	159308	+	Intron	DEL	GCCCT	-	-	rs71947005		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:159304_159308delGCCCT	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)														---	---	---	---
VPS53	55275	broad.mit.edu	37	17	527002	527002	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:527002delA	uc002frn.2	-						VPS53_uc002frk.2_Intron|VPS53_uc010cjo.1_Intron|VPS53_uc002frl.2_Intron|VPS53_uc002frm.2_Intron|VPS53_uc002fro.2_Intron|VPS53_uc010cjp.1_Intron	NM_018289	NP_060759			vacuolar protein sorting 53 isoform 2						protein transport	endosome membrane|Golgi apparatus					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0265)														---	---	---	---
GLOD4	51031	broad.mit.edu	37	17	677359	677359	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:677359delA	uc002frv.2	-						GLOD4_uc002frt.2_Intron|GLOD4_uc002fru.2_Intron|GLOD4_uc010vqc.1_Intron	NM_016080	NP_057164			glyoxalase domain containing 4							mitochondrion					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.022)														---	---	---	---
GLOD4	51031	broad.mit.edu	37	17	678501	678501	+	Intron	DEL	A	-	-	rs67574860		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:678501delA	uc002frv.2	-						GLOD4_uc002frt.2_Intron|GLOD4_uc002fru.2_Intron|GLOD4_uc010vqc.1_Intron	NM_016080	NP_057164			glyoxalase domain containing 4							mitochondrion					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.022)														---	---	---	---
GLOD4	51031	broad.mit.edu	37	17	678933	678933	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:678933delA	uc002frv.2	-						GLOD4_uc002frt.2_Intron|GLOD4_uc002fru.2_Intron|GLOD4_uc010vqc.1_Intron	NM_016080	NP_057164			glyoxalase domain containing 4							mitochondrion					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.022)														---	---	---	---
ABR	29	broad.mit.edu	37	17	1044972	1044973	+	Intron	DEL	TT	-	-	rs67320842		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1044972_1044973delTT	uc002fsd.2	-						ABR_uc002fse.2_Intron	NM_021962	NP_068781			active breakpoint cluster region-related						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)														---	---	---	---
ABR	29	broad.mit.edu	37	17	1083797	1083797	+	5'Flank	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1083797delG	uc002fsd.2	-						ABR_uc002fse.2_Intron	NM_021962	NP_068781			active breakpoint cluster region-related						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	17	1232141	1232141	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1232141delC								TUSC5 (27860 upstream) : YWHAE (15695 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	1535709	1535710	+	IGR	INS	-	AC	AC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1535709_1535710insAC								SLC43A2 (3579 upstream) : SCARF1 (1442 downstream)																																			---	---	---	---
SMYD4	114826	broad.mit.edu	37	17	1699740	1699740	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1699740delT	uc002ftm.3	-						SMYD4_uc002ftn.1_Intron	NM_052928	NP_443160			SET and MYND domain containing 4								zinc ion binding			skin(3)|kidney(2)	5																		---	---	---	---
RPA1	6117	broad.mit.edu	37	17	1790854	1790856	+	Intron	DEL	AAA	-	-	rs9897729		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1790854_1790856delAAA	uc002fto.2	+							NM_002945	NP_002936			replication protein A1						cell cycle checkpoint|DNA recombinase assembly|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA damage removal|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	actin cytoskeleton|cytoplasm|DNA replication factor A complex|PML body	metal ion binding|protein binding|single-stranded DNA binding				0													NER					---	---	---	---
SMG6	23293	broad.mit.edu	37	17	2020136	2020136	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2020136delA	uc002fub.1	-						SMG6_uc010vqv.1_Intron	NM_017575	NP_060045			Smg-6 homolog, nonsense mediated mRNA decay						mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4																		---	---	---	---
SMG6	23293	broad.mit.edu	37	17	2059943	2059943	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2059943delT	uc002fub.1	-						SMG6_uc010vqv.1_Intron	NM_017575	NP_060045			Smg-6 homolog, nonsense mediated mRNA decay						mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4																		---	---	---	---
PAFAH1B1	5048	broad.mit.edu	37	17	2508012	2508012	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2508012delG	uc002fuw.3	+						PAFAH1B1_uc010ckb.1_Intron	NM_000430	NP_000421			platelet-activating factor acetylhydrolase,						acrosome assembly|actin cytoskeleton organization|adult locomotory behavior|brain morphogenesis|corpus callosum morphogenesis|establishment of mitotic spindle orientation|G2/M transition of mitotic cell cycle|hippocampus development|layer formation in cerebral cortex|learning or memory|lipid catabolic process|microtubule organizing center organization|mitotic prometaphase|neuroblast proliferation|neuromuscular process controlling balance|neuron migration|platelet activating factor metabolic process|regulation of Rho GTPase activity|retrograde axon cargo transport|synaptic transmission|vesicle transport along microtubule	astral microtubule|cell cortex|centrosome|cytosol|kinetochore|motile primary cilium|nuclear membrane|perinuclear region of cytoplasm	dynactin binding|heparin binding|microtubule binding|phospholipase binding|phosphoprotein binding|protein homodimerization activity			skin(1)	1																		---	---	---	---
PAFAH1B1	5048	broad.mit.edu	37	17	2568632	2568632	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2568632delT	uc002fuw.3	+						PAFAH1B1_uc010ckb.1_Intron	NM_000430	NP_000421			platelet-activating factor acetylhydrolase,						acrosome assembly|actin cytoskeleton organization|adult locomotory behavior|brain morphogenesis|corpus callosum morphogenesis|establishment of mitotic spindle orientation|G2/M transition of mitotic cell cycle|hippocampus development|layer formation in cerebral cortex|learning or memory|lipid catabolic process|microtubule organizing center organization|mitotic prometaphase|neuroblast proliferation|neuromuscular process controlling balance|neuron migration|platelet activating factor metabolic process|regulation of Rho GTPase activity|retrograde axon cargo transport|synaptic transmission|vesicle transport along microtubule	astral microtubule|cell cortex|centrosome|cytosol|kinetochore|motile primary cilium|nuclear membrane|perinuclear region of cytoplasm	dynactin binding|heparin binding|microtubule binding|phospholipase binding|phosphoprotein binding|protein homodimerization activity			skin(1)	1																		---	---	---	---
PAFAH1B1	5048	broad.mit.edu	37	17	2570628	2570628	+	Intron	DEL	A	-	-	rs76296857		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2570628delA	uc002fuw.3	+						PAFAH1B1_uc010ckb.1_Intron|PAFAH1B1_uc010vqz.1_5'Flank	NM_000430	NP_000421			platelet-activating factor acetylhydrolase,						acrosome assembly|actin cytoskeleton organization|adult locomotory behavior|brain morphogenesis|corpus callosum morphogenesis|establishment of mitotic spindle orientation|G2/M transition of mitotic cell cycle|hippocampus development|layer formation in cerebral cortex|learning or memory|lipid catabolic process|microtubule organizing center organization|mitotic prometaphase|neuroblast proliferation|neuromuscular process controlling balance|neuron migration|platelet activating factor metabolic process|regulation of Rho GTPase activity|retrograde axon cargo transport|synaptic transmission|vesicle transport along microtubule	astral microtubule|cell cortex|centrosome|cytosol|kinetochore|motile primary cilium|nuclear membrane|perinuclear region of cytoplasm	dynactin binding|heparin binding|microtubule binding|phospholipase binding|phosphoprotein binding|protein homodimerization activity			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	2649279	2649279	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2649279delT								KIAA0664 (34352 upstream) : MIR1253 (2093 downstream)																																			---	---	---	---
RAP1GAP2	23108	broad.mit.edu	37	17	2714876	2714876	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2714876delT	uc010ckd.2	+						RAP1GAP2_uc010cke.2_Intron	NM_015085	NP_055900			RAP1 GTPase activating protein 2 isoform 1						regulation of small GTPase mediated signal transduction	centrosome|cytosol|perinuclear region of cytoplasm	GTPase activator activity			ovary(1)	1																		---	---	---	---
RAP1GAP2	23108	broad.mit.edu	37	17	2772865	2772866	+	Intron	DEL	GG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2772865_2772866delGG	uc010ckd.2	+						RAP1GAP2_uc010cke.2_Intron	NM_015085	NP_055900			RAP1 GTPase activating protein 2 isoform 1						regulation of small GTPase mediated signal transduction	centrosome|cytosol|perinuclear region of cytoplasm	GTPase activator activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	3198954	3198954	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3198954delA								OR3A1 (3078 upstream) : OR3A4 (14585 downstream)																																			---	---	---	---
ZZEF1	23140	broad.mit.edu	37	17	3914839	3914839	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3914839delT	uc002fxe.2	-						ZZEF1_uc002fxg.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																		---	---	---	---
ZZEF1	23140	broad.mit.edu	37	17	3999601	3999601	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3999601delA	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	4278573	4278573	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4278573delT								UBE2G1 (8604 upstream) : SPNS3 (58646 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	4303696	4303697	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4303696_4303697insT								UBE2G1 (33727 upstream) : SPNS3 (33522 downstream)																																			---	---	---	---
SPNS3	201305	broad.mit.edu	37	17	4375162	4375163	+	Intron	INS	-	T	T	rs145794500	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4375162_4375163insT	uc002fxt.2	+						SPNS3_uc002fxu.2_Intron|SPNS3_uc002fxv.2_Intron	NM_182538	NP_872344			spinster homolog 3						lipid transport|transmembrane transport	integral to membrane				large_intestine(1)	1																		---	---	---	---
MYBBP1A	10514	broad.mit.edu	37	17	4460071	4460077	+	5'Flank	DEL	AGGAGGT	-	-	rs56157674		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4460071_4460077delAGGAGGT	uc002fyb.3	-						MYBBP1A_uc002fxz.3_5'Flank	NM_014520	NP_055335			MYB binding protein 1a isoform 2						nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	4706046	4706046	+	IGR	DEL	A	-	-	rs71367856		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4706046delA								PSMB6 (4258 upstream) : PLD2 (4375 downstream)																																			---	---	---	---
SPAG7	9552	broad.mit.edu	37	17	4868813	4868813	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4868813delT	uc002gae.2	-						SPAG7_uc002gad.2_Intron|SPAG7_uc002gaf.2_Intron	NM_004890	NP_004881			sperm associated antigen 7							nucleus	nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
RABEP1	9135	broad.mit.edu	37	17	5211975	5211975	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5211975delT	uc002gbm.3	+						RABEP1_uc010clc.1_Intron|RABEP1_uc010cld.1_Intron|RABEP1_uc010vsw.1_Intron|RABEP1_uc002gbl.3_Intron|RABEP1_uc002gbj.2_Intron|RABEP1_uc002gbk.2_Intron	NM_004703	NP_004694			rabaptin, RAB GTPase binding effector protein 1						apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2																		---	---	---	---
RPAIN	84268	broad.mit.edu	37	17	5327475	5327475	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5327475delT	uc002gbq.2	+						RPAIN_uc010vsz.1_Intron|RPAIN_uc002gbp.1_Intron|RPAIN_uc010vta.1_Intron|RPAIN_uc010vtb.1_Intron|RPAIN_uc002gbs.2_Intron|RPAIN_uc002gbt.2_Intron|RPAIN_uc002gbu.2_Intron|RPAIN_uc002gbv.2_Intron|RPAIN_uc002gbr.2_Intron|RPAIN_uc002gbw.2_Intron	NM_001033002	NP_001028174			RPA interacting protein isoform b						DNA recombination|DNA repair|DNA-dependent DNA replication|protein import into nucleus|response to UV	cytoplasm|cytoplasm|nucleolus|PML body|PML body	metal ion binding|protein complex binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	5623109	5623109	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5623109delA								NLRP1 (135277 upstream) : WSCD1 (349328 downstream)																																			---	---	---	---
WSCD1	23302	broad.mit.edu	37	17	6024091	6024091	+	3'UTR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6024091delG	uc010cli.2	+	9					WSCD1_uc002gcn.2_3'UTR|WSCD1_uc002gco.2_3'UTR|WSCD1_uc010clj.2_3'UTR	NM_015253	NP_056068			WSC domain containing 1							integral to membrane	sulfotransferase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	6071541	6071542	+	IGR	DEL	AA	-	-	rs113440759		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6071541_6071542delAA								WSCD1 (43796 upstream) : AIPL1 (255518 downstream)																																			---	---	---	---
KIAA0753	9851	broad.mit.edu	37	17	6522552	6522552	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6522552delA	uc002gde.3	-						KIAA0753_uc010vtd.1_Intron|KIAA0753_uc010clo.2_Intron|KIAA0753_uc010vte.1_Intron	NM_014804	NP_055619			hypothetical protein LOC9851							centrosome					0				COAD - Colon adenocarcinoma(228;0.157)														---	---	---	---
TXNDC17	84817	broad.mit.edu	37	17	6545853	6545853	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6545853delA	uc002gdf.3	+						KIAA0753_uc002gde.3_5'Flank|KIAA0753_uc010vte.1_5'Flank	NM_032731	NP_116120			thioredoxin-like 5						tumor necrosis factor-mediated signaling pathway	cytosol	electron carrier activity|peroxidase activity|protein binding|protein-disulfide reductase activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	6648740	6648740	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6648740delA								SLC13A5 (32000 upstream) : XAF1 (10054 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	6971469	6971469	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6971469delT								SLC16A11 (24227 upstream) : CLEC10A (6388 downstream)																																			---	---	---	---
C17orf81	23587	broad.mit.edu	37	17	7158238	7158238	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7158238delT	uc002gfg.1	+						DULLARD_uc002gfe.2_5'Flank|DULLARD_uc002gff.2_5'Flank|C17orf81_uc002gfj.2_Intron|C17orf81_uc010cmb.2_Intron|C17orf81_uc002gfh.1_Intron|C17orf81_uc002gfi.1_Intron|C17orf81_uc002gfl.1_Intron	NM_203415	NP_981960			S-phase 2 protein isoform 4						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding				0																		---	---	---	---
NLGN2	57555	broad.mit.edu	37	17	7316219	7316220	+	Intron	INS	-	CTTA	CTTA	rs148953924	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7316219_7316220insCTTA	uc002ggt.1	+							NM_020795	NP_065846			neuroligin 2 precursor						cell-cell junction maintenance|neuron cell-cell adhesion|positive regulation of synaptogenesis|regulation of inhibitory postsynaptic membrane potential|synapse assembly	cell surface|integral to plasma membrane|postsynaptic membrane	neurexin binding|receptor activity			central_nervous_system(1)	1		Prostate(122;0.157)																---	---	---	---
Unknown	0	broad.mit.edu	37	17	7448259	7448259	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7448259delA								POLR2A (30330 upstream) : TNFSF12 (4116 downstream)																																			---	---	---	---
TP53	7157	broad.mit.edu	37	17	7573783	7573783	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7573783delA	uc002gim.2	-						TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_Intron|TP53_uc010cng.1_Intron|TP53_uc002gii.1_Intron|TP53_uc010cnh.1_Intron|TP53_uc010cni.1_Intron|TP53_uc002gij.2_Intron	NM_001126112	NP_001119584			tumor protein p53 isoform a						activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.?(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)			111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			---	---	---	---
EFNB3	1949	broad.mit.edu	37	17	7612856	7612856	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7612856delC	uc002gis.2	+	5	1382	c.985delC	c.(985-987)CCCfs	p.P329fs		NM_001406	NP_001397	Q15768	EFNB3_HUMAN	ephrin-B3 precursor	329	Cytoplasmic (Potential).				cell-cell signaling|interspecies interaction between organisms	integral to plasma membrane	ephrin receptor binding|transmembrane-ephrin receptor activity			ovary(1)	1		all_cancers(10;1.14e-06)|Prostate(122;0.081)																---	---	---	---
DNAH2	146754	broad.mit.edu	37	17	7643385	7643385	+	Intron	DEL	G	-	-	rs68069001		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7643385delG	uc002giu.1	+						DNAH2_uc002git.2_Intron|DNAH2_uc010vuk.1_Intron	NM_020877	NP_065928			dynein heavy chain domain 3						ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)																---	---	---	---
DNAH2	146754	broad.mit.edu	37	17	7694190	7694192	+	Intron	DEL	TTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7694190_7694192delTTG	uc002giu.1	+							NM_020877	NP_065928			dynein heavy chain domain 3						ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)																---	---	---	---
CYB5D1	124637	broad.mit.edu	37	17	7762221	7762221	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7762221delT	uc002gjb.3	+						LSMD1_uc002giz.2_5'Flank|LSMD1_uc002gja.2_5'Flank|CYB5D1_uc010cnn.1_Intron	NM_144607	NP_653208			cytochrome b5 domain containing 1								heme binding			skin(1)	1		all_cancers(10;0.11)|Prostate(122;0.219)														OREG0024147	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
GUCY2D	3000	broad.mit.edu	37	17	7915148	7915148	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7915148delA	uc002gjt.2	+							NM_000180	NP_000171			guanylate cyclase 2D, membrane (retina-specific)						intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)																---	---	---	---
Unknown	0	broad.mit.edu	37	17	7961513	7961513	+	3'UTR	DEL	A	-	-	rs79844470		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7961513delA	uc002gjx.1	+	1										Homo sapiens cDNA FLJ35294 fis, clone PROST2008724.																														---	---	---	---
C17orf44	284029	broad.mit.edu	37	17	8124119	8124120	+	RNA	DEL	TT	-	-	rs34019859		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8124119_8124120delTT	uc002gkp.3	-	3		c.1922_1923delAA				NR_026951				Homo sapiens cDNA FLJ34790 fis, clone NT2NE2005323.												0																		---	---	---	---
NDEL1	81565	broad.mit.edu	37	17	8361489	8361490	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8361489_8361490delTT	uc002glj.2	+						NDEL1_uc002gli.2_Intron	NM_030808	NP_110435			nudE nuclear distribution gene E homolog (A.						chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|microtubule|spindle					0																		---	---	---	---
MYH10	4628	broad.mit.edu	37	17	8387385	8387385	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8387385delT	uc002gll.2	-						MYH10_uc002glm.2_Intron|MYH10_uc010cnx.2_Intron	NM_005964	NP_005955			myosin, heavy polypeptide 10, non-muscle						actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2																		---	---	---	---
NTN1	9423	broad.mit.edu	37	17	8967339	8967339	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8967339delT	uc002glw.3	+							NM_004822	NP_004813			netrin 1 precursor						apoptosis|axon guidance		protein binding				0																		---	---	---	---
NTN1	9423	broad.mit.edu	37	17	9022990	9022991	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9022990_9022991insT	uc002glw.3	+							NM_004822	NP_004813			netrin 1 precursor						apoptosis|axon guidance		protein binding				0																		---	---	---	---
STX8	9482	broad.mit.edu	37	17	9207664	9207664	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9207664delA	uc002glx.2	-							NM_004853	NP_004844			syntaxin 8						transport	endoplasmic reticulum|integral to plasma membrane				central_nervous_system(1)	1																		---	---	---	---
STX8	9482	broad.mit.edu	37	17	9230475	9230477	+	Intron	DEL	AAA	-	-	rs79310940		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9230475_9230477delAAA	uc002glx.2	-							NM_004853	NP_004844			syntaxin 8						transport	endoplasmic reticulum|integral to plasma membrane				central_nervous_system(1)	1																		---	---	---	---
STX8	9482	broad.mit.edu	37	17	9282137	9282137	+	Intron	DEL	A	-	-	rs139246965	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9282137delA	uc002glx.2	-							NM_004853	NP_004844			syntaxin 8						transport	endoplasmic reticulum|integral to plasma membrane				central_nervous_system(1)	1																		---	---	---	---
STX8	9482	broad.mit.edu	37	17	9428669	9428670	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9428669_9428670delTT	uc002glx.2	-							NM_004853	NP_004844			syntaxin 8						transport	endoplasmic reticulum|integral to plasma membrane				central_nervous_system(1)	1																		---	---	---	---
STX8	9482	broad.mit.edu	37	17	9473523	9473523	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9473523delT	uc002glx.2	-							NM_004853	NP_004844			syntaxin 8						transport	endoplasmic reticulum|integral to plasma membrane				central_nervous_system(1)	1																		---	---	---	---
USP43	124739	broad.mit.edu	37	17	9591675	9591675	+	Intron	DEL	T	-	-	rs113713720		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9591675delT	uc010cod.2	+						USP43_uc002gma.3_Intron|USP43_uc010vva.1_Intron|USP43_uc010coe.2_Intron	NM_153210	NP_694942			ubiquitin specific protease 43						ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5																		---	---	---	---
USP43	124739	broad.mit.edu	37	17	9630290	9630290	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9630290delT	uc010cod.2	+						USP43_uc002gma.3_Intron|USP43_uc010vva.1_Intron|USP43_uc010coe.2_Intron|USP43_uc002gmc.3_Intron	NM_153210	NP_694942			ubiquitin specific protease 43						ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	9644418	9644418	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9644418delA								USP43 (11417 upstream) : DHRS7C (30338 downstream)																																			---	---	---	---
GAS7	8522	broad.mit.edu	37	17	9852000	9852001	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9852000_9852001delAA	uc002gmg.1	-						GAS7_uc010vvc.1_Intron|GAS7_uc002gmh.1_Intron|GAS7_uc010vvd.1_Intron|GAS7_uc002gmi.2_Intron|GAS7_uc002gmj.1_Intron|GAS7_uc010coh.1_Intron	NM_201433	NP_958839			growth arrest-specific 7 isoform c						cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2								T	MLL	AML*								---	---	---	---
GAS7	8522	broad.mit.edu	37	17	9978125	9978125	+	Intron	DEL	T	-	-	rs79511454		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9978125delT	uc002gmg.1	-						GAS7_uc010coh.1_Intron	NM_201433	NP_958839			growth arrest-specific 7 isoform c						cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2								T	MLL	AML*								---	---	---	---
GAS7	8522	broad.mit.edu	37	17	10037519	10037519	+	Intron	DEL	C	-	-	rs8081234	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10037519delC	uc002gmg.1	-							NM_201433	NP_958839			growth arrest-specific 7 isoform c						cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2								T	MLL	AML*								---	---	---	---
Unknown	0	broad.mit.edu	37	17	10150475	10150475	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10150475delT								GAS7 (48607 upstream) : MYH13 (53708 downstream)																																			---	---	---	---
MYH8	4626	broad.mit.edu	37	17	10302310	10302315	+	Intron	DEL	TGTATA	-	-	rs147034479	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10302310_10302315delTGTATA	uc002gmm.2	-						uc002gml.1_Intron	NM_002472	NP_002463			myosin, heavy chain 8, skeletal muscle,						muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11														Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				---	---	---	---
MYH8	4626	broad.mit.edu	37	17	10303528	10303528	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10303528delA	uc002gmm.2	-						uc002gml.1_Intron	NM_002472	NP_002463			myosin, heavy chain 8, skeletal muscle,						muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11														Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				---	---	---	---
MYH1	4619	broad.mit.edu	37	17	10417016	10417016	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10417016delA	uc002gmo.2	-						uc002gml.1_Intron	NM_005963	NP_005954			myosin, heavy chain 1, skeletal muscle, adult							muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	10639155	10639155	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10639155delA								TMEM220 (5509 upstream) : PIRT (86638 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	10906295	10906295	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10906295delG								PIRT (164877 upstream) : SHISA6 (238445 downstream)																																			---	---	---	---
SHISA6	388336	broad.mit.edu	37	17	11194953	11194955	+	Intron	DEL	AAC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11194953_11194955delAAC	uc002gna.3	+						SHISA6_uc002gnb.3_Intron|SHISA6_uc010com.2_Intron	NM_207386	NP_997269			shisa homolog 6							integral to membrane				breast(1)	1																		---	---	---	---
DNAH9	1770	broad.mit.edu	37	17	11554811	11554811	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11554811delT	uc002gne.2	+						DNAH9_uc010coo.2_Intron	NM_001372	NP_001363			dynein, axonemal, heavy chain 9 isoform 2						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	11685149	11685151	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11685149_11685151delAAA	uc002gne.2	+						DNAH9_uc010coo.2_Intron	NM_001372	NP_001363			dynein, axonemal, heavy chain 9 isoform 2						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	11703681	11703682	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11703681_11703682delCT	uc002gne.2	+						DNAH9_uc010coo.2_Intron	NM_001372	NP_001363			dynein, axonemal, heavy chain 9 isoform 2						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	17	12184141	12184141	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:12184141delT								MAP2K4 (137091 upstream) : MYOCD (385066 downstream)																																			---	---	---	---
RICH2	9912	broad.mit.edu	37	17	12757634	12757634	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:12757634delT	uc002gnr.3	+						RICH2_uc010vvk.1_Intron|RICH2_uc010vvl.1_Intron|RICH2_uc002gns.3_Intron|RICH2_uc010vvm.1_Intron|RICH2_uc010vvn.1_Intron	NM_014859	NP_055674			Rho GTPase-activating protein RICH2						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0																		---	---	---	---
RICH2	9912	broad.mit.edu	37	17	12888251	12888251	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:12888251delT	uc002gnr.3	+						RICH2_uc010vvk.1_Intron|RICH2_uc010vvl.1_Intron|RICH2_uc002gns.3_Intron|RICH2_uc010vvm.1_Intron|RICH2_uc010vvn.1_Intron	NM_014859	NP_055674			Rho GTPase-activating protein RICH2						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	12975029	12975029	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:12975029delT								ELAC2 (53670 upstream) : HS3ST3A1 (423977 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	13045696	13045696	+	IGR	DEL	C	-	-	rs35126837		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:13045696delC								ELAC2 (124337 upstream) : HS3ST3A1 (353310 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	13122663	13122664	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:13122663_13122664delTT								ELAC2 (201304 upstream) : HS3ST3A1 (276342 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	13123411	13123412	+	IGR	INS	-	TT	TT	rs142826985	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:13123411_13123412insTT								ELAC2 (202052 upstream) : HS3ST3A1 (275594 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	13265007	13265013	+	IGR	DEL	AAAAAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:13265007_13265013delAAAAAAA								ELAC2 (343648 upstream) : HS3ST3A1 (133993 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	13810254	13810255	+	IGR	INS	-	CAA	CAA	rs142331672	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:13810254_13810255insCAA								HS3ST3A1 (305010 upstream) : CDRT15P (117560 downstream)																																			---	---	---	---
COX10	1352	broad.mit.edu	37	17	13998320	13998320	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:13998320delA	uc002gof.3	+						COX10_uc010vvs.1_Intron|COX10_uc010vvt.1_Intron	NM_001303	NP_001294			heme A:farnesyltransferase precursor						heme a biosynthetic process|heme O biosynthetic process|respiratory chain complex IV assembly	integral to membrane|mitochondrial membrane	protoheme IX farnesyltransferase activity				0		all_lung(20;0.06)|Lung SC(565;0.168)		UCEC - Uterine corpus endometrioid carcinoma (92;0.106)														---	---	---	---
COX10	1352	broad.mit.edu	37	17	14109086	14109086	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:14109086delT	uc002gof.3	+						COX10_uc010vvs.1_Intron|COX10_uc010vvt.1_Intron	NM_001303	NP_001294			heme A:farnesyltransferase precursor						heme a biosynthetic process|heme O biosynthetic process|respiratory chain complex IV assembly	integral to membrane|mitochondrial membrane	protoheme IX farnesyltransferase activity				0		all_lung(20;0.06)|Lung SC(565;0.168)		UCEC - Uterine corpus endometrioid carcinoma (92;0.106)														---	---	---	---
Unknown	0	broad.mit.edu	37	17	14498703	14498703	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:14498703delA								HS3ST3B1 (249211 upstream) : PMP22 (634394 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	14591940	14591940	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:14591940delT								HS3ST3B1 (342448 upstream) : PMP22 (541157 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	14851004	14851004	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:14851004delT								HS3ST3B1 (601512 upstream) : PMP22 (282093 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	14900884	14900884	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:14900884delT								HS3ST3B1 (651392 upstream) : PMP22 (232213 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	15250318	15250319	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15250318_15250319delTG								TEKT3 (5360 upstream) : CDRT4 (89019 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	15257406	15257406	+	IGR	DEL	A	-	-	rs67487669		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15257406delA								TEKT3 (12448 upstream) : CDRT4 (81932 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	15319947	15319949	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15319947_15319949delTTT								TEKT3 (74989 upstream) : CDRT4 (19389 downstream)																																			---	---	---	---
NCOR1	9611	broad.mit.edu	37	17	15943111	15943111	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15943111delT	uc002gpo.2	-						NCOR1_uc002gpn.2_Intron|NCOR1_uc002gpl.2_Intron|NCOR1_uc002gpm.2_Intron|NCOR1_uc010vwb.1_Intron|NCOR1_uc010coy.2_Intron	NM_006311	NP_006302			nuclear receptor co-repressor 1						cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)														---	---	---	---
NCOR1	9611	broad.mit.edu	37	17	16011664	16011664	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:16011664delT	uc002gpo.2	-						NCOR1_uc002gpn.2_Intron|NCOR1_uc002gpp.1_Intron|NCOR1_uc002gpr.2_Intron	NM_006311	NP_006302			nuclear receptor co-repressor 1						cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)														---	---	---	---
NCOR1	9611	broad.mit.edu	37	17	16067806	16067807	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:16067806_16067807delAG	uc002gpo.2	-						NCOR1_uc002gpn.2_Intron|NCOR1_uc002gpp.1_Intron|NCOR1_uc002gpr.2_Intron|NCOR1_uc002gps.1_Intron|NCOR1_uc010coz.1_Intron|NCOR1_uc010cpb.1_Intron|NCOR1_uc010cpa.1_Intron	NM_006311	NP_006302			nuclear receptor co-repressor 1						cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)														---	---	---	---
NCOR1	9611	broad.mit.edu	37	17	16068784	16068787	+	Intron	DEL	AAAG	-	-	rs113666369		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:16068784_16068787delAAAG	uc002gpo.2	-						NCOR1_uc002gpn.2_Intron|NCOR1_uc002gpp.1_Intron|NCOR1_uc002gpr.2_Intron|NCOR1_uc002gps.1_Intron|NCOR1_uc010coz.1_Intron|NCOR1_uc010cpb.1_Intron|NCOR1_uc010cpa.1_Intron|NCOR1_uc002gpu.2_Intron	NM_006311	NP_006302			nuclear receptor co-repressor 1						cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)														---	---	---	---
ZNF287	57336	broad.mit.edu	37	17	16459480	16459481	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:16459480_16459481delAC	uc002gqi.2	-							NM_020653	NP_065704			zinc finger protein 287						viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.083)														---	---	---	---
Unknown	0	broad.mit.edu	37	17	16573606	16573607	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:16573606_16573607delTT								ZNF624 (16448 upstream) : CCDC144A (20032 downstream)																																			---	---	---	---
CCDC144A	9720	broad.mit.edu	37	17	16623498	16623498	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:16623498delT	uc002gqk.1	+						CCDC144A_uc002gql.1_Intron|LOC162632_uc010cpj.1_Intron	NM_014695	NP_055510			coiled-coil domain containing 144A												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	16828666	16828666	+	RNA	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:16828666delT	uc002gqr.1	-	13		c.3349delA								Homo sapiens mRNA for FLJ00050 protein, partial cds.																														---	---	---	---
COPS3	8533	broad.mit.edu	37	17	17178409	17178409	+	Intron	DEL	T	-	-	rs111485519		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17178409delT	uc002grd.2	-						COPS3_uc010vwv.1_Intron|COPS3_uc010vww.1_Intron	NM_003653	NP_003644			COP9 constitutive photomorphogenic homolog						cullin deneddylation|response to light stimulus|signal transduction	cytoplasm|signalosome	protein binding			skin(1)	1																		---	---	---	---
COPS3	8533	broad.mit.edu	37	17	17181470	17181470	+	Intron	DEL	A	-	-	rs112358023		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17181470delA	uc002grd.2	-						COPS3_uc010vwv.1_Intron|COPS3_uc010vww.1_Intron	NM_003653	NP_003644			COP9 constitutive photomorphogenic homolog						cullin deneddylation|response to light stimulus|signal transduction	cytoplasm|signalosome	protein binding			skin(1)	1																		---	---	---	---
NT5M	56953	broad.mit.edu	37	17	17216594	17216594	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17216594delA	uc002grf.2	+						NT5M_uc002gre.2_Intron|NT5M_uc002grg.2_Intron	NM_020201	NP_064586			5',3'-nucleotidase, mitochondrial precursor						DNA replication|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	5'-nucleotidase activity|metal ion binding|nucleotide binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	17344921	17344928	+	IGR	DEL	TTTTTTTT	-	-	rs35899903	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17344921_17344928delTTTTTTTT								NT5M (93946 upstream) : MED9 (35372 downstream)																																			---	---	---	---
TOM1L2	146691	broad.mit.edu	37	17	17818810	17818810	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17818810delT	uc002grz.3	-						TOM1L2_uc002gry.3_Intron|TOM1L2_uc010vwy.1_Intron|TOM1L2_uc010cpr.2_Intron|TOM1L2_uc010vwz.1_Intron|TOM1L2_uc010vxa.1_Intron|TOM1L2_uc010vxb.1_Intron	NM_001082968	NP_001076437			target of myb1-like 2 isoform 3						intracellular protein transport	intracellular					0	all_neural(463;0.228)																	---	---	---	---
LRRC48	83450	broad.mit.edu	37	17	17903229	17903230	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17903229_17903230delTG	uc010vxd.1	+						LRRC48_uc002gsa.2_Intron|LRRC48_uc010vxc.1_Intron|LRRC48_uc002gsb.2_Intron|LRRC48_uc010vxe.1_Intron	NM_001130090	NP_001123562			leucine rich repeat containing 48 isoform a							cytoplasm				pancreas(1)	1	all_neural(463;0.228)																	---	---	---	---
Unknown	0	broad.mit.edu	37	17	18172633	18172636	+	IGR	DEL	TTTT	-	-	rs71752599		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18172633_18172636delTTTT								SMCR7 (3540 upstream) : TOP3A (4599 downstream)																																			---	---	---	---
SHMT1	6470	broad.mit.edu	37	17	18247826	18247827	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18247826_18247827delAA	uc002gta.2	-						SHMT1_uc002gsz.2_5'Flank|SHMT1_uc002gtb.2_Intron|SHMT1_uc010cqb.2_Intron|SHMT1_uc010vxt.1_Intron|SHMT1_uc002gtd.1_Intron|SHMT1_uc010vxu.1_Intron	NM_004169	NP_004160			serine hydroxymethyltransferase 1 (soluble)						carnitine biosynthetic process|folic acid metabolic process|L-serine catabolic process|one-carbon metabolic process|purine base biosynthetic process	cytosol|nucleus	glycine hydroxymethyltransferase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)	1					Glycine(DB00145)|Mimosine(DB01055)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)													---	---	---	---
PRPSAP2	5636	broad.mit.edu	37	17	18795553	18795553	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18795553delT	uc002gup.1	+						PRPSAP2_uc002guo.1_Intron|PRPSAP2_uc010vyi.1_Intron|PRPSAP2_uc010vyj.1_Intron|PRPSAP2_uc010vyk.1_Intron	NM_002767	NP_002758			phosphoribosyl pyrophosphate						nucleotide biosynthetic process		enzyme inhibitor activity|magnesium ion binding|ribose phosphate diphosphokinase activity			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	19393900	19393900	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:19393900delT								RNF112 (73313 upstream) : SLC47A1 (43267 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	20457690	20457691	+	5'Flank	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:20457690_20457691insT	uc002gyc.2	+											DQ584223																														---	---	---	---
Unknown	0	broad.mit.edu	37	17	20488023	20488025	+	IGR	DEL	CTC	-	-	rs76850913		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:20488023_20488025delCTC								LGALS9B (117175 upstream) : CCDC144NL (278685 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	20634737	20634737	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:20634737delT								LGALS9B (263889 upstream) : CCDC144NL (131973 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	20683749	20683749	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:20683749delA								LGALS9B (312901 upstream) : CCDC144NL (82961 downstream)																																			---	---	---	---
CCDC144NL	339184	broad.mit.edu	37	17	20772524	20772526	+	Intron	DEL	GAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:20772524_20772526delGAG	uc002gyf.2	-						uc002gyg.1_Intron|uc002gyh.1_Intron	NM_001004306	NP_001004306			coiled-coil domain containing 144 family,												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	20950564	20950564	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:20950564delA								USP22 (3491 upstream) : DHRS7B (79694 downstream)																																			---	---	---	---
DHRS7B	25979	broad.mit.edu	37	17	21037339	21037340	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21037339_21037340delAA	uc002gyo.2	+							NM_015510	NP_056325			dehydrogenase/reductase (SDR family) member 7B							integral to membrane|peroxisomal membrane	binding|oxidoreductase activity			pancreas(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	21236092	21236093	+	IGR	INS	-	GGTTACTA	GGTTACTA	rs77031677		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21236092_21236093insGGTTACTA								MAP2K3 (17543 upstream) : KCNJ12 (43606 downstream)																																			---	---	---	---
C17orf51	339263	broad.mit.edu	37	17	21440089	21440089	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21440089delA	uc002gyw.3	-						C17orf51_uc002gyx.1_Intron	NM_001113434	NP_001106905			hypothetical protein LOC339263												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	21510885	21510886	+	IGR	INS	-	AT	AT	rs150158293	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21510885_21510886insAT								C17orf51 (33154 upstream) : FAM27L (314484 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	21524699	21524699	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21524699delT								C17orf51 (46968 upstream) : FAM27L (300671 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	21525678	21525679	+	IGR	INS	-	TGT	TGT	rs141624412		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21525678_21525679insTGT								C17orf51 (47947 upstream) : FAM27L (299691 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	25279711	25279712	+	IGR	INS	-	AAGAAAG	AAGAAAG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25279711_25279712insAAGAAAG								None (None upstream) : WSB1 (341394 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	25293064	25293065	+	IGR	INS	-	ATGAA	ATGAA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25293064_25293065insATGAA								None (None upstream) : WSB1 (328041 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	25320683	25320683	+	IGR	DEL	A	-	-	rs76594489		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25320683delA								None (None upstream) : WSB1 (300423 downstream)																																			---	---	---	---
WSB1	26118	broad.mit.edu	37	17	25637746	25637746	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25637746delT	uc002gzd.1	+						WSB1_uc002gze.1_Intron|WSB1_uc002gzf.1_Intron	NM_015626	NP_056441			WD repeat and SOCS box-containing 1 isoform 1						intracellular signal transduction	intracellular	protein binding				0	all_cancers(1;2e-13)|all_epithelial(1;4.8e-15)|Lung NSC(42;0.00152)		BRCA - Breast invasive adenocarcinoma(3;0.0152)	UCEC - Uterine corpus endometrioid carcinoma (53;0.154)														---	---	---	---
Unknown	0	broad.mit.edu	37	17	25753329	25753329	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25753329delC	uc002gzg.2	+						uc002gzi.1_5'Flank					Homo sapiens similar to ubiquitin specific protease 6, mRNA (cDNA clone IMAGE:5168266), with apparent retained intron.																														---	---	---	---
Unknown	0	broad.mit.edu	37	17	25991720	25991720	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25991720delA								LGALS9 (15135 upstream) : NOS2 (92073 downstream)																																			---	---	---	---
NOS2	4843	broad.mit.edu	37	17	26105231	26105231	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:26105231delT	uc002gzu.2	-						NOS2_uc010crh.1_Intron|NOS2_uc010wab.1_Intron	NM_000625	NP_000616			nitric oxide synthase 2A						arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)													---	---	---	---
NLK	51701	broad.mit.edu	37	17	26459626	26459626	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:26459626delT	uc010crj.2	+						NLK_uc010cri.1_Intron	NM_016231	NP_057315			nemo like kinase						intracellular protein kinase cascade|negative regulation of Wnt receptor signaling pathway|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|serine phosphorylation of STAT3 protein|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|MAP kinase activity|SH2 domain binding|transcription factor binding|ubiquitin protein ligase binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_lung(13;0.000343)|Lung NSC(42;0.00184)			UCEC - Uterine corpus endometrioid carcinoma (53;0.168)														---	---	---	---
NLK	51701	broad.mit.edu	37	17	26512302	26512302	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:26512302delT	uc010crj.2	+						NLK_uc010cri.1_Intron	NM_016231	NP_057315			nemo like kinase						intracellular protein kinase cascade|negative regulation of Wnt receptor signaling pathway|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|serine phosphorylation of STAT3 protein|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|MAP kinase activity|SH2 domain binding|transcription factor binding|ubiquitin protein ligase binding			ovary(1)|lung(1)|central_nervous_system(1)	3	all_lung(13;0.000343)|Lung NSC(42;0.00184)			UCEC - Uterine corpus endometrioid carcinoma (53;0.168)														---	---	---	---
Unknown	0	broad.mit.edu	37	17	26582711	26582711	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:26582711delT								PPY2 (7397 upstream) : FLJ40504 (20897 downstream)																																			---	---	---	---
C17orf63	55731	broad.mit.edu	37	17	27157326	27157326	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27157326delC	uc010wax.1	-						C17orf63_uc010way.1_Intron|C17orf63_uc002hcw.2_Intron	NM_018182	NP_060652			hypothetical protein LOC55731											ovary(1)	1	all_epithelial(6;5.06e-20)|Lung NSC(42;0.01)		Epithelial(11;3.38e-06)|all cancers(11;2.46e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.104)															---	---	---	---
MYO18A	399687	broad.mit.edu	37	17	27416513	27416513	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27416513delA	uc002hdt.1	-						MYO18A_uc010wbc.1_Intron|MYO18A_uc002hds.2_Intron|MYO18A_uc010csa.1_Intron|MYO18A_uc002hdu.1_Intron	NM_078471	NP_510880			myosin 18A isoform a						anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)															---	---	---	---
NUFIP2	57532	broad.mit.edu	37	17	27607850	27607850	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27607850delA	uc002hdy.3	-						NUFIP2_uc002hdx.3_Intron	NM_020772	NP_065823			nuclear fragile X mental retardation protein							nucleus|polysomal ribosome	protein binding|RNA binding			skin(2)|ovary(1)|breast(1)	4			BRCA - Breast invasive adenocarcinoma(11;0.000457)|Colorectal(6;0.0178)|COAD - Colon adenocarcinoma(6;0.0551)															---	---	---	---
Unknown	0	broad.mit.edu	37	17	27710561	27710563	+	IGR	DEL	AAA	-	-	rs78590471		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27710561_27710563delAAA								NUFIP2 (89395 upstream) : TAOK1 (7380 downstream)																																			---	---	---	---
TAOK1	57551	broad.mit.edu	37	17	27834291	27834291	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27834291delT	uc002hdz.1	+						TAOK1_uc010wbe.1_Intron|TAOK1_uc010wbf.1_Intron|TAOK1_uc002heb.1_Intron	NM_020791	NP_065842			TAO kinase 1						mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)															---	---	---	---
TAOK1	57551	broad.mit.edu	37	17	27854147	27854147	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27854147delA	uc002hdz.1	+						TAOK1_uc010wbe.1_Intron|TAOK1_uc010wbf.1_Intron	NM_020791	NP_065842			TAO kinase 1						mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)															---	---	---	---
TAOK1	57551	broad.mit.edu	37	17	27861027	27861027	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27861027delA	uc002hdz.1	+						TAOK1_uc010wbe.1_Intron|TAOK1_uc010wbf.1_Intron	NM_020791	NP_065842			TAO kinase 1						mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)															---	---	---	---
TAOK1	57551	broad.mit.edu	37	17	27861947	27861948	+	Intron	DEL	GT	-	-	rs111755942		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27861947_27861948delGT	uc002hdz.1	+						TAOK1_uc010wbe.1_Intron|TAOK1_uc010wbf.1_Intron	NM_020791	NP_065842			TAO kinase 1						mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)															---	---	---	---
SSH2	85464	broad.mit.edu	37	17	28032565	28032565	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:28032565delA	uc002heo.1	-						SSH2_uc010wbh.1_Intron|SSH2_uc002hep.1_Intron|SSH2_uc002heq.2_Intron|SSH2_uc002her.2_Intron|SSH2_uc010csc.1_Intron	NM_033389	NP_203747			slingshot 2						actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2																		---	---	---	---
SSH2	85464	broad.mit.edu	37	17	28179573	28179574	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:28179573_28179574delTT	uc002heo.1	-						SSH2_uc010wbh.1_Intron|SSH2_uc002hep.1_Intron|SSH2_uc002her.2_Intron|SSH2_uc010csc.1_Intron	NM_033389	NP_203747			slingshot 2						actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2																		---	---	---	---
SSH2	85464	broad.mit.edu	37	17	28198202	28198203	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:28198202_28198203delTT	uc002heo.1	-						SSH2_uc010wbh.1_Intron|SSH2_uc002hep.1_Intron|SSH2_uc002her.2_Intron|SSH2_uc010csc.1_Intron	NM_033389	NP_203747			slingshot 2						actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2																		---	---	---	---
EFCAB5	374786	broad.mit.edu	37	17	28296061	28296061	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:28296061delA	uc002het.2	+	4	635	c.443delA	c.(442-444)GAAfs	p.E148fs	EFCAB5_uc010wbi.1_Intron|EFCAB5_uc010wbj.1_Frame_Shift_Del_p.E92fs|EFCAB5_uc010wbk.1_Intron|EFCAB5_uc010csd.2_RNA|EFCAB5_uc010cse.2_Frame_Shift_Del_p.E27fs|EFCAB5_uc010csf.2_Frame_Shift_Del_p.E27fs	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	148							calcium ion binding			ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	28518093	28518094	+	IGR	DEL	TA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:28518093_28518094delTA								CCDC55 (4608 upstream) : SLC6A4 (5286 downstream)																																			---	---	---	---
SUZ12P	440423	broad.mit.edu	37	17	29086616	29086616	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:29086616delA	uc002hfn.1	+						SUZ12P_uc002hfo.2_Intron|SUZ12P_uc002hfq.2_Intron					Homo sapiens cDNA clone IMAGE:5299523, containing frame-shift errors.												0																		---	---	---	---
CRLF3	51379	broad.mit.edu	37	17	29136678	29136678	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:29136678delT	uc002hfr.3	-						CRLF3_uc010wbr.1_Intron	NM_015986	NP_057070			cytokine receptor-like factor 3						negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|positive regulation of cell cycle arrest|positive regulation of JAK-STAT cascade|positive regulation of transcription from RNA polymerase II promoter	cytoplasm					0		all_hematologic(16;0.014)|Acute lymphoblastic leukemia(14;0.0236)|Myeloproliferative disorder(56;0.0255)																---	---	---	---
ATAD5	79915	broad.mit.edu	37	17	29157882	29157882	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:29157882delA	uc002hfs.1	+							NM_024857	NP_079133			ATPase family, AAA domain containing 5						response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)																---	---	---	---
ADAP2	55803	broad.mit.edu	37	17	29275238	29275238	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:29275238delT	uc002hfx.2	+						ADAP2_uc010csk.2_Intron|ADAP2_uc002hfy.2_Intron|ADAP2_uc010csl.2_Intron	NM_018404	NP_060874			centaurin-alpha 2 protein						heart development|regulation of ARF GTPase activity	mitochondrial envelope|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding, bridging|zinc ion binding	p.?(1)		ovary(1)	1																		---	---	---	---
NF1	4763	broad.mit.edu	37	17	29432539	29432539	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:29432539delT	uc002hgg.2	+						NF1_uc002hge.1_Intron|NF1_uc002hgf.1_Intron|NF1_uc002hgh.2_Intron	NM_001042492	NP_001035957			neurofibromin isoform 1						actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.0?(5)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)				D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			---	---	---	---
NF1	4763	broad.mit.edu	37	17	29462933	29462933	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:29462933delT	uc002hgg.2	+						NF1_uc002hge.1_Intron|NF1_uc002hgf.1_Intron|NF1_uc002hgh.2_Intron	NM_001042492	NP_001035957			neurofibromin isoform 1						actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.0?(5)|p.?(3)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)				D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			---	---	---	---
Unknown	0	broad.mit.edu	37	17	29714953	29714954	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:29714953_29714954insA								NF1 (6048 upstream) : RAB11FIP4 (3688 downstream)																																			---	---	---	---
LRRC37B	114659	broad.mit.edu	37	17	30375152	30375152	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:30375152delA	uc002hgu.2	+						LRRC37B_uc010wbx.1_Intron|LRRC37B_uc010csu.2_Intron	NM_052888	NP_443120			leucine rich repeat containing 37B precursor							integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.111)|Ovarian(249;0.182)|Breast(31;0.244)																---	---	---	---
Unknown	0	broad.mit.edu	37	17	30585289	30585289	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:30585289delA								RHOT1 (32544 upstream) : RHBDL3 (7906 downstream)																																			---	---	---	---
MYO1D	4642	broad.mit.edu	37	17	30835301	30835302	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:30835301_30835302delTT	uc002hho.1	-							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)															---	---	---	---
MYO1D	4642	broad.mit.edu	37	17	31196958	31196959	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:31196958_31196959insA	uc002hho.1	-						MYO1D_uc002hhp.1_Intron|MYO1D_uc010wcb.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)															---	---	---	---
ACCN1	40	broad.mit.edu	37	17	31843366	31843367	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:31843366_31843367delTG	uc002hhu.2	-							NM_001094	NP_001085			amiloride-sensitive cation channel 1, neuronal						central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)													---	---	---	---
ACCN1	40	broad.mit.edu	37	17	31920383	31920383	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:31920383delA	uc002hhu.2	-							NM_001094	NP_001085			amiloride-sensitive cation channel 1, neuronal						central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)													---	---	---	---
ACCN1	40	broad.mit.edu	37	17	32154718	32154718	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:32154718delT	uc002hhu.2	-							NM_001094	NP_001085			amiloride-sensitive cation channel 1, neuronal						central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)													---	---	---	---
ACCN1	40	broad.mit.edu	37	17	32435101	32435101	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:32435101delT	uc002hhu.2	-							NM_001094	NP_001085			amiloride-sensitive cation channel 1, neuronal						central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)													---	---	---	---
Unknown	0	broad.mit.edu	37	17	32669420	32669420	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:32669420delA								CCL8 (21001 upstream) : CCL13 (14051 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	32716940	32716940	+	IGR	DEL	T	-	-	rs68144407		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:32716940delT								CCL1 (26688 upstream) : C17orf102 (184202 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	32756849	32756849	+	IGR	DEL	A	-	-	rs75550327		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:32756849delA								CCL1 (66597 upstream) : C17orf102 (144293 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	32893592	32893594	+	IGR	DEL	TGG	-	-	rs71929437		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:32893592_32893594delTGG								CCL1 (203340 upstream) : C17orf102 (7548 downstream)																																			---	---	---	---
TMEM132E	124842	broad.mit.edu	37	17	32942686	32942686	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:32942686delA	uc002hif.2	+							NM_207313	NP_997196			transmembrane protein 132E precursor							integral to membrane				central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(366;0.231)														---	---	---	---
LIG3	3980	broad.mit.edu	37	17	33320776	33320776	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:33320776delG	uc002hik.1	+						LIG3_uc002hij.2_Intron|LIG3_uc010cth.1_Intron	NM_013975	NP_039269			ligase III, DNA, ATP-dependent isoform alpha						base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)								Other_BER_factors					---	---	---	---
RFFL	117584	broad.mit.edu	37	17	33379517	33379517	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:33379517delA	uc002hin.1	-						RFFL_uc002hiq.2_Intron|RFFL_uc010cti.1_Intron|RFFL_uc002hip.1_Intron|RFFL_uc002hio.1_Intron	NM_001017368	NP_001017368			rififylin						apoptosis	membrane	ligase activity|zinc ion binding				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)														---	---	---	---
SLFN12	55106	broad.mit.edu	37	17	33761338	33761338	+	5'Flank	DEL	A	-	-	rs77628742	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:33761338delA	uc002hji.3	-						SLFN12_uc002hjj.3_5'Flank|SLFN12_uc010cts.2_5'Flank	NM_018042	NP_060512			schlafen family member 12								ATP binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)														---	---	---	---
SLFN12L	342615	broad.mit.edu	37	17	33849138	33849139	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:33849138_33849139insA	uc002hjn.2	-							NM_001145027	NP_001138499			schlafen family member 12-like											ovary(1)	1																		---	---	---	---
C17orf50	146853	broad.mit.edu	37	17	34090288	34090288	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34090288delA	uc002hjx.2	+						MMP28_uc002hjw.1_Intron	NM_145272	NP_660315			hypothetical protein LOC146853												0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)														---	---	---	---
Unknown	0	broad.mit.edu	37	17	34447055	34447055	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34447055delT								CCL4 (14041 upstream) : TBC1D3B (46006 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	34471403	34471404	+	IGR	DEL	AT	-	-	rs4795112	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34471403_34471404delAT								CCL4 (38389 upstream) : TBC1D3B (21657 downstream)																																			---	---	---	---
MYO19	80179	broad.mit.edu	37	17	34855111	34855112	+	Intron	DEL	TT	-	-	rs111268012		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34855111_34855112delTT	uc010wcy.1	-						MYO19_uc002hmw.2_Intron|MYO19_uc010cuu.2_Intron|ZNHIT3_uc010cut.1_RNA	NM_001163735	NP_001157207			myosin XIX isoform 2							mitochondrial outer membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)	1		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)														---	---	---	---
GGNBP2	79893	broad.mit.edu	37	17	34942126	34942126	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34942126delA	uc002hnb.2	+						GGNBP2_uc002hna.2_3'UTR|GGNBP2_uc002hnc.1_Intron	NM_024835	NP_079111			zinc finger protein 403						cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)														---	---	---	---
Unknown	0	broad.mit.edu	37	17	35067534	35067534	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35067534delT								MRM1 (102128 upstream) : LHX1 (226965 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	35134266	35134266	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35134266delT								MRM1 (168860 upstream) : LHX1 (160233 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	35232728	35232730	+	IGR	DEL	AAC	-	-	rs74779320		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35232728_35232730delAAC								MRM1 (267322 upstream) : LHX1 (61769 downstream)																																			---	---	---	---
LHX1	3975	broad.mit.edu	37	17	35300395	35300395	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35300395delC	uc002hnh.1	+	5	2184	c.1188delC	c.(1186-1188)CACfs	p.H396fs		NM_005568	NP_005559	P48742	LHX1_HUMAN	LIM homeobox protein 1	396					cerebellar Purkinje cell differentiation|cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation|cervix development|comma-shaped body morphogenesis|dorsal/ventral pattern formation|ectoderm formation|embryonic pattern specification|embryonic retina morphogenesis in camera-type eye|embryonic viscerocranium morphogenesis|endoderm formation|forebrain regionalization|head development|motor axon guidance|negative regulation of transcription, DNA-dependent|nephric duct morphogenesis|nephron tubule epithelial cell differentiation|neuron migration|oviduct epithelium development|paramesonephric duct development|positive regulation of anterior head development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of embryonic development|positive regulation of gastrulation|positive regulation of transcription, DNA-dependent|post-embryonic development|primitive streak formation|renal vesicle morphogenesis|retina layer formation|S-shaped body morphogenesis|spinal cord association neuron differentiation|transcription from RNA polymerase II promoter|ureteric bud development|uterine epithelium development|vagina development	nucleus|protein complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(25;0.00607)																---	---	---	---
ACACA	31	broad.mit.edu	37	17	35467011	35467011	+	Intron	DEL	A	-	-	rs3841372		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35467011delA	uc002hnm.2	-						ACACA_uc002hnk.2_Intron|ACACA_uc002hnl.2_Intron|ACACA_uc002hnn.2_Intron|ACACA_uc002hno.2_Intron|ACACA_uc010cuy.2_Intron|ACACA_uc010wdb.1_Intron|ACACA_uc010wdc.1_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)													---	---	---	---
ACACA	31	broad.mit.edu	37	17	35633807	35633807	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35633807delA	uc002hnm.2	-						ACACA_uc002hnk.2_Intron|ACACA_uc002hnl.2_Intron|ACACA_uc002hnn.2_Intron|ACACA_uc002hno.2_Intron|ACACA_uc010cuz.2_Intron|ACACA_uc002hnq.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)													---	---	---	---
Unknown	0	broad.mit.edu	37	17	36197746	36197748	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36197746_36197748delAAA								HNF1B (92650 upstream) : LOC284100 (4825 downstream)																																			---	---	---	---
PSMB3	5691	broad.mit.edu	37	17	36909737	36909737	+	Intron	DEL	T	-	-	rs35484180		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36909737delT	uc002hqr.2	+							NM_002795	NP_002786			proteasome beta 3 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|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	protein binding|threonine-type endopeptidase activity				0																		---	---	---	---
CWC25	54883	broad.mit.edu	37	17	36975627	36975628	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36975627_36975628delTT	uc002hqu.2	-						CWC25_uc010wdv.1_Intron|CWC25_uc010wdx.1_Intron	NM_017748	NP_060218			coiled-coil domain containing 49												0																		---	---	---	---
C17orf98	388381	broad.mit.edu	37	17	36996064	36996064	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36996064delA	uc002hqv.2	-							NM_001080465	NP_001073934			hypothetical protein LOC388381												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	37153979	37153979	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:37153979delT								FBXO47 (30324 upstream) : PLXDC1 (65577 downstream)																																			---	---	---	---
MED24	9862	broad.mit.edu	37	17	38189883	38189883	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38189883delG	uc002htt.2	-						MED24_uc010wes.1_Intron|MED24_uc010wet.1_Intron|MED24_uc002hts.2_Intron|MED24_uc002htu.2_Intron|MED24_uc010cwn.2_Intron|MED24_uc010weu.1_Intron|MED24_uc010wev.1_Intron|MED24_uc010wew.1_Intron|MED24_uc010wex.1_Intron|MED24_uc010wez.1_Intron|MED24_uc010wfa.1_Intron|MED24_uc010wfb.1_Intron|MED24_uc010wfc.1_Intron	NM_014815	NP_055630			mediator complex subunit 24 isoform 1						androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1	Colorectal(19;0.000442)																	---	---	---	---
TOP2A	7153	broad.mit.edu	37	17	38546381	38546381	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38546381delT	uc002huq.2	-	34	4429	c.4303delA	c.(4303-4305)AGGfs	p.R1435fs		NM_001067	NP_001058	P11388	TOP2A_HUMAN	DNA topoisomerase II, alpha isozyme	1435					apoptotic chromosome condensation|DNA ligation|DNA repair|DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|phosphatidylinositol-mediated signaling|positive regulation of apoptosis|positive regulation of retroviral genome replication|resolution of meiotic recombination intermediates|sister chromatid segregation	cytoplasm|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|drug binding|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity|ubiquitin binding			ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00183)		Amsacrine(DB00276)|Ciprofloxacin(DB00537)|Dexrazoxane(DB00380)|Doxorubicin(DB00997)|Enoxacin(DB00467)|Epirubicin(DB00445)|Etoposide(DB00773)|Fleroxacin(DB04576)|Gatifloxacin(DB01044)|Idarubicin(DB01177)|Levofloxacin(DB01137)|Lomefloxacin(DB00978)|Lucanthone(DB04967)|Mitoxantrone(DB01204)|Moxifloxacin(DB00218)|Norfloxacin(DB01059)|Ofloxacin(DB01165)|Pefloxacin(DB00487)|Podofilox(DB01179)|Sparfloxacin(DB01208)|Teniposide(DB00444)|Trovafloxacin(DB00685)|Valrubicin(DB00385)													---	---	---	---
TNS4	84951	broad.mit.edu	37	17	38656067	38656067	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38656067delT	uc010cxb.2	-							NM_032865	NP_116254			tensin 4 precursor						apoptosis|protein localization	cytoplasm|cytoskeleton|focal adhesion	actin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(5;5.91e-05)															---	---	---	---
Unknown	0	broad.mit.edu	37	17	39064779	39064779	+	IGR	DEL	T	-	-	rs34598339		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39064779delT								KRT20 (23300 upstream) : KRT23 (14173 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	39494167	39494167	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39494167delT								KRTAP17-1 (22220 upstream) : KRT33A (8204 downstream)																																			---	---	---	---
JUP	3728	broad.mit.edu	37	17	39757253	39757254	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39757253_39757254delAC	uc010wfs.1	-							NM_021991	NP_068831			junction plakoglobin						adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)														---	---	---	---
JUP	3728	broad.mit.edu	37	17	39945673	39945680	+	5'Flank	DEL	GTGTGTGT	-	-	rs112498033		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39945673_39945680delGTGTGTGT	uc002hxr.2	-						JUP_uc002hxs.2_5'Flank	NM_021991	NP_068831			junction plakoglobin						adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)														---	---	---	---
KLHL11	55175	broad.mit.edu	37	17	40019444	40019449	+	Intron	DEL	TTTTTT	-	-	rs72312238		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40019444_40019449delTTTTTT	uc002hyf.1	-							NM_018143	NP_060613			kelch-like 11 precursor							extracellular region					0		Breast(137;0.00156)																---	---	---	---
DNAJC7	7266	broad.mit.edu	37	17	40134398	40134398	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40134398delT	uc002hyo.2	-	11	1343	c.1106delA	c.(1105-1107)AATfs	p.N369fs	DNAJC7_uc010cxu.2_Frame_Shift_Del_p.N313fs|DNAJC7_uc010cxv.2_Intron|DNAJC7_uc010wgb.1_Frame_Shift_Del_p.N313fs|DNAJC7_uc010wgc.1_Frame_Shift_Del_p.N227fs|DNAJC7_uc002hyp.2_Frame_Shift_Del_p.N313fs	NM_003315	NP_003306	Q99615	DNJC7_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 7	369					chaperone cofactor-dependent protein refolding	cytoplasm|cytoskeleton|nucleus	heat shock protein binding|unfolded protein binding			ovary(1)	1		all_cancers(22;0.00273)|Breast(137;0.00104)|all_epithelial(22;0.0305)																---	---	---	---
Unknown	0	broad.mit.edu	37	17	40223215	40223216	+	IGR	INS	-	G	G	rs149717943	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40223215_40223216insG								NKIRAS2 (45561 upstream) : DHX58 (30206 downstream)																																			---	---	---	---
MLX	6945	broad.mit.edu	37	17	40722680	40722680	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40722680delT	uc002iag.2	+						MLX_uc002iaf.2_Intron|MLX_uc002iah.2_Intron	NM_170607	NP_733752			transcription factor-like protein 4 isoform						energy reserve metabolic process|negative regulation of transcription, DNA-dependent|positive regulation of cellular metabolic process	cytoplasm|nucleus	DNA binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding				0		all_cancers(22;4.26e-05)|Breast(137;0.000153)|all_epithelial(22;0.00148)		BRCA - Breast invasive adenocarcinoma(366;0.129)														---	---	---	---
Unknown	0	broad.mit.edu	37	17	40788883	40788884	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40788883_40788884delAA								TUBG1 (21629 upstream) : TUBG2 (22382 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	40917134	40917134	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40917134delA								RAMP2 (2077 upstream) : VPS25 (8320 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	41190140	41190141	+	IGR	INS	-	AC	AC	rs34738736		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:41190140_41190141insAC								RND2 (6083 upstream) : BRCA1 (6172 downstream)																																			---	---	---	---
BRCA1	672	broad.mit.edu	37	17	41240386	41240387	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:41240386_41240387delTT	uc002icq.2	-						BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Intron|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Intron|BRCA1_uc002ict.2_Intron|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron	NM_007294	NP_009225			breast cancer 1, early onset isoform 1						androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)				D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			---	---	---	---
Unknown	0	broad.mit.edu	37	17	41541967	41541967	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:41541967delA								MIR2117 (19714 upstream) : DHX8 (19367 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	41990483	41990484	+	IGR	INS	-	AC	AC	rs145970496	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:41990483_41990484insAC								MPP2 (3415 upstream) : C17orf88 (4092 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	42025879	42025879	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42025879delC								PPY (6046 upstream) : PYY (4230 downstream)																																			---	---	---	---
G6PC3	92579	broad.mit.edu	37	17	42151308	42151308	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42151308delA	uc002iex.2	+						G6PC3_uc002iey.2_Intron|G6PC3_uc010czo.2_Intron|G6PC3_uc002iez.2_Intron|G6PC3_uc002ifb.2_5'Flank|G6PC3_uc002ifc.2_5'Flank	NM_138387	NP_612396			glucose-6-phosphatase catalytic subunit 3						gluconeogenesis|transmembrane transport	endoplasmic reticulum membrane|integral to membrane	glucose-6-phosphatase activity			skin(1)	1		Breast(137;0.00637)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.113)														---	---	---	---
UBTF	7343	broad.mit.edu	37	17	42299009	42299009	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42299009delT	uc010czs.2	-						UBTF_uc002igc.2_5'Flank|UBTF_uc002igd.2_5'Flank|UBTF_uc010czt.2_5'Flank	NM_014233	NP_055048			upstream binding transcription factor, RNA						positive regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm	DNA binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)														---	---	---	---
ITGA2B	3674	broad.mit.edu	37	17	42459669	42459670	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42459669_42459670delTT	uc002igt.1	-						ITGA2B_uc002igu.1_5'Flank	NM_000419	NP_000410			integrin alpha 2b preproprotein						axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)													---	---	---	---
GPATCH8	23131	broad.mit.edu	37	17	42499102	42499102	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42499102delT	uc002igw.1	-						GPATCH8_uc002igv.1_Intron|GPATCH8_uc010wiz.1_Intron	NM_001002909	NP_001002909			G patch domain containing 8							intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)														---	---	---	---
GPATCH8	23131	broad.mit.edu	37	17	42569781	42569782	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42569781_42569782insA	uc002igw.1	-						GPATCH8_uc010wiz.1_Intron	NM_001002909	NP_001002909			G patch domain containing 8							intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)														---	---	---	---
Unknown	0	broad.mit.edu	37	17	42597410	42597411	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42597410_42597411delAA								GPATCH8 (16608 upstream) : FZD2 (37514 downstream)																																			---	---	---	---
DBF4B	80174	broad.mit.edu	37	17	42802047	42802047	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42802047delA	uc002ihf.2	+						DBF4B_uc002ihd.1_Intron|DBF4B_uc010wjb.1_Intron|DBF4B_uc002ihe.2_Intron|DBF4B_uc010wjc.1_Intron|DBF4B_uc002ihg.2_Intron	NM_145663	NP_663696			DBF4 homolog B isoform 1						cell cycle	nucleus	nucleic acid binding|zinc ion binding				0		Prostate(33;0.0322)																---	---	---	---
DCAKD	79877	broad.mit.edu	37	17	43125604	43125605	+	Intron	DEL	AA	-	-	rs112754962		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43125604_43125605delAA	uc010daa.1	-						DCAKD_uc010dab.1_Intron|DCAKD_uc002ihy.2_Intron	NM_001128631	NP_001122103			dephospho-CoA kinase domain containing						coenzyme A biosynthetic process		ATP binding|dephospho-CoA kinase activity				0		Prostate(33;0.155)																---	---	---	---
PLCD3	113026	broad.mit.edu	37	17	43195797	43195797	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43195797delC	uc002iib.2	-	6	1090	c.976delG	c.(976-978)GCTfs	p.A326fs		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	326					intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)													---	---	---	---
Unknown	0	broad.mit.edu	37	17	43282420	43282420	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43282420delT								HEXIM2 (35014 upstream) : FMNL1 (16872 downstream)																																			---	---	---	---
PLEKHM1	9842	broad.mit.edu	37	17	43525166	43525167	+	Intron	INS	-	T	T	rs67636342		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43525166_43525167insT	uc002ija.2	-						PLEKHM1_uc010wjm.1_Intron|PLEKHM1_uc002ijb.2_Intron|PLEKHM1_uc010wjn.1_Intron	NM_014798	NP_055613			pleckstrin homology domain containing, family M						intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)																	---	---	---	---
CRHR1	1394	broad.mit.edu	37	17	43900216	43900216	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43900216delA	uc010dap.2	+						CRHR1_uc010wjx.1_Intron|CRHR1_uc002ijp.2_Intron|CRHR1_uc002ijm.2_Intron|CRHR1_uc002ijn.2_Intron|CRHR1_uc010dar.2_Intron|CRHR1_uc010dao.2_Intron|CRHR1_uc010daq.2_Intron|CRHR1_uc010das.1_Intron|CRHR1_uc002ijo.1_Intron	NM_001145146	NP_001138618			corticotropin releasing hormone receptor 1						female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)														---	---	---	---
KIAA1267	284058	broad.mit.edu	37	17	44238802	44238802	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:44238802delA	uc002ikb.2	-						KIAA1267_uc002ikc.2_Intron|KIAA1267_uc002ikd.2_Intron|KIAA1267_uc010dav.2_Intron	NM_015443	NP_056258			hypothetical protein LOC284058							MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)																---	---	---	---
WNT3	7473	broad.mit.edu	37	17	44877887	44877888	+	Intron	INS	-	A	A	rs148409954	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:44877887_44877888insA	uc002ikv.2	-							NM_030753	NP_110380			wingless-type MMTV integration site family,						canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)															---	---	---	---
CDC27	996	broad.mit.edu	37	17	45198679	45198679	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45198679delA	uc002ild.3	-						CDC27_uc002ile.3_Intron|CDC27_uc002ilf.3_Intron|CDC27_uc010wkp.1_Intron	NM_001256	NP_001247			cell division cycle protein 27 isoform 2						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	protein phosphatase binding			lung(2)|breast(2)|ovary(1)	5																		---	---	---	---
C17orf57	124989	broad.mit.edu	37	17	45419565	45419565	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45419565delA	uc002iln.2	+						ITGB3_uc010wkr.1_Intron|C17orf57_uc002ilm.2_Intron|C17orf57_uc002ill.1_Intron|C17orf57_uc010daz.1_Intron	NM_152347	NP_689560			hypothetical protein LOC124989								calcium ion binding			breast(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
NPEPPS	9520	broad.mit.edu	37	17	45634879	45634880	+	Intron	DEL	AA	-	-	rs67031430		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45634879_45634880delAA	uc002ilr.3	+						NPEPPS_uc010wkt.1_Intron|NPEPPS_uc010wku.1_Intron|NPEPPS_uc010dba.1_Intron	NM_006310	NP_006301			aminopeptidase puromycin sensitive						proteolysis	cytosol|nucleus	aminopeptidase activity|metallopeptidase activity|protein binding|zinc ion binding				0																		---	---	---	---
NPEPPS	9520	broad.mit.edu	37	17	45691166	45691166	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45691166delA	uc002ilr.3	+						NPEPPS_uc010wkt.1_Intron|NPEPPS_uc010wku.1_Intron|NPEPPS_uc010wkv.1_Intron|NPEPPS_uc002ils.1_Intron	NM_006310	NP_006301			aminopeptidase puromycin sensitive						proteolysis	cytosol|nucleus	aminopeptidase activity|metallopeptidase activity|protein binding|zinc ion binding				0																		---	---	---	---
COPZ2	51226	broad.mit.edu	37	17	46107343	46107345	+	Intron	DEL	AAT	-	-	rs75107947		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46107343_46107345delAAT	uc002imy.2	-							NM_016429	NP_057513			coatomer protein complex, subunit zeta 2						intracellular protein transport|vesicle-mediated transport	cis-Golgi network|COPI vesicle coat					0																		---	---	---	---
NFE2L1	4779	broad.mit.edu	37	17	46128077	46128077	+	5'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46128077delA	uc002imz.3	+	2					NFE2L1_uc002ina.3_5'UTR|NFE2L1_uc002inb.3_5'UTR|NFE2L1_uc002inc.1_5'UTR	NM_003204	NP_003195			nuclear factor erythroid 2-like 1						anatomical structure morphogenesis|heme biosynthetic process|inflammatory response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			skin(1)	1																		---	---	---	---
SKAP1	8631	broad.mit.edu	37	17	46223464	46223465	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46223464_46223465delAA	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																		---	---	---	---
SKAP1	8631	broad.mit.edu	37	17	46223997	46223997	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46223997delT	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																		---	---	---	---
SKAP1	8631	broad.mit.edu	37	17	46504212	46504213	+	Intron	DEL	TT	-	-	rs5820701		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46504212_46504213delTT	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	46773672	46773672	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46773672delT								MIR196A1 (63751 upstream) : PRAC (25420 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	47173824	47173824	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47173824delA								IGF2BP1 (40319 upstream) : B4GALNT2 (35998 downstream)																																			---	---	---	---
B4GALNT2	124872	broad.mit.edu	37	17	47225663	47225663	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47225663delA	uc002ion.2	+						B4GALNT2_uc010wlt.1_Intron|B4GALNT2_uc010wlu.1_Intron	NM_153446	NP_703147			beta-1,4-N-acetyl-galactosaminyl transferase 2						lipid glycosylation|negative regulation of cell-cell adhesion|UDP-N-acetylgalactosamine metabolic process	integral to Golgi membrane	acetylgalactosaminyltransferase activity			large_intestine(1)|ovary(1)	2			all cancers(6;0.000316)															---	---	---	---
ABI3	51225	broad.mit.edu	37	17	47295005	47295005	+	Intron	DEL	C	-	-	rs113223751		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47295005delC	uc002iop.1	+						ABI3_uc002ioq.1_Intron	NM_016428	NP_057512			NESH protein isoform 1						cellular component movement|regulation of cell migration	cytoplasm|lamellipodium	protein binding				0			Epithelial(5;6.37e-06)|all cancers(6;6.36e-05)												HNSCC(55;0.14)			---	---	---	---
ZNF652	22834	broad.mit.edu	37	17	47405723	47405723	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47405723delT	uc002iov.3	-						ZNF652_uc002iow.2_Intron|ZNF652_uc002iou.3_Intron	NM_001145365	NP_001138837			zinc finger protein 652						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_cancers(4;6.81e-14)|Breast(4;4.97e-29)|all_epithelial(4;1.53e-17)		BRCA - Breast invasive adenocarcinoma(1;3.1e-14)|Epithelial(5;2.92e-06)|all cancers(6;3.15e-05)															---	---	---	---
SPOP	8405	broad.mit.edu	37	17	47703035	47703035	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47703035delA	uc010dbk.2	-						SPOP_uc002ipb.2_Intron|SPOP_uc002ipc.2_Intron|SPOP_uc002ipd.2_Intron|SPOP_uc002ipe.2_Intron|SPOP_uc002ipf.2_Intron|SPOP_uc002ipg.2_Intron|SPOP_uc010wlx.1_Intron	NM_003563	NP_003554			speckle-type POZ protein						mRNA processing	nucleus	protein binding			prostate(2)|ovary(2)|lung(2)	6															Prostate(2;0.17)			---	---	---	---
FAM117A	81558	broad.mit.edu	37	17	47798090	47798090	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47798090delT	uc002ipk.2	-						FAM117A_uc010wlz.1_Intron	NM_030802	NP_110429			family with sequence similarity 117, member A											ovary(1)	1																		---	---	---	---
FAM117A	81558	broad.mit.edu	37	17	47860770	47860770	+	Intron	DEL	T	-	-	rs113094953		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47860770delT	uc010wlz.1	-							NM_030802	NP_110429			family with sequence similarity 117, member A											ovary(1)	1																		---	---	---	---
MYST2	11143	broad.mit.edu	37	17	47904634	47904634	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47904634delT	uc002ipm.2	+						MYST2_uc010wma.1_Intron|MYST2_uc010wmb.1_Intron|MYST2_uc010wmc.1_Intron|MYST2_uc010wmd.1_Intron|MYST2_uc010wme.1_Intron|MYST2_uc010wmf.1_Intron|MYST2_uc010wmg.1_Intron	NM_007067	NP_008998			MYST histone acetyltransferase 2						DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	histone acetyltransferase activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3																		---	---	---	---
DLX4	1748	broad.mit.edu	37	17	48051949	48051950	+	3'UTR	DEL	TA	-	-	rs143029210		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48051949_48051950delTA	uc002ipv.2	+	3					DLX4_uc002ipw.2_3'UTR	NM_138281	NP_612138			distal-less homeobox 4 isoform a						multicellular organismal development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0																		---	---	---	---
XYLT2	64132	broad.mit.edu	37	17	48436774	48436774	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48436774delG	uc002iqo.2	+						XYLT2_uc010dbo.2_Intron	NM_022167	NP_071450			xylosyltransferase II						glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			pancreas(1)	1	Breast(11;7.18e-19)																	---	---	---	---
ACSF2	80221	broad.mit.edu	37	17	48517168	48517168	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48517168delA	uc002iqu.2	+						ACSF2_uc010wml.1_Intron|ACSF2_uc010wmm.1_Intron|ACSF2_uc010wmn.1_Intron|ACSF2_uc010wmo.1_Intron	NM_025149	NP_079425			acyl-CoA synthetase family member 2 precursor						fatty acid metabolic process	mitochondrion	ATP binding|ligase activity				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)															---	---	---	---
ABCC3	8714	broad.mit.edu	37	17	48722968	48722968	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48722968delT	uc002isl.2	+						ABCC3_uc002isk.3_Intron	NM_003786	NP_003777			ATP-binding cassette, sub-family C, member 3						bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)													---	---	---	---
ABCC3	8714	broad.mit.edu	37	17	48755715	48755715	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48755715delA	uc002isl.2	+						ABCC3_uc002isn.2_5'Flank	NM_003786	NP_003777			ATP-binding cassette, sub-family C, member 3						bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)													---	---	---	---
LUC7L3	51747	broad.mit.edu	37	17	48821044	48821044	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48821044delT	uc002isr.2	+						LUC7L3_uc002isp.1_Intron|LUC7L3_uc010wmw.1_Intron|LUC7L3_uc002isq.2_Intron|LUC7L3_uc002iss.2_Intron	NM_006107	NP_006098			LUC7-like 3						apoptosis|mRNA processing|response to stress|RNA splicing	focal adhesion|nuclear speck	DNA binding|mRNA binding|protein binding				0																		---	---	---	---
UTP18	51096	broad.mit.edu	37	17	49350960	49350960	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:49350960delT	uc002its.2	+							NM_016001	NP_057085			UTP18, small subunit processome component						rRNA processing	nucleolus					0			BRCA - Breast invasive adenocarcinoma(22;2.09e-07)															---	---	---	---
Unknown	0	broad.mit.edu	37	17	49628655	49628655	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:49628655delA								UTP18 (253365 upstream) : CA10 (79020 downstream)																																			---	---	---	---
CA10	56934	broad.mit.edu	37	17	50104107	50104107	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:50104107delG	uc002itw.3	-						CA10_uc002itv.3_Intron|CA10_uc002itx.3_Intron|CA10_uc002ity.3_Intron|CA10_uc002itz.2_Intron	NM_020178	NP_064563			carbonic anhydrase X						brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)															---	---	---	---
Unknown	0	broad.mit.edu	37	17	50324414	50324414	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:50324414delG								CA10 (87037 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	50331656	50331656	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:50331656delT								CA10 (94279 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	50846741	50846742	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:50846741_50846742delAA								CA10 (609364 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	50903135	50903135	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:50903135delT								CA10 (665758 upstream) : KIF2B (997104 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	51543355	51543356	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:51543355_51543356insA								None (None upstream) : KIF2B (356883 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	51564615	51564615	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:51564615delA								None (None upstream) : KIF2B (335624 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	51778531	51778531	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:51778531delT								None (None upstream) : KIF2B (121708 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	52019359	52019359	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:52019359delT								KIF2B (116786 upstream) : TOM1L1 (958693 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	52042578	52042578	+	IGR	DEL	A	-	-	rs144465269		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:52042578delA								KIF2B (140005 upstream) : TOM1L1 (935474 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	52136469	52136469	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:52136469delT								KIF2B (233896 upstream) : TOM1L1 (841583 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	52313034	52313035	+	IGR	DEL	TT	-	-	rs1396085	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:52313034_52313035delTT								KIF2B (410461 upstream) : TOM1L1 (665017 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	52354959	52354959	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:52354959delG								KIF2B (452386 upstream) : TOM1L1 (623093 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	52513314	52513314	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:52513314delT								KIF2B (610741 upstream) : TOM1L1 (464738 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	52717807	52717807	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:52717807delA								KIF2B (815234 upstream) : TOM1L1 (260245 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	52963943	52963944	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:52963943_52963944delTT								None (None upstream) : TOM1L1 (14108 downstream)																																			---	---	---	---
TOM1L1	10040	broad.mit.edu	37	17	53016176	53016176	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:53016176delT	uc002iud.2	+						TOM1L1_uc010dca.1_Intron|TOM1L1_uc010wnb.1_Intron|TOM1L1_uc010wnc.1_Intron|TOM1L1_uc010dbz.2_Intron|TOM1L1_uc010wnd.1_Intron|TOM1L1_uc010dcb.1_Intron	NM_005486	NP_005477			target of myb1-like 1						intracellular protein transport|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	cytosol|endosome membrane|Golgi stack|lysosome	SH3 domain binding|ubiquitin binding			ovary(1)	1																		---	---	---	---
MMD	23531	broad.mit.edu	37	17	53486362	53486362	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:53486362delA	uc002iui.2	-							NM_012329	NP_036461			monocyte to macrophage						cytolysis	integral to plasma membrane|late endosome membrane|lysosomal membrane|membrane fraction	receptor activity				0																		---	---	---	---
MMD	23531	broad.mit.edu	37	17	53492638	53492639	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:53492638_53492639delAA	uc002iui.2	-							NM_012329	NP_036461			monocyte to macrophage						cytolysis	integral to plasma membrane|late endosome membrane|lysosomal membrane|membrane fraction	receptor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	53519549	53519549	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:53519549delT								MMD (20208 upstream) : TMEM100 (277441 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	53591590	53591591	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:53591590_53591591insA								MMD (92249 upstream) : TMEM100 (205399 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	53787139	53787140	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:53787139_53787140delTC								MMD (287798 upstream) : TMEM100 (9850 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	54068468	54068468	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:54068468delT								PCTP (213721 upstream) : ANKFN1 (162368 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	54135991	54135992	+	IGR	INS	-	CT	CT	rs150410729	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:54135991_54135992insCT								PCTP (281244 upstream) : ANKFN1 (94844 downstream)																																			---	---	---	---
ANKFN1	162282	broad.mit.edu	37	17	54248948	54248948	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:54248948delA	uc002iun.1	+							NM_153228	NP_694960			ankyrin-repeat and fibronectin type III domain											large_intestine(1)|ovary(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	54607243	54607243	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:54607243delA								ANKFN1 (47236 upstream) : NOG (63817 downstream)																																			---	---	---	---
C17orf67	339210	broad.mit.edu	37	17	54877907	54877907	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:54877907delC	uc010dci.2	-						C17orf67_uc002iuq.2_Intron	NM_001085430	NP_001078899			hypothetical protein LOC339210 precursor							extracellular region					0	Breast(9;2.49e-06)																	---	---	---	---
Unknown	0	broad.mit.edu	37	17	55287180	55287180	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:55287180delT								AKAP1 (88471 upstream) : MSI2 (46032 downstream)																																			---	---	---	---
MSI2	124540	broad.mit.edu	37	17	55724810	55724810	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:55724810delA	uc002iuz.1	+						MSI2_uc010wnm.1_Intron	NM_138962	NP_620412			musashi 2 isoform a							cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)|pancreas(1)	2	Breast(9;1.78e-08)			GBM - Glioblastoma multiforme(1;0.0025)				T	HOXA9	CML								---	---	---	---
Unknown	0	broad.mit.edu	37	17	55839585	55839585	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:55839585delG								MSI2 (82286 upstream) : MRPS23 (77259 downstream)																																			---	---	---	---
CUEDC1	404093	broad.mit.edu	37	17	55952941	55952941	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:55952941delA	uc002ivd.1	-						CUEDC1_uc002ive.1_Intron	NM_017949	NP_060419			CUE domain-containing 1											skin(2)	2																OREG0024605	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
CUEDC1	404093	broad.mit.edu	37	17	56021082	56021082	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56021082delA	uc002ive.1	-							NM_017949	NP_060419			CUE domain-containing 1											skin(2)	2																		---	---	---	---
MKS1	54903	broad.mit.edu	37	17	56286028	56286028	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56286028delT	uc002ivr.1	-						MKS1_uc010wnq.1_Intron|MKS1_uc002ivs.1_Intron	NM_017777	NP_060247			Meckel syndrome type 1 protein isoform 1						cilium assembly	centrosome|cilium|microtubule basal body	protein binding			ovary(1)	1																		---	---	---	---
HSF5	124535	broad.mit.edu	37	17	56556273	56556273	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56556273delT	uc002iwi.1	-							NM_001080439	NP_001073908			heat shock transcription factor family member 5							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)																	---	---	---	---
HSF5	124535	broad.mit.edu	37	17	56565340	56565340	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56565340delC	uc002iwi.1	-	1	420	c.296delG	c.(295-297)GGCfs	p.G99fs		NM_001080439	NP_001073908	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	99	By similarity.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)																	---	---	---	---
SEPT4	5414	broad.mit.edu	37	17	56615998	56615998	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56615998delA	uc010wnx.1	-						SEPT4_uc010wny.1_Intron	NM_080416	NP_536341			septin 4 isoform 3						apoptosis|cell cycle|cytokinesis|regulation of apoptosis	cytoskeleton|mitochondrion|nucleus	GTP binding|GTPase activity|protein binding|structural molecule activity				0	Medulloblastoma(34;0.127)|all_neural(34;0.237)																	---	---	---	---
Unknown	0	broad.mit.edu	37	17	56813065	56813065	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56813065delA								RAD51C (1375 upstream) : PPM1E (20167 downstream)																																			---	---	---	---
TRIM37	4591	broad.mit.edu	37	17	57126492	57126492	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57126492delT	uc002iwy.3	-						TRIM37_uc002iwz.3_Intron|TRIM37_uc002ixa.3_Intron|TRIM37_uc010woc.1_Intron	NM_001005207	NP_001005207			tripartite motif-containing 37 protein							perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)													Mulibrey_Nanism				---	---	---	---
TRIM37	4591	broad.mit.edu	37	17	57165879	57165880	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57165879_57165880delTT	uc002iwy.3	-						TRIM37_uc002iwz.3_Intron|TRIM37_uc002ixa.3_Intron|TRIM37_uc010woc.1_Intron	NM_001005207	NP_001005207			tripartite motif-containing 37 protein							perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)													Mulibrey_Nanism				---	---	---	---
GDPD1	284161	broad.mit.edu	37	17	57328906	57328906	+	Intron	DEL	A	-	-	rs8067697	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57328906delA	uc002ixk.1	+						GDPD1_uc002ixj.2_Intron	NM_182569	NP_872375			glycerophosphodiester phosphodiesterase domain						glycerol metabolic process|lipid metabolic process	cytoplasm|integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)																	---	---	---	---
GDPD1	284161	broad.mit.edu	37	17	57330896	57330896	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57330896delT	uc002ixk.1	+						GDPD1_uc002ixj.2_Intron	NM_182569	NP_872375			glycerophosphodiester phosphodiesterase domain						glycerol metabolic process|lipid metabolic process	cytoplasm|integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)																	---	---	---	---
Unknown	0	broad.mit.edu	37	17	57494609	57494614	+	IGR	DEL	TTTTTT	-	-	rs113111359		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57494609_57494614delTTTTTT								YPEL2 (15514 upstream) : DHX40 (148272 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	57575292	57575292	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57575292delT								YPEL2 (96197 upstream) : DHX40 (67594 downstream)																																			---	---	---	---
CLTC	1213	broad.mit.edu	37	17	57725154	57725154	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57725154delT	uc002ixq.1	+						CLTC_uc002ixp.2_Intron|CLTC_uc002ixr.1_Intron	NM_004859	NP_004850			clathrin heavy chain 1						axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)							T	ALK|TFE3	ALCL|renal 								---	---	---	---
CLTC	1213	broad.mit.edu	37	17	57762834	57762834	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57762834delT	uc002ixq.1	+						CLTC_uc002ixp.2_Intron|CLTC_uc002ixr.1_Intron	NM_004859	NP_004850			clathrin heavy chain 1						axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)							T	ALK|TFE3	ALCL|renal 								---	---	---	---
CLTC	1213	broad.mit.edu	37	17	57770957	57770957	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57770957delC	uc002ixq.1	+						CLTC_uc002ixr.1_Intron	NM_004859	NP_004850			clathrin heavy chain 1						axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)							T	ALK|TFE3	ALCL|renal 								---	---	---	---
TMEM49	81671	broad.mit.edu	37	17	57842287	57842287	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57842287delT	uc002ixu.3	+						TMEM49_uc010wog.1_Intron|TMEM49_uc010woh.1_Intron|TMEM49_uc010woi.1_Intron|TMEM49_uc010woj.1_Intron	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)															---	---	---	---
DHX40P1	653645	broad.mit.edu	37	17	58057762	58057764	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58057762_58057764delAAA	uc002iyf.2	-						uc002iye.1_Intron	NR_002924				Homo sapiens DEAH (Asp-Glu-Ala-His) box polypeptide 40 pseudogene, mRNA (cDNA clone IMAGE:5170263).												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	58166737	58166738	+	5'Flank	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58166737_58166738insT	uc002iyl.2	-											Homo sapiens full length insert cDNA clone ZC45B12.																														---	---	---	---
BCAS3	54828	broad.mit.edu	37	17	58833970	58833970	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58833970delT	uc002iyv.3	+						BCAS3_uc010wow.1_Intron|BCAS3_uc002iyu.3_Intron|BCAS3_uc002iyw.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)															---	---	---	---
BCAS3	54828	broad.mit.edu	37	17	58923147	58923149	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58923147_58923149delTTT	uc002iyv.3	+						BCAS3_uc010wow.1_Intron|BCAS3_uc002iyu.3_Intron|BCAS3_uc002iyw.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)															---	---	---	---
BCAS3	54828	broad.mit.edu	37	17	59045928	59045928	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59045928delT	uc002iyv.3	+						BCAS3_uc010wow.1_Intron|BCAS3_uc002iyu.3_Intron|BCAS3_uc002iyw.3_Intron|BCAS3_uc002iyx.1_Intron|BCAS3_uc002iyy.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	59967306	59967306	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59967306delT	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	60010967	60010967	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60010967delT								INTS2 (5590 upstream) : MED13 (9000 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	60366628	60366628	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60366628delA								TBC1D3P2 (13612 upstream) : EFCAB3 (80951 downstream)																																			---	---	---	---
EFCAB3	146779	broad.mit.edu	37	17	60483827	60483827	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60483827delT	uc002izu.1	+						EFCAB3_uc010wpc.1_Intron	NM_173503	NP_775774			EF-hand calcium binding domain 3 isoform b								calcium ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(2;2.27e-11)															---	---	---	---
MARCH10	162333	broad.mit.edu	37	17	60813056	60813056	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60813056delA	uc010ddr.2	-						MARCH10_uc002jag.3_Intron|MARCH10_uc010dds.2_Intron|MARCH10_uc002jah.2_Intron|uc002jaj.1_RNA|uc002jak.2_Intron	NM_001100875	NP_001094345			ring finger protein 190								ligase activity|zinc ion binding				0																		---	---	---	---
MARCH10	162333	broad.mit.edu	37	17	60884551	60884551	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60884551delA	uc010ddr.2	-						MARCH10_uc002jag.3_Intron|MARCH10_uc010dds.2_Intron|MARCH10_uc002jah.2_Intron	NM_001100875	NP_001094345			ring finger protein 190								ligase activity|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	60900457	60900457	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60900457delA								MARCH10 (14752 upstream) : MIR633 (121119 downstream)																																			---	---	---	---
MIR633	693218	broad.mit.edu	37	17	61021673	61021673	+	RNA	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61021673delA	hsa-mir-633|MI0003648	+			c.98delA																				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	61048516	61048516	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61048516delA								MIR633 (26843 upstream) : TANC2 (38382 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	61056423	61056423	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61056423delT								MIR633 (34750 upstream) : TANC2 (30475 downstream)																																			---	---	---	---
TANC2	26115	broad.mit.edu	37	17	61228607	61228608	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61228607_61228608delCT	uc002jal.3	+							NM_025185	NP_079461			tetratricopeptide repeat, ankyrin repeat and								binding			ovary(2)	2																		---	---	---	---
TANC2	26115	broad.mit.edu	37	17	61384310	61384310	+	Intron	DEL	A	-	-	rs75157774	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61384310delA	uc002jal.3	+						TANC2_uc010wpe.1_Intron	NM_025185	NP_079461			tetratricopeptide repeat, ankyrin repeat and								binding			ovary(2)	2																		---	---	---	---
TANC2	26115	broad.mit.edu	37	17	61404108	61404108	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61404108delA	uc002jal.3	+						TANC2_uc010wpe.1_Intron	NM_025185	NP_079461			tetratricopeptide repeat, ankyrin repeat and								binding			ovary(2)	2																		---	---	---	---
MAP3K3	4215	broad.mit.edu	37	17	61706491	61706491	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61706491delT	uc002jbg.2	+						MAP3K3_uc002jbe.2_Intron|MAP3K3_uc002jbf.2_Intron|MAP3K3_uc002jbh.2_Intron|MAP3K3_uc010wpo.1_Intron|MAP3K3_uc010wpp.1_Intron	NM_002401	NP_002392			mitogen-activated protein kinase kinase kinase 3						MAPKKK cascade|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autophosphorylation	cytosol	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			lung(3)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)	6																		---	---	---	---
CCDC47	57003	broad.mit.edu	37	17	61824398	61824398	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61824398delA	uc002jbs.3	-						CCDC47_uc010ddx.2_Intron	NM_020198	NP_064583			coiled-coil domain containing 47 precursor							integral to membrane	protein binding				0																		---	---	---	---
SMARCD2	6603	broad.mit.edu	37	17	61913095	61913095	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61913095delT	uc010deb.1	-						SMARCD2_uc010wpt.1_Intron|SMARCD2_uc010dea.1_Intron|SMARCD2_uc010dec.1_Intron	NM_001098426	NP_001091896			SWI/SNF-related matrix-associated						chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	SWI/SNF complex	protein binding|transcription coactivator activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	62068630	62068630	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62068630delT								SCN4A (18352 upstream) : C17orf72 (7081 downstream)																																			---	---	---	---
SMURF2	64750	broad.mit.edu	37	17	62541845	62541856	+	3'UTR	DEL	AAAAAAAGGGGG	-	-	rs59188589		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62541845_62541856delAAAAAAAGGGGG	uc002jep.1	-	19					SMURF2_uc002jeq.1_3'UTR|SMURF2_uc002jer.1_3'UTR	NM_022739	NP_073576			SMAD specific E3 ubiquitin protein ligase 2						BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|membrane raft|nucleus|plasma membrane|ubiquitin ligase complex	identical protein binding|SMAD binding|ubiquitin-protein ligase activity			skin(3)|lung(1)	4	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;9.88e-12)															---	---	---	---
SMURF2	64750	broad.mit.edu	37	17	62547477	62547477	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62547477delA	uc002jep.1	-						SMURF2_uc002jeq.1_Intron|SMURF2_uc002jer.1_Intron	NM_022739	NP_073576			SMAD specific E3 ubiquitin protein ligase 2						BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|membrane raft|nucleus|plasma membrane|ubiquitin ligase complex	identical protein binding|SMAD binding|ubiquitin-protein ligase activity			skin(3)|lung(1)	4	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;9.88e-12)															---	---	---	---
SMURF2	64750	broad.mit.edu	37	17	62629002	62629005	+	Intron	DEL	TTCA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62629002_62629005delTTCA	uc002jep.1	-						SMURF2_uc002jeq.1_Intron|SMURF2_uc002jer.1_Intron	NM_022739	NP_073576			SMAD specific E3 ubiquitin protein ligase 2						BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|membrane raft|nucleus|plasma membrane|ubiquitin ligase complex	identical protein binding|SMAD binding|ubiquitin-protein ligase activity			skin(3)|lung(1)	4	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;9.88e-12)															---	---	---	---
SMURF2	64750	broad.mit.edu	37	17	62657194	62657194	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62657194delC	uc002jep.1	-						SMURF2_uc002jeq.1_Intron|SMURF2_uc002jer.1_Intron	NM_022739	NP_073576			SMAD specific E3 ubiquitin protein ligase 2						BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|membrane raft|nucleus|plasma membrane|ubiquitin ligase complex	identical protein binding|SMAD binding|ubiquitin-protein ligase activity			skin(3)|lung(1)	4	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;9.88e-12)															---	---	---	---
Unknown	0	broad.mit.edu	37	17	62716860	62716860	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62716860delA								SMURF2 (58474 upstream) : LOC146880 (28921 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	62716932	62716933	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62716932_62716933insT								SMURF2 (58546 upstream) : LOC146880 (28848 downstream)																																			---	---	---	---
LRRC37A3	374819	broad.mit.edu	37	17	62853103	62853103	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62853103delA	uc002jey.2	-						LRRC37A3_uc010wqg.1_Intron|LRRC37A3_uc002jex.1_Intron|LRRC37A3_uc010wqf.1_Intron	NM_199340	NP_955372			leucine rich repeat containing 37, member A3							integral to membrane					0																		---	---	---	---
LRRC37A3	374819	broad.mit.edu	37	17	62917127	62917128	+	5'Flank	INS	-	AGGG	AGGG	rs140057763		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62917127_62917128insAGGG	uc002jey.2	-						LRRC37A3_uc010wqg.1_5'Flank	NM_199340	NP_955372			leucine rich repeat containing 37, member A3							integral to membrane					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	62949099	62949100	+	IGR	INS	-	C	C	rs74844858	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62949099_62949100insC								LRRC37A3 (33513 upstream) : AMZ2P1 (13568 downstream)																																			---	---	---	---
RGS9	8787	broad.mit.edu	37	17	63186049	63186049	+	Intron	DEL	T	-	-	rs112552969		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:63186049delT	uc002jfe.2	+						RGS9_uc010dem.2_Intron|RGS9_uc002jfd.2_Intron|RGS9_uc002jff.2_Intron|RGS9_uc002jfg.2_Intron	NM_003835	NP_003826			regulator of G-protein signaling 9 isoform 1						intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4																		---	---	---	---
CCDC46	201134	broad.mit.edu	37	17	64024101	64024104	+	Intron	DEL	GAAA	-	-	rs150252497		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:64024101_64024104delGAAA	uc002jfl.2	-						CCDC46_uc010deo.2_Intron|CCDC46_uc002jfm.2_Intron|CCDC46_uc010dep.2_Intron	NM_145036	NP_659473			coiled-coil domain containing 46 isoform a							centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)															---	---	---	---
APOH	350	broad.mit.edu	37	17	64215531	64215531	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:64215531delA	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)															---	---	---	---
PRKCA	5578	broad.mit.edu	37	17	64757020	64757020	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:64757020delT	uc002jfp.1	+						PRKCA_uc002jfo.1_Intron	NM_002737	NP_002728			protein kinase C, alpha						activation of phospholipase C activity|energy reserve metabolic process|induction of apoptosis by extracellular signals|intracellular signal transduction|mRNA metabolic process|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of blood vessel endothelial cell migration|regulation of insulin secretion|response to interleukin-1|synaptic transmission	cytosol|endoplasmic reticulum|membrane fraction|nucleoplasm|plasma membrane	ATP binding|enzyme binding|histone kinase activity (H3-T6 specific)|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(1)|stomach(1)|lung(1)|breast(1)|ovary(1)	9			BRCA - Breast invasive adenocarcinoma(6;4.68e-09)		Phosphatidylserine(DB00144)|Vitamin E(DB00163)													---	---	---	---
HELZ	9931	broad.mit.edu	37	17	65207031	65207031	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65207031delA	uc010wqk.1	-						HELZ_uc002jfv.3_Intron|HELZ_uc002jfx.3_Intron|HELZ_uc010des.1_Intron	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)																	---	---	---	---
Unknown	0	broad.mit.edu	37	17	65256130	65256131	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65256130_65256131delAA								HELZ (14811 upstream) : PSMD12 (80489 downstream)																																			---	---	---	---
PITPNC1	26207	broad.mit.edu	37	17	65410731	65410731	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65410731delT	uc002jgc.2	+						PITPNC1_uc002jgb.2_Intron	NM_012417	NP_036549			phosphatidylinositol transfer protein,						signal transduction	cytoplasm	lipid binding|phosphatidylinositol transporter activity|protein binding			skin(1)	1	all_cancers(12;3.03e-10)		BRCA - Breast invasive adenocarcinoma(8;2.08e-08)|Colorectal(3;0.198)															---	---	---	---
PITPNC1	26207	broad.mit.edu	37	17	65510128	65510128	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65510128delA	uc002jgc.2	+						PITPNC1_uc002jgb.2_Intron	NM_012417	NP_036549			phosphatidylinositol transfer protein,						signal transduction	cytoplasm	lipid binding|phosphatidylinositol transporter activity|protein binding			skin(1)	1	all_cancers(12;3.03e-10)		BRCA - Breast invasive adenocarcinoma(8;2.08e-08)|Colorectal(3;0.198)															---	---	---	---
PITPNC1	26207	broad.mit.edu	37	17	65548584	65548585	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65548584_65548585delTT	uc002jgc.2	+						PITPNC1_uc002jgb.2_Intron	NM_012417	NP_036549			phosphatidylinositol transfer protein,						signal transduction	cytoplasm	lipid binding|phosphatidylinositol transporter activity|protein binding			skin(1)	1	all_cancers(12;3.03e-10)		BRCA - Breast invasive adenocarcinoma(8;2.08e-08)|Colorectal(3;0.198)															---	---	---	---
PITPNC1	26207	broad.mit.edu	37	17	65660569	65660569	+	Intron	DEL	G	-	-	rs142003083	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65660569delG	uc002jgc.2	+						PITPNC1_uc002jgb.2_Intron	NM_012417	NP_036549			phosphatidylinositol transfer protein,						signal transduction	cytoplasm	lipid binding|phosphatidylinositol transporter activity|protein binding			skin(1)	1	all_cancers(12;3.03e-10)		BRCA - Breast invasive adenocarcinoma(8;2.08e-08)|Colorectal(3;0.198)															---	---	---	---
PITPNC1	26207	broad.mit.edu	37	17	65662865	65662865	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65662865delT	uc002jgc.2	+						PITPNC1_uc002jgb.2_Intron	NM_012417	NP_036549			phosphatidylinositol transfer protein,						signal transduction	cytoplasm	lipid binding|phosphatidylinositol transporter activity|protein binding			skin(1)	1	all_cancers(12;3.03e-10)		BRCA - Breast invasive adenocarcinoma(8;2.08e-08)|Colorectal(3;0.198)															---	---	---	---
NOL11	25926	broad.mit.edu	37	17	65737187	65737187	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65737187delT	uc002jgd.1	+						NOL11_uc010wql.1_Intron|NOL11_uc010deu.1_Intron	NM_015462	NP_056277			nucleolar protein 11							nucleolus					0	all_cancers(12;1.54e-10)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0518)|COAD - Colon adenocarcinoma(4;0.0977)|LUSC - Lung squamous cell carcinoma(166;0.24)															---	---	---	---
Unknown	0	broad.mit.edu	37	17	65778372	65778372	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65778372delA								NOL11 (38106 upstream) : BPTF (43408 downstream)																																			---	---	---	---
WIPI1	55062	broad.mit.edu	37	17	66428358	66428358	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66428358delG	uc010dey.2	-						WIPI1_uc002jhd.3_Intron|WIPI1_uc010wqo.1_Intron|WIPI1_uc002jhe.3_Intron	NM_017983	NP_060453			WD repeat domain, phosphoinositide interacting						macroautophagy|vesicle targeting, trans-Golgi to endosome	autophagic vacuole membrane|clathrin-coated vesicle|cytosol|endosome membrane|PAS complex|pre-autophagosomal structure membrane|trans-Golgi network	androgen receptor binding|estrogen receptor binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding				0																		---	---	---	---
PRKAR1A	5573	broad.mit.edu	37	17	66508451	66508451	+	Intron	DEL	G	-	-	rs12939412		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66508451delG	uc002jhg.2	+						PRKAR1A_uc002jhh.2_5'Flank|PRKAR1A_uc002jhi.2_5'Flank|PRKAR1A_uc002jhj.2_5'Flank|PRKAR1A_uc002jhk.2_5'Flank|PRKAR1A_uc002jhl.2_5'Flank	NM_212471	NP_997636			cAMP-dependent protein kinase, regulatory						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|regulation of transcription from RNA polymerase II promoter|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity|protein binding			adrenal_gland(4)|lung(3)|thyroid(2)|soft_tissue(2)|breast(1)	12	Breast(10;1.64e-13)							T|Mis|N|F|S	RET	papillary thyroid	myxoma|endocrine|papillary thyroid			Carney_Complex|Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial|Cardiac_Myxomas_Familial_Clustering_of				---	---	---	---
FAM20A	54757	broad.mit.edu	37	17	66574147	66574148	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66574147_66574148delCA	uc002jho.2	-						FAM20A_uc010wqp.1_Intron	NM_017565	NP_060035			family with sequence similarity 20, member A							extracellular region					0	Breast(10;1.64e-13)																	---	---	---	---
ABCA8	10351	broad.mit.edu	37	17	66892274	66892274	+	Intron	DEL	T	-	-	rs74715793		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66892274delT	uc002jhp.2	-						ABCA8_uc002jhq.2_Intron|ABCA8_uc010wqq.1_Intron|ABCA8_uc010wqr.1_Intron|ABCA8_uc002jhr.2_Intron	NM_007168	NP_009099			ATP-binding cassette, sub-family A member 8							integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)																	---	---	---	---
ABCA5	23461	broad.mit.edu	37	17	67246149	67246149	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67246149delA	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)																	---	---	---	---
ABCA5	23461	broad.mit.edu	37	17	67248158	67248160	+	Intron	DEL	TTT	-	-	rs12942723		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67248158_67248160delTTT	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)																	---	---	---	---
ABCA5	23461	broad.mit.edu	37	17	67248508	67248509	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67248508_67248509delAA	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)																	---	---	---	---
Unknown	0	broad.mit.edu	37	17	67346100	67346103	+	IGR	DEL	AAAA	-	-	rs5821709		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67346100_67346103delAAAA								ABCA5 (22777 upstream) : MAP2K6 (64735 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	67346470	67346470	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67346470delA								ABCA5 (23147 upstream) : MAP2K6 (64368 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	67703228	67703228	+	IGR	DEL	T	-	-	rs79991562		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67703228delT								MAP2K6 (164766 upstream) : KCNJ16 (368198 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	67703569	67703569	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67703569delA								MAP2K6 (165107 upstream) : KCNJ16 (367857 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	67978620	67978620	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67978620delT								MAP2K6 (440158 upstream) : KCNJ16 (92806 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	68023054	68023054	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:68023054delT								MAP2K6 (484592 upstream) : KCNJ16 (48372 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	68039875	68039875	+	IGR	DEL	T	-	-	rs75993983		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:68039875delT								MAP2K6 (501413 upstream) : KCNJ16 (31551 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	68537701	68537701	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:68537701delT								KCNJ2 (361520 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	68683296	68683297	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:68683296_68683297insA								KCNJ2 (507115 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	68767964	68767964	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:68767964delT								KCNJ2 (591783 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	68870444	68870444	+	IGR	DEL	A	-	-	rs77202873		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:68870444delA								KCNJ2 (694263 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	69033289	69033289	+	IGR	DEL	A	-	-	rs112391760		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:69033289delA								KCNJ2 (857108 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	69077873	69077873	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:69077873delT								KCNJ2 (901692 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	69262520	69262520	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:69262520delT								None (None upstream) : SOX9 (854641 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	69519833	69519833	+	IGR	DEL	A	-	-	rs146238673		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:69519833delA								None (None upstream) : SOX9 (597328 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	69532417	69532420	+	IGR	DEL	TCTC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:69532417_69532420delTCTC								None (None upstream) : SOX9 (584741 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	69553528	69553528	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:69553528delA								None (None upstream) : SOX9 (563633 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	69621529	69621529	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:69621529delT								None (None upstream) : SOX9 (495632 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	69849372	69849372	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:69849372delA								None (None upstream) : SOX9 (267789 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	69856765	69856765	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:69856765delT								None (None upstream) : SOX9 (260396 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	70020830	70020830	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:70020830delA								None (None upstream) : SOX9 (96331 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	70099136	70099136	+	Intron	DEL	T	-	-	rs79143058		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:70099136delT	uc002jiu.1	-						uc002jiv.2_Intron					Homo sapiens cDNA FLJ31667 fis, clone NT2RI2004840.																														---	---	---	---
Unknown	0	broad.mit.edu	37	17	70115516	70115516	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:70115516delA	uc002jiv.2	-						SOX9_uc002jiw.2_5'Flank					Homo sapiens cDNA FLJ31667 fis, clone NT2RI2004840.																														---	---	---	---
Unknown	0	broad.mit.edu	37	17	70267009	70267009	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:70267009delT								SOX9 (144457 upstream) : SLC39A11 (375077 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	70503521	70503521	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:70503521delT	uc002jix.2	-						uc002jiz.1_Intron					Homo sapiens cDNA FLJ20470 fis, clone KAT06815.																														---	---	---	---
Unknown	0	broad.mit.edu	37	17	70609090	70609091	+	IGR	DEL	TT	-	-	rs142525761		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:70609090_70609091delTT								SOX9 (486538 upstream) : SLC39A11 (32995 downstream)																																			---	---	---	---
SLC39A11	201266	broad.mit.edu	37	17	70924182	70924182	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:70924182delA	uc002jjb.2	-						SLC39A11_uc002jja.2_Intron|SLC39A11_uc002jjc.1_Intron	NM_001159770	NP_001153242			solute carrier family 39, member 11 isoform 1						zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	71094576	71094577	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71094576_71094577insA								SLC39A11 (5723 upstream) : SSTR2 (66583 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	71096526	71096526	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71096526delA								SLC39A11 (7673 upstream) : SSTR2 (64634 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	71120340	71120340	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71120340delA								SLC39A11 (31487 upstream) : SSTR2 (40820 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	71170700	71170700	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71170700delA								SSTR2 (2640 upstream) : COG1 (18473 downstream)																																			---	---	---	---
COG1	9382	broad.mit.edu	37	17	71190978	71190978	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71190978delT	uc002jjg.2	+						COG1_uc002jjh.2_Intron|COG1_uc002jjf.1_Intron	NM_018714	NP_061184			component of oligomeric golgi complex 1						Golgi organization|intra-Golgi vesicle-mediated transport|protein transport	Golgi membrane|Golgi transport complex	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)															---	---	---	---
COG1	9382	broad.mit.edu	37	17	71203067	71203067	+	Intron	DEL	A	-	-	rs35293364		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71203067delA	uc002jjg.2	+						COG1_uc002jjh.2_Intron|COG1_uc002jjf.1_Intron	NM_018714	NP_061184			component of oligomeric golgi complex 1						Golgi organization|intra-Golgi vesicle-mediated transport|protein transport	Golgi membrane|Golgi transport complex	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)															---	---	---	---
SDK2	54549	broad.mit.edu	37	17	71455178	71455178	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71455178delA	uc010dfm.2	-							NM_001144952	NP_001138424			sidekick 2						cell adhesion	integral to membrane				ovary(2)	2																		---	---	---	---
C17orf54	283982	broad.mit.edu	37	17	71771072	71771073	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71771072_71771073delAA	uc010wqv.1	-						C17orf54_uc010dfo.2_Intron					Homo sapiens cDNA FLJ40319 fis, clone TESTI2030754.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	72144989	72144989	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72144989delT								C17orf54 (320313 upstream) : RPL38 (54806 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	72416578	72416578	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72416578delT								GPR142 (47817 upstream) : GPRC5C (11089 downstream)																																			---	---	---	---
GRIN2C	2905	broad.mit.edu	37	17	72845157	72845157	+	Intron	DEL	A	-	-	rs71822726		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72845157delA	uc002jlt.1	-						GRIN2C_uc010wrh.1_Intron|GRIN2C_uc002jlu.1_Intron	NM_000835	NP_000826			N-methyl-D-aspartate receptor subunit 2C						glutamate signaling pathway	cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|N-methyl-D-aspartate selective glutamate receptor activity			ovary(2)|breast(2)	4	all_lung(278;0.172)|Lung NSC(278;0.207)				Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)													---	---	---	---
KCTD2	23510	broad.mit.edu	37	17	73046947	73046947	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73046947delT	uc002jmp.2	+						KCTD2_uc010dfz.2_Intron|KCTD2_uc002jmq.2_Intron	NM_015353	NP_056168			potassium channel tetramerisation domain							voltage-gated potassium channel complex	voltage-gated potassium channel activity				0	all_lung(278;0.226)																	---	---	---	---
Unknown	0	broad.mit.edu	37	17	73065370	73065370	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73065370delT								KCTD2 (3391 upstream) : SLC16A5 (18452 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	73077245	73077246	+	IGR	INS	-	A	A	rs7214461		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73077245_73077246insA								KCTD2 (15266 upstream) : SLC16A5 (6576 downstream)																																			---	---	---	---
ARMC7	79637	broad.mit.edu	37	17	73104202	73104202	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73104202delA	uc002jmw.1	+						ARMC7_uc002jmv.1_5'Flank|ARMC7_uc010wru.1_5'Flank	NM_024585	NP_078861			armadillo repeat containing 7								binding			pancreas(1)	1	all_lung(278;0.14)|Lung NSC(278;0.168)		LUSC - Lung squamous cell carcinoma(166;0.162)|Lung(188;0.235)															---	---	---	---
SLC25A19	60386	broad.mit.edu	37	17	73273199	73273199	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73273199delA	uc002jns.3	-						SLC25A19_uc010dge.2_Intron|SLC25A19_uc002jnv.3_Intron|SLC25A19_uc002jnu.3_Intron|SLC25A19_uc002jnw.3_Intron|SLC25A19_uc002jnt.3_Intron	NM_021734	NP_068380			solute carrier family 25, member 19							integral to membrane|mitochondrial inner membrane	binding|deoxynucleotide transmembrane transporter activity			ovary(1)	1	all_cancers(13;5.98e-08)|all_epithelial(9;1.16e-08)|Breast(9;3.1e-08)		all cancers(21;6.82e-07)|Epithelial(20;6.86e-06)															---	---	---	---
LLGL2	3993	broad.mit.edu	37	17	73535495	73535495	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73535495delT	uc002joh.2	+						LLGL2_uc002jog.1_Intron|LLGL2_uc010dgf.1_Intron|LLGL2_uc002joi.2_Intron|LLGL2_uc010dgg.1_Intron	NM_001031803	NP_001026973			lethal giant larvae homolog 2 isoform c						cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)															---	---	---	---
ACOX1	51	broad.mit.edu	37	17	73954586	73954586	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73954586delA	uc002jqf.2	-						ACOX1_uc010wsq.1_Intron|ACOX1_uc002jqe.2_Intron|ACOX1_uc010wsr.1_Intron	NM_007292	NP_009223			acyl-Coenzyme A oxidase 1 isoform b						fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|prostaglandin metabolic process|very long-chain fatty acid metabolic process	peroxisomal matrix	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity|flavin adenine dinucleotide binding|protein N-terminus binding			ovary(1)	1																		---	---	---	---
ACOX1	51	broad.mit.edu	37	17	73959777	73959777	+	Intron	DEL	A	-	-	rs71996550		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73959777delA	uc002jqf.2	-						ACOX1_uc010wsq.1_Intron|ACOX1_uc002jqe.2_Intron|ACOX1_uc010wsr.1_Intron	NM_007292	NP_009223			acyl-Coenzyme A oxidase 1 isoform b						fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|prostaglandin metabolic process|very long-chain fatty acid metabolic process	peroxisomal matrix	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity|flavin adenine dinucleotide binding|protein N-terminus binding			ovary(1)	1																		---	---	---	---
CDK3	1018	broad.mit.edu	37	17	73986132	73986134	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73986132_73986134delTTT	uc002jqg.3	+						C17orf106_uc010dgs.1_Intron	NM_001258	NP_001249			cyclin-dependent kinase 3						cell division|cell proliferation|mitosis		ATP binding|cyclin-dependent protein kinase activity			central_nervous_system(1)	1																		---	---	---	---
CDK3	1018	broad.mit.edu	37	17	73993937	73993938	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73993937_73993938delTT	uc002jqg.3	+						C17orf106_uc010dgs.1_Intron	NM_001258	NP_001249			cyclin-dependent kinase 3						cell division|cell proliferation|mitosis		ATP binding|cyclin-dependent protein kinase activity			central_nervous_system(1)	1																		---	---	---	---
CDK3	1018	broad.mit.edu	37	17	73995131	73995131	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73995131delA	uc010dgt.2	+						C17orf106_uc010dgs.1_Intron|CDK3_uc002jqg.3_Intron	NM_001258	NP_001249			cyclin-dependent kinase 3						cell division|cell proliferation|mitosis		ATP binding|cyclin-dependent protein kinase activity			central_nervous_system(1)	1																		---	---	---	---
UBE2O	63893	broad.mit.edu	37	17	74413789	74413796	+	Intron	DEL	AGGAAAGA	-	-	rs11275244		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74413789_74413796delAGGAAAGA	uc002jrm.3	-						UBE2O_uc002jrn.3_Intron	NM_022066	NP_071349			ubiquitin-conjugating enzyme E2O								ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5																		---	---	---	---
MFSD11	79157	broad.mit.edu	37	17	74759354	74759354	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74759354delT	uc002jta.2	+						MFSD11_uc002jtb.2_Intron|MFSD11_uc010dha.2_Intron|MFSD11_uc002jtc.2_Intron|MFSD11_uc002jtd.3_Intron|MFSD11_uc010dhb.2_Intron|MFSD11_uc002jte.2_Intron	NM_024311	NP_077287			major facilitator superfamily domain containing							integral to membrane				ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	75080822	75080822	+	IGR	DEL	A	-	-	rs78871992		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:75080822delA								MGAT5B (134352 upstream) : C17orf86 (3903 downstream)																																			---	---	---	---
SEC14L1	6397	broad.mit.edu	37	17	75146236	75146236	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:75146236delT	uc002jto.2	+						SEC14L1_uc010dhc.2_Intron|SEC14L1_uc010wth.1_Intron|SEC14L1_uc002jtm.2_Intron	NM_003003	NP_002994			SEC14 (S. cerevisiae)-like 1 isoform a						transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2																		---	---	---	---
SEPT9	10801	broad.mit.edu	37	17	75367107	75367107	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:75367107delA	uc002jts.3	+						SEPT9_uc010wtk.1_Intron|SEPT9_uc002jtt.3_Intron|SEPT9_uc002jtu.3_Intron|SEPT9_uc002jtv.2_5'Flank	NM_001113491	NP_001106963			septin 9 isoform a						cell cycle|cell division|protein heterooligomerization	microtubule|perinuclear region of cytoplasm|stress fiber	GTP binding|GTPase activity|protein binding|protein binding			breast(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(99;0.153)															---	---	---	---
SEPT9	10801	broad.mit.edu	37	17	75442449	75442450	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:75442449_75442450delTT	uc002jts.3	+						SEPT9_uc010wtk.1_Intron|SEPT9_uc002jtt.3_Intron|SEPT9_uc002jtu.3_Intron|SEPT9_uc002jtv.2_Intron|SEPT9_uc002jtw.2_Intron|SEPT9_uc002jtx.1_Intron|SEPT9_uc010wtl.1_Intron	NM_001113491	NP_001106963			septin 9 isoform a						cell cycle|cell division|protein heterooligomerization	microtubule|perinuclear region of cytoplasm|stress fiber	GTP binding|GTPase activity|protein binding|protein binding			breast(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(99;0.153)															---	---	---	---
TNRC6C	57690	broad.mit.edu	37	17	76071989	76071989	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76071989delA	uc002jud.2	+						TNRC6C_uc002juf.2_Intron|TNRC6C_uc002jue.2_Intron	NM_018996	NP_061869			trinucleotide repeat containing 6C isoform 2						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)															---	---	---	---
Unknown	0	broad.mit.edu	37	17	76473002	76473003	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76473002_76473003delGT								DNAH17 (4146 upstream) : CYTH1 (197128 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	76473455	76473455	+	IGR	DEL	T	-	-	rs144984270		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76473455delT								DNAH17 (4599 upstream) : CYTH1 (196676 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	76492673	76492673	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76492673delT	uc002jvt.1	+											Homo sapiens cDNA FLJ45552 fis, clone BRTHA2038279.																														---	---	---	---
Unknown	0	broad.mit.edu	37	17	76639454	76639455	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76639454_76639455insA								DNAH17 (170598 upstream) : CYTH1 (30676 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	76944660	76944660	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76944660delA								TIMP2 (23188 upstream) : LGALS3BP (22676 downstream)																																			---	---	---	---
HRNBP3	146713	broad.mit.edu	37	17	77244323	77244324	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:77244323_77244324delTT	uc010dhs.2	-						HRNBP3_uc010wua.1_Intron	NM_001082575	NP_001076044			hexaribonucleotide binding protein 3						mRNA processing|RNA splicing	cytoplasm|nucleus	nucleotide binding|RNA binding				0			BRCA - Breast invasive adenocarcinoma(99;0.0577)|OV - Ovarian serous cystadenocarcinoma(97;0.112)															---	---	---	---
HRNBP3	146713	broad.mit.edu	37	17	77424853	77424854	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:77424853_77424854insC	uc010dhs.2	-						HRNBP3_uc010wua.1_Intron	NM_001082575	NP_001076044			hexaribonucleotide binding protein 3						mRNA processing|RNA splicing	cytoplasm|nucleus	nucleotide binding|RNA binding				0			BRCA - Breast invasive adenocarcinoma(99;0.0577)|OV - Ovarian serous cystadenocarcinoma(97;0.112)															---	---	---	---
TBC1D16	125058	broad.mit.edu	37	17	77924011	77924011	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:77924011delT	uc002jxj.2	-						TBC1D16_uc002jxh.2_Intron|TBC1D16_uc002jxi.2_Intron|TBC1D16_uc002jxk.1_Intron	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)															---	---	---	---
SLC26A11	284129	broad.mit.edu	37	17	78224772	78224772	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78224772delA	uc002jyb.1	+						SLC26A11_uc002jyc.1_Intron|SLC26A11_uc002jyd.1_Intron|SLC26A11_uc010dhv.1_Intron	NM_173626	NP_775897			solute carrier family 26, member 11							endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosomal membrane|plasma membrane	anion:anion antiporter activity|secondary active sulfate transmembrane transporter activity				0	all_neural(118;0.0538)		OV - Ovarian serous cystadenocarcinoma(97;0.0344)|BRCA - Breast invasive adenocarcinoma(99;0.0908)															---	---	---	---
SLC26A11	284129	broad.mit.edu	37	17	78224945	78224945	+	Intron	DEL	A	-	-	rs11868423	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78224945delA	uc002jyb.1	+						SLC26A11_uc002jyc.1_Intron|SLC26A11_uc002jyd.1_Intron|SLC26A11_uc010dhv.1_Intron	NM_173626	NP_775897			solute carrier family 26, member 11							endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosomal membrane|plasma membrane	anion:anion antiporter activity|secondary active sulfate transmembrane transporter activity				0	all_neural(118;0.0538)		OV - Ovarian serous cystadenocarcinoma(97;0.0344)|BRCA - Breast invasive adenocarcinoma(99;0.0908)															---	---	---	---
RPTOR	57521	broad.mit.edu	37	17	78576291	78576291	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78576291delT	uc002jyt.1	+						RPTOR_uc002jys.2_Intron|RPTOR_uc010wuf.1_Intron|RPTOR_uc010wug.1_Intron	NM_020761	NP_065812			raptor isoform 1						cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6																		---	---	---	---
SLC38A10	124565	broad.mit.edu	37	17	79236362	79236362	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79236362delA	uc002jzz.1	-						SLC38A10_uc002jzy.1_Intron|SLC38A10_uc002kab.2_Intron	NM_001037984	NP_001033073			solute carrier family 38, member 10 isoform a						amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)															---	---	---	---
ACTG1	71	broad.mit.edu	37	17	79477536	79477536	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79477536delA	uc002kaj.1	-	5					ACTG1_uc002kah.1_3'UTR|ACTG1_uc002kai.1_3'UTR|ACTG1_uc002kak.1_3'UTR|ACTG1_uc010wun.1_3'UTR|ACTG1_uc002kal.1_3'UTR|ACTG1_uc002kag.2_RNA	NM_001614	NP_001605			actin, gamma 1 propeptide						adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol	ATP binding|identical protein binding			ovary(1)|central_nervous_system(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0547)															---	---	---	---
NPLOC4	55666	broad.mit.edu	37	17	79597317	79597317	+	Intron	DEL	T	-	-	rs148595272	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79597317delT	uc002kat.3	-						NPLOC4_uc002kau.3_Intron|NPLOC4_uc010wur.1_Intron	NM_017921	NP_060391			nuclear protein localization 4						cellular membrane fusion|ER-associated protein catabolic process|Golgi organization	cytosol|endoplasmic reticulum|nuclear outer membrane-endoplasmic reticulum membrane network|nucleus	zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)															---	---	---	---
SIRT7	51547	broad.mit.edu	37	17	79871025	79871025	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79871025delA	uc002kcj.1	-						PCYT2_uc010wva.1_5'Flank|PCYT2_uc010wvb.1_5'Flank|PCYT2_uc002kce.1_5'Flank|PCYT2_uc002kcf.1_5'Flank|PCYT2_uc002kcg.1_5'Flank|PCYT2_uc002kch.1_5'Flank|PCYT2_uc002kci.1_5'Flank|PCYT2_uc010dii.1_5'Flank|PCYT2_uc010wvc.1_5'Flank|SIRT7_uc002kck.1_Intron|SIRT7_uc002kcl.1_Intron	NM_016538	NP_057622			sirtuin 7						chromatin silencing|positive regulation of transcription on exit from mitosis|protein deacetylation|rRNA transcription	cytoplasm|nucleolus organizer region	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ binding|protein binding|zinc ion binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0165)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)															---	---	---	---
FASN	2194	broad.mit.edu	37	17	80037561	80037561	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80037561delT	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)													---	---	---	---
C17orf101	79701	broad.mit.edu	37	17	80353702	80353702	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80353702delA	uc002keu.1	-						C17orf101_uc002ket.1_Intron|C17orf101_uc010dip.1_Intron	NM_024648	NP_078924			hypothetical protein LOC79701 isoform 1							integral to membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(1)	1																		---	---	---	---
C17orf101	79701	broad.mit.edu	37	17	80367784	80367785	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80367784_80367785delAG	uc002keu.1	-						C17orf101_uc002ket.1_Intron|C17orf101_uc010dip.1_Intron	NM_024648	NP_078924			hypothetical protein LOC79701 isoform 1							integral to membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(1)	1																		---	---	---	---
WDR45L	56270	broad.mit.edu	37	17	80574645	80574645	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80574645delT	uc002kfq.2	-						WDR45L_uc002kfr.2_Intron	NM_019613	NP_062559			WDR45-like						autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1	Breast(20;0.00106)|all_neural(118;0.0952)	all_cancers(8;0.101)|all_epithelial(8;0.198)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.0835)															---	---	---	---
WDR45L	56270	broad.mit.edu	37	17	80576838	80576838	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80576838delC	uc002kfq.2	-						WDR45L_uc002kfr.2_Intron	NM_019613	NP_062559			WDR45-like						autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1	Breast(20;0.00106)|all_neural(118;0.0952)	all_cancers(8;0.101)|all_epithelial(8;0.198)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.0835)															---	---	---	---
RAB40B	10966	broad.mit.edu	37	17	80649571	80649571	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80649571delA	uc002kft.2	-						RAB40B_uc002kfs.2_Intron	NM_006822	NP_006813			RAB40B, member RAS oncogene family						protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			central_nervous_system(1)	1	Breast(20;0.00132)|all_neural(118;0.0952)	all_cancers(8;0.072)|all_epithelial(8;0.139)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.061)															---	---	---	---
FN3KRP	79672	broad.mit.edu	37	17	80677641	80677641	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80677641delA	uc002kfu.2	+						FN3KRP_uc010wvr.1_Intron	NM_024619	NP_078895			fructosamine 3 kinase related protein								kinase activity				0	Breast(20;0.000523)|all_neural(118;0.0952)		BRCA - Breast invasive adenocarcinoma(99;0.0344)|OV - Ovarian serous cystadenocarcinoma(97;0.061)															---	---	---	---
TBCD	6904	broad.mit.edu	37	17	80874122	80874123	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80874122_80874123delTT	uc002kfz.2	+						TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kgb.1_Intron	NM_005993	NP_005984			beta-tubulin cofactor D						'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)															---	---	---	---
Unknown	0	broad.mit.edu	37	17	81195029	81195032	+	IGR	DEL	GTTA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:81195029_81195032delGTTA								METRNL (142440 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	120869	120869	+	RNA	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:120869delT	uc002kke.2	+	5		c.1107delT								Homo sapiens Rho-associated, coiled-coil containing protein kinase 1, mRNA (cDNA clone IMAGE:5269982), complete cds.																														---	---	---	---
USP14	9097	broad.mit.edu	37	18	204764	204764	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:204764delT	uc002kkf.1	+						USP14_uc002kkg.1_Intron|USP14_uc010wyr.1_Intron	NM_005151	NP_005142			ubiquitin specific protease 14 isoform a						regulation of chemotaxis|regulation of proteasomal protein catabolic process|ubiquitin-dependent protein catabolic process	cell surface|cytoplasmic membrane-bounded vesicle|plasma membrane|proteasome complex	cysteine-type endopeptidase activity|endopeptidase inhibitor activity|proteasome binding|tRNA guanylyltransferase activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)	2		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)																---	---	---	---
COLEC12	81035	broad.mit.edu	37	18	350630	350630	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:350630delA	uc002kkm.2	-							NM_130386	NP_569057			collectin sub-family member 12						carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)																---	---	---	---
COLEC12	81035	broad.mit.edu	37	18	362319	362319	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:362319delT	uc002kkm.2	-							NM_130386	NP_569057			collectin sub-family member 12						carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)																---	---	---	---
COLEC12	81035	broad.mit.edu	37	18	411978	411978	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:411978delA	uc002kkm.2	-							NM_130386	NP_569057			collectin sub-family member 12						carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)																---	---	---	---
COLEC12	81035	broad.mit.edu	37	18	412490	412494	+	Intron	DEL	AAAAG	-	-	rs72861875		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:412490_412494delAAAAG	uc002kkm.2	-							NM_130386	NP_569057			collectin sub-family member 12						carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)																---	---	---	---
Unknown	0	broad.mit.edu	37	18	527971	527971	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:527971delT								COLEC12 (27242 upstream) : CETN1 (52398 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	588330	588330	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:588330delT								CETN1 (6806 upstream) : CLUL1 (8668 downstream)																																			---	---	---	---
ENOSF1	55556	broad.mit.edu	37	18	686115	686115	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:686115delT	uc002kku.3	-						ENOSF1_uc002kkt.3_Intron|ENOSF1_uc010dke.2_Intron|ENOSF1_uc010dkf.2_Intron|ENOSF1_uc002kkv.3_Intron|ENOSF1_uc002kkw.3_Intron|ENOSF1_uc002kkx.3_Intron	NM_017512	NP_059982			enolase superfamily 1 isoform rTS beta						cellular amino acid catabolic process	mitochondrion	isomerase activity|metal ion binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	1017221	1017221	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:1017221delT								ADCYAP1 (105050 upstream) : C18orf2 (237169 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	1041024	1041024	+	IGR	DEL	A	-	-	rs35055547		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:1041024delA								ADCYAP1 (128853 upstream) : C18orf2 (213366 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	1041374	1041374	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:1041374delA								ADCYAP1 (129203 upstream) : C18orf2 (213016 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	1057787	1057788	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:1057787_1057788insT								ADCYAP1 (145616 upstream) : C18orf2 (196602 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	1126575	1126576	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:1126575_1126576insT								ADCYAP1 (214404 upstream) : C18orf2 (127814 downstream)																																			---	---	---	---
C18orf2	56651	broad.mit.edu	37	18	1366566	1366566	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:1366566delT	uc002kld.1	-											Homo sapiens C18orf2 isoform 1 mRNA, complete sequence, alternatively spliced.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	1418267	1418267	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:1418267delT								C18orf2 (11086 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	1840161	1840161	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:1840161delT								C18orf2 (432980 upstream) : METTL4 (697364 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	2157983	2157983	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:2157983delA								C18orf2 (750802 upstream) : METTL4 (379542 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	2308157	2308158	+	IGR	DEL	CT	-	-	rs71661900		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:2308157_2308158delCT								C18orf2 (900976 upstream) : METTL4 (229367 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	2395649	2395650	+	IGR	INS	-	A	A	rs143979430	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:2395649_2395650insA								C18orf2 (988468 upstream) : METTL4 (141875 downstream)																																			---	---	---	---
METTL4	64863	broad.mit.edu	37	18	2565278	2565278	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:2565278delA	uc002klh.3	-							NM_022840	NP_073751			methyltransferase like 4						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		methyltransferase activity|nucleic acid binding			kidney(1)|skin(1)	2																		---	---	---	---
METTL4	64863	broad.mit.edu	37	18	2566700	2566700	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:2566700delT	uc002klh.3	-							NM_022840	NP_073751			methyltransferase like 4						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		methyltransferase activity|nucleic acid binding			kidney(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	2644908	2644908	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:2644908delA								NDC80 (28275 upstream) : SMCHD1 (10978 downstream)																																			---	---	---	---
SMCHD1	23347	broad.mit.edu	37	18	2682166	2682166	+	Intron	DEL	T	-	-	rs12954085	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:2682166delT	uc002klm.3	+							NM_015295	NP_056110			structural maintenance of chromosomes flexible						chromosome organization		ATP binding				0																		---	---	---	---
EMILIN2	84034	broad.mit.edu	37	18	2853305	2853305	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:2853305delC	uc002kln.2	+							NM_032048	NP_114437			elastin microfibril interfacer 2 precursor						cell adhesion	collagen	extracellular matrix constituent conferring elasticity|protein binding			skin(2)|ovary(1)	3				READ - Rectum adenocarcinoma(2;0.1)														---	---	---	---
Unknown	0	broad.mit.edu	37	18	3021371	3021371	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3021371delA								LPIN2 (9426 upstream) : MYOM1 (45435 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	3024531	3024531	+	IGR	DEL	G	-	-	rs59562795		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3024531delG								LPIN2 (12586 upstream) : MYOM1 (42275 downstream)																																			---	---	---	---
MYOM1	8736	broad.mit.edu	37	18	3120038	3120038	+	Intron	DEL	T	-	-	rs77973657		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3120038delT	uc002klp.2	-						MYOM1_uc002klq.2_Intron	NM_003803	NP_003794			myomesin 1 isoform a							striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5																		---	---	---	---
MYL12A	10627	broad.mit.edu	37	18	3248924	3248924	+	Intron	DEL	T	-	-	rs112622508		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3248924delT	uc002klr.2	+							NM_006471	NP_006462			myosin, light chain 12A, regulatory,							myosin complex	calcium ion binding|protein binding				0																		---	---	---	---
DLGAP1	9229	broad.mit.edu	37	18	3499572	3499572	+	Intron	DEL	A	-	-	rs111687370		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3499572delA	uc002kmf.2	-						DLGAP1_uc002kme.1_Intron|DLGAP1_uc010dkn.2_Intron|DLGAP1_uc010wyw.1_Intron|DLGAP1_uc010wyx.1_Intron|DLGAP1_uc010wyy.1_Intron	NM_004746	NP_004737			discs large homolog-associated protein 1 isoform						synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)																---	---	---	---
DLGAP1	9229	broad.mit.edu	37	18	3545284	3545284	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3545284delA	uc002kmf.2	-						DLGAP1_uc010wyz.1_Intron|DLGAP1_uc002kme.1_Intron|DLGAP1_uc010dkn.2_Intron|DLGAP1_uc010wyw.1_Intron|DLGAP1_uc010wyx.1_Intron|DLGAP1_uc010wyy.1_Intron|DLGAP1_uc002kmg.2_Intron	NM_004746	NP_004737			discs large homolog-associated protein 1 isoform						synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)																---	---	---	---
DLGAP1	9229	broad.mit.edu	37	18	3916923	3916923	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3916923delT	uc010wyz.1	-							NM_004746	NP_004737			discs large homolog-associated protein 1 isoform						synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)																---	---	---	---
DLGAP1	9229	broad.mit.edu	37	18	4004934	4004943	+	Intron	DEL	GTGTGTGTGC	-	-	rs3031739	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:4004934_4004943delGTGTGTGTGC	uc010wyz.1	-						uc002kmm.2_Intron	NM_004746	NP_004737			discs large homolog-associated protein 1 isoform						synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)																---	---	---	---
DLGAP1	9229	broad.mit.edu	37	18	4100715	4100715	+	Intron	DEL	C	-	-	rs78518516		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:4100715delC	uc010wyz.1	-						uc002kmm.2_Intron	NM_004746	NP_004737			discs large homolog-associated protein 1 isoform						synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)																---	---	---	---
DLGAP1	9229	broad.mit.edu	37	18	4366707	4366707	+	Intron	DEL	A	-	-	rs56398398	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:4366707delA	uc010wyz.1	-							NM_004746	NP_004737			discs large homolog-associated protein 1 isoform						synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)																---	---	---	---
Unknown	0	broad.mit.edu	37	18	4500711	4500712	+	IGR	DEL	TT	-	-	rs10579959		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:4500711_4500712delTT								DLGAP1 (45445 upstream) : LOC642597 (642960 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	4526696	4526696	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:4526696delT								DLGAP1 (71430 upstream) : LOC642597 (616976 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	4626033	4626034	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:4626033_4626034insT								DLGAP1 (170767 upstream) : LOC642597 (517638 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	4636078	4636078	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:4636078delA								DLGAP1 (180812 upstream) : LOC642597 (507594 downstream)																																			---	---	---	---
LOC642597	642597	broad.mit.edu	37	18	5196026	5196026	+	Intron	DEL	A	-	-	rs141856316		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:5196026delA	uc010wzc.1	-							NM_001145194	NP_001138666			hypothetical protein LOC642597												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	5219814	5219814	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:5219814delA								LOC642597 (22559 upstream) : C18orf18 (16910 downstream)																																			---	---	---	---
EPB41L3	23136	broad.mit.edu	37	18	5402284	5402284	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:5402284delT	uc002kmt.1	-						EPB41L3_uc010wzh.1_Intron|EPB41L3_uc002kmu.1_Intron|EPB41L3_uc010dkq.1_Intron|EPB41L3_uc002kms.1_Intron|EPB41L3_uc010wze.1_Intron|EPB41L3_uc010wzf.1_Intron|EPB41L3_uc010wzg.1_Intron|EPB41L3_uc010dkr.2_Intron	NM_012307	NP_036439			erythrocyte membrane protein band 4.1-like 3						cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	5674342	5674342	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:5674342delT								EPB41L3 (43700 upstream) : TMEM200C (215842 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	5725513	5725513	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:5725513delT								EPB41L3 (94871 upstream) : TMEM200C (164671 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	5826566	5826566	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:5826566delA								EPB41L3 (195924 upstream) : TMEM200C (63618 downstream)																																			---	---	---	---
L3MBTL4	91133	broad.mit.edu	37	18	6036004	6036004	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6036004delT	uc002kmz.3	-						L3MBTL4_uc010dkt.2_Intron|L3MBTL4_uc002kmy.3_Intron	NM_173464	NP_775735			l(3)mbt-like 4						chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)																---	---	---	---
L3MBTL4	91133	broad.mit.edu	37	18	6128177	6128177	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6128177delA	uc002kmz.3	-						L3MBTL4_uc010dkt.2_Intron|L3MBTL4_uc002kmy.3_Intron	NM_173464	NP_775735			l(3)mbt-like 4						chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)																---	---	---	---
L3MBTL4	91133	broad.mit.edu	37	18	6224930	6224931	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6224930_6224931delAA	uc002kmz.3	-						L3MBTL4_uc010dkt.2_Intron|L3MBTL4_uc002kmy.3_Intron	NM_173464	NP_775735			l(3)mbt-like 4						chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)																---	---	---	---
L3MBTL4	91133	broad.mit.edu	37	18	6322510	6322510	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6322510delA	uc002kmz.3	-						L3MBTL4_uc010dkt.2_Intron	NM_173464	NP_775735			l(3)mbt-like 4						chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)																---	---	---	---
L3MBTL4	91133	broad.mit.edu	37	18	6411037	6411037	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6411037delA	uc010dkt.2	-							NM_173464	NP_775735			l(3)mbt-like 4						chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)																---	---	---	---
Unknown	0	broad.mit.edu	37	18	6421793	6421794	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6421793_6421794insT								L3MBTL4 (6883 upstream) : ARHGAP28 (366699 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	6442100	6442100	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6442100delA								L3MBTL4 (27190 upstream) : ARHGAP28 (346393 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	6504470	6504470	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6504470delT								L3MBTL4 (89560 upstream) : ARHGAP28 (284023 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	6588937	6588937	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6588937delA								L3MBTL4 (174027 upstream) : ARHGAP28 (199556 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	6601839	6601839	+	IGR	DEL	T	-	-	rs77173370		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6601839delT								L3MBTL4 (186929 upstream) : ARHGAP28 (186654 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	6732500	6732500	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6732500delA								L3MBTL4 (317590 upstream) : ARHGAP28 (55993 downstream)																																			---	---	---	---
ARHGAP28	79822	broad.mit.edu	37	18	6804406	6804406	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6804406delT	uc002knc.2	+							NM_030672	NP_109597			Rho GTPase activating protein 28 isoform b						signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)																---	---	---	---
ARHGAP28	79822	broad.mit.edu	37	18	6868802	6868802	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6868802delT	uc010wzi.1	+						ARHGAP28_uc002knc.2_Intron|ARHGAP28_uc002knd.2_Intron|ARHGAP28_uc002kne.2_Intron|ARHGAP28_uc002knf.2_Intron					SubName: Full=Putative uncharacterized protein ARHGAP28;						signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)																---	---	---	---
ARHGAP28	79822	broad.mit.edu	37	18	6912351	6912351	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6912351delT	uc010wzi.1	+	17					ARHGAP28_uc002kne.2_3'UTR					SubName: Full=Putative uncharacterized protein ARHGAP28;						signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)																---	---	---	---
Unknown	0	broad.mit.edu	37	18	6922909	6922910	+	Intron	INS	-	C	C	rs72536179	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6922909_6922910insC	uc002kng.1	-											Homo sapiens cDNA FLJ38028 fis, clone CTONG2013222.																														---	---	---	---
LAMA1	284217	broad.mit.edu	37	18	7027570	7027570	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7027570delG	uc002knm.2	-						LAMA1_uc010wzj.1_Intron	NM_005559	NP_005550			laminin, alpha 1 precursor						axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
LAMA1	284217	broad.mit.edu	37	18	7067857	7067857	+	Intron	DEL	T	-	-	rs66727418		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7067857delT	uc002knm.2	-						LAMA1_uc010wzj.1_Intron	NM_005559	NP_005550			laminin, alpha 1 precursor						axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
Unknown	0	broad.mit.edu	37	18	7193047	7193049	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7193047_7193049delTTT								LAMA1 (75234 upstream) : LRRC30 (38088 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	7324330	7324330	+	IGR	DEL	T	-	-	rs113010206		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7324330delT								LRRC30 (92289 upstream) : PTPRM (242984 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	7391783	7391783	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7391783delT								LRRC30 (159742 upstream) : PTPRM (175531 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	7432594	7432594	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7432594delT								LRRC30 (200553 upstream) : PTPRM (134720 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	7486688	7486688	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7486688delT								LRRC30 (254647 upstream) : PTPRM (80626 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	7557194	7557194	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7557194delT								LRRC30 (325153 upstream) : PTPRM (10120 downstream)																																			---	---	---	---
PTPRM	5797	broad.mit.edu	37	18	7734927	7734928	+	Intron	DEL	CA	-	-	rs71857482		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7734927_7734928delCA	uc002knn.3	+						PTPRM_uc010dkv.2_Intron	NM_002845	NP_002836			protein tyrosine phosphatase, receptor type, M						homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)																---	---	---	---
PTPRM	5797	broad.mit.edu	37	18	7821419	7821419	+	Intron	DEL	T	-	-	rs72446003		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7821419delT	uc002knn.3	+						PTPRM_uc010dkv.2_Intron	NM_002845	NP_002836			protein tyrosine phosphatase, receptor type, M						homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)																---	---	---	---
PTPRM	5797	broad.mit.edu	37	18	8106322	8106322	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:8106322delT	uc002knn.3	+						PTPRM_uc010dkv.2_Intron|PTPRM_uc010wzl.1_Intron	NM_002845	NP_002836			protein tyrosine phosphatase, receptor type, M						homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)																---	---	---	---
KIAA0802	23255	broad.mit.edu	37	18	8792523	8792524	+	Intron	INS	-	T	T	rs146382074	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:8792523_8792524insT	uc002knr.2	+						KIAA0802_uc002knq.2_Intron|KIAA0802_uc002kns.2_Intron	NM_015210	NP_056025			hypothetical protein LOC23255												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	9058569	9058569	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:9058569delT								KIAA0802 (225794 upstream) : NDUFV2 (44106 downstream)																																			---	---	---	---
NDUFV2	4729	broad.mit.edu	37	18	9119825	9119825	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:9119825delT	uc002knu.2	+							NM_021074	NP_066552			NADH dehydrogenase ubiquinone flavoprotein 2						cardiac muscle tissue development|mitochondrial electron transport, NADH to ubiquinone|nervous system development|transport	mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|electron carrier activity|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity			ovary(1)	1					NADH(DB00157)													---	---	---	---
ANKRD12	23253	broad.mit.edu	37	18	9224240	9224241	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:9224240_9224241insA	uc002knv.2	+						ANKRD12_uc010wzn.1_Intron|ANKRD12_uc002knw.2_Intron|ANKRD12_uc002knx.2_Intron|ANKRD12_uc010dkx.1_Intron	NM_015208	NP_056023			ankyrin repeat domain 12 isoform 1							nucleus				ovary(2)|central_nervous_system(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	9287726	9287726	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:9287726delT								ANKRD12 (2520 upstream) : TWSG1 (47039 downstream)																																			---	---	---	---
TWSG1	57045	broad.mit.edu	37	18	9369625	9369625	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:9369625delT	uc002knz.2	+						TWSG1_uc002koa.2_Intron	NM_020648	NP_065699			twisted gastrulation precursor											ovary(1)|pancreas(1)	2																		---	---	---	---
TWSG1	57045	broad.mit.edu	37	18	9386577	9386577	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:9386577delA	uc002knz.2	+						TWSG1_uc002koa.2_Intron	NM_020648	NP_065699			twisted gastrulation precursor											ovary(1)|pancreas(1)	2																		---	---	---	---
RALBP1	10928	broad.mit.edu	37	18	9525311	9525314	+	Intron	DEL	GTGT	-	-	rs141735109		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:9525311_9525314delGTGT	uc002kob.2	+						RALBP1_uc002koc.2_Intron	NM_006788	NP_006779			ralA binding protein 1						chemotaxis|positive regulation of Cdc42 GTPase activity|small GTPase mediated signal transduction|transport	cytosol|membrane	ATPase activity, coupled to movement of substances|Rac GTPase activator activity|Rac GTPase binding|Ral GTPase binding			central_nervous_system(1)	1																		---	---	---	---
VAPA	9218	broad.mit.edu	37	18	9918519	9918519	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:9918519delA	uc002kok.2	+						VAPA_uc002koj.2_Intron	NM_194434	NP_919415			vesicle-associated membrane protein-associated						cell death|cellular membrane fusion|neuron projection development|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein localization in endoplasmic reticulum|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane|vesicle	protein heterodimerization activity|signal transducer activity|structural molecule activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	10091693	10091693	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10091693delT								VAPA (131676 upstream) : APCDD1 (362932 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	10309551	10309552	+	IGR	INS	-	G	G	rs148394846	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10309551_10309552insG								VAPA (349534 upstream) : APCDD1 (145073 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	10338492	10338492	+	IGR	DEL	T	-	-	rs10564472		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10338492delT								VAPA (378475 upstream) : APCDD1 (116133 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	10387384	10387384	+	IGR	DEL	A	-	-	rs71834875		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10387384delA								VAPA (427367 upstream) : APCDD1 (67241 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	10393255	10393255	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10393255delA								VAPA (433238 upstream) : APCDD1 (61370 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	10399487	10399487	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10399487delT								VAPA (439470 upstream) : APCDD1 (55138 downstream)																																			---	---	---	---
NAPG	8774	broad.mit.edu	37	18	10546294	10546294	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10546294delT	uc002kon.2	+						NAPG_uc010wzr.1_Intron|NAPG_uc002koo.2_Intron|NAPG_uc002kop.2_Intron	NM_003826	NP_003817			N-ethylmaleimide-sensitive factor attachment						cellular membrane fusion|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein complex assembly|protein stabilization	membrane|membrane fraction|mitochondrion	protein binding				0																		---	---	---	---
FAM38B	63895	broad.mit.edu	37	18	10759930	10759931	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10759930_10759931delAA	uc002kos.1	-						FAM38B_uc002kou.1_Intron					SubName: Full=cDNA FLJ45725 fis, clone HCHON2009766; Flags: Fragment;							integral to membrane	ion channel activity			ovary(1)	1																		---	---	---	---
FAM38B	63895	broad.mit.edu	37	18	10820339	10820339	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10820339delT	uc002kow.1	-											RecName: Full=Uncharacterized protein C18orf58;							integral to membrane	ion channel activity			ovary(1)	1																		---	---	---	---
FAM38B	63895	broad.mit.edu	37	18	10863279	10863279	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10863279delA	uc002kow.1	-											RecName: Full=Uncharacterized protein C18orf58;							integral to membrane	ion channel activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	10933209	10933209	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10933209delA								FAM38B (231230 upstream) : GNAL (755927 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	10947337	10947337	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10947337delA								FAM38B (245358 upstream) : GNAL (741799 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	11053853	11053854	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11053853_11053854delAA								FAM38B (351874 upstream) : GNAL (635282 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	11100603	11100603	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11100603delT								FAM38B (398624 upstream) : GNAL (588533 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	11143508	11143508	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11143508delT								FAM38B (441529 upstream) : GNAL (545628 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	11198033	11198033	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11198033delT								FAM38B (496054 upstream) : GNAL (491103 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	11283279	11283279	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11283279delC								FAM38B (581300 upstream) : GNAL (405857 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	11355000	11355000	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11355000delA								FAM38B (653021 upstream) : GNAL (334136 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	11405506	11405507	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11405506_11405507delTT								FAM38B (703527 upstream) : GNAL (283629 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	11434871	11434871	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11434871delA								FAM38B (732892 upstream) : GNAL (254265 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	11484906	11484906	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11484906delC								FAM38B (782927 upstream) : GNAL (204230 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	11552918	11552930	+	IGR	DEL	CAGAAGCGGCACC	-	-	rs61271216		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11552918_11552930delCAGAAGCGGCACC								FAM38B (850939 upstream) : GNAL (136206 downstream)																																			---	---	---	---
GNAL	2774	broad.mit.edu	37	18	11857357	11857357	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11857357delA	uc010dkz.2	+						GNAL_uc002kqc.2_Intron|GNAL_uc002kqd.2_Intron|GNAL_uc010wzt.1_5'Flank	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																		---	---	---	---
MPPE1	65258	broad.mit.edu	37	18	11906333	11906333	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11906333delT	uc002kqf.2	-						MPPE1_uc002kqn.2_Intron|MPPE1_uc002kqg.2_Intron|MPPE1_uc002kqh.2_Intron|MPPE1_uc002kqi.2_Intron|MPPE1_uc002kqj.2_Intron|MPPE1_uc002kqk.2_Intron|MPPE1_uc002kql.2_Intron|MPPE1_uc002kqm.2_Intron|MPPE1_uc010dla.1_Intron	NM_023075	NP_075563			metallophosphoesterase 1 precursor						ER to Golgi vesicle-mediated transport|GPI anchor biosynthetic process	cis-Golgi network|endoplasmic reticulum exit site|ER-Golgi intermediate compartment membrane|integral to membrane	GPI anchor binding|manganese ion binding|phosphoric diester hydrolase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	11963556	11963556	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11963556delT								MPPE1 (54915 upstream) : IMPA2 (17501 downstream)																																			---	---	---	---
SPIRE1	56907	broad.mit.edu	37	18	12461481	12461482	+	Intron	DEL	AT	-	-	rs5823219		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:12461481_12461482delAT	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																		---	---	---	---
CEP76	79959	broad.mit.edu	37	18	12699735	12699735	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:12699735delA	uc002kri.2	-						PSMG2_uc002krg.2_Intron|CEP76_uc002krh.3_Intron|CEP76_uc010wzz.1_Intron|CEP76_uc010xaa.1_Intron|CEP76_uc010xab.1_Intron	NM_024899	NP_079175			centrosomal protein 76kDa						G2/M transition of mitotic cell cycle|regulation of centriole replication	centriole|cytosol	protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	12728035	12728035	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:12728035delT								PSMG2 (2298 upstream) : PTPN2 (57446 downstream)																																			---	---	---	---
PTPN2	5771	broad.mit.edu	37	18	12810364	12810364	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:12810364delA	uc002krp.2	-						PTPN2_uc002krl.2_Intron|PTPN2_uc002krn.2_Intron|PTPN2_uc002kro.2_Intron|PTPN2_uc002krm.2_Intron	NM_002828	NP_002819			protein tyrosine phosphatase, non-receptor type						interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway	endoplasmic reticulum|nucleoplasm	protein binding			skin(2)	2		Lung NSC(161;8.94e-06)																---	---	---	---
PTPN2	5771	broad.mit.edu	37	18	12825968	12825968	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:12825968delT	uc002krp.2	-						PTPN2_uc002krl.2_Intron|PTPN2_uc002krn.2_Intron|PTPN2_uc002kro.2_Intron|PTPN2_uc002krm.2_Intron	NM_002828	NP_002819			protein tyrosine phosphatase, non-receptor type						interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway	endoplasmic reticulum|nucleoplasm	protein binding			skin(2)	2		Lung NSC(161;8.94e-06)																---	---	---	---
PTPN2	5771	broad.mit.edu	37	18	12881434	12881434	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:12881434delA	uc002krp.2	-						PTPN2_uc002krl.2_Intron|PTPN2_uc002krn.2_Intron|PTPN2_uc002kro.2_Intron|PTPN2_uc002krm.2_Intron	NM_002828	NP_002819			protein tyrosine phosphatase, non-receptor type						interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway	endoplasmic reticulum|nucleoplasm	protein binding			skin(2)	2		Lung NSC(161;8.94e-06)																---	---	---	---
SEH1L	81929	broad.mit.edu	37	18	12957629	12957629	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:12957629delT	uc002krr.2	+						SEH1L_uc002krq.2_Intron	NM_031216	NP_112493			sec13-like protein isoform 2						attachment of spindle microtubules to kinetochore involved in mitotic sister chromatid segregation|carbohydrate metabolic process|cell division|glucose transport|mitotic metaphase plate congression|mitotic prometaphase|mRNA transport|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex					0																		---	---	---	---
SEH1L	81929	broad.mit.edu	37	18	12970595	12970595	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:12970595delT	uc002krr.2	+						SEH1L_uc002krq.2_Intron	NM_031216	NP_112493			sec13-like protein isoform 2						attachment of spindle microtubules to kinetochore involved in mitotic sister chromatid segregation|carbohydrate metabolic process|cell division|glucose transport|mitotic metaphase plate congression|mitotic prometaphase|mRNA transport|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex					0																		---	---	---	---
CEP192	55125	broad.mit.edu	37	18	13087510	13087510	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13087510delT	uc010xac.1	+						CEP192_uc010dlf.1_Intron|CEP192_uc010xad.1_Intron|CEP192_uc002kru.2_Intron|CEP192_uc002krv.2_Intron|CEP192_uc002krw.2_Intron|CEP192_uc002krx.2_Intron|CEP192_uc002kry.2_5'Flank	NM_032142	NP_115518			centrosomal protein 192kDa											ovary(4)|pancreas(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	13125830	13125830	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13125830delT								CEP192 (781 upstream) : C18orf1 (92956 downstream)																																			---	---	---	---
C18orf1	753	broad.mit.edu	37	18	13636423	13636425	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13636423_13636425delAAA	uc002ksa.2	+						C18orf1_uc002ksb.2_Intron|C18orf1_uc002kse.2_Intron|C18orf1_uc002ksf.2_Intron|C18orf1_uc002ksg.1_Intron|C18orf1_uc002ksh.1_Intron|C18orf1_uc002ksi.1_Intron	NM_181481	NP_852146			hypothetical protein LOC753 isoform alpha 1							integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)														---	---	---	---
Unknown	0	broad.mit.edu	37	18	13799001	13799004	+	IGR	DEL	TCTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13799001_13799004delTCTT								RNMT (34447 upstream) : MC5R (26761 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	13850856	13850859	+	IGR	DEL	GGGA	-	-	rs113179855		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13850856_13850859delGGGA								MC5R (24116 upstream) : MC2R (31184 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	13881682	13881682	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13881682delA								MC5R (54942 upstream) : MC2R (361 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	14213076	14213076	+	IGR	DEL	C	-	-	rs75328904		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:14213076delC								ZNF519 (80647 upstream) : LOC284233 (124346 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	14649268	14649268	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:14649268delT								POTEC (105669 upstream) : ANKRD30B (98971 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	14708065	14708066	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:14708065_14708066delTT								POTEC (164466 upstream) : ANKRD30B (40173 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	14853911	14853912	+	IGR	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:14853911_14853912insC								ANKRD30B (1174 upstream) : LOC644669 (459643 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	15182294	15182294	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:15182294delC								ANKRD30B (329557 upstream) : LOC644669 (131261 downstream)																																			---	---	---	---
ROCK1	6093	broad.mit.edu	37	18	18586814	18586815	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:18586814_18586815insT	uc002kte.2	-							NM_005406	NP_005397			Rho-associated, coiled-coil containing protein						actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)																	---	---	---	---
ROCK1	6093	broad.mit.edu	37	18	18662072	18662073	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:18662072_18662073delTT	uc002kte.2	-							NM_005406	NP_005397			Rho-associated, coiled-coil containing protein						actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)																	---	---	---	---
Unknown	0	broad.mit.edu	37	18	18715318	18715318	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:18715318delA								ROCK1 (23506 upstream) : GREB1L (106885 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	18744348	18744348	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:18744348delT								ROCK1 (52536 upstream) : GREB1L (77855 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	18755201	18755201	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:18755201delA								ROCK1 (63389 upstream) : GREB1L (67002 downstream)																																			---	---	---	---
GREB1L	80000	broad.mit.edu	37	18	19030603	19030603	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19030603delT	uc010xam.1	+						GREB1L_uc002ktf.1_Intron|GREB1L_uc010dlp.1_Intron|GREB1L_uc010xan.1_5'Flank|GREB1L_uc010dlr.1_5'Flank	NM_001142966	NP_001136438			growth regulation by estrogen in breast							integral to membrane					0																		---	---	---	---
GREB1L	80000	broad.mit.edu	37	18	19056542	19056542	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19056542delT	uc010xam.1	+						GREB1L_uc010dlp.1_Intron|GREB1L_uc010xan.1_Intron|GREB1L_uc010dlr.1_Intron	NM_001142966	NP_001136438			growth regulation by estrogen in breast							integral to membrane					0																		---	---	---	---
GREB1L	80000	broad.mit.edu	37	18	19067972	19067972	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19067972delA	uc010xam.1	+						GREB1L_uc010dlp.1_Intron|GREB1L_uc010xan.1_Intron|GREB1L_uc010dlr.1_Intron	NM_001142966	NP_001136438			growth regulation by estrogen in breast							integral to membrane					0																		---	---	---	---
ESCO1	114799	broad.mit.edu	37	18	19144359	19144360	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19144359_19144360delTT	uc002kth.1	-						ESCO1_uc002kti.1_Intron	NM_052911	NP_443143			establishment of cohesion 1 homolog 1						cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding				0																		---	---	---	---
SNRPD1	6632	broad.mit.edu	37	18	19202868	19202868	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19202868delT	uc002ktj.1	+							NM_006938	NP_008869			small nuclear ribonucleoprotein D1 polypeptide						ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding|RNA binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	19477287	19477287	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19477287delT								MIB1 (26377 upstream) : GATA6 (272129 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	19510578	19510578	+	IGR	DEL	T	-	-	rs79866274		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19510578delT								MIB1 (59668 upstream) : GATA6 (238838 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	19525426	19525431	+	IGR	DEL	TTTTTT	-	-	rs148657907		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19525426_19525431delTTTTTT								MIB1 (74516 upstream) : GATA6 (223985 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	19591377	19591377	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19591377delT								MIB1 (140467 upstream) : GATA6 (158039 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	19636499	19636500	+	IGR	DEL	TT	-	-	rs66480115		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19636499_19636500delTT								MIB1 (185589 upstream) : GATA6 (112916 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	19694762	19694763	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19694762_19694763insT								MIB1 (243852 upstream) : GATA6 (54653 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	19740649	19740649	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19740649delA								MIB1 (289739 upstream) : GATA6 (8767 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	19787433	19787433	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19787433delA								GATA6 (5206 upstream) : CTAGE1 (206131 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	20144546	20144546	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:20144546delT								CTAGE1 (146668 upstream) : RBBP8 (368749 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	20171815	20171815	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:20171815delT								CTAGE1 (173937 upstream) : RBBP8 (341480 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	20365886	20365887	+	IGR	DEL	AC	-	-	rs34864836		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:20365886_20365887delAC								CTAGE1 (368008 upstream) : RBBP8 (147408 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	20609260	20609262	+	IGR	DEL	CCT	-	-	rs76773900		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:20609260_20609262delCCT								RBBP8 (2815 upstream) : CABLES1 (105266 downstream)																																			---	---	---	---
CABLES1	91768	broad.mit.edu	37	18	20780232	20780233	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:20780232_20780233delTT	uc002kuc.2	+						C18orf45_uc010xaq.1_Intron|CABLES1_uc002kub.2_Intron|CABLES1_uc002kud.2_Intron	NM_001100619	NP_001094089			Cdk5 and Abl enzyme substrate 1 isoform 2						blood coagulation|cell cycle|cell division|regulation of cell cycle|regulation of cell division	cytosol|nucleus	cyclin-dependent protein kinase regulator activity|protein binding			breast(1)	1	all_cancers(21;0.000102)|all_epithelial(16;2.48e-06)|Lung NSC(20;0.00696)|all_lung(20;0.0197)|Colorectal(14;0.0202)|Ovarian(20;0.127)																	---	---	---	---
C18orf45	85019	broad.mit.edu	37	18	20889480	20889481	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)																	---	---	---	---
RIOK3	8780	broad.mit.edu	37	18	21035211	21035211	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21035211delT	uc002kui.3	+						RIOK3_uc010dls.2_Intron|RIOK3_uc010xas.1_Intron	NM_003831	NP_003822			sudD suppressor of bimD6 homolog						chromosome segregation		ATP binding|protein binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(21;0.000106)|all_epithelial(16;6.74e-07)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0202)|Ovarian(20;0.127)																	---	---	---	---
Unknown	0	broad.mit.edu	37	18	21079249	21079249	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21079249delA								RIOK3 (16152 upstream) : C18orf8 (4213 downstream)																																			---	---	---	---
NPC1	4864	broad.mit.edu	37	18	21125210	21125211	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21125210_21125211insT	uc002kum.3	-						NPC1_uc010xaz.1_Intron|NPC1_uc010xba.1_Intron	NM_000271	NP_000262			Niemann-Pick disease, type C1 precursor						autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)																	---	---	---	---
LAMA3	3909	broad.mit.edu	37	18	21394232	21394232	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21394232delT	uc002kuq.2	+						LAMA3_uc002kur.2_Intron	NM_198129	NP_937762			laminin alpha 3 subunit isoform 1						cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
LAMA3	3909	broad.mit.edu	37	18	21479058	21479058	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21479058delT	uc002kuq.2	+						LAMA3_uc002kur.2_Intron|LAMA3_uc002kus.3_Intron|LAMA3_uc002kut.3_Intron	NM_198129	NP_937762			laminin alpha 3 subunit isoform 1						cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
LAMA3	3909	broad.mit.edu	37	18	21528539	21528539	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21528539delT	uc002kuq.2	+						LAMA3_uc002kur.2_Intron|LAMA3_uc002kus.3_Intron|LAMA3_uc002kut.3_Intron	NM_198129	NP_937762			laminin alpha 3 subunit isoform 1						cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
Unknown	0	broad.mit.edu	37	18	21552738	21552738	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21552738delT								LAMA3 (17711 upstream) : TTC39C (19999 downstream)																																			---	---	---	---
TTC39C	125488	broad.mit.edu	37	18	21592133	21592134	+	5'Flank	INS	-	CCATTTTGAA	CCATTTTGAA	rs146445081	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21592133_21592134insCCATTTTGAA	uc002kuw.2	+						TTC39C_uc002kuu.2_Intron|TTC39C_uc002kuv.2_5'Flank	NM_001135993	NP_001129465			tetratricopeptide repeat domain 39C isoform 1								binding			ovary(1)	1																		---	---	---	---
OSBPL1A	114876	broad.mit.edu	37	18	21748799	21748799	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21748799delA	uc002kve.2	-						OSBPL1A_uc002kvd.2_Intron|OSBPL1A_uc010xbc.1_Intron	NM_080597	NP_542164			oxysterol-binding protein-like 1A isoform B						cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)																	---	---	---	---
OSBPL1A	114876	broad.mit.edu	37	18	21790425	21790425	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21790425delA	uc002kve.2	-						OSBPL1A_uc002kvd.2_Intron|OSBPL1A_uc010xbc.1_Intron|OSBPL1A_uc002kvf.3_Intron	NM_080597	NP_542164			oxysterol-binding protein-like 1A isoform B						cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)																	---	---	---	---
IMPACT	55364	broad.mit.edu	37	18	22020395	22020395	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22020395delT	uc002kvh.3	+						IMPACT_uc002kvg.3_Intron	NM_018439	NP_060909			Impact homolog												0	all_cancers(21;0.00018)|all_epithelial(16;1.5e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)																	---	---	---	---
HRH4	59340	broad.mit.edu	37	18	22050893	22050894	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22050893_22050894delTT	uc002kvi.2	+						HRH4_uc010xbd.1_Intron|HRH4_uc010dlx.2_Intron	NM_021624	NP_067637			histamine H4 receptor isoform 1							integral to membrane|plasma membrane	histamine receptor activity			ovary(2)	2	all_cancers(21;0.000545)|all_epithelial(16;6.56e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)				Clozapine(DB00363)													---	---	---	---
Unknown	0	broad.mit.edu	37	18	22143229	22143229	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22143229delT								HRH4 (83309 upstream) : ZNF521 (498659 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	22554915	22554916	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22554915_22554916delAG								HRH4 (494995 upstream) : ZNF521 (86972 downstream)																																			---	---	---	---
ZNF521	25925	broad.mit.edu	37	18	22723127	22723127	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22723127delT	uc002kvk.2	-						ZNF521_uc010xbe.1_Intron|ZNF521_uc010dly.2_Intron|ZNF521_uc002kvl.2_Intron	NM_015461	NP_056276			zinc finger protein 521						cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)							T	PAX5	ALL								---	---	---	---
Unknown	0	broad.mit.edu	37	18	22945148	22945148	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22945148delA								ZNF521 (12934 upstream) : SS18 (651071 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	23044683	23044683	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:23044683delA								ZNF521 (112469 upstream) : SS18 (551536 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	23050965	23050965	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:23050965delT								ZNF521 (118751 upstream) : SS18 (545254 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	23537128	23537128	+	IGR	DEL	A	-	-	rs35350066		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:23537128delA								ZNF521 (604914 upstream) : SS18 (59091 downstream)																																			---	---	---	---
SS18	6760	broad.mit.edu	37	18	23651929	23651929	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:23651929delA	uc002kvm.2	-						SS18_uc002kvn.2_Intron|SS18_uc010xbf.1_Intron|SS18_uc010xbg.1_Intron|SS18_uc010xbh.1_Intron|SS18_uc010xbi.1_Intron|SS18_uc010dlz.1_Intron	NM_001007559	NP_001007560			synovial sarcoma translocation, chromosome 18						positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	ligand-dependent nuclear receptor transcription coactivator activity|protein binding		SS18/SSX1(1169)|SS18/SSX2(702)|SS18/SSX4(12)	soft_tissue(1883)|ovary(1)	1884	all_cancers(21;0.000194)|Lung NSC(5;0.000413)|all_lung(6;0.00118)|Ovarian(20;0.124)							T	SSX1| SSX2	synovial sarcoma								---	---	---	---
TAF4B	6875	broad.mit.edu	37	18	23880822	23880822	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:23880822delT	uc002kvu.3	+						TAF4B_uc002kvs.3_Intron|TAF4B_uc002kvt.3_Intron	NM_005640	NP_005631			TAF4b RNA polymerase II, TATA box binding						transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)															---	---	---	---
TAF4B	6875	broad.mit.edu	37	18	23903864	23903864	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:23903864delT	uc002kvu.3	+						TAF4B_uc002kvs.3_Intron|TAF4B_uc002kvt.3_Intron	NM_005640	NP_005631			TAF4b RNA polymerase II, TATA box binding						transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)															---	---	---	---
TAF4B	6875	broad.mit.edu	37	18	23918250	23918250	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:23918250delA	uc002kvu.3	+						TAF4B_uc002kvs.3_Intron|TAF4B_uc002kvt.3_Intron	NM_005640	NP_005631			TAF4b RNA polymerase II, TATA box binding						transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)															---	---	---	---
KCTD1	284252	broad.mit.edu	37	18	24091903	24091903	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:24091903delC	uc002kvw.2	-						KCTD1_uc010xbj.1_Intron|KCTD1_uc010xbk.1_Intron	NM_001136205	NP_001129677			potassium channel tetramerisation domain						negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|voltage-gated potassium channel complex	transcription corepressor activity|transcription factor binding|voltage-gated potassium channel activity			ovary(1)	1	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)															---	---	---	---
KCTD1	284252	broad.mit.edu	37	18	24110759	24110759	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:24110759delT	uc002kvw.2	-						KCTD1_uc010xbj.1_Intron|KCTD1_uc010xbk.1_Intron	NM_001136205	NP_001129677			potassium channel tetramerisation domain						negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|voltage-gated potassium channel complex	transcription corepressor activity|transcription factor binding|voltage-gated potassium channel activity			ovary(1)	1	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)															---	---	---	---
KCTD1	284252	broad.mit.edu	37	18	24130299	24130299	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:24130299delT	uc002kvw.2	-						KCTD1_uc010xbj.1_5'Flank|KCTD1_uc010xbk.1_Intron	NM_001136205	NP_001129677			potassium channel tetramerisation domain						negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|voltage-gated potassium channel complex	transcription corepressor activity|transcription factor binding|voltage-gated potassium channel activity			ovary(1)	1	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)															---	---	---	---
LOC728606	728606	broad.mit.edu	37	18	24282197	24282197	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:24282197delG	uc010xbl.1	-							NR_024259				Homo sapiens cDNA FLJ32243 fis, clone PROST1000039.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	24328422	24328423	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:24328422_24328423insT								LOC728606 (44820 upstream) : AQP4 (103587 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	24999130	24999130	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:24999130delT	uc002kwf.1	-											Homo sapiens cDNA FLJ45994 fis, clone SKMUS2009557.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	25072342	25072342	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:25072342delT	uc002kwf.1	-											Homo sapiens cDNA FLJ45994 fis, clone SKMUS2009557.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	25147040	25147040	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:25147040delA	uc002kwf.1	-											Homo sapiens cDNA FLJ45994 fis, clone SKMUS2009557.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	25357932	25357932	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:25357932delA								C18orf16 (587282 upstream) : CDH2 (172998 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	25524880	25524880	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:25524880delA								C18orf16 (754230 upstream) : CDH2 (6050 downstream)																																			---	---	---	---
CDH2	1000	broad.mit.edu	37	18	25546844	25546844	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:25546844delA	uc002kwg.2	-						CDH2_uc010xbn.1_Intron	NM_001792	NP_001783			cadherin 2, type 1 preproprotein						adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4																		---	---	---	---
CDH2	1000	broad.mit.edu	37	18	25557832	25557832	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:25557832delA	uc002kwg.2	-						CDH2_uc010xbn.1_Intron	NM_001792	NP_001783			cadherin 2, type 1 preproprotein						adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4																		---	---	---	---
CDH2	1000	broad.mit.edu	37	18	25607279	25607279	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:25607279delA	uc002kwg.2	-						CDH2_uc010xbn.1_Intron	NM_001792	NP_001783			cadherin 2, type 1 preproprotein						adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4																		---	---	---	---
CDH2	1000	broad.mit.edu	37	18	25698016	25698016	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:25698016delC	uc002kwg.2	-							NM_001792	NP_001783			cadherin 2, type 1 preproprotein						adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	25783550	25783550	+	IGR	DEL	T	-	-	rs113537357		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:25783550delT								CDH2 (26105 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	25839009	25839009	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:25839009delT								CDH2 (81564 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	25952097	25952098	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:25952097_25952098delAC								CDH2 (194652 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	25968847	25968847	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:25968847delA								CDH2 (211402 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	26008046	26008046	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:26008046delT								CDH2 (250601 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	26298567	26298567	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:26298567delA								CDH2 (541122 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	26547068	26547068	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:26547068delA								CDH2 (789623 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	26657993	26657993	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:26657993delT								CDH2 (900548 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	26758848	26758848	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:26758848delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	27171863	27171863	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:27171863delA								None (None upstream) : MIR302F (707013 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	27331385	27331386	+	IGR	DEL	CA	-	-	rs11083364	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:27331385_27331386delCA								None (None upstream) : MIR302F (547490 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	27342661	27342662	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:27342661_27342662delTT								None (None upstream) : MIR302F (536214 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	27747269	27747270	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:27747269_27747270insA								None (None upstream) : MIR302F (131606 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	27836957	27836958	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:27836957_27836958insT								None (None upstream) : MIR302F (41918 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	27847529	27847529	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:27847529delA								None (None upstream) : MIR302F (31347 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	28370910	28370910	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:28370910delA								MIR302F (491984 upstream) : DSC3 (199143 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	28377583	28377583	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:28377583delT								MIR302F (498657 upstream) : DSC3 (192470 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	28408041	28408041	+	IGR	DEL	T	-	-	rs149649870		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:28408041delT								MIR302F (529115 upstream) : DSC3 (162012 downstream)																																			---	---	---	---
DSC2	1824	broad.mit.edu	37	18	28654582	28654583	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:28654582_28654583delAA	uc002kwl.3	-						DSC2_uc002kwk.3_Intron	NM_024422	NP_077740			desmocollin 2 isoform Dsc2a preproprotein						homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)															---	---	---	---
Unknown	0	broad.mit.edu	37	18	28845156	28845156	+	IGR	DEL	A	-	-	rs78784951		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:28845156delA								DSC1 (102337 upstream) : DSG1 (52896 downstream)																																			---	---	---	---
TTR	7276	broad.mit.edu	37	18	29177006	29177006	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29177006delT	uc002kwx.3	+							NM_000371	NP_000362			transthyretin precursor						transport	cytoplasm	hormone activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(10;0.00523)		Diclofenac(DB00586)|Diethylstilbestrol(DB00255)|Diflunisal(DB00861)|Dimethyl sulfoxide(DB01093)|Levothyroxine(DB00451)|Liothyronine(DB00279)													---	---	---	---
Unknown	0	broad.mit.edu	37	18	29322339	29322339	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29322339delA								B4GALT6 (57653 upstream) : MCART2 (17320 downstream)																																			---	---	---	---
KIAA1012	22878	broad.mit.edu	37	18	29432841	29432842	+	Intron	DEL	TA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29432841_29432842delTA	uc002kxc.3	-						KIAA1012_uc002kxb.3_Intron|KIAA1012_uc002kxd.3_Intron	NM_014939	NP_055754			hypothetical protein LOC22878						ER to Golgi vesicle-mediated transport	cis-Golgi network					0																		---	---	---	---
KIAA1012	22878	broad.mit.edu	37	18	29514147	29514148	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29514147_29514148delAA	uc002kxc.3	-						KIAA1012_uc002kxb.3_Intron|KIAA1012_uc002kxd.3_Intron|KIAA1012_uc002kxe.2_Intron	NM_014939	NP_055754			hypothetical protein LOC22878						ER to Golgi vesicle-mediated transport	cis-Golgi network					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	29726071	29726071	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29726071delT								RNF138 (14548 upstream) : MEP1B (43916 downstream)																																			---	---	---	---
MEP1B	4225	broad.mit.edu	37	18	29774790	29774790	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29774790delT	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	30131953	30131954	+	IGR	DEL	TT	-	-	rs35141102		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30131953_30131954delTT								WBP11P1 (37357 upstream) : KLHL14 (120680 downstream)																																			---	---	---	---
KLHL14	57565	broad.mit.edu	37	18	30302612	30302613	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30302612_30302613insA	uc002kxm.1	-						KLHL14_uc010dmd.1_Intron	NM_020805	NP_065856			kelch-like 14							cytosol|endoplasmic reticulum membrane				ovary(1)	1																		---	---	---	---
KLHL14	57565	broad.mit.edu	37	18	30353167	30353167	+	5'Flank	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30353167delC	uc002kxm.1	-							NM_020805	NP_065856			kelch-like 14							cytosol|endoplasmic reticulum membrane				ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	30457963	30457963	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30457963delT								KLHL14 (104989 upstream) : C18orf34 (59403 downstream)																																			---	---	---	---
C18orf34	374864	broad.mit.edu	37	18	30535311	30535311	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30535311delT	uc002kxn.2	-						C18orf34_uc010xbq.1_Intron|C18orf34_uc010dme.1_Intron|C18orf34_uc010xbr.1_Intron|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Intron	NM_001105528	NP_001098998			hypothetical protein LOC374864 isoform 1											ovary(1)	1																		---	---	---	---
C18orf34	374864	broad.mit.edu	37	18	30583186	30583186	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30583186delA	uc002kxn.2	-						C18orf34_uc010xbq.1_Intron|C18orf34_uc010dme.1_Intron|C18orf34_uc010xbr.1_Intron|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Intron|C18orf34_uc002kxp.2_Intron	NM_001105528	NP_001098998			hypothetical protein LOC374864 isoform 1											ovary(1)	1																		---	---	---	---
C18orf34	374864	broad.mit.edu	37	18	30999879	30999879	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30999879delT	uc002kxn.2	-						C18orf34_uc010xbr.1_Intron|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Intron|C18orf34_uc002kxp.2_Intron	NM_001105528	NP_001098998			hypothetical protein LOC374864 isoform 1											ovary(1)	1																		---	---	---	---
ASXL3	80816	broad.mit.edu	37	18	31222350	31222351	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:31222350_31222351insT	uc010dmg.1	+						ASXL3_uc002kxq.2_Intron	NM_030632	NP_085135			additional sex combs like 3						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3																		---	---	---	---
NOL4	8715	broad.mit.edu	37	18	31615585	31615586	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:31615585_31615586delAA	uc010dmi.2	-						NOL4_uc010xbs.1_Intron|NOL4_uc002kxr.3_Intron|NOL4_uc010xbt.1_Intron|NOL4_uc010dmh.2_Intron|NOL4_uc010xbu.1_Intron|NOL4_uc002kxt.3_Intron|NOL4_uc010xbw.1_Intron	NM_003787	NP_003778			nucleolar protein 4							nucleolus	RNA binding			ovary(3)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	32021363	32021363	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32021363delG								NOL4 (217917 upstream) : DTNA (51891 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	32034924	32034924	+	IGR	DEL	A	-	-	rs112336164		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32034924delA								NOL4 (231478 upstream) : DTNA (38330 downstream)																																			---	---	---	---
DTNA	1837	broad.mit.edu	37	18	32207900	32207900	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32207900delT	uc010dmj.2	+						DTNA_uc002kxu.2_Intron|DTNA_uc010xbx.1_Intron|DTNA_uc002kxv.3_Intron|DTNA_uc002kxw.2_Intron|DTNA_uc002kxx.2_Intron|DTNA_uc002kxz.2_Intron|DTNA_uc002kxy.2_Intron	NM_032975	NP_116757			dystrobrevin alpha isoform 2						neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0																		---	---	---	---
DTNA	1837	broad.mit.edu	37	18	32210114	32210114	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32210114delT	uc010dmj.2	+						DTNA_uc002kxu.2_Intron|DTNA_uc010xbx.1_Intron|DTNA_uc002kxv.3_Intron|DTNA_uc002kxw.2_Intron|DTNA_uc002kxx.2_Intron|DTNA_uc002kxz.2_Intron|DTNA_uc002kxy.2_Intron	NM_032975	NP_116757			dystrobrevin alpha isoform 2						neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0																		---	---	---	---
DTNA	1837	broad.mit.edu	37	18	32230014	32230015	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32230014_32230015delAA	uc010dmj.2	+						DTNA_uc002kxu.2_Intron|DTNA_uc010xbx.1_Intron|DTNA_uc002kxv.3_Intron|DTNA_uc002kxw.2_Intron|DTNA_uc002kxx.2_Intron|DTNA_uc002kxz.2_Intron|DTNA_uc002kxy.2_Intron	NM_032975	NP_116757			dystrobrevin alpha isoform 2						neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0																		---	---	---	---
DTNA	1837	broad.mit.edu	37	18	32320768	32320769	+	Intron	INS	-	A	A	rs72390379		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32320768_32320769insA	uc010dmj.2	+						DTNA_uc002kxu.2_Intron|DTNA_uc010xbx.1_Intron|DTNA_uc002kxv.3_Intron|DTNA_uc002kxw.2_Intron|DTNA_uc002kxx.2_Intron|DTNA_uc002kxz.2_Intron|DTNA_uc002kxy.2_Intron|DTNA_uc010dmk.1_Intron|DTNA_uc010dml.2_Intron|DTNA_uc002kyb.3_Intron	NM_032975	NP_116757			dystrobrevin alpha isoform 2						neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0																		---	---	---	---
DTNA	1837	broad.mit.edu	37	18	32462341	32462341	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32462341delT	uc010dmn.1	+						DTNA_uc002kxw.2_Intron|DTNA_uc010dmj.2_Intron|DTNA_uc002kxz.2_Intron|DTNA_uc002kxy.2_Intron|DTNA_uc010xby.1_Intron|DTNA_uc010xbz.1_Intron|DTNA_uc010xca.1_Intron|DTNA_uc002kye.2_Intron	NM_001390	NP_001381			dystrobrevin alpha isoform 1						neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0																		---	---	---	---
DTNA	1837	broad.mit.edu	37	18	32467966	32467966	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32467966delA	uc010dmn.1	+	22					DTNA_uc002kxw.2_3'UTR|DTNA_uc010dmj.2_Intron|DTNA_uc002kxz.2_3'UTR|DTNA_uc002kxy.2_3'UTR|DTNA_uc010xby.1_3'UTR|DTNA_uc010xbz.1_3'UTR|DTNA_uc010xca.1_3'UTR|DTNA_uc002kye.2_3'UTR	NM_001390	NP_001381			dystrobrevin alpha isoform 1						neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	32497037	32497037	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32497037delA								DTNA (25229 upstream) : MAPRE2 (59855 downstream)																																			---	---	---	---
MAPRE2	10982	broad.mit.edu	37	18	32687977	32687977	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32687977delA	uc002kyg.2	+						MAPRE2_uc010xcb.1_Intron|MAPRE2_uc010xcc.1_Intron|MAPRE2_uc002kyf.2_Intron|MAPRE2_uc002kyh.2_Intron|MAPRE2_uc010xcd.1_Intron	NM_014268	NP_055083			microtubule-associated protein, RP/EB family,						cell division|cell proliferation|mitosis|signal transduction	cytoplasm|microtubule	microtubule binding			ovary(1)	1																		---	---	---	---
MAPRE2	10982	broad.mit.edu	37	18	32703166	32703166	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32703166delT	uc002kyg.2	+						MAPRE2_uc010xcb.1_Intron|MAPRE2_uc010xcc.1_Intron|MAPRE2_uc002kyf.2_Intron|MAPRE2_uc002kyh.2_Intron|MAPRE2_uc010xcd.1_Intron	NM_014268	NP_055083			microtubule-associated protein, RP/EB family,						cell division|cell proliferation|mitosis|signal transduction	cytoplasm|microtubule	microtubule binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	32738757	32738757	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32738757delT								MAPRE2 (16380 upstream) : ZNF397 (82241 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	33028680	33028680	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33028680delT								ZNF396 (71379 upstream) : INO80C (4610 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	33138399	33138401	+	IGR	DEL	TTC	-	-	rs71166073		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33138399_33138401delTTC								INO80C (60444 upstream) : GALNT1 (23377 downstream)																																			---	---	---	---
GALNT1	2589	broad.mit.edu	37	18	33219685	33219685	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33219685delT	uc010dmu.2	+						GALNT1_uc002kyz.3_Intron	NM_020474	NP_065207			polypeptide N-acetylgalactosaminyltransferase 1						protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2																		---	---	---	---
GALNT1	2589	broad.mit.edu	37	18	33259822	33259822	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33259822delT	uc010dmu.2	+						GALNT1_uc002kyz.3_Intron|GALNT1_uc002kzb.2_Intron	NM_020474	NP_065207			polypeptide N-acetylgalactosaminyltransferase 1						protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	33390855	33390856	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33390855_33390856delTG								GALNT1 (99058 upstream) : MIR187 (93925 downstream)																																			---	---	---	---
ELP2	55250	broad.mit.edu	37	18	33710978	33710978	+	Intron	DEL	A	-	-	rs113033729		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33710978delA	uc002kzk.1	+						SLC39A6_uc010dmy.2_5'Flank|SLC39A6_uc002kzj.2_5'Flank|ELP2_uc010xcg.1_Intron|ELP2_uc002kzl.1_Intron|ELP2_uc002kzm.1_Intron|ELP2_uc010xch.1_Intron|ELP2_uc002kzn.1_Intron|ELP2_uc002kzo.1_Intron	NM_018255	NP_060725			elongator protein 2						regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4																		---	---	---	---
MOCOS	55034	broad.mit.edu	37	18	33777739	33777739	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33777739delA	uc002kzq.3	+							NM_017947	NP_060417			molybdenum cofactor sulfurase						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)													---	---	---	---
Unknown	0	broad.mit.edu	37	18	33859120	33859121	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33859120_33859121insT								MOCOS (10436 upstream) : FHOD3 (18581 downstream)																																			---	---	---	---
FHOD3	80206	broad.mit.edu	37	18	33982470	33982477	+	Intron	DEL	ACACACAC	-	-	rs66532865		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33982470_33982477delACACACAC	uc002kzt.1	+						FHOD3_uc002kzr.1_Intron|FHOD3_uc002kzs.1_Intron	NM_025135	NP_079411			formin homology 2 domain containing 3						actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)																---	---	---	---
FHOD3	80206	broad.mit.edu	37	18	34010890	34010890	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34010890delA	uc002kzt.1	+						FHOD3_uc002kzr.1_Intron|FHOD3_uc002kzs.1_Intron	NM_025135	NP_079411			formin homology 2 domain containing 3						actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)																---	---	---	---
FHOD3	80206	broad.mit.edu	37	18	34061777	34061777	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34061777delA	uc002kzt.1	+						FHOD3_uc002kzr.1_Intron|FHOD3_uc002kzs.1_Intron	NM_025135	NP_079411			formin homology 2 domain containing 3						actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)																---	---	---	---
FHOD3	80206	broad.mit.edu	37	18	34195986	34195987	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34195986_34195987insT	uc002kzt.1	+						FHOD3_uc002kzr.1_Intron|FHOD3_uc002kzs.1_Intron|FHOD3_uc002kzu.1_Intron|FHOD3_uc010dmz.1_Intron	NM_025135	NP_079411			formin homology 2 domain containing 3						actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)																---	---	---	---
FHOD3	80206	broad.mit.edu	37	18	34205516	34205516	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34205516delC	uc002kzt.1	+	10	1097	c.1000delC	c.(1000-1002)CCCfs	p.P334fs	FHOD3_uc002kzr.1_Frame_Shift_Del_p.P334fs|FHOD3_uc002kzs.1_Frame_Shift_Del_p.P334fs|FHOD3_uc002kzu.1_Frame_Shift_Del_p.P159fs|FHOD3_uc010dmz.1_Frame_Shift_Del_p.P87fs	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	334	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)																---	---	---	---
FHOD3	80206	broad.mit.edu	37	18	34235453	34235453	+	Intron	DEL	A	-	-	rs138987006	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34235453delA	uc002kzt.1	+						FHOD3_uc002kzr.1_Intron|FHOD3_uc002kzs.1_Intron|FHOD3_uc002kzu.1_Intron|FHOD3_uc010dmz.1_Intron	NM_025135	NP_079411			formin homology 2 domain containing 3						actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)																---	---	---	---
FHOD3	80206	broad.mit.edu	37	18	34255310	34255310	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34255310delT	uc002kzt.1	+						FHOD3_uc002kzr.1_Intron|FHOD3_uc002kzs.1_Intron|FHOD3_uc010dmz.1_Intron	NM_025135	NP_079411			formin homology 2 domain containing 3						actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)																---	---	---	---
FHOD3	80206	broad.mit.edu	37	18	34318993	34318993	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34318993delA	uc002kzt.1	+						FHOD3_uc002kzs.1_Intron|FHOD3_uc010dmz.1_Intron|FHOD3_uc010dnb.1_Intron	NM_025135	NP_079411			formin homology 2 domain containing 3						actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)																---	---	---	---
C18orf10	25941	broad.mit.edu	37	18	34378660	34378660	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34378660delA	uc002kzw.1	-						C18orf10_uc002kzv.1_Intron|C18orf10_uc010xci.1_Intron|C18orf10_uc002kzx.1_Intron|C18orf10_uc002kzy.3_Intron	NM_015476	NP_056291			tubulin polyglutamylase complex subunit 2							cytoplasm|microtubule				skin(1)	1																		---	---	---	---
KIAA1328	57536	broad.mit.edu	37	18	34414451	34414451	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34414451delT	uc002kzz.2	+							NM_020776	NP_065827			hypothetical protein LOC57536											central_nervous_system(1)	1				COAD - Colon adenocarcinoma(74;0.195)														---	---	---	---
KIAA1328	57536	broad.mit.edu	37	18	34497213	34497214	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34497213_34497214insT	uc002kzz.2	+						uc002laa.2_Intron	NM_020776	NP_065827			hypothetical protein LOC57536											central_nervous_system(1)	1				COAD - Colon adenocarcinoma(74;0.195)														---	---	---	---
KIAA1328	57536	broad.mit.edu	37	18	34502024	34502024	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34502024delT	uc002kzz.2	+						KIAA1328_uc002lab.2_5'Flank|uc002laa.2_Intron	NM_020776	NP_065827			hypothetical protein LOC57536											central_nervous_system(1)	1				COAD - Colon adenocarcinoma(74;0.195)														---	---	---	---
CELF4	56853	broad.mit.edu	37	18	35024554	35024555	+	Intron	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:35024554_35024555delCT	uc002lae.2	-						CELF4_uc010dnd.1_Intron|CELF4_uc002lag.2_Intron|CELF4_uc002laf.2_Intron|CELF4_uc002lai.2_Intron	NM_020180	NP_064565			bruno-like 4, RNA binding protein isoform 1						embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2																OREG0024931	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
CELF4	56853	broad.mit.edu	37	18	35044245	35044246	+	Intron	INS	-	TCTGGGC	TCTGGGC	rs149627435	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:35044245_35044246insTCTGGGC	uc002lae.2	-						CELF4_uc010dnd.1_Intron|CELF4_uc002lag.2_Intron|CELF4_uc002laf.2_Intron|CELF4_uc002lai.2_Intron	NM_020180	NP_064565			bruno-like 4, RNA binding protein isoform 1						embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	35234778	35234780	+	5'Flank	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:35234778_35234780delTTT	hsa-mir-4318|MI0015847	+																																									---	---	---	---
Unknown	0	broad.mit.edu	37	18	35371690	35371690	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:35371690delT								CELF4 (225690 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	35469375	35469375	+	IGR	DEL	T	-	-	rs66489575		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:35469375delT								CELF4 (323375 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	35632808	35632809	+	IGR	INS	-	ATAC	ATAC	rs145981864	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:35632808_35632809insATAC								CELF4 (486808 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	35750341	35750341	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:35750341delA								CELF4 (604341 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	35952436	35952436	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:35952436delT								CELF4 (806436 upstream) : LOC647946 (834452 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	36018527	36018527	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:36018527delT								CELF4 (872527 upstream) : LOC647946 (768361 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	36038558	36038558	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:36038558delA								CELF4 (892558 upstream) : LOC647946 (748330 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	36101803	36101803	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:36101803delA								CELF4 (955803 upstream) : LOC647946 (685085 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	36275315	36275315	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:36275315delA								None (None upstream) : LOC647946 (511573 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	36359470	36359470	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:36359470delT								None (None upstream) : LOC647946 (427418 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	36440875	36440875	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:36440875delA								None (None upstream) : LOC647946 (346013 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	36530738	36530739	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:36530738_36530739insA								None (None upstream) : LOC647946 (256149 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	36733273	36733273	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:36733273delA								None (None upstream) : LOC647946 (53615 downstream)																																			---	---	---	---
LOC647946	647946	broad.mit.edu	37	18	37209625	37209625	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:37209625delT	uc010xcj.1	-						LOC647946_uc002lal.1_Intron	NR_024391				Homo sapiens cDNA FLJ33284 fis, clone ASTRO2009458.												0																		---	---	---	---
LOC647946	647946	broad.mit.edu	37	18	37290241	37290241	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:37290241delA	uc010xcj.1	-						LOC647946_uc002lal.1_Intron	NR_024391				Homo sapiens cDNA FLJ33284 fis, clone ASTRO2009458.												0																		---	---	---	---
LOC647946	647946	broad.mit.edu	37	18	37370346	37370349	+	Intron	DEL	CACA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:37370346_37370349delCACA	uc002lal.1	-											Homo sapiens cDNA FLJ33284 fis, clone ASTRO2009458.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	37441836	37441837	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:37441836_37441837delGT	uc010xck.1	-											Homo sapiens cDNA, FLJ99758.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	37584413	37584413	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:37584413delT								LOC647946 (204131 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	37605023	37605023	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:37605023delT								LOC647946 (224741 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	37852228	37852228	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:37852228delA								LOC647946 (471946 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	37875429	37875429	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:37875429delA								LOC647946 (495147 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	38041796	38041797	+	IGR	DEL	TG	-	-	rs36117518		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:38041796_38041797delTG								LOC647946 (661514 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	38061807	38061807	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:38061807delT								LOC647946 (681525 upstream) : KC6 (998431 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	38099383	38099384	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:38099383_38099384delTG								LOC647946 (719101 upstream) : KC6 (960854 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	38160826	38160826	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:38160826delA								LOC647946 (780544 upstream) : KC6 (899412 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	38204866	38204867	+	IGR	INS	-	TT	TT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:38204866_38204867insTT								LOC647946 (824584 upstream) : KC6 (855371 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	38371756	38371757	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:38371756_38371757delTG								LOC647946 (991474 upstream) : KC6 (688481 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	38562230	38562233	+	IGR	DEL	AAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:38562230_38562233delAAAA								None (None upstream) : KC6 (498005 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	38632265	38632266	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:38632265_38632266insA								None (None upstream) : KC6 (427972 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	38905735	38905736	+	IGR	DEL	CG	-	-	rs35028047	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:38905735_38905736delCG								None (None upstream) : KC6 (154502 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	39006703	39006704	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:39006703_39006704delTT								None (None upstream) : KC6 (53534 downstream)																																			---	---	---	---
KC6	641516	broad.mit.edu	37	18	39067064	39067064	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:39067064delT	uc002lan.2	-							NR_002838				Homo sapiens KC6 mRNA, complete sequence.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	39154946	39154946	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:39154946delA								KC6 (54385 upstream) : PIK3C3 (380253 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	39509548	39509548	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:39509548delT								KC6 (408987 upstream) : PIK3C3 (25651 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	39528995	39528995	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:39528995delT								KC6 (428434 upstream) : PIK3C3 (6204 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	39673131	39673131	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:39673131delT								PIK3C3 (11687 upstream) : RIT2 (650062 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	39937620	39937630	+	Intron	DEL	TTTTTTTTTTC	-	-	rs443645		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:39937620_39937630delTTTTTTTTTTC	uc002las.1	+						uc002lat.2_Intron|uc002lau.2_Intron					Homo sapiens hypothetical gene supported by BC011527; BC021928; BC011527; BC021928, mRNA (cDNA clone IMAGE:3872963), with apparent retained intron.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	39972509	39972510	+	Intron	DEL	TT	-	-	rs112066600		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:39972509_39972510delTT	uc002las.1	+						uc002lat.2_Intron|uc002lau.2_Intron					Homo sapiens hypothetical gene supported by BC011527; BC021928; BC011527; BC021928, mRNA (cDNA clone IMAGE:3872963), with apparent retained intron.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	39993900	39993900	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:39993900delT	uc002las.1	+						uc002lat.2_Intron|uc002lau.2_Intron					Homo sapiens hypothetical gene supported by BC011527; BC021928; BC011527; BC021928, mRNA (cDNA clone IMAGE:3872963), with apparent retained intron.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	40174442	40174442	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:40174442delT	uc002lau.2	+											Homo sapiens hypothetical gene supported by BC011527; BC021928; BC011527; BC021928, mRNA (cDNA clone IMAGE:3872963), with apparent retained intron.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	40267835	40267835	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:40267835delA	uc002lau.2	+											Homo sapiens hypothetical gene supported by BC011527; BC021928; BC011527; BC021928, mRNA (cDNA clone IMAGE:3872963), with apparent retained intron.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	40278829	40278829	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:40278829delT								PIK3C3 (617385 upstream) : RIT2 (44364 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	40282436	40282436	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:40282436delT								PIK3C3 (620992 upstream) : RIT2 (40757 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	40304120	40304120	+	IGR	DEL	A	-	-	rs139356737		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:40304120delA								PIK3C3 (642676 upstream) : RIT2 (19073 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	40310499	40310499	+	IGR	DEL	T	-	-	rs5824452		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:40310499delT								PIK3C3 (649055 upstream) : RIT2 (12694 downstream)																																			---	---	---	---
RIT2	6014	broad.mit.edu	37	18	40632883	40632883	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:40632883delT	uc002lav.2	-						RIT2_uc010dnf.2_Intron	NM_002930	NP_002921			Ras-like without CAAX 2						nerve growth factor receptor signaling pathway|small GTPase mediated signal transduction|synaptic transmission	intracellular|plasma membrane	calmodulin binding|GTP binding|GTPase activity			ovary(1)	1																		---	---	---	---
RIT2	6014	broad.mit.edu	37	18	40644957	40644957	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:40644957delT	uc002lav.2	-						RIT2_uc010dnf.2_Intron	NM_002930	NP_002921			Ras-like without CAAX 2						nerve growth factor receptor signaling pathway|small GTPase mediated signal transduction|synaptic transmission	intracellular|plasma membrane	calmodulin binding|GTP binding|GTPase activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	41116146	41116146	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:41116146delT								SYT4 (258531 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	41183623	41183623	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:41183623delT								SYT4 (326008 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	41406199	41406199	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:41406199delA								SYT4 (548584 upstream) : SETBP1 (853939 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	41602902	41602903	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:41602902_41602903insG								SYT4 (745287 upstream) : SETBP1 (657235 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	41743716	41743717	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:41743716_41743717insT								SYT4 (886101 upstream) : SETBP1 (516421 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	41867771	41867771	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:41867771delT								None (None upstream) : SETBP1 (392367 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	41912026	41912026	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:41912026delT	uc002lax.3	-											Homo sapiens cDNA clone IMAGE:5265929.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	41982512	41982512	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:41982512delT	uc002lax.3	-											Homo sapiens cDNA clone IMAGE:5265929.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	41997179	41997179	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:41997179delA	uc002lax.3	-											Homo sapiens cDNA clone IMAGE:5265929.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	42052217	42052217	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:42052217delA	uc002lax.3	-											Homo sapiens cDNA clone IMAGE:5265929.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	42171280	42171281	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:42171280_42171281insA								None (None upstream) : SETBP1 (88857 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	42180111	42180111	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:42180111delT								None (None upstream) : SETBP1 (80027 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	42246822	42246822	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:42246822delT								None (None upstream) : SETBP1 (13316 downstream)																																			---	---	---	---
SETBP1	26040	broad.mit.edu	37	18	42375706	42375706	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:42375706delA	uc010dni.2	+						SETBP1_uc002lay.2_Intron	NM_015559	NP_056374			SET binding protein 1 isoform a							nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)										Schinzel-Giedion_syndrome				---	---	---	---
SETBP1	26040	broad.mit.edu	37	18	42430345	42430345	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:42430345delT	uc010dni.2	+						SETBP1_uc002lay.2_Intron	NM_015559	NP_056374			SET binding protein 1 isoform a							nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)										Schinzel-Giedion_syndrome				---	---	---	---
SETBP1	26040	broad.mit.edu	37	18	42457450	42457450	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:42457450delA	uc010dni.2	+							NM_015559	NP_056374			SET binding protein 1 isoform a							nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)										Schinzel-Giedion_syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	18	42722851	42722851	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:42722851delT								SETBP1 (74378 upstream) : SLC14A2 (25122 downstream)																																			---	---	---	---
SLC14A2	8170	broad.mit.edu	37	18	42829921	42829921	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:42829921delA	uc010dnj.2	+						SLC14A2_uc002lbb.2_Intron	NM_007163	NP_009094			solute carrier family 14 (urea transporter),							apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
SLC14A2	8170	broad.mit.edu	37	18	42931274	42931274	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:42931274delT	uc010dnj.2	+						SLC14A2_uc002lbb.2_Intron	NM_007163	NP_009094			solute carrier family 14 (urea transporter),							apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
SLC14A2	8170	broad.mit.edu	37	18	43081714	43081714	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43081714delC	uc010dnj.2	+						SLC14A2_uc002lbb.2_Intron|uc002lbc.1_Intron|uc002lbd.1_Intron	NM_007163	NP_009094			solute carrier family 14 (urea transporter),							apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
SLC14A2	8170	broad.mit.edu	37	18	43169344	43169345	+	Intron	DEL	AA	-	-	rs2002108	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43169344_43169345delAA	uc010dnj.2	+						SLC14A2_uc002lbb.2_Intron	NM_007163	NP_009094			solute carrier family 14 (urea transporter),							apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	43398698	43398700	+	IGR	DEL	TTT	-	-	rs34384016		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43398698_43398700delTTT								SLC14A1 (66214 upstream) : SIGLEC15 (6845 downstream)																																			---	---	---	---
KIAA1632	57724	broad.mit.edu	37	18	43437680	43437681	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43437680_43437681delTT	uc002lbm.2	-							NM_020964	NP_066015			hypothetical protein LOC57724						autophagy						0																		---	---	---	---
KIAA1632	57724	broad.mit.edu	37	18	43529365	43529365	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43529365delT	uc002lbm.2	-						KIAA1632_uc002lbo.1_Intron	NM_020964	NP_066015			hypothetical protein LOC57724						autophagy						0																		---	---	---	---
PSTPIP2	9050	broad.mit.edu	37	18	43583890	43583892	+	Intron	DEL	TTT	-	-	rs80248095		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43583890_43583892delTTT	uc002lbp.3	-						PSTPIP2_uc002lbq.3_Intron	NM_024430	NP_077748			proline-serine-threonine phosphatase interacting							membrane				ovary(1)	1																		---	---	---	---
HAUS1	115106	broad.mit.edu	37	18	43702272	43702274	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43702272_43702274delAAA	uc002lbu.2	+						HAUS1_uc002lbv.2_Intron	NM_138443	NP_612452			coiled-coil domain containing 5						cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle pole				ovary(1)	1																		---	---	---	---
C18orf25	147339	broad.mit.edu	37	18	43752556	43752557	+	5'Flank	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43752556_43752557insT	uc002lbw.2	+						C18orf25_uc002lbx.2_5'Flank	NM_145055	NP_659492			ARKadia-like 1 isoform a											central_nervous_system(2)	2																		---	---	---	---
C18orf25	147339	broad.mit.edu	37	18	43780750	43780750	+	Intron	DEL	T	-	-	rs72249968		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43780750delT	uc002lbw.2	+						C18orf25_uc002lbx.2_Intron	NM_145055	NP_659492			ARKadia-like 1 isoform a											central_nervous_system(2)	2																		---	---	---	---
LOXHD1	125336	broad.mit.edu	37	18	44225735	44225735	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44225735delA	uc010xcw.1	-							NM_144612	NP_653213			lipoxygenase homology domains 1 isoform 1						sensory perception of sound	stereocilium	protein binding				0																		---	---	---	---
ST8SIA5	29906	broad.mit.edu	37	18	44315743	44315744	+	Intron	DEL	TT	-	-	rs34666201		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44315743_44315744delTT	uc002lcj.1	-						ST8SIA5_uc010xcy.1_Intron|ST8SIA5_uc010xcz.1_Intron|ST8SIA5_uc010dno.1_Intron	NM_013305	NP_037437			ST8 alpha-N-acetyl-neuraminide						glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane				upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3																		---	---	---	---
PIAS2	9063	broad.mit.edu	37	18	44438186	44438187	+	Intron	DEL	AA	-	-	rs80241183		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44438186_44438187delAA	uc002lck.2	-						PIAS2_uc010dnp.2_Intron|PIAS2_uc002lcl.2_Intron|PIAS2_uc010xda.1_Intron|PIAS2_uc002lcm.2_Intron|PIAS2_uc002lcn.1_Intron	NM_004671	NP_004662			protein inhibitor of activated STAT X isoform						androgen receptor signaling pathway|negative regulation of androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|PML body	androgen receptor binding|DNA binding|protein binding|SUMO ligase activity|transcription coactivator activity|zinc ion binding			ovary(2)|breast(1)|skin(1)	4																		---	---	---	---
PIAS2	9063	broad.mit.edu	37	18	44465484	44465485	+	Intron	DEL	AA	-	-	rs76525461		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44465484_44465485delAA	uc002lck.2	-						PIAS2_uc010dnp.2_Intron|PIAS2_uc002lcl.2_Intron|PIAS2_uc010xda.1_Intron|PIAS2_uc002lcm.2_Intron|PIAS2_uc002lcn.1_Intron	NM_004671	NP_004662			protein inhibitor of activated STAT X isoform						androgen receptor signaling pathway|negative regulation of androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|PML body	androgen receptor binding|DNA binding|protein binding|SUMO ligase activity|transcription coactivator activity|zinc ion binding			ovary(2)|breast(1)|skin(1)	4																		---	---	---	---
KATNAL2	83473	broad.mit.edu	37	18	44573781	44573781	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44573781delT	uc002lco.2	+						KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lcp.3_Intron	NM_031303	NP_112593			katanin p60 subunit A-like 2							cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4																		---	---	---	---
KATNAL2	83473	broad.mit.edu	37	18	44574092	44574093	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44574092_44574093delTT	uc002lco.2	+						KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lcp.3_Intron	NM_031303	NP_112593			katanin p60 subunit A-like 2							cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4																		---	---	---	---
KATNAL2	83473	broad.mit.edu	37	18	44614124	44614125	+	Intron	DEL	TG	-	-	rs35852657		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44614124_44614125delTG	uc002lco.2	+						KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lcp.3_Intron	NM_031303	NP_112593			katanin p60 subunit A-like 2							cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4																		---	---	---	---
HDHD2	84064	broad.mit.edu	37	18	44645400	44645401	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44645400_44645401insA	uc002lcs.2	-						HDHD2_uc002lct.2_Intron	NM_032124	NP_115500			haloacid dehalogenase-like hydrolase domain								hydrolase activity				0																		---	---	---	---
IER3IP1	51124	broad.mit.edu	37	18	44682386	44682387	+	3'UTR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44682386_44682387delAA	uc002lcu.2	-	3						NM_016097	NP_057181			immediate early response 3 interacting protein							endoplasmic reticulum membrane|Golgi apparatus|integral to membrane					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	44771420	44771420	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44771420delT	uc010dnt.1	-											RecName: Full=Ladybird homeobox corepressor 1-like protein; AltName: Full=LBX1 corepressor 1-like protein; AltName: Full=Functional Smad-suppressing element on chromosome 18;          Short=Fussel-18;																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	44841205	44841205	+	Intron	DEL	A	-	-	rs36071910		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44841205delA	uc002lcx.2	+											Homo sapiens, clone IMAGE:5538207, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	44882634	44882636	+	Intron	DEL	TTT	-	-	rs72045818		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44882634_44882636delTTT	uc002lcx.2	+											Homo sapiens, clone IMAGE:5538207, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	45095248	45095249	+	Intron	DEL	AG	-	-	rs4061714		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:45095248_45095249delAG	uc002lcx.2	+											Homo sapiens, clone IMAGE:5538207, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	45228239	45228240	+	IGR	DEL	AA	-	-	rs34717798		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:45228239_45228240delAA								IER3IP1 (525494 upstream) : SMAD2 (131227 downstream)																																			---	---	---	---
SMAD2	4087	broad.mit.edu	37	18	45414570	45414571	+	Intron	DEL	AA	-	-	rs74822314	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:45414570_45414571delAA	uc002lcy.2	-						SMAD2_uc002lcz.2_Intron|SMAD2_uc010xdc.1_Intron|SMAD2_uc010xdd.1_Intron	NM_005901	NP_005892			Sma- and Mad-related protein 2 isoform 1						anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			large_intestine(3)|lung(1)|central_nervous_system(1)	5																		---	---	---	---
SMAD2	4087	broad.mit.edu	37	18	45442126	45442126	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:45442126delC	uc002lcy.2	-						SMAD2_uc002lcz.2_Intron|SMAD2_uc010xdc.1_Intron|SMAD2_uc010xdd.1_Intron	NM_005901	NP_005892			Sma- and Mad-related protein 2 isoform 1						anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			large_intestine(3)|lung(1)|central_nervous_system(1)	5																		---	---	---	---
ZBTB7C	201501	broad.mit.edu	37	18	45632717	45632717	+	Intron	DEL	A	-	-	rs111451997		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:45632717delA	uc010dnv.2	-						ZBTB7C_uc002ldb.2_Intron|ZBTB7C_uc010dnu.2_Intron|ZBTB7C_uc010dnw.2_Intron|ZBTB7C_uc010dnx.1_Intron|ZBTB7C_uc010dny.1_Intron|ZBTB7C_uc010dnz.1_Intron|ZBTB7C_uc010dob.1_Intron|ZBTB7C_uc010doc.1_Intron|ZBTB7C_uc010dod.1_Intron|ZBTB7C_uc010doe.1_Intron|ZBTB7C_uc010dof.1_Intron|ZBTB7C_uc010dog.1_Intron|ZBTB7C_uc010doh.1_Intron|ZBTB7C_uc010doi.1_Intron|ZBTB7C_uc010doj.1_Intron|ZBTB7C_uc010dok.1_Intron|ZBTB7C_uc010dol.1_Intron|ZBTB7C_uc010doa.1_Intron|ZBTB7C_uc010don.1_Intron|ZBTB7C_uc010doo.1_Intron|ZBTB7C_uc010dop.1_Intron|ZBTB7C_uc010doq.1_Intron|ZBTB7C_uc010dor.1_Intron|ZBTB7C_uc010dos.1_Intron|ZBTB7C_uc010dot.1_Intron|ZBTB7C_uc010dou.1_Intron|ZBTB7C_uc010dom.1_Intron	NM_001039360	NP_001034449			zinc finger and BTB domain containing 7C							intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1																		---	---	---	---
ZBTB7C	201501	broad.mit.edu	37	18	45642446	45642446	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:45642446delA	uc010dnv.2	-						ZBTB7C_uc002ldb.2_Intron|ZBTB7C_uc010dnu.2_Intron|ZBTB7C_uc010dnw.2_Intron|ZBTB7C_uc010dnx.1_Intron|ZBTB7C_uc010dny.1_Intron|ZBTB7C_uc010dnz.1_Intron|ZBTB7C_uc010dob.1_Intron|ZBTB7C_uc010doc.1_Intron|ZBTB7C_uc010dod.1_Intron|ZBTB7C_uc010doe.1_Intron|ZBTB7C_uc010dof.1_Intron|ZBTB7C_uc010dog.1_Intron|ZBTB7C_uc010doh.1_Intron|ZBTB7C_uc010doi.1_Intron|ZBTB7C_uc010doj.1_Intron|ZBTB7C_uc010dok.1_Intron|ZBTB7C_uc010dol.1_Intron|ZBTB7C_uc010doa.1_Intron|ZBTB7C_uc010don.1_Intron|ZBTB7C_uc010doo.1_Intron|ZBTB7C_uc010dop.1_Intron|ZBTB7C_uc010doq.1_Intron|ZBTB7C_uc010dor.1_Intron|ZBTB7C_uc010dos.1_Intron|ZBTB7C_uc010dot.1_Intron|ZBTB7C_uc010dou.1_Intron|ZBTB7C_uc010dom.1_Intron	NM_001039360	NP_001034449			zinc finger and BTB domain containing 7C							intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1																		---	---	---	---
ZBTB7C	201501	broad.mit.edu	37	18	45644295	45644295	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:45644295delA	uc010dnv.2	-						ZBTB7C_uc002ldb.2_Intron|ZBTB7C_uc010dnu.2_Intron|ZBTB7C_uc010dnw.2_Intron|ZBTB7C_uc010dnx.1_Intron|ZBTB7C_uc010dny.1_Intron|ZBTB7C_uc010dnz.1_Intron|ZBTB7C_uc010dob.1_Intron|ZBTB7C_uc010doc.1_Intron|ZBTB7C_uc010dod.1_Intron|ZBTB7C_uc010doe.1_Intron|ZBTB7C_uc010dof.1_Intron|ZBTB7C_uc010dog.1_Intron|ZBTB7C_uc010doh.1_Intron|ZBTB7C_uc010doi.1_Intron|ZBTB7C_uc010doj.1_Intron|ZBTB7C_uc010dok.1_Intron|ZBTB7C_uc010dol.1_Intron|ZBTB7C_uc010doa.1_Intron|ZBTB7C_uc010don.1_Intron|ZBTB7C_uc010doo.1_Intron|ZBTB7C_uc010dop.1_Intron|ZBTB7C_uc010doq.1_Intron|ZBTB7C_uc010dor.1_Intron|ZBTB7C_uc010dos.1_Intron|ZBTB7C_uc010dot.1_Intron|ZBTB7C_uc010dou.1_Intron|ZBTB7C_uc010dom.1_Intron	NM_001039360	NP_001034449			zinc finger and BTB domain containing 7C							intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1																		---	---	---	---
ZBTB7C	201501	broad.mit.edu	37	18	45764030	45764030	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:45764030delA	uc010dnw.2	-						ZBTB7C_uc010dny.1_Intron|ZBTB7C_uc010dnz.1_Intron|ZBTB7C_uc010dob.1_Intron|ZBTB7C_uc010doc.1_Intron|ZBTB7C_uc010dod.1_Intron|ZBTB7C_uc010doe.1_Intron|ZBTB7C_uc010dof.1_Intron|ZBTB7C_uc010dog.1_Intron|ZBTB7C_uc010doh.1_Intron|ZBTB7C_uc010doi.1_Intron|ZBTB7C_uc010doj.1_Intron|ZBTB7C_uc010dok.1_Intron|ZBTB7C_uc010dol.1_Intron|ZBTB7C_uc010doa.1_Intron|ZBTB7C_uc010don.1_Intron|ZBTB7C_uc010doo.1_Intron|ZBTB7C_uc010dop.1_Intron|ZBTB7C_uc010doq.1_Intron|ZBTB7C_uc010dor.1_Intron|ZBTB7C_uc010dos.1_Intron|ZBTB7C_uc010dot.1_Intron|ZBTB7C_uc010dou.1_Intron|ZBTB7C_uc010dom.1_Intron	NM_001039360	NP_001034449			zinc finger and BTB domain containing 7C							intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1																		---	---	---	---
KIAA0427	9811	broad.mit.edu	37	18	46163043	46163043	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:46163043delC	uc002ldc.2	+	3	524	c.239delC	c.(238-240)GCCfs	p.A80fs	KIAA0427_uc002ldd.2_Frame_Shift_Del_p.A80fs	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	80	Interaction with NCBP1/CBP80.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0																		---	---	---	---
KIAA0427	9811	broad.mit.edu	37	18	46211597	46211597	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:46211597delT	uc002ldc.2	+						KIAA0427_uc002ldd.2_Intron	NM_014772	NP_055587			hypothetical protein LOC9811 isoform 1						nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	46438058	46438059	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:46438058_46438059delAC								KIAA0427 (48480 upstream) : SMAD7 (8165 downstream)																																			---	---	---	---
DYM	54808	broad.mit.edu	37	18	46655490	46655491	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:46655490_46655491delAA	uc002ldi.1	-						DYM_uc010xdf.1_Intron|DYM_uc002ldj.3_Intron	NM_017653	NP_060123			dymeclin							Golgi apparatus					0																		---	---	---	---
DYM	54808	broad.mit.edu	37	18	46802089	46802089	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:46802089delT	uc002ldi.1	-						DYM_uc010xdf.1_Intron|DYM_uc002ldj.3_Intron	NM_017653	NP_060123			dymeclin							Golgi apparatus					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	47039740	47039740	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47039740delA								RPL17 (20834 upstream) : LIPG (48687 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	47046678	47046678	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47046678delT								RPL17 (27772 upstream) : LIPG (41749 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	47148096	47148097	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47148096_47148097delGA								LIPG (28820 upstream) : ACAA2 (161778 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	47264467	47264467	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47264467delA								LIPG (145191 upstream) : ACAA2 (45408 downstream)																																			---	---	---	---
ACAA2	10449	broad.mit.edu	37	18	47331177	47331177	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47331177delA	uc002ldw.3	-						ACAA2_uc002ldx.3_Intron	NM_006111	NP_006102			acetyl-coenzyme A acyltransferase 2						anti-apoptosis|cholesterol biosynthetic process		acetyl-CoA C-acyltransferase activity|protein binding			ovary(1)	1																		---	---	---	---
MYO5B	4645	broad.mit.edu	37	18	47360440	47360440	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47360440delT	uc002leb.2	-						MYO5B_uc002ldz.2_Intron|MYO5B_uc002lea.2_Intron	NM_001080467	NP_001073936			myosin VB						protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)														---	---	---	---
MYO5B	4645	broad.mit.edu	37	18	47368466	47368467	+	Intron	DEL	AA	-	-	rs76261235		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47368466_47368467delAA	uc002leb.2	-						MYO5B_uc002ldz.2_Intron|MYO5B_uc002lea.2_Intron	NM_001080467	NP_001073936			myosin VB						protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)														---	---	---	---
MYO5B	4645	broad.mit.edu	37	18	47389714	47389714	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47389714delA	uc002leb.2	-						MYO5B_uc002lea.2_Intron	NM_001080467	NP_001073936			myosin VB						protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)														---	---	---	---
MYO5B	4645	broad.mit.edu	37	18	47683461	47683462	+	Intron	DEL	TT	-	-	rs142226405		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47683461_47683462delTT	uc002leb.2	-							NM_001080467	NP_001073936			myosin VB						protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)														---	---	---	---
Unknown	0	broad.mit.edu	37	18	47746009	47746009	+	IGR	DEL	A	-	-	rs78444382		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47746009delA								MYO5B (24558 upstream) : CCDC11 (7554 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	47935592	47935592	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47935592delG								SKA1 (15058 upstream) : MAPK4 (150892 downstream)																																			---	---	---	---
MAPK4	5596	broad.mit.edu	37	18	48084772	48084772	+	5'Flank	DEL	A	-	-	rs78751848		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48084772delA	uc002lev.2	+						MAPK4_uc010xdm.1_5'Flank|MAPK4_uc010doz.2_5'Flank	NM_002747	NP_002738			mitogen-activated protein kinase 4						cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)														---	---	---	---
MAPK4	5596	broad.mit.edu	37	18	48110795	48110795	+	Intron	DEL	A	-	-	rs34666521		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48110795delA	uc002lev.2	+						MAPK4_uc010xdm.1_Intron|MAPK4_uc010doz.2_Intron	NM_002747	NP_002738			mitogen-activated protein kinase 4						cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)														---	---	---	---
MAPK4	5596	broad.mit.edu	37	18	48160417	48160417	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48160417delT	uc002lev.2	+						MAPK4_uc010xdm.1_Intron|MAPK4_uc010doz.2_Intron	NM_002747	NP_002738			mitogen-activated protein kinase 4						cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)														---	---	---	---
MRO	83876	broad.mit.edu	37	18	48333508	48333508	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48333508delA	uc002lew.3	-						MRO_uc010xdn.1_Intron|MRO_uc010dpa.2_Intron|MRO_uc010dpb.2_Intron|MRO_uc010dpc.2_Intron|MRO_uc002lex.3_Intron	NM_031939	NP_114145			maestro isoform a							nucleolus	binding				0		Colorectal(6;0.0596)		Colorectal(21;0.082)														---	---	---	---
ME2	4200	broad.mit.edu	37	18	48439041	48439041	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48439041delT	uc002ley.2	+						ME2_uc010dpd.2_Intron	NM_002396	NP_002387			malic enzyme 2, NAD(+)-dependent, mitochondrial						malate metabolic process	mitochondrial matrix	electron carrier activity|malate dehydrogenase (decarboxylating) activity|malate dehydrogenase (oxaloacetate-decarboxylating) activity|metal ion binding|NAD binding				0		Colorectal(6;0.0273)|all_epithelial(6;0.118)		Colorectal(21;0.0313)|READ - Rectum adenocarcinoma(32;0.105)|STAD - Stomach adenocarcinoma(97;0.184)	NADH(DB00157)													---	---	---	---
ME2	4200	broad.mit.edu	37	18	48442236	48442239	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48442236_48442239delTTTT	uc002ley.2	+						ME2_uc010dpd.2_Intron	NM_002396	NP_002387			malic enzyme 2, NAD(+)-dependent, mitochondrial						malate metabolic process	mitochondrial matrix	electron carrier activity|malate dehydrogenase (decarboxylating) activity|malate dehydrogenase (oxaloacetate-decarboxylating) activity|metal ion binding|NAD binding				0		Colorectal(6;0.0273)|all_epithelial(6;0.118)		Colorectal(21;0.0313)|READ - Rectum adenocarcinoma(32;0.105)|STAD - Stomach adenocarcinoma(97;0.184)	NADH(DB00157)													---	---	---	---
SMAD4	4089	broad.mit.edu	37	18	48515213	48515213	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48515213delA	uc010xdo.1	+											Homo sapiens D29 mRNA, complete cds.						BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity			pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)										Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				---	---	---	---
SMAD4	4089	broad.mit.edu	37	18	48523090	48523091	+	Intron	INS	-	ATAG	ATAG	rs140229617	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48523090_48523091insATAG	uc010xdo.1	+											Homo sapiens D29 mRNA, complete cds.						BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity			pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)										Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				---	---	---	---
SMAD4	4089	broad.mit.edu	37	18	48530060	48530061	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48530060_48530061delAA	uc010xdo.1	+											Homo sapiens D29 mRNA, complete cds.						BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity			pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)										Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				---	---	---	---
Unknown	0	broad.mit.edu	37	18	48848382	48848383	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48848382_48848383insA								MEX3C (124692 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	49066405	49066405	+	Intron	DEL	A	-	-	rs35091688		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:49066405delA	uc010xdq.1	+											Homo sapiens cDNA FLJ37617 fis, clone BRCOC2012229.																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	49089368	49089368	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:49089368delT								MEX3C (365678 upstream) : DCC (777203 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	49214104	49214105	+	IGR	DEL	AA	-	-	rs138965300		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:49214104_49214105delAA								MEX3C (490414 upstream) : DCC (652466 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	49484088	49484088	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:49484088delA								MEX3C (760398 upstream) : DCC (382483 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	49677234	49677234	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:49677234delT								MEX3C (953544 upstream) : DCC (189337 downstream)																																			---	---	---	---
DCC	1630	broad.mit.edu	37	18	50058022	50058023	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:50058022_50058023insT	uc002lfe.1	+							NM_005215	NP_005206			netrin receptor DCC precursor						apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)														---	---	---	---
DCC	1630	broad.mit.edu	37	18	50069209	50069209	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:50069209delA	uc002lfe.1	+							NM_005215	NP_005206			netrin receptor DCC precursor						apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)														---	---	---	---
DCC	1630	broad.mit.edu	37	18	50198807	50198808	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:50198807_50198808delAG	uc002lfe.1	+							NM_005215	NP_005206			netrin receptor DCC precursor						apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)														---	---	---	---
DCC	1630	broad.mit.edu	37	18	50252121	50252121	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:50252121delA	uc002lfe.1	+							NM_005215	NP_005206			netrin receptor DCC precursor						apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)														---	---	---	---
DCC	1630	broad.mit.edu	37	18	50269831	50269831	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:50269831delA	uc002lfe.1	+							NM_005215	NP_005206			netrin receptor DCC precursor						apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)														---	---	---	---
DCC	1630	broad.mit.edu	37	18	50773948	50773949	+	Intron	INS	-	TTTG	TTTG	rs150194196	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:50773948_50773949insTTTG	uc002lfe.1	+						DCC_uc010xdr.1_Intron|DCC_uc010dpf.1_Intron	NM_005215	NP_005206			netrin receptor DCC precursor						apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)														---	---	---	---
DCC	1630	broad.mit.edu	37	18	50795462	50795463	+	Intron	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:50795462_50795463delGT	uc002lfe.1	+						DCC_uc010xdr.1_Intron|DCC_uc010dpf.1_Intron	NM_005215	NP_005206			netrin receptor DCC precursor						apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)														---	---	---	---
Unknown	0	broad.mit.edu	37	18	51066526	51066528	+	IGR	DEL	TCC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:51066526_51066528delTCC								DCC (8744 upstream) : MBD2 (614047 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	51096989	51096989	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:51096989delT								DCC (39207 upstream) : MBD2 (583586 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	51242363	51242364	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:51242363_51242364delTG								DCC (184581 upstream) : MBD2 (438211 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	51249156	51249157	+	IGR	INS	-	T	T	rs145702778	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:51249156_51249157insT								DCC (191374 upstream) : MBD2 (431418 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	51263237	51263238	+	IGR	DEL	AT	-	-	rs147863545		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:51263237_51263238delAT								DCC (205455 upstream) : MBD2 (417337 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	51306513	51306513	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:51306513delT								DCC (248731 upstream) : MBD2 (374062 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	51309765	51309766	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:51309765_51309766delAG								DCC (251983 upstream) : MBD2 (370809 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	51386517	51386517	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:51386517delA								DCC (328735 upstream) : MBD2 (294058 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	51668878	51668878	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:51668878delA								DCC (611096 upstream) : MBD2 (11697 downstream)																																			---	---	---	---
MBD2	8932	broad.mit.edu	37	18	51687346	51687347	+	Intron	DEL	AA	-	-	rs68190347		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:51687346_51687347delAA	uc002lfg.1	-							NM_003927	NP_003918			methyl-CpG binding domain protein 2 isoform 1						transcription, DNA-dependent		C2H2 zinc finger domain binding|methyl-CpG binding|satellite DNA binding				0				Colorectal(16;0.0212)|READ - Rectum adenocarcinoma(32;0.188)	Hexobarbital(DB01355)													---	---	---	---
Unknown	0	broad.mit.edu	37	18	51948466	51948466	+	IGR	DEL	A	-	-	rs33948463		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:51948466delA								C18orf54 (40063 upstream) : C18orf26 (306522 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	52310327	52310327	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:52310327delT								C18orf26 (43603 upstream) : RAB27B (185513 downstream)																																			---	---	---	---
CCDC68	80323	broad.mit.edu	37	18	52580439	52580439	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:52580439delG	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)														---	---	---	---
TCF4	6925	broad.mit.edu	37	18	52897927	52897927	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:52897927delT	uc002lfz.2	-						TCF4_uc002lfw.3_Intron|TCF4_uc010xdu.1_Intron|TCF4_uc010xdv.1_Intron|TCF4_uc002lfx.2_Intron|TCF4_uc010xdw.1_Intron|TCF4_uc002lfy.2_Intron|TCF4_uc010xdx.1_Intron|TCF4_uc010dph.1_Intron|TCF4_uc010xdy.1_Intron|TCF4_uc002lga.2_Intron|TCF4_uc002lgb.1_Intron|TCF4_uc010dpi.2_Intron|TCF4_uc002lfv.2_Intron	NM_003199	NP_003190			transcription factor 4 isoform b						positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|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|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)														---	---	---	---
TCF4	6925	broad.mit.edu	37	18	52984769	52984769	+	Intron	DEL	A	-	-	rs35846695		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:52984769delA	uc002lfz.2	-						TCF4_uc002lfw.3_Intron|TCF4_uc010xdu.1_Intron|TCF4_uc010xdv.1_Intron|TCF4_uc002lfx.2_Intron|TCF4_uc010xdw.1_Intron|TCF4_uc002lfy.2_Intron|TCF4_uc010xdx.1_Intron|TCF4_uc010dph.1_Intron|TCF4_uc010xdy.1_Intron|TCF4_uc002lga.2_Intron|TCF4_uc010dpi.2_Intron|TCF4_uc002lgc.3_Intron	NM_003199	NP_003190			transcription factor 4 isoform b						positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|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|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)														---	---	---	---
TCF4	6925	broad.mit.edu	37	18	53005245	53005245	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:53005245delA	uc002lfz.2	-						TCF4_uc010xdu.1_Intron|TCF4_uc010xdv.1_Intron|TCF4_uc002lfx.2_Intron|TCF4_uc010xdw.1_Intron|TCF4_uc002lfy.2_Intron|TCF4_uc010xdx.1_Intron|TCF4_uc010dph.1_Intron|TCF4_uc010xdy.1_Intron|TCF4_uc002lga.2_Intron|TCF4_uc010dpi.2_Intron|TCF4_uc002lgc.3_Intron	NM_003199	NP_003190			transcription factor 4 isoform b						positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|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|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)														---	---	---	---
TCF4	6925	broad.mit.edu	37	18	53239106	53239108	+	Intron	DEL	AAA	-	-	rs71850163		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:53239106_53239108delAAA	uc002lfz.2	-						TCF4_uc010xdx.1_Intron|TCF4_uc010dph.1_Intron|TCF4_uc010xdy.1_Intron|TCF4_uc002lga.2_Intron|TCF4_uc010dpi.2_Intron	NM_003199	NP_003190			transcription factor 4 isoform b						positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|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|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)														---	---	---	---
TCF4	6925	broad.mit.edu	37	18	53297138	53297138	+	Intron	DEL	A	-	-	rs35862987		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:53297138delA	uc002lga.2	-							NM_001083962	NP_001077431			transcription factor 4 isoform a						positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|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|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)														---	---	---	---
Unknown	0	broad.mit.edu	37	18	53432638	53432638	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:53432638delT								TCF4 (129453 upstream) : TXNL1 (837417 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	53458578	53458579	+	IGR	DEL	AA	-	-	rs79909206		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:53458578_53458579delAA								TCF4 (155393 upstream) : TXNL1 (811476 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	53502805	53502805	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:53502805delA								TCF4 (199620 upstream) : TXNL1 (767250 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	53642676	53642677	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:53642676_53642677delAA								TCF4 (339491 upstream) : TXNL1 (627378 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	53686970	53686970	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:53686970delT								TCF4 (383785 upstream) : TXNL1 (583085 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	53714511	53714511	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:53714511delT								TCF4 (411326 upstream) : TXNL1 (555544 downstream)																																			---	---	---	---
WDR7	23335	broad.mit.edu	37	18	54358364	54358364	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:54358364delT	uc002lgk.1	+						WDR7_uc010dpk.1_Intron|WDR7_uc002lgl.1_Intron	NM_015285	NP_056100			rabconnectin-3 beta isoform 1											ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)														---	---	---	---
WDR7	23335	broad.mit.edu	37	18	54443949	54443949	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:54443949delT	uc002lgk.1	+						WDR7_uc010dpk.1_Intron|WDR7_uc002lgl.1_Intron	NM_015285	NP_056100			rabconnectin-3 beta isoform 1											ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)														---	---	---	---
WDR7	23335	broad.mit.edu	37	18	54610575	54610575	+	Intron	DEL	T	-	-	rs74481268		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:54610575delT	uc002lgk.1	+						WDR7_uc002lgl.1_Intron	NM_015285	NP_056100			rabconnectin-3 beta isoform 1											ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)														---	---	---	---
Unknown	0	broad.mit.edu	37	18	54838567	54838567	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:54838567delA								WDR7 (141531 upstream) : ST8SIA3 (181154 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	54880788	54880789	+	IGR	DEL	TT	-	-	rs68114659		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:54880788_54880789delTT								WDR7 (183752 upstream) : ST8SIA3 (138932 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	55002055	55002055	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55002055delA								WDR7 (305019 upstream) : ST8SIA3 (17666 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	55057948	55057948	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55057948delA								ST8SIA3 (21789 upstream) : ONECUT2 (44969 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	55065625	55065625	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55065625delT								ST8SIA3 (29466 upstream) : ONECUT2 (37292 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	55428885	55428885	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55428885delT								ATP8B1 (29846 upstream) : NEDD4L (282734 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	55446549	55446549	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55446549delA								ATP8B1 (47510 upstream) : NEDD4L (265070 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	55481089	55481089	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55481089delG								ATP8B1 (82050 upstream) : NEDD4L (230530 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	55505164	55505164	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55505164delA								ATP8B1 (106125 upstream) : NEDD4L (206455 downstream)																																			---	---	---	---
NEDD4L	23327	broad.mit.edu	37	18	55955933	55955933	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55955933delT	uc002lgy.2	+						NEDD4L_uc002lgz.2_Intron|NEDD4L_uc002lgx.2_Intron|NEDD4L_uc010xee.1_Intron|NEDD4L_uc002lhc.2_Intron|NEDD4L_uc002lhd.2_Intron|NEDD4L_uc002lhb.2_Intron|NEDD4L_uc002lhe.2_Intron|NEDD4L_uc002lhf.2_Intron|NEDD4L_uc010dpl.1_Intron|NEDD4L_uc002lhg.2_Intron|NEDD4L_uc002lhh.2_Intron	NM_001144967	NP_001138439			neural precursor cell expressed, developmentally						cellular sodium ion homeostasis|excretion|interspecies interaction between organisms|positive regulation of endocytosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of protein catabolic process|response to metal ion|sodium ion transport|water homeostasis	cytoplasm	protein binding|sodium channel regulator activity|ubiquitin-protein ligase activity			lung(4)	4																		---	---	---	---
NEDD4L	23327	broad.mit.edu	37	18	56059769	56059769	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56059769delT	uc002lgy.2	+						NEDD4L_uc002lgz.2_Intron|NEDD4L_uc002lgx.2_Intron|NEDD4L_uc010xee.1_Intron|NEDD4L_uc002lhc.2_Intron|NEDD4L_uc002lhd.2_Intron|NEDD4L_uc002lhb.2_Intron|NEDD4L_uc002lhe.2_Intron|NEDD4L_uc002lhf.2_Intron|NEDD4L_uc002lhg.2_Intron|NEDD4L_uc002lhh.2_Intron|NEDD4L_uc010dpn.2_Intron	NM_001144967	NP_001138439			neural precursor cell expressed, developmentally						cellular sodium ion homeostasis|excretion|interspecies interaction between organisms|positive regulation of endocytosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of protein catabolic process|response to metal ion|sodium ion transport|water homeostasis	cytoplasm	protein binding|sodium channel regulator activity|ubiquitin-protein ligase activity			lung(4)	4																		---	---	---	---
ALPK2	115701	broad.mit.edu	37	18	56184954	56184954	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56184954delT	uc002lhj.3	-							NM_052947	NP_443179			heart alpha-kinase								ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	56333650	56333650	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56333650delT								ALPK2 (37461 upstream) : MALT1 (4968 downstream)																																			---	---	---	---
MALT1	10892	broad.mit.edu	37	18	56413238	56413240	+	Intron	DEL	ATT	-	-	rs145941401		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56413238_56413240delATT	uc002lhm.1	+						MALT1_uc002lhn.1_Intron	NM_006785	NP_006776			mucosa associated lymphoid tissue lymphoma						activation of NF-kappaB-inducing kinase activity|anti-apoptosis|nuclear export|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of protein ubiquitination|positive regulation of T cell cytokine production|protein oligomerization|proteolysis|T cell receptor signaling pathway	CBM complex|cytosol|nucleus|perinuclear region of cytoplasm	cysteine-type endopeptidase activity|protein self-association|signal transducer activity|ubiquitin-protein ligase activity			ovary(2)|lung(1)|central_nervous_system(1)	4								T	BIRC3	MALT								---	---	---	---
Unknown	0	broad.mit.edu	37	18	56471972	56471972	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56471972delA								MALT1 (54602 upstream) : ZNF532 (58089 downstream)																																			---	---	---	---
GRP	2922	broad.mit.edu	37	18	56894158	56894159	+	Intron	INS	-	T	T	rs74939295		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56894158_56894159insT	uc002lhv.2	+						GRP_uc002lhu.2_Intron|GRP_uc002lhw.2_Intron	NM_002091	NP_002082			gastrin-releasing peptide isoform 1						neuropeptide signaling pathway	extracellular space	neuropeptide hormone activity				0		Colorectal(73;0.0946)																---	---	---	---
Unknown	0	broad.mit.edu	37	18	56904519	56904519	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56904519delA								GRP (6519 upstream) : RAX (29750 downstream)																																			---	---	---	---
CPLX4	339302	broad.mit.edu	37	18	56981582	56981582	+	Intron	DEL	T	-	-	rs35048382		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56981582delT	uc002lhy.2	-							NM_181654	NP_857637			complexin 4 precursor						exocytosis|neurotransmitter transport	cell junction|synapse	syntaxin binding			ovary(1)	1		Colorectal(73;0.175)																---	---	---	---
CPLX4	339302	broad.mit.edu	37	18	56985740	56985740	+	5'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56985740delA	uc002lhy.2	-	1						NM_181654	NP_857637			complexin 4 precursor						exocytosis|neurotransmitter transport	cell junction|synapse	syntaxin binding			ovary(1)	1		Colorectal(73;0.175)																---	---	---	---
CPLX4	339302	broad.mit.edu	37	18	56987581	56987581	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56987581delT	uc002lhy.2	-							NM_181654	NP_857637			complexin 4 precursor						exocytosis|neurotransmitter transport	cell junction|synapse	syntaxin binding			ovary(1)	1		Colorectal(73;0.175)																---	---	---	---
LMAN1	3998	broad.mit.edu	37	18	57016629	57016629	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57016629delA	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)													---	---	---	---
CCBE1	147372	broad.mit.edu	37	18	57162841	57162842	+	Intron	DEL	TT	-	-	rs2510620		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57162841_57162842delTT	uc002lib.2	-							NM_133459	NP_597716			collagen and calcium binding EGF domains 1						lymphangiogenesis|sprouting angiogenesis|venous blood vessel morphogenesis	collagen	calcium ion binding			skin(2)|ovary(1)	3		Colorectal(73;0.175)																---	---	---	---
CCBE1	147372	broad.mit.edu	37	18	57175130	57175131	+	Intron	DEL	TT	-	-	rs34926170		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57175130_57175131delTT	uc002lib.2	-							NM_133459	NP_597716			collagen and calcium binding EGF domains 1						lymphangiogenesis|sprouting angiogenesis|venous blood vessel morphogenesis	collagen	calcium ion binding			skin(2)|ovary(1)	3		Colorectal(73;0.175)																---	---	---	---
CCBE1	147372	broad.mit.edu	37	18	57186746	57186746	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57186746delA	uc002lib.2	-							NM_133459	NP_597716			collagen and calcium binding EGF domains 1						lymphangiogenesis|sprouting angiogenesis|venous blood vessel morphogenesis	collagen	calcium ion binding			skin(2)|ovary(1)	3		Colorectal(73;0.175)																---	---	---	---
CCBE1	147372	broad.mit.edu	37	18	57351681	57351682	+	Intron	DEL	AA	-	-	rs79567174		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57351681_57351682delAA	uc002lib.2	-							NM_133459	NP_597716			collagen and calcium binding EGF domains 1						lymphangiogenesis|sprouting angiogenesis|venous blood vessel morphogenesis	collagen	calcium ion binding			skin(2)|ovary(1)	3		Colorectal(73;0.175)																---	---	---	---
CCBE1	147372	broad.mit.edu	37	18	57365550	57365550	+	5'Flank	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57365550delG	uc002lib.2	-							NM_133459	NP_597716			collagen and calcium binding EGF domains 1						lymphangiogenesis|sprouting angiogenesis|venous blood vessel morphogenesis	collagen	calcium ion binding			skin(2)|ovary(1)	3		Colorectal(73;0.175)																---	---	---	---
Unknown	0	broad.mit.edu	37	18	57400969	57400969	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57400969delC								CCBE1 (36325 upstream) : PMAIP1 (166223 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	57513841	57513841	+	IGR	DEL	A	-	-	rs75423632		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57513841delA								CCBE1 (149197 upstream) : PMAIP1 (53351 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	57618201	57618201	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57618201delA								PMAIP1 (46663 upstream) : MC4R (420363 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	57994245	57994245	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57994245delT								PMAIP1 (422707 upstream) : MC4R (44319 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	58048829	58048829	+	IGR	DEL	A	-	-	rs71706649		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:58048829delA								MC4R (8828 upstream) : CDH20 (952159 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	58292384	58292385	+	IGR	DEL	AA	-	-	rs79875167		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:58292384_58292385delAA								MC4R (252383 upstream) : CDH20 (708603 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	58739444	58739444	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:58739444delT								MC4R (699443 upstream) : CDH20 (261544 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	58792322	58792324	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:58792322_58792324delAAA								MC4R (752321 upstream) : CDH20 (208664 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	58874264	58874264	+	IGR	DEL	A	-	-	rs75274463		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:58874264delA								MC4R (834263 upstream) : CDH20 (126724 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	58918977	58918977	+	IGR	DEL	A	-	-	rs75049303		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:58918977delA								MC4R (878976 upstream) : CDH20 (82011 downstream)																																			---	---	---	---
CDH20	28316	broad.mit.edu	37	18	59137840	59137840	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:59137840delA	uc002lif.2	+							NM_031891	NP_114097			cadherin 20, type 2 preproprotein						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)																---	---	---	---
Unknown	0	broad.mit.edu	37	18	59247747	59247747	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:59247747delT								CDH20 (25382 upstream) : RNF152 (234557 downstream)																																			---	---	---	---
PIGN	23556	broad.mit.edu	37	18	59814053	59814053	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:59814053delT	uc002lii.3	-						PIGN_uc002lij.3_Intron	NM_176787	NP_789744			phosphatidylinositol glycan anchor biosynthesis,						C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphotransferase activity, for other substituted phosphate groups			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5		Colorectal(73;0.187)																---	---	---	---
PIGN	23556	broad.mit.edu	37	18	59824201	59824201	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:59824201delA	uc002lii.3	-						PIGN_uc002lij.3_Intron	NM_176787	NP_789744			phosphatidylinositol glycan anchor biosynthesis,						C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphotransferase activity, for other substituted phosphate groups			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5		Colorectal(73;0.187)																---	---	---	---
ZCCHC2	54877	broad.mit.edu	37	18	60242530	60242530	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:60242530delT	uc002lip.3	+	13	3216	c.3216delT	c.(3214-3216)CCTfs	p.P1072fs	ZCCHC2_uc002lio.2_RNA|ZCCHC2_uc002liq.2_Frame_Shift_Del_p.P542fs	NM_017742	NP_060212	Q9C0B9	ZCHC2_HUMAN	zinc finger, CCHC domain containing 2	1072					cell communication	cytoplasm	nucleic acid binding|phosphatidylinositol binding|zinc ion binding			lung(1)|prostate(1)	2																		---	---	---	---
BCL2	596	broad.mit.edu	37	18	60940770	60940770	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:60940770delA	uc002lit.1	-						BCL2_uc002liu.1_Intron	NM_000633	NP_000624			B-cell lymphoma protein 2 alpha isoform						activation of pro-apoptotic gene products|anti-apoptosis|apoptosis in response to endoplasmic reticulum stress|B cell proliferation|B cell receptor signaling pathway|defense response to virus|female pregnancy|humoral immune response|induction of apoptosis by intracellular signals|negative regulation of cellular pH reduction|negative regulation of mitochondrial depolarization|negative regulation of neuron apoptosis|neuron apoptosis|positive regulation of B cell proliferation|positive regulation of cell growth|protein polyubiquitination|regulation of mitochondrial membrane permeability|regulation of mitochondrial membrane potential|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|regulation of transmembrane transporter activity|release of cytochrome c from mitochondria|response to cytokine stimulus|response to DNA damage stimulus|response to drug|response to iron ion|response to nicotine|response to toxin	endoplasmic reticulum membrane|mitochondrial outer membrane|nuclear membrane|pore complex	BH3 domain binding|channel activity|protease binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|ubiquitin protein ligase binding			central_nervous_system(1)	1		all_hematologic(56;1.18e-20)|Prostate(75;0.0872)		Lung(128;0.0234)|READ - Rectum adenocarcinoma(59;0.0935)	Docetaxel(DB01248)|Fludarabine(DB01073)|Melatonin(DB01065)|Paclitaxel(DB01229)|Rasagiline(DB01367)			T	IGH@	NHL|CLL								---	---	---	---
BCL2	596	broad.mit.edu	37	18	60972791	60972791	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:60972791delT	uc002lit.1	-						BCL2_uc002liu.1_Intron	NM_000633	NP_000624			B-cell lymphoma protein 2 alpha isoform						activation of pro-apoptotic gene products|anti-apoptosis|apoptosis in response to endoplasmic reticulum stress|B cell proliferation|B cell receptor signaling pathway|defense response to virus|female pregnancy|humoral immune response|induction of apoptosis by intracellular signals|negative regulation of cellular pH reduction|negative regulation of mitochondrial depolarization|negative regulation of neuron apoptosis|neuron apoptosis|positive regulation of B cell proliferation|positive regulation of cell growth|protein polyubiquitination|regulation of mitochondrial membrane permeability|regulation of mitochondrial membrane potential|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|regulation of transmembrane transporter activity|release of cytochrome c from mitochondria|response to cytokine stimulus|response to DNA damage stimulus|response to drug|response to iron ion|response to nicotine|response to toxin	endoplasmic reticulum membrane|mitochondrial outer membrane|nuclear membrane|pore complex	BH3 domain binding|channel activity|protease binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|ubiquitin protein ligase binding			central_nervous_system(1)	1		all_hematologic(56;1.18e-20)|Prostate(75;0.0872)		Lung(128;0.0234)|READ - Rectum adenocarcinoma(59;0.0935)	Docetaxel(DB01248)|Fludarabine(DB01073)|Melatonin(DB01065)|Paclitaxel(DB01229)|Rasagiline(DB01367)			T	IGH@	NHL|CLL								---	---	---	---
KDSR	2531	broad.mit.edu	37	18	61015077	61015077	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61015077delA	uc010dpw.2	-						KDSR_uc010xem.1_Intron	NM_002035	NP_002026			3-ketodihydrosphingosine reductase precursor						3-keto-sphinganine metabolic process	endoplasmic reticulum membrane|extracellular space|integral to membrane	3-dehydrosphinganine reductase activity|binding			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	61047648	61047648	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61047648delT								KDSR (13142 upstream) : VPS4B (8779 downstream)																																			---	---	---	---
VPS4B	9525	broad.mit.edu	37	18	61078577	61078577	+	Intron	DEL	T	-	-	rs76661872		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61078577delT	uc002lix.2	-						VPS4B_uc010dpx.2_Intron|VPS4B_uc010dpy.2_Intron|VPS4B_uc010dpz.1_Intron	NM_004869	NP_004860			vacuolar protein sorting factor 4B						cell cycle|cell division|cellular membrane organization|endosome to lysosome transport via multivesicular body sorting pathway|intracellular cholesterol transport|protein transport|response to lipid	cytosol|early endosome|late endosome membrane|lysosome|nucleus|vacuolar membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding			ovary(1)	1																		---	---	---	---
VPS4B	9525	broad.mit.edu	37	18	61081610	61081610	+	Intron	DEL	A	-	-	rs113627817		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61081610delA	uc002lix.2	-						VPS4B_uc010dpx.2_Intron|VPS4B_uc010dpy.2_Intron|VPS4B_uc010dpz.1_Intron	NM_004869	NP_004860			vacuolar protein sorting factor 4B						cell cycle|cell division|cellular membrane organization|endosome to lysosome transport via multivesicular body sorting pathway|intracellular cholesterol transport|protein transport|response to lipid	cytosol|early endosome|late endosome membrane|lysosome|nucleus|vacuolar membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	61267452	61267452	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61267452delT								SERPINB13 (1020 upstream) : SERPINB4 (37043 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	61400093	61400093	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61400093delA								SERPINB11 (6429 upstream) : SERPINB7 (20184 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	61547740	61547740	+	IGR	DEL	A	-	-	rs34418477		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61547740delA								SERPINB7 (75137 upstream) : SERPINB2 (7199 downstream)																																			---	---	---	---
SERPINB10	5273	broad.mit.edu	37	18	61584739	61584739	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61584739delA	uc010xev.1	+	3	308	c.218delA	c.(217-219)GAAfs	p.E73fs	SERPINB2_uc002ljp.1_Frame_Shift_Del_p.E214fs|SERPINB2_uc002ljq.1_Frame_Shift_Del_p.E187fs|SERPINB10_uc010xew.1_Frame_Shift_Del_p.E73fs	NM_005024	NP_005015	P48595	SPB10_HUMAN	serine (or cysteine) proteinase inhibitor, clade	73						cytoplasm|nucleus	serine-type endopeptidase inhibitor activity			lung(1)|kidney(1)|skin(1)	3		Esophageal squamous(42;0.131)																---	---	---	---
Unknown	0	broad.mit.edu	37	18	61772325	61772325	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61772325delA	uc002ljx.2	+						C18orf20_uc002ljw.3_Intron					Homo sapiens hypothetical protein LOC284294, mRNA (cDNA clone IMAGE:4823205).																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	61848549	61848549	+	Intron	DEL	T	-	-	rs66502540		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61848549delT	uc002ljx.2	+											Homo sapiens hypothetical protein LOC284294, mRNA (cDNA clone IMAGE:4823205).																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	61853230	61853232	+	Intron	DEL	TTA	-	-	rs142080160	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61853230_61853232delTTA	uc002ljx.2	+											Homo sapiens hypothetical protein LOC284294, mRNA (cDNA clone IMAGE:4823205).																														---	---	---	---
Unknown	0	broad.mit.edu	37	18	62235703	62235703	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:62235703delA								C18orf20 (419443 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	62294780	62294780	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:62294780delT								C18orf20 (478520 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	62421604	62421604	+	IGR	DEL	T	-	-	rs146380547		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:62421604delT								C18orf20 (605344 upstream) : CDH7 (995884 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	62509449	62509449	+	IGR	DEL	T	-	-	rs112398805		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:62509449delT								C18orf20 (693189 upstream) : CDH7 (908039 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	62556134	62556134	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:62556134delA								C18orf20 (739874 upstream) : CDH7 (861354 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	62829725	62829725	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:62829725delA								None (None upstream) : CDH7 (587763 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	63252258	63252258	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:63252258delT								None (None upstream) : CDH7 (165230 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	63350972	63350972	+	IGR	DEL	G	-	-	rs11878151	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:63350972delG								None (None upstream) : CDH7 (66516 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	63384176	63384176	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:63384176delA								None (None upstream) : CDH7 (33312 downstream)																																			---	---	---	---
CDH7	1005	broad.mit.edu	37	18	63539448	63539448	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:63539448delA	uc002ljz.2	+						CDH7_uc002lkb.2_Intron	NM_033646	NP_387450			cadherin 7, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)																---	---	---	---
Unknown	0	broad.mit.edu	37	18	63615694	63615694	+	IGR	DEL	T	-	-	rs35608812		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:63615694delT								CDH7 (67520 upstream) : CDH19 (555627 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	63858647	63858647	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:63858647delA								CDH7 (310473 upstream) : CDH19 (312674 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	64437585	64437585	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:64437585delT								CDH19 (166369 upstream) : DSEL (736234 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	64485953	64485953	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:64485953delT								CDH19 (214737 upstream) : DSEL (687866 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	64665619	64665619	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:64665619delA								CDH19 (394403 upstream) : DSEL (508200 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	64769261	64769261	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:64769261delG								CDH19 (498045 upstream) : DSEL (404558 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	64960425	64960425	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:64960425delT								CDH19 (689209 upstream) : DSEL (213394 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	65009451	65009451	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:65009451delT								CDH19 (738235 upstream) : DSEL (164368 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	65167400	65167400	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:65167400delA								CDH19 (896184 upstream) : DSEL (6419 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	65709508	65709508	+	IGR	DEL	A	-	-	rs77188514		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:65709508delA								DSEL (525541 upstream) : TMX3 (631419 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	65922875	65922875	+	IGR	DEL	T	-	-	rs11299845		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:65922875delT								DSEL (738908 upstream) : TMX3 (418052 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	65960230	65960230	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:65960230delT								DSEL (776263 upstream) : TMX3 (380697 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	66278257	66278257	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:66278257delA								None (None upstream) : TMX3 (62670 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	66278985	66278986	+	IGR	DEL	AA	-	-	rs72027372		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:66278985_66278986delAA								None (None upstream) : TMX3 (61941 downstream)																																			---	---	---	---
TMX3	54495	broad.mit.edu	37	18	66381141	66381141	+	Intron	DEL	A	-	-	rs139944394		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:66381141delA	uc002lkf.2	-						CCDC102B_uc002lkk.2_5'Flank|TMX3_uc010xez.1_Intron|TMX3_uc010xfa.1_Intron|TMX3_uc002lkg.3_Intron|CCDC102B_uc002lkh.2_5'Flank	NM_019022	NP_061895			thioredoxin domain containing 10 precursor						cell redox homeostasis|glycerol ether metabolic process	endoplasmic reticulum membrane|integral to membrane	electron carrier activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			skin(1)	1																		---	---	---	---
CCDC102B	79839	broad.mit.edu	37	18	66505733	66505733	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:66505733delT	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)																---	---	---	---
CCDC102B	79839	broad.mit.edu	37	18	66528375	66528375	+	Intron	DEL	A	-	-	rs34120526		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:66528375delA	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)																---	---	---	---
CCDC102B	79839	broad.mit.edu	37	18	66571927	66571928	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:66571927_66571928delCA	uc002lkk.2	+						CCDC102B_uc002lki.2_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)																---	---	---	---
CCDC102B	79839	broad.mit.edu	37	18	66577368	66577368	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:66577368delA	uc002lkk.2	+						CCDC102B_uc002lki.2_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)																---	---	---	---
CCDC102B	79839	broad.mit.edu	37	18	66582243	66582244	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:66582243_66582244delAG	uc002lkk.2	+						CCDC102B_uc002lki.2_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)																---	---	---	---
Unknown	0	broad.mit.edu	37	18	66973315	66973315	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:66973315delA								CCDC102B (250889 upstream) : DOK6 (94976 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	67017223	67017226	+	IGR	DEL	ACAC	-	-	rs28627180		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67017223_67017226delACAC								CCDC102B (294797 upstream) : DOK6 (51065 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	67021348	67021349	+	IGR	INS	-	AAAC	AAAC	rs139223972	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67021348_67021349insAAAC								CCDC102B (298922 upstream) : DOK6 (46942 downstream)																																			---	---	---	---
DOK6	220164	broad.mit.edu	37	18	67233758	67233758	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67233758delA	uc002lkl.2	+							NM_152721	NP_689934			docking protein 6								insulin receptor binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Colorectal(73;0.083)|Esophageal squamous(42;0.131)																---	---	---	---
DOK6	220164	broad.mit.edu	37	18	67260615	67260616	+	Intron	DEL	AA	-	-	rs71796414		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67260615_67260616delAA	uc002lkl.2	+							NM_152721	NP_689934			docking protein 6								insulin receptor binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Colorectal(73;0.083)|Esophageal squamous(42;0.131)																---	---	---	---
DOK6	220164	broad.mit.edu	37	18	67332426	67332426	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67332426delA	uc002lkl.2	+							NM_152721	NP_689934			docking protein 6								insulin receptor binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Colorectal(73;0.083)|Esophageal squamous(42;0.131)																---	---	---	---
DOK6	220164	broad.mit.edu	37	18	67395862	67395862	+	Intron	DEL	A	-	-	rs34090517		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67395862delA	uc002lkl.2	+							NM_152721	NP_689934			docking protein 6								insulin receptor binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Colorectal(73;0.083)|Esophageal squamous(42;0.131)																---	---	---	---
Unknown	0	broad.mit.edu	37	18	67522175	67522175	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67522175delA								DOK6 (6350 upstream) : CD226 (8020 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	67657103	67657105	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67657103_67657105delTTT								CD226 (32871 upstream) : RTTN (13938 downstream)																																			---	---	---	---
RTTN	25914	broad.mit.edu	37	18	67728051	67728052	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67728051_67728052delTT	uc002lkp.2	-						RTTN_uc002lko.2_Intron|RTTN_uc010xfb.1_Intron|RTTN_uc010dqp.2_5'Flank	NM_173630	NP_775901			rotatin								binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)																---	---	---	---
RTTN	25914	broad.mit.edu	37	18	67846701	67846701	+	Intron	DEL	A	-	-	rs114144975	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67846701delA	uc002lkp.2	-						RTTN_uc002lko.2_Intron|RTTN_uc010xfb.1_Intron|RTTN_uc002lkq.1_Intron	NM_173630	NP_775901			rotatin								binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)																---	---	---	---
SOCS6	9306	broad.mit.edu	37	18	67973133	67973134	+	Intron	DEL	GT	-	-	rs41443649	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67973133_67973134delGT	uc002lkr.1	+							NM_004232	NP_004223			suppressor of cytokine signaling 6						defense response|JAK-STAT cascade|negative regulation of signal transduction|regulation of growth	cytoplasm				large_intestine(1)|lung(1)	2		Esophageal squamous(42;0.129)|Colorectal(73;0.152)																---	---	---	---
Unknown	0	broad.mit.edu	37	18	68030535	68030535	+	IGR	DEL	A	-	-	rs5826008		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:68030535delA								SOCS6 (33101 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	68055442	68055444	+	IGR	DEL	TTT	-	-	rs145646234		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:68055442_68055444delTTT								SOCS6 (58008 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	68134902	68134903	+	IGR	DEL	TT	-	-	rs5826017		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:68134902_68134903delTT								SOCS6 (137468 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	68455160	68455161	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:68455160_68455161delGA								SOCS6 (457726 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	68765405	68765405	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:68765405delA								SOCS6 (767971 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	68797709	68797709	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:68797709delC								SOCS6 (800275 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	68808089	68808092	+	IGR	DEL	TAAT	-	-	rs34728342		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:68808089_68808092delTAAT								SOCS6 (810655 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	69290903	69290903	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:69290903delT								None (None upstream) : CBLN2 (913012 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	69296587	69296587	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:69296587delA								None (None upstream) : CBLN2 (907328 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	69453043	69453043	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:69453043delA								None (None upstream) : CBLN2 (750872 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	69727695	69727695	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:69727695delA								None (None upstream) : CBLN2 (476220 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	69762558	69762559	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:69762558_69762559insT								None (None upstream) : CBLN2 (441356 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	70257685	70257686	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:70257685_70257686delAA								CBLN2 (45962 upstream) : NETO1 (151865 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	70386425	70386425	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:70386425delA								CBLN2 (174702 upstream) : NETO1 (23126 downstream)																																			---	---	---	---
NETO1	81832	broad.mit.edu	37	18	70415032	70415032	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:70415032delT	uc002lkw.2	-						NETO1_uc002lkx.1_3'UTR|NETO1_uc002lky.1_3'UTR	NM_138966	NP_620416			neuropilin- and tolloid-like protein 1 isoform 3						memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)														---	---	---	---
NETO1	81832	broad.mit.edu	37	18	70436398	70436398	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:70436398delT	uc002lkw.2	-						NETO1_uc002lkx.1_Intron|NETO1_uc002lky.1_Intron	NM_138966	NP_620416			neuropilin- and tolloid-like protein 1 isoform 3						memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)														---	---	---	---
Unknown	0	broad.mit.edu	37	18	70937394	70937395	+	IGR	DEL	TA	-	-	rs77557550	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:70937394_70937395delTA								NETO1 (402584 upstream) : FBXO15 (803193 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	71053416	71053417	+	IGR	INS	-	G	G	rs71166490		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71053416_71053417insG								NETO1 (518606 upstream) : FBXO15 (687171 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	71147639	71147639	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71147639delT								NETO1 (612829 upstream) : FBXO15 (592949 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	71288262	71288262	+	IGR	DEL	A	-	-	rs71775401		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71288262delA								NETO1 (753452 upstream) : FBXO15 (452326 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	71473508	71473508	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71473508delA								NETO1 (938698 upstream) : FBXO15 (267080 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	71529979	71529980	+	IGR	INS	-	A	A	rs147303776	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71529979_71529980insA								NETO1 (995169 upstream) : FBXO15 (210608 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	71534035	71534035	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71534035delT								NETO1 (999225 upstream) : FBXO15 (206553 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	71544776	71544777	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71544776_71544777delTG								None (None upstream) : FBXO15 (195811 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	71553185	71553185	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71553185delT								None (None upstream) : FBXO15 (187403 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	71571399	71571399	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71571399delT								None (None upstream) : FBXO15 (169189 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	72038814	72038814	+	IGR	DEL	A	-	-	rs35976948		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72038814delA								CYB5A (79593 upstream) : FAM69C (64150 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	72044534	72044541	+	IGR	DEL	GTGTGTGT	-	-	rs67273878		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72044534_72044541delGTGTGTGT								CYB5A (85313 upstream) : FAM69C (58423 downstream)																																			---	---	---	---
ZNF407	55628	broad.mit.edu	37	18	72495509	72495509	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72495509delT	uc002llw.2	+						ZNF407_uc010xfc.1_Intron|ZNF407_uc010dqu.1_Intron	NM_017757	NP_060227			zinc finger protein 407 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)														---	---	---	---
Unknown	0	broad.mit.edu	37	18	72790236	72790236	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72790236delA								ZNF407 (12608 upstream) : ZADH2 (119043 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	72904372	72904372	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72904372delA								ZNF407 (126744 upstream) : ZADH2 (4907 downstream)																																			---	---	---	---
ZADH2	284273	broad.mit.edu	37	18	72919003	72919003	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72919003delA	uc002llx.2	-						ZADH2_uc010dqv.2_5'Flank	NM_175907	NP_787103			zinc binding alcohol dehydrogenase domain							peroxisome	oxidoreductase activity|zinc ion binding				0		Esophageal squamous(42;0.131)|Prostate(75;0.155)		READ - Rectum adenocarcinoma(2;0.0276)|BRCA - Breast invasive adenocarcinoma(31;0.216)														---	---	---	---
C18orf62	284274	broad.mit.edu	37	18	73122898	73122898	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:73122898delT	uc002lma.1	-						C18orf62_uc010dqw.1_Intron	NM_001037331	NP_001032408			hypothetical protein LOC284274							integral to membrane					0		Esophageal squamous(42;0.131)|Prostate(75;0.155)		OV - Ovarian serous cystadenocarcinoma(15;6.21e-06)														---	---	---	---
Unknown	0	broad.mit.edu	37	18	73157913	73157914	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:73157913_73157914insA								C18orf62 (18324 upstream) : ZNF516 (913705 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	73488727	73488728	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:73488727_73488728insA								C18orf62 (349138 upstream) : ZNF516 (582891 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	73627759	73627759	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:73627759delT								C18orf62 (488170 upstream) : ZNF516 (443860 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	73756545	73756545	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:73756545delA								C18orf62 (616956 upstream) : ZNF516 (315074 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	73950199	73950199	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:73950199delA								C18orf62 (810610 upstream) : ZNF516 (121420 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	74006412	74006412	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74006412delT								C18orf62 (866823 upstream) : ZNF516 (65207 downstream)																																			---	---	---	---
ZNF516	9658	broad.mit.edu	37	18	74127157	74127157	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74127157delA	uc010dqx.1	-						ZNF516_uc002lme.2_Intron	NM_014643	NP_055458			zinc finger protein 516						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)														---	---	---	---
LOC284276	284276	broad.mit.edu	37	18	74270343	74270343	+	RNA	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74270343delG	uc002lmg.2	+	3		c.802delG				NR_015417				Homo sapiens cDNA FLJ36617 fis, clone TRACH2016481.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	18	74299907	74299908	+	IGR	INS	-	A	A	rs148481938	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74299907_74299908insA								LOC284276 (28124 upstream) : ZNF236 (236208 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	74322786	74322786	+	IGR	DEL	T	-	-	rs112300592		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74322786delT								LOC284276 (51003 upstream) : ZNF236 (213330 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	74384328	74384328	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74384328delT								LOC284276 (112545 upstream) : ZNF236 (151788 downstream)																																			---	---	---	---
MBP	4155	broad.mit.edu	37	18	74797032	74797032	+	Intron	DEL	T	-	-	rs33957999		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74797032delT	uc010xfd.1	-						MBP_uc002lmr.2_Intron	NM_001025101	NP_001020272			Golli-mbp isoform 1						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	18	74942768	74942768	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74942768delT								MBP (97994 upstream) : GALR1 (19240 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	75044459	75044459	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:75044459delT								GALR1 (62365 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	75989879	75989879	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:75989879delT								None (None upstream) : SALL3 (750396 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	76034954	76034954	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76034954delA								None (None upstream) : SALL3 (705321 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	76280591	76280591	+	IGR	DEL	T	-	-	rs141636658		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76280591delT								None (None upstream) : SALL3 (459684 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	76366976	76366977	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76366976_76366977delCA								None (None upstream) : SALL3 (373298 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	76415882	76415882	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76415882delA								None (None upstream) : SALL3 (324393 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	76520287	76520287	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76520287delA								None (None upstream) : SALL3 (219988 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	76556300	76556300	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76556300delA								None (None upstream) : SALL3 (183975 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	76597100	76597101	+	IGR	DEL	AT	-	-	rs140648013		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76597100_76597101delAT								None (None upstream) : SALL3 (143174 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	76661341	76661341	+	IGR	DEL	A	-	-	rs111783102		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76661341delA								None (None upstream) : SALL3 (78934 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	76695615	76695616	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76695615_76695616insT								None (None upstream) : SALL3 (44659 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	76823731	76823731	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76823731delT								SALL3 (65540 upstream) : ATP9B (5666 downstream)																																			---	---	---	---
ATP9B	374868	broad.mit.edu	37	18	76861334	76861334	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76861334delT	uc002lmx.2	+						ATP9B_uc002lmv.1_Intron|ATP9B_uc002lmw.1_Intron|ATP9B_uc002lmy.1_Intron|ATP9B_uc002lmu.2_Intron	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)														---	---	---	---
ATP9B	374868	broad.mit.edu	37	18	76991297	76991297	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76991297delA	uc002lmx.2	+						ATP9B_uc002lmv.1_Intron|ATP9B_uc002lmw.1_Intron|ATP9B_uc002lmy.1_Intron|ATP9B_uc002lmz.1_Intron	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)														---	---	---	---
NFATC1	4772	broad.mit.edu	37	18	77157644	77157644	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77157644delT	uc010xfg.1	+						NFATC1_uc002lnc.1_Intron|NFATC1_uc010xff.1_Intron|NFATC1_uc002lnd.2_Intron|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Intron|NFATC1_uc010xfi.1_5'Flank|NFATC1_uc010xfj.1_5'Flank|NFATC1_uc002lnf.2_5'Flank|NFATC1_uc002lng.2_5'Flank|NFATC1_uc010xfk.1_5'Flank	NM_006162	NP_006153			nuclear factor of activated T-cells, cytosolic						intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)														---	---	---	---
Unknown	0	broad.mit.edu	37	18	77414720	77414720	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77414720delT								NFATC1 (125398 upstream) : CTDP1 (25081 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	77570178	77570178	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77570178delG								CTDP1 (55671 upstream) : KCNG2 (53490 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	18	77611618	77611621	+	IGR	DEL	GTGT	-	-	rs72376591		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77611618_77611621delGTGT								CTDP1 (97111 upstream) : KCNG2 (12047 downstream)																																			---	---	---	---
C18orf22	79863	broad.mit.edu	37	18	77794081	77794082	+	5'Flank	INS	-	C	C	rs145493642	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77794081_77794082insC	uc002lns.2	+						TXNL4A_uc010drg.2_5'Flank|C18orf22_uc010drh.2_5'Flank|C18orf22_uc010dri.1_5'Flank	NM_024805	NP_079081			hypothetical protein LOC79863 precursor						rRNA processing	mitochondrion					0		all_cancers(4;3.21e-14)|all_epithelial(4;7.11e-09)|all_lung(4;0.00366)|Lung NSC(4;0.00683)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0545)|all_hematologic(56;0.15)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;6.46e-08)|BRCA - Breast invasive adenocarcinoma(31;0.00376)														---	---	---	---
C18orf22	79863	broad.mit.edu	37	18	77831720	77831721	+	Intron	INS	-	T	T	rs59388278		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77831720_77831721insT	uc010dri.1	+						uc002lnu.2_Intron					Homo sapiens hypothetical p38 protein mRNA, complete cds.						rRNA processing	mitochondrion					0		all_cancers(4;3.21e-14)|all_epithelial(4;7.11e-09)|all_lung(4;0.00366)|Lung NSC(4;0.00683)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0545)|all_hematologic(56;0.15)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;6.46e-08)|BRCA - Breast invasive adenocarcinoma(31;0.00376)														---	---	---	---
LOC100130522	100130522	broad.mit.edu	37	18	77913114	77913114	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77913114delT	uc010xfn.1	+						LOC100130522_uc002lnx.2_Intron|LOC100130522_uc010xfo.1_Intron	NM_001145732	NP_001139204			Homo sapiens cDNA FLJ31742 fis, clone NT2RI2007214.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	415739	415739	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:415739delT								C2CD4C (6569 upstream) : SHC2 (846 downstream)																																			---	---	---	---
RNF126	55658	broad.mit.edu	37	19	654971	654971	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:654971delA	uc010drs.2	-							NM_194460	NP_919442			ring finger protein 126								protein binding|zinc ion binding				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-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)														---	---	---	---
PRSSL1	400668	broad.mit.edu	37	19	691213	691213	+	Intron	DEL	A	-	-	rs147436553		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:691213delA	uc002lpl.1	-						PRSSL1_uc010xfs.1_Intron	NM_214710	NP_999875			protease, serine-like 1 precursor						proteolysis	extracellular region	serine-type endopeptidase activity				0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-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)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	701161	701162	+	IGR	DEL	TT	-	-	rs112141412		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:701161_701162delTT								PRSSL1 (5700 upstream) : PALM (7791 downstream)																																			---	---	---	---
PALM	5064	broad.mit.edu	37	19	743849	743849	+	Intron	DEL	A	-	-	rs78591061	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:743849delA	uc002lpm.1	+						PALM_uc002lpn.1_Intron|PALM_uc010xfu.1_Intron	NM_002579	NP_002570			paralemmin isoform 1						cellular component movement|negative regulation of adenylate cyclase activity|negative regulation of dopamine receptor signaling pathway|positive regulation of filopodium assembly|regulation of cell shape	cytoplasmic membrane-bounded vesicle|filopodium membrane|integral to plasma membrane					0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-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)|Lung(535;0.201)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	780651	780651	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:780651delT								C19orf21 (16333 upstream) : PTBP1 (16741 downstream)																																			---	---	---	---
ARID3A	1820	broad.mit.edu	37	19	962233	962233	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:962233delT	uc002lql.2	+							NM_005224	NP_005215			AT rich interactive domain 3A (BRIGHT- like)							cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		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)|STAD - Stomach adenocarcinoma(1328;0.18)														---	---	---	---
GRIN3B	116444	broad.mit.edu	37	19	1002874	1002874	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1002874delA	uc002lqo.1	+							NM_138690	NP_619635			glutamate receptor, ionotropic,						ionotropic glutamate receptor signaling pathway|protein insertion into membrane|regulation of calcium ion transport	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|ionotropic glutamate receptor activity|neurotransmitter receptor activity				0		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)	Glycine(DB00145)|L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)													---	---	---	---
STK11	6794	broad.mit.edu	37	19	1220729	1220729	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1220729delC	uc002lrl.1	+							NM_000455	NP_000446			serine/threonine protein kinase 11						anoikis|cell cycle arrest|energy reserve metabolic process|insulin receptor signaling pathway|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.0?(19)|p.?(2)		lung(174)|cervix(35)|skin(15)|large_intestine(12)|pancreas(6)|gastrointestinal_tract_(site_indeterminate)(5)|stomach(4)|ovary(4)|breast(2)|upper_aerodigestive_tract(1)|testis(1)|liver(1)|biliary_tract(1)|small_intestine(1)|urinary_tract(1)|oesophagus(1)|prostate(1)|kidney(1)	266		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Renal(1328;0.0183)|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)|Lung(535;0.00942)|STAD - Stomach adenocarcinoma(1328;0.18)			14	D|Mis|N|F|S		NSCLC|pancreatic	jejunal harmartoma|ovarian|testicular|pancreatic			Peutz-Jeghers_syndrome	TSP Lung(3;<1E-08)			---	---	---	---
Unknown	0	broad.mit.edu	37	19	1333370	1333371	+	IGR	DEL	AA	-	-	rs74321053		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1333370_1333371delAA								EFNA2 (33426 upstream) : MUM1 (21605 downstream)																																			---	---	---	---
RPS15	6209	broad.mit.edu	37	19	1437649	1437650	+	5'Flank	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1437649_1437650delAA	uc002lsp.1	+						RPS15_uc002lsq.1_5'Flank	NM_001018	NP_001009			ribosomal protein S15						endocrine pancreas development|ribosomal small subunit export from nucleus|rRNA processing|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleoplasm	DNA binding|protein binding|RNA binding				0		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)														---	---	---	---
REEP6	92840	broad.mit.edu	37	19	1496700	1496701	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1496700_1496701delTG	uc002ltc.2	+							NM_138393	NP_612402			receptor accessory protein 6							integral to membrane					0		Acute lymphoblastic leukemia(61;5.61e-13)|all_hematologic(61;2.65e-08)		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)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	1669805	1669805	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1669805delC								TCF3 (17479 upstream) : ONECUT3 (83857 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	1717282	1717285	+	IGR	DEL	TGGG	-	-	rs111674956		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1717282_1717285delTGGG								TCF3 (64956 upstream) : ONECUT3 (36377 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	2260534	2260535	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2260534_2260535delTT								JSRP1 (4118 upstream) : OAZ1 (8985 downstream)																																			---	---	---	---
SPPL2B	56928	broad.mit.edu	37	19	2267683	2267683	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2267683delT	uc010dsw.1	+						OAZ1_uc002lvl.2_5'Flank|OAZ1_uc002lvm.2_5'Flank					SubName: Full=Putative uncharacterized protein ENSP00000371624;							Golgi membrane|integral to membrane	aspartic-type endopeptidase activity				0		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)														---	---	---	---
SPPL2B	56928	broad.mit.edu	37	19	2315490	2315490	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2315490delA	uc010dsw.1	+											SubName: Full=Putative uncharacterized protein ENSP00000371624;							Golgi membrane|integral to membrane	aspartic-type endopeptidase activity				0		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)														---	---	---	---
SPPL2B	56928	broad.mit.edu	37	19	2335786	2335786	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2335786delC	uc002lvs.2	+						SPPL2B_uc010dsw.1_Intron|SPPL2B_uc010dsy.1_Intron|SPPL2B_uc010dsz.1_Intron|SPPL2B_uc002lvr.2_Intron|SPPL2B_uc010dta.1_5'Flank	NM_152988	NP_694533			signal peptide peptidase-like 2B isoform 2							Golgi membrane|integral to membrane	aspartic-type endopeptidase activity				0		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)														---	---	---	---
GNG7	2788	broad.mit.edu	37	19	2630020	2630021	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2630020_2630021delTT	uc002lwd.2	-							NM_052847	NP_443079			guanine nucleotide binding protein (G protein),						cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	signal transducer activity				0		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)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	2838230	2838230	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2838230delT								ZNF554 (1497 upstream) : ZNF555 (3252 downstream)																																			---	---	---	---
TLE6	79816	broad.mit.edu	37	19	2974949	2974949	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2974949delT	uc002lwu.2	+						TLE6_uc002lwt.2_5'Flank|TLE6_uc010dtg.2_5'Flank	NM_024760	NP_079036			transducin-like enhancer of split 6 isoform 2						regulation of transcription, DNA-dependent	nucleus				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)														---	---	---	---
NFIC	4782	broad.mit.edu	37	19	3435654	3435654	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3435654delT	uc010xhi.1	+						NFIC_uc002lxo.2_Intron|NFIC_uc010xhh.1_Intron|NFIC_uc002lxp.2_Intron|NFIC_uc010xhj.1_Intron	NM_205843	NP_995315			nuclear factor I/C isoform 2						DNA replication|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;7.8e-05)|Epithelial(107;2.94e-108)|BRCA - Breast invasive adenocarcinoma(158;0.00154)|STAD - Stomach adenocarcinoma(1328;0.191)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	3486225	3486225	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3486225delA								C19orf77 (5685 upstream) : DOHH (4595 downstream)																																			---	---	---	---
MATK	4145	broad.mit.edu	37	19	3791727	3791727	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3791727delC	uc002lyv.2	-							NM_002378	NP_002369			megakaryocyte-associated tyrosine kinase isoform						cell proliferation|mesoderm development|positive regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(2)|ovary(1)|lung(1)|large_intestine(1)	5		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)														---	---	---	---
ZFR2	23217	broad.mit.edu	37	19	3871111	3871112	+	5'Flank	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3871111_3871112delTG	uc002lyw.2	-						ZFR2_uc010xhx.1_5'Flank|ZFR2_uc002lyx.3_5'Flank|ZFR2_uc010xhy.1_5'Flank	NM_015174	NP_055989			zinc finger RNA binding protein 2 isoform 1							intracellular	nucleic acid binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)														---	---	---	---
MAP2K2	5605	broad.mit.edu	37	19	4115982	4115982	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4115982delC	uc002lzk.2	-							NM_030662	NP_109587			mitogen-activated protein kinase kinase 2						activation of MAPK activity|activation of MAPKK activity|axon guidance|epidermal growth factor receptor signaling pathway|ERK1 and ERK2 cascade|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|extracellular region	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)										Cardiofaciocutaneous_syndrome				---	---	---	---
ANKRD24	170961	broad.mit.edu	37	19	4193495	4193497	+	Intron	DEL	AAG	-	-	rs72198066		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4193495_4193497delAAG	uc010dtt.1	+						ANKRD24_uc002lzs.2_Intron	NM_133475	NP_597732			ankyrin repeat domain 24												0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0233)|STAD - Stomach adenocarcinoma(1328;0.181)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	4272814	4272814	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4272814delT								CCDC94 (3731 upstream) : SHD (5784 downstream)																																			---	---	---	---
HDGFRP2	84717	broad.mit.edu	37	19	4478686	4478686	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4478686delT	uc002mao.2	+						HDGFRP2_uc002map.2_Intron|HDGFRP2_uc010dtz.1_Intron	NM_001001520	NP_001001520			hepatoma-derived growth factor-related protein 2						transcription, DNA-dependent	nucleus	DNA binding|protein binding				0																		---	---	---	---
HDGFRP2	84717	broad.mit.edu	37	19	4492381	4492382	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4492381_4492382delTG	uc002mao.2	+						HDGFRP2_uc002map.2_Intron|HDGFRP2_uc010dtz.1_Intron	NM_001001520	NP_001001520			hepatoma-derived growth factor-related protein 2						transcription, DNA-dependent	nucleus	DNA binding|protein binding				0																		---	---	---	---
HDGFRP2	84717	broad.mit.edu	37	19	4492888	4492889	+	Intron	INS	-	TG	TG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4492888_4492889insTG	uc002mao.2	+						HDGFRP2_uc002map.2_Intron|HDGFRP2_uc010dtz.1_Intron	NM_001001520	NP_001001520			hepatoma-derived growth factor-related protein 2						transcription, DNA-dependent	nucleus	DNA binding|protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	4563851	4563851	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4563851delT								SEMA6B (4080 upstream) : TNFAIP8L1 (75679 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	4601016	4601016	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4601016delC								SEMA6B (41245 upstream) : TNFAIP8L1 (38514 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	4778457	4778457	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4778457delT								C19orf30 (5890 upstream) : FEM1A (13271 downstream)																																			---	---	---	---
ARRDC5	645432	broad.mit.edu	37	19	4894694	4894694	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4894694delA	uc002mbm.2	-							NM_001080523	NP_001073992			arrestin domain containing 5						signal transduction						0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0257)														---	---	---	---
UHRF1	29128	broad.mit.edu	37	19	4938532	4938532	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4938532delT	uc002mbo.2	+						UHRF1_uc010xik.1_Intron|UHRF1_uc010duf.2_Intron|UHRF1_uc002mbp.2_Intron	NM_001048201	NP_001041666			ubiquitin-like with PHD and ring finger domains						cell cycle|cell proliferation|DNA repair|regulation of transcription from RNA polymerase II promoter	nucleus	acid-amino acid ligase activity|methyl-CpG binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0276)														---	---	---	---
KDM4B	23030	broad.mit.edu	37	19	5064614	5064615	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5064614_5064615insA	uc002mbq.3	+						KDM4B_uc010xil.1_Intron|KDM4B_uc010xim.1_Intron	NM_015015	NP_055830			jumonji domain containing 2B						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	5356922	5356922	+	IGR	DEL	A	-	-	rs112654825		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5356922delA								PTPRS (16108 upstream) : ZNRF4 (98504 downstream)																																			---	---	---	---
TMEM146	257062	broad.mit.edu	37	19	5739321	5739321	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5739321delT	uc002mda.2	+						TMEM146_uc010duj.1_Intron	NM_152784	NP_689997			transmembrane protein 146 precursor							integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3																		---	---	---	---
TMEM146	257062	broad.mit.edu	37	19	5760581	5760581	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5760581delG	uc002mda.2	+						TMEM146_uc010duj.1_Intron	NM_152784	NP_689997			transmembrane protein 146 precursor							integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	5815356	5815357	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5815356_5815357delGT								DUS3L (24107 upstream) : NRTN (8461 downstream)																																			---	---	---	---
ACSBG2	81616	broad.mit.edu	37	19	6141915	6141915	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6141915delT	uc002mef.1	+						ACSBG2_uc002mee.1_Intron|ACSBG2_uc002meg.1_Intron|ACSBG2_uc002meh.1_Intron|ACSBG2_uc002mei.1_Intron|ACSBG2_uc010xiz.1_Intron	NM_030924	NP_112186			bubblegum-related acyl-CoA synthetase 2						cell differentiation|fatty acid metabolic process|multicellular organismal development|spermatogenesis	membrane|microsome|mitochondrion	acyl-CoA thioesterase activity|ATP binding|long-chain fatty acid-CoA ligase activity			ovary(1)	1																		---	---	---	---
CRB3	92359	broad.mit.edu	37	19	6466212	6466212	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6466212delA	uc002mey.2	+						CRB3_uc002mez.2_Intron|CRB3_uc002mfa.2_Intron	NM_139161	NP_631900			crumbs 3 isoform a precursor						protein localization in plasma membrane|tight junction assembly	apical plasma membrane|integral to membrane|tight junction	SH3 domain binding				0																		---	---	---	---
SH2D3A	10045	broad.mit.edu	37	19	6761977	6761977	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6761977delA	uc002mft.2	-						SH2D3A_uc010xjg.1_Intron	NM_005490	NP_005481			SH2 domain containing 3A						JNK cascade|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			breast(2)	2																		---	---	---	---
VAV1	7409	broad.mit.edu	37	19	6838404	6838407	+	Intron	DEL	ATCC	-	-	rs142783534		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6838404_6838407delATCC	uc002mfu.1	+						VAV1_uc010xjh.1_Intron|VAV1_uc010dva.1_Intron|VAV1_uc002mfv.1_Intron	NM_005428	NP_005419			vav 1 guanine nucleotide exchange factor						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(4)|ovary(4)|breast(3)|central_nervous_system(2)|kidney(2)|skin(1)	16																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	7001898	7001898	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7001898delA								EMR4P (11041 upstream) : FLJ25758 (3066 downstream)																																			---	---	---	---
INSR	3643	broad.mit.edu	37	19	7135524	7135524	+	Intron	DEL	A	-	-	rs76128873		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7135524delA	uc002mgd.1	-						INSR_uc002mge.1_Intron	NM_000208	NP_000199			insulin receptor isoform Long precursor						activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)													---	---	---	---
INSR	3643	broad.mit.edu	37	19	7175845	7175846	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7175845_7175846delAA	uc002mgd.1	-						INSR_uc002mge.1_Intron|INSR_uc002mgf.2_Intron	NM_000208	NP_000199			insulin receptor isoform Long precursor						activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)													---	---	---	---
Unknown	0	broad.mit.edu	37	19	7403514	7403515	+	IGR	DEL	GG	-	-	rs67583592	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7403514_7403515delGG								INSR (109503 upstream) : ARHGEF18 (44205 downstream)																																			---	---	---	---
KIAA1543	57662	broad.mit.edu	37	19	7675204	7675204	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7675204delA	uc002mgv.3	+						KIAA1543_uc002mgu.3_Intron	NM_020902	NP_065953			NEZHA isoform 2						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																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	7841621	7841621	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7841621delA								CLEC4M (7131 upstream) : CLEC4GP1 (10749 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	7888211	7888211	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7888211delA								CLEC4GP1 (32313 upstream) : EVI5L (6950 downstream)																																			---	---	---	---
EVI5L	115704	broad.mit.edu	37	19	7913484	7913484	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7913484delA	uc002min.2	+						EVI5L_uc010xjz.1_Intron|EVI5L_uc002mio.1_5'Flank	NM_145245	NP_660288			ecotropic viral integration site 5-like isoform							intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1																		---	---	---	---
TIMM44	10469	broad.mit.edu	37	19	8010131	8010131	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8010131delA	uc002miz.2	-						TIMM44_uc002mja.2_5'Flank|TIMM44_uc010dvx.1_5'Flank	NM_006351	NP_006342			translocase of inner mitochondrial membrane 44						protein targeting to mitochondrion	mitochondrial inner membrane presequence translocase complex|mitochondrial matrix	ATP binding|P-P-bond-hydrolysis-driven protein transmembrane transporter activity			ovary(1)	1																		---	---	---	---
FBN3	84467	broad.mit.edu	37	19	8188240	8188240	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8188240delA	uc002mjf.2	-							NM_032447	NP_115823			fibrillin 3 precursor							proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11																		---	---	---	---
LASS4	79603	broad.mit.edu	37	19	8295065	8295065	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8295065delT	uc002mjg.2	+						LASS4_uc002mjh.2_Intron|LASS4_uc002mji.2_Intron|LASS4_uc010dvz.2_Intron	NM_024552	NP_078828			LAG1 homolog, ceramide synthase 4							endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(1)	1																		---	---	---	---
HNRNPM	4670	broad.mit.edu	37	19	8538906	8538907	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8538906_8538907insT	uc010dwe.2	+						HNRNPM_uc010dwc.1_Intron|HNRNPM_uc010xke.1_Intron|HNRNPM_uc010dwd.2_Intron|HNRNPM_uc002mka.2_Intron	NM_005968	NP_005959			heterogeneous nuclear ribonucleoprotein M						alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	8947176	8947176	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8947176delT								ZNF558 (4201 upstream) : MBD3L1 (6093 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	9184450	9184450	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9184450delA								MUC16 (92432 upstream) : OR1M1 (19471 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	9558904	9558904	+	IGR	DEL	C	-	-	rs962820	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9558904delC								ZNF266 (12670 upstream) : ZNF560 (18127 downstream)																																			---	---	---	---
ZNF560	147741	broad.mit.edu	37	19	9608929	9608929	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9608929delT	uc002mlp.1	-						ZNF560_uc010dwr.1_Intron	NM_152476	NP_689689			zinc finger protein 560						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6																OREG0025225	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
ZNF121	7675	broad.mit.edu	37	19	9687958	9687958	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9687958delA	uc010xkp.1	-						ZNF121_uc010dwt.2_Intron|ZNF121_uc010xkq.1_Intron	NM_001008727	NP_001008727			zinc finger protein 121						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	9755727	9755728	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9755727_9755728delTT								ZNF561 (23811 upstream) : ZNF562 (3623 downstream)																																			---	---	---	---
OLFM2	93145	broad.mit.edu	37	19	10028872	10028872	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10028872delT	uc002mmp.2	-							NM_058164	NP_477512			olfactomedin 2 precursor							extracellular region				large_intestine(1)|skin(1)	2																		---	---	---	---
COL5A3	50509	broad.mit.edu	37	19	10116992	10116992	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10116992delT	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)															---	---	---	---
Unknown	0	broad.mit.edu	37	19	10310524	10310525	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10310524_10310525delTT								DNMT1 (4769 upstream) : S1PR2 (21584 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	10377498	10377498	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10377498delT								MRPL4 (6764 upstream) : ICAM1 (4019 downstream)																																			---	---	---	---
RAVER1	125950	broad.mit.edu	37	19	10428050	10428050	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10428050delA	uc002moa.2	-	13					FDX1L_uc002mnx.1_5'Flank|FDX1L_uc002mny.1_5'Flank|RAVER1_uc002mnz.2_3'UTR	NM_133452	NP_597709			RAVER1							cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.81e-09)|Epithelial(33;3.65e-06)|all cancers(31;8.35e-06)															---	---	---	---
RAVER1	125950	broad.mit.edu	37	19	10439650	10439651	+	Frame_Shift_Ins	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10439650_10439651insG	uc002moa.2	-	3	554_555	c.474_475insC	c.(472-477)CCCAGCfs	p.P158fs		NM_133452	NP_597709	Q8IY67	RAVR1_HUMAN	RAVER1	141_142	RRM 2.					cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.81e-09)|Epithelial(33;3.65e-06)|all cancers(31;8.35e-06)															---	---	---	---
Unknown	0	broad.mit.edu	37	19	10500220	10500221	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10500220_10500221delTT								TYK2 (8943 upstream) : CDC37 (1588 downstream)																																	OREG0025234	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
PDE4A	5141	broad.mit.edu	37	19	10573779	10573780	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10573779_10573780delTT	uc002moj.2	+						PDE4A_uc002mok.2_Intron|PDE4A_uc002mol.2_Intron|PDE4A_uc002mom.2_Intron|PDE4A_uc002mon.2_Intron|PDE4A_uc002moo.2_Intron	NM_001111307	NP_001104777			phosphodiesterase 4A isoform 1						signal transduction	cytosol|membrane fraction|perinuclear region of cytoplasm|ruffle membrane|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;5.8e-10)|Epithelial(33;7.58e-07)|all cancers(31;3.91e-06)		Cilostazol(DB01166)|Dipyridamole(DB00975)|Dyphylline(DB00651)|Enprofylline(DB00824)|Iloprost(DB01088)|Milrinone(DB00235)|Pentoxifylline(DB00806)|Phentolamine(DB00692)|Tadalafil(DB00820)|Theophylline(DB00277)													---	---	---	---
Unknown	0	broad.mit.edu	37	19	10645769	10645769	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10645769delT								S1PR5 (17162 upstream) : ATG4D (8824 downstream)																																			---	---	---	---
SMARCA4	6597	broad.mit.edu	37	19	11115522	11115522	+	Intron	DEL	T	-	-	rs35249801		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11115522delT	uc002mqf.3	+						SMARCA4_uc010dxp.2_Intron|SMARCA4_uc010dxo.2_Intron|SMARCA4_uc002mqg.1_Intron|SMARCA4_uc010dxq.2_Intron|SMARCA4_uc010dxr.2_Intron|SMARCA4_uc002mqj.3_Intron|SMARCA4_uc010dxs.2_Intron	NM_003072	NP_003063			SWI/SNF-related matrix-associated						chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)						F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				---	---	---	---
DOCK6	57572	broad.mit.edu	37	19	11326767	11326768	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11326767_11326768delTT	uc002mqs.3	-						DOCK6_uc010xlq.1_Intron	NM_020812	NP_065863			dedicator of cytokinesis 6						blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3																		---	---	---	---
DOCK6	57572	broad.mit.edu	37	19	11341016	11341016	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11341016delA	uc002mqs.3	-						DOCK6_uc010xlq.1_Intron	NM_020812	NP_065863			dedicator of cytokinesis 6						blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3																		---	---	---	---
EPOR	2057	broad.mit.edu	37	19	11488473	11488473	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11488473delA	uc002mrh.2	-	2										SubName: Full=Erythropoietin receptor; Flags: Fragment;							extracellular region|integral to plasma membrane	erythropoietin receptor activity|identical protein binding			ovary(1)	1					Darbepoetin alfa(DB00012)|Epoetin alfa(DB00016)											OREG0025254	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
EPOR	2057	broad.mit.edu	37	19	11492884	11492885	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11492884_11492885delTG	uc002mrj.1	-						EPOR_uc002mrh.2_5'Flank|EPOR_uc002mri.2_Intron|EPOR_uc002mrk.1_Intron|EPOR_uc002mrl.1_Intron|EPOR_uc010xlx.1_Intron|EPOR_uc010xly.1_Intron	NM_000121	NP_000112			erythropoietin receptor precursor							extracellular region|integral to plasma membrane	erythropoietin receptor activity|identical protein binding			ovary(1)	1					Darbepoetin alfa(DB00012)|Epoetin alfa(DB00016)													---	---	---	---
ZNF833	401898	broad.mit.edu	37	19	11747889	11747889	+	5'Flank	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11747889delG	uc002msl.3	+											Homo sapiens cDNA FLJ44800 fis, clone BRACE3041162, moderately similar to Homo sapiens zinc finger protein 14 (KOX 6) (ZNF14).												0																		---	---	---	---
ZNF20	7568	broad.mit.edu	37	19	12261867	12261867	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12261867delT	uc002mtg.1	-						ZNF625_uc010dyn.1_Intron|ZNF625_uc002mth.2_Intron	NM_021143	NP_066966			zinc finger protein 20						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	12313724	12313726	+	Intron	DEL	TTT	-	-	rs76425202		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12313724_12313726delTTT	uc002mtk.1	+						uc010dyq.1_Intron|uc002mtj.1_Intron					Homo sapiens cDNA FLJ13242 fis, clone OVARC1000578.																														---	---	---	---
ZNF799	90576	broad.mit.edu	37	19	12508215	12508215	+	Intron	DEL	A	-	-	rs112413283		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12508215delA	uc010dyt.2	-						ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290			zinc finger protein 799						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6																		---	---	---	---
ZNF709	163051	broad.mit.edu	37	19	12652359	12652359	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12652359delA	uc002mtx.3	-						ZNF564_uc002mty.2_Intron	NM_001145647	NP_001139119			zinc finger protein 709 isoform b						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	12676475	12676475	+	IGR	DEL	A	-	-	rs35443500		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12676475delA								ZNF709 (14119 upstream) : ZNF490 (10445 downstream)																																			---	---	---	---
MAN2B1	4125	broad.mit.edu	37	19	12774025	12774026	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12774025_12774026insA	uc002mub.2	-						MAN2B1_uc010dyv.1_Intron	NM_000528	NP_000519			mannosidase, alpha, class 2B, member 1						protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6																		---	---	---	---
DHPS	1725	broad.mit.edu	37	19	12791349	12791350	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12791349_12791350insT	uc002muh.1	-						DHPS_uc002muf.1_5'Flank|DHPS_uc002mug.1_Intron|DHPS_uc002mui.1_Intron|DHPS_uc002muj.1_Intron|DHPS_uc002muk.1_Intron|DHPS_uc010xmn.1_Intron	NM_001930	NP_001921			deoxyhypusine synthase isoform a						peptidyl-lysine modification to hypusine|positive regulation of cell proliferation|post-translational protein modification|spermidine catabolic process to deoxyhypusine, using deoxyhypusine synthase|translation	cytosol	deoxyhypusine synthase activity|protein binding			central_nervous_system(1)	1					Sulfadoxine(DB01299)													---	---	---	---
Unknown	0	broad.mit.edu	37	19	12869738	12869738	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12869738delT								BEST2 (469 upstream) : HOOK2 (4079 downstream)																																			---	---	---	---
SYCE2	256126	broad.mit.edu	37	19	13028934	13028934	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13028934delA	uc002mvr.2	-							NM_001105578	NP_001099048			synaptonemal complex central element protein 2						cell division	central element					0																		---	---	---	---
CALR	811	broad.mit.edu	37	19	13050676	13050677	+	Intron	DEL	TT	-	-	rs111588637		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13050676_13050677delTT	uc002mvu.2	+							NM_004343	NP_004334			calreticulin precursor						cell cycle arrest|cellular senescence|glucocorticoid receptor signaling pathway|negative regulation of neuron differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of steroid hormone receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of translation|peptide antigen assembly with MHC class I protein complex|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of DNA replication|positive regulation of phagocytosis|post-translational protein modification|protein export from nucleus|protein maturation by protein folding|protein N-linked glycosylation via asparagine|protein stabilization|regulation of apoptosis|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|extracellular space|MHC class I peptide loading complex|nucleus|perinuclear region of cytoplasm|polysome|proteinaceous extracellular matrix	androgen receptor binding|calcium ion binding|chaperone binding|complement component C1q binding|DNA binding|integrin binding|mRNA binding|protein binding involved in protein folding|sugar binding|ubiquitin protein ligase binding|unfolded protein binding|zinc ion binding			ovary(1)	1					Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
Unknown	0	broad.mit.edu	37	19	13092301	13092301	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13092301delT								DAND5 (6734 upstream) : NFIX (14283 downstream)																																			---	---	---	---
NFIX	4784	broad.mit.edu	37	19	13174297	13174297	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13174297delT	uc010xmx.1	+						NFIX_uc002mwd.2_Intron|NFIX_uc002mwe.2_Intron|NFIX_uc002mwf.2_Intron|NFIX_uc002mwg.1_Intron					RecName: Full=Nuclear factor 1;						DNA replication|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			breast(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(19;8.2e-22)															---	---	---	---
TRMT1	55621	broad.mit.edu	37	19	13221782	13221782	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13221782delA	uc002mwj.2	-						TRMT1_uc010xmy.1_5'Flank|TRMT1_uc002mwk.2_Intron|TRMT1_uc002mwl.3_Intron|TRMT1_uc010xmz.1_Intron	NM_017722	NP_060192			tRNA methyltransferase 1 isoform 1								RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.08e-22)	GBM - Glioblastoma multiforme(1328;0.0356)														---	---	---	---
NACC1	112939	broad.mit.edu	37	19	13244170	13244170	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13244170delA	uc002mwm.2	+							NM_052876	NP_443108			transcriptional repressor NAC1						negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|protein homooligomerization|transcription, DNA-dependent	cytoplasm|nuclear body					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	13284693	13284694	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13284693_13284694insT								IER2 (18977 upstream) : CACNA1A (32562 downstream)																																			---	---	---	---
CACNA1A	773	broad.mit.edu	37	19	13387838	13387838	+	Intron	DEL	A	-	-	rs34471308		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13387838delA	uc010dze.2	-						CACNA1A_uc010xnd.1_5'Flank|CACNA1A_uc002mwx.3_5'Flank|CACNA1A_uc010dzc.2_Intron|CACNA1A_uc002mwy.3_Intron|CACNA1A_uc010xne.1_Intron	NM_001127221	NP_001120693			calcium channel, alpha 1A subunit isoform 3						cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)											OREG0025295	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
CACNA1A	773	broad.mit.edu	37	19	13411132	13411132	+	Intron	DEL	T	-	-	rs138629534		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13411132delT	uc010dze.2	-						CACNA1A_uc010dzc.2_Intron|CACNA1A_uc002mwy.3_Intron|CACNA1A_uc010xne.1_Intron	NM_001127221	NP_001120693			calcium channel, alpha 1A subunit isoform 3						cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)													---	---	---	---
Unknown	0	broad.mit.edu	37	19	13729933	13729934	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13729933_13729934insG								CACNA1A (112659 upstream) : CCDC130 (112640 downstream)																																			---	---	---	---
RLN3	117579	broad.mit.edu	37	19	14137725	14137726	+	5'Flank	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14137725_14137726delAA	uc002mxw.1	+						RLN3_uc010dzj.1_5'Flank	NM_080864	NP_543140			relaxin 3 preproprotein							extracellular region	hormone activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	14433180	14433180	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14433180delT								LPHN1 (116183 upstream) : CD97 (59033 downstream)																																			---	---	---	---
CD97	976	broad.mit.edu	37	19	14499040	14499040	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14499040delA	uc002myl.2	+						CD97_uc002mym.2_Intron|CD97_uc002myn.2_Intron	NM_078481	NP_510966			CD97 antigen isoform 1 precursor						cell adhesion|cell-cell signaling|cellular component movement|immune response|inflammatory response|neuropeptide signaling pathway	extracellular space|integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(3)|breast(1)	4																		---	---	---	---
CD97	976	broad.mit.edu	37	19	14515679	14515681	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14515679_14515681delTTT	uc002myl.2	+						CD97_uc002mym.2_Intron|CD97_uc002myn.2_Intron	NM_078481	NP_510966			CD97 antigen isoform 1 precursor						cell adhesion|cell-cell signaling|cellular component movement|immune response|inflammatory response|neuropeptide signaling pathway	extracellular space|integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(3)|breast(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	14538930	14538930	+	IGR	DEL	A	-	-	rs8100876	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14538930delA								DDX39 (8759 upstream) : PKN1 (5236 downstream)																																			---	---	---	---
LOC100130932	100130932	broad.mit.edu	37	19	14600562	14600563	+	3'UTR	INS	-	T	T	rs112089676	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14600562_14600563insT	uc010xnq.1	+	1					GIPC1_uc002myt.2_Intron|GIPC1_uc002myu.2_Intron|GIPC1_uc002myv.2_Intron|GIPC1_uc002myw.2_Intron|GIPC1_uc002myx.2_Intron|GIPC1_uc002myy.2_Intron	NM_001146693	NP_001140165			small nuclear ribonucleoprotein G-like protein												0																		---	---	---	---
EMR3	84658	broad.mit.edu	37	19	14740629	14740629	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14740629delT	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																		---	---	---	---
EMR3	84658	broad.mit.edu	37	19	14779168	14779168	+	Intron	DEL	T	-	-	rs113084264		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14779168delT	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	14969206	14969207	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14969206_14969207delAG								OR7A10 (16517 upstream) : OR7A17 (22033 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	15250918	15250918	+	IGR	DEL	C	-	-	rs2188960	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15250918delC								ILVBL (14341 upstream) : NOTCH3 (19527 downstream)																																			---	---	---	---
NOTCH3	4854	broad.mit.edu	37	19	15305060	15305060	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15305060delA	uc002nan.2	-						NOTCH3_uc002nao.1_Intron	NM_000435	NP_000426			Notch homolog 3 precursor						Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)															---	---	---	---
Unknown	0	broad.mit.edu	37	19	15317249	15317250	+	IGR	INS	-	TTC	TTC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15317249_15317250insTTC								NOTCH3 (5457 upstream) : EPHX3 (20481 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	15705681	15705681	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15705681delT								CYP4F22 (42554 upstream) : CYP4F8 (20348 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	15717141	15717142	+	IGR	INS	-	TT	TT	rs137877567	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15717141_15717142insTT								CYP4F22 (54014 upstream) : CYP4F8 (8887 downstream)																																			---	---	---	---
CYP4F12	66002	broad.mit.edu	37	19	15782078	15782078	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15782078delT	uc002nbl.2	+						CYP4F12_uc010xoo.1_5'Flank|CYP4F12_uc010xop.1_5'Flank	NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,											skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)																	---	---	---	---
Unknown	0	broad.mit.edu	37	19	15831414	15831414	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15831414delC								CYP4F12 (23430 upstream) : OR10H2 (7420 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	16014396	16014396	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16014396delT								CYP4F2 (5512 upstream) : CYP4F11 (8784 downstream)																																			---	---	---	---
EPS15L1	58513	broad.mit.edu	37	19	16539012	16539012	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16539012delA	uc002ndz.1	-						EPS15L1_uc002ndx.2_Intron|EPS15L1_uc002ndy.2_Intron|EPS15L1_uc010xpe.1_Intron|EPS15L1_uc010xpf.1_Intron|EPS15L1_uc002nea.1_Intron|EPS15L1_uc010eah.1_Intron|EPS15L1_uc002neb.1_Intron|EPS15L1_uc002nec.1_Intron	NM_021235	NP_067058			epidermal growth factor receptor pathway						endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	coated pit|nucleus|plasma membrane	calcium ion binding			ovary(3)|skin(2)	5																		---	---	---	---
NWD1	284434	broad.mit.edu	37	19	16836125	16836126	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16836125_16836126delTT	uc002neu.3	+						NWD1_uc002net.3_Intron					RecName: Full=NACHT and WD repeat domain-containing protein 1;								ATP binding			skin(3)|ovary(2)|pancreas(2)	7																		---	---	---	---
NWD1	284434	broad.mit.edu	37	19	16915406	16915406	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16915406delT	uc002neu.3	+						NWD1_uc002net.3_Intron|NWD1_uc002nev.3_Intron					RecName: Full=NACHT and WD repeat domain-containing protein 1;								ATP binding			skin(3)|ovary(2)|pancreas(2)	7																		---	---	---	---
CPAMD8	27151	broad.mit.edu	37	19	17109514	17109514	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17109514delA	uc002nfb.2	-							NM_015692	NP_056507			C3 and PZP-like, alpha-2-macroglobulin domain							extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13																		---	---	---	---
CPAMD8	27151	broad.mit.edu	37	19	17119514	17119514	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17119514delA	uc002nfb.2	-							NM_015692	NP_056507			C3 and PZP-like, alpha-2-macroglobulin domain							extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13																		---	---	---	---
DDA1	79016	broad.mit.edu	37	19	17429479	17429479	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17429479delT	uc002ngd.2	+						DDA1_uc002nge.2_Intron	NM_024050	NP_076955			DET1 and DDB1 associated 1											ovary(1)	1																		---	---	---	---
GLT25D1	79709	broad.mit.edu	37	19	17680253	17680254	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17680253_17680254delTT	uc002nhc.1	+						GLT25D1_uc010eax.1_Intron	NM_024656	NP_078932			glycosyltransferase 25 domain containing 1						lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity				0																		---	---	---	---
UNC13A	23025	broad.mit.edu	37	19	17731903	17731903	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17731903delA	uc002nhd.2	-							NM_001080421	NP_001073890			unc-13 homolog A						exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3																		---	---	---	---
IL12RB1	3594	broad.mit.edu	37	19	18197761	18197762	+	5'Flank	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18197761_18197762insA	uc002nhw.1	-						IL12RB1_uc010xqb.1_5'Flank|IL12RB1_uc002nhx.1_Intron|IL12RB1_uc002nhy.2_5'Flank	NM_005535	NP_005526			interleukin 12 receptor, beta 1 isoform 1						cellular response to interferon-gamma|interleukin-12-mediated signaling pathway|positive regulation of activated T cell proliferation|positive regulation of defense response to virus by host|positive regulation of interferon-gamma 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	interleukin-12 receptor complex|interleukin-23 receptor complex	cytokine receptor activity			pancreas(1)	1																		---	---	---	---
MAST3	23031	broad.mit.edu	37	19	18259286	18259286	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18259286delA	uc002nhz.3	+							NM_015016	NP_055831			microtubule associated serine/threonine kinase								ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			large_intestine(2)|ovary(2)|stomach(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	18439123	18439124	+	IGR	INS	-	A	A	rs74894674		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18439123_18439124insA								LSM4 (5122 upstream) : PGPEP1 (12284 downstream)																																			---	---	---	---
CRLF1	9244	broad.mit.edu	37	19	18707343	18707343	+	Intron	DEL	A	-	-	rs78616489		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18707343delA	uc010ebt.1	-							NM_004750	NP_004741			cytokine receptor-like factor 1 precursor						negative regulation of neuron apoptosis|positive regulation of cell proliferation|positive regulation of tyrosine phosphorylation of Stat3 protein	extracellular space	cytokine binding|protein heterodimerization activity|receptor activity			central_nervous_system(1)	1																		---	---	---	---
COPE	11316	broad.mit.edu	37	19	19015742	19015742	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19015742delC	uc002nkk.2	-						COPE_uc002nkl.2_Intron|COPE_uc002nkm.2_Intron|COPE_uc002nkn.2_Intron	NM_007263	NP_009194			epsilon subunit of coatomer protein complex						COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	binding|structural molecule activity				0																		---	---	---	---
GATAD2A	54815	broad.mit.edu	37	19	19533526	19533528	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19533526_19533528delTTT	uc010xqt.1	+						GATAD2A_uc010xqu.1_Intron	NM_017660	NP_060130			GATA zinc finger domain containing 2A						DNA methylation|negative regulation of transcription, DNA-dependent	nuclear speck|NuRD complex	protein binding, bridging|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0																		---	---	---	---
ATP13A1	57130	broad.mit.edu	37	19	19759929	19759929	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19759929delA	uc002nnh.3	-						ATP13A1_uc002nne.2_Intron|ATP13A1_uc002nnf.3_Intron|ATP13A1_uc002nng.2_Intron	NM_020410	NP_065143			ATPase type 13A1						ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	20635102	20635102	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:20635102delT								ZNF826 (27340 upstream) : ZNF737 (85697 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	20924393	20924396	+	IGR	DEL	AAAC	-	-	rs5827476		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:20924393_20924396delAAAC								ZNF626 (79991 upstream) : ZNF85 (181684 downstream)																																			---	---	---	---
ZNF430	80264	broad.mit.edu	37	19	21215559	21215559	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21215559delT	uc002npj.2	+						ZNF430_uc002npk.2_Intron	NM_025189	NP_079465			zinc finger protein 430						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2																		---	---	---	---
ZNF430	80264	broad.mit.edu	37	19	21217112	21217112	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21217112delT	uc002npj.2	+						ZNF430_uc002npk.2_Intron	NM_025189	NP_079465			zinc finger protein 430						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	21383941	21383941	+	IGR	DEL	T	-	-	rs34843627		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21383941delT								ZNF431 (15136 upstream) : ZNF708 (90022 downstream)																																			---	---	---	---
ZNF708	7562	broad.mit.edu	37	19	21485887	21485887	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21485887delA	uc002npq.1	-						ZNF708_uc002npr.1_Intron|ZNF708_uc010ecs.1_Intron	NM_021269	NP_067092			zinc finger protein 708						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(4)|skin(2)	6																		---	---	---	---
ZNF738	148203	broad.mit.edu	37	19	21546998	21546999	+	Intron	INS	-	AAAAA	AAAAA	rs60889988		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21546998_21546999insAAAAA	uc002nps.3	+						ZNF738_uc002npt.3_Intron	NR_027130				SubName: Full=cDNA FLJ14673 fis, clone NT2RP2003714, moderately similar to Zinc finger protein 430;												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	21618082	21618084	+	IGR	DEL	TTT	-	-	rs71720904		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21618082_21618084delTTT								ZNF493 (7788 upstream) : ZNF429 (70353 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	21639084	21639084	+	RNA	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21639084delA	uc002npz.2	-	2		c.448delT								Homo sapiens mRNA; cDNA DKFZp779J0122 (from clone DKFZp779J0122).																														---	---	---	---
ZNF429	353088	broad.mit.edu	37	19	21714308	21714308	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21714308delA	uc002nqd.1	+						ZNF429_uc010ecu.1_Intron	NM_001001415	NP_001001415			zinc finger protein 429						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2																		---	---	---	---
ZNF429	353088	broad.mit.edu	37	19	21720912	21720912	+	3'UTR	DEL	A	-	-	rs35018389		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21720912delA	uc002nqd.1	+	4					ZNF429_uc010ecu.1_Intron	NM_001001415	NP_001001415			zinc finger protein 429						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	21745738	21745739	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21745738_21745739delAA								ZNF429 (6670 upstream) : ZNF100 (161105 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	21768815	21768815	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21768815delG	uc002nqe.2	-											full-length cDNA clone CS0DH004YH18 of T cells (Jurkat cell line) of Homo sapiens (human).																														---	---	---	---
ZNF43	7594	broad.mit.edu	37	19	22002026	22002026	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:22002026delA	uc002nqj.2	-						ZNF43_uc010ecv.2_Intron|ZNF43_uc002nql.2_Intron|ZNF43_uc002nqm.2_Intron|ZNF43_uc002nqk.2_Intron	NM_003423	NP_003414			zinc finger protein 43						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)														---	---	---	---
ZNF208	7757	broad.mit.edu	37	19	22191571	22191571	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:22191571delA	uc002nqp.2	-						ZNF208_uc002nqo.1_Intron|ZNF208_uc002nqq.2_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)																---	---	---	---
Unknown	0	broad.mit.edu	37	19	22482363	22482363	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:22482363delT								ZNF676 (102610 upstream) : ZNF98 (91536 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	22782375	22782376	+	Intron	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:22782375_22782376delTC	uc002nqu.3	+											Homo sapiens cDNA FLJ60031 complete cds, moderately similar to Golgin subfamily A member 2.																														---	---	---	---
Unknown	0	broad.mit.edu	37	19	23032914	23032914	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:23032914delT								ZNF99 (80130 upstream) : ZNF91 (488505 downstream)																																			---	---	---	---
ZNF91	7644	broad.mit.edu	37	19	23571961	23571962	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:23571961_23571962delAA	uc002nre.2	-						ZNF91_uc010xrj.1_Intron	NM_003430	NP_003421			zinc finger protein 91							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)																---	---	---	---
Unknown	0	broad.mit.edu	37	19	23611632	23611632	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:23611632delA								ZNF91 (33363 upstream) : ZNF675 (224077 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	23761511	23761511	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:23761511delA								ZNF91 (183242 upstream) : ZNF675 (74198 downstream)																																			---	---	---	---
RPSAP58	388524	broad.mit.edu	37	19	24007948	24007948	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:24007948delT	uc002nrn.2	+							NM_002295	NP_002286			ribosomal protein SA												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	24563869	24563869	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:24563869delT								LOC100101266 (217620 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	27757434	27757435	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:27757434_27757435insT								None (None upstream) : LOC148189 (523967 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	27807823	27807824	+	IGR	INS	-	A	A	rs143236970		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:27807823_27807824insA								None (None upstream) : LOC148189 (473578 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	28018485	28018485	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:28018485delA								None (None upstream) : LOC148189 (262917 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	28222319	28222319	+	RNA	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:28222319delA	uc002nrw.1	-	3		c.1342delT								Homo sapiens cDNA FLJ36869 fis, clone ASTRO2016819.																														---	---	---	---
Unknown	0	broad.mit.edu	37	19	29755440	29755440	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:29755440delA								UQCRFS1 (51304 upstream) : VSTM2B (262051 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	30265367	30265367	+	IGR	DEL	A	-	-	rs75850828		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:30265367delA								C19orf12 (58915 upstream) : CCNE1 (37534 downstream)																																			---	---	---	---
C19orf2	8725	broad.mit.edu	37	19	30428870	30428870	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:30428870delT	uc002nsq.2	+							NM_134447	NP_604431			RPB5-mediating protein isoform b						protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	30667129	30667129	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:30667129delT								C19orf2 (160518 upstream) : ZNF536 (196199 downstream)																																			---	---	---	---
ZNF536	9745	broad.mit.edu	37	19	31040535	31040536	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31040535_31040536insA	uc002nsu.1	+						ZNF536_uc010edd.1_Intron	NM_014717	NP_055532			zinc finger protein 536						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)																	---	---	---	---
Unknown	0	broad.mit.edu	37	19	31338031	31338032	+	IGR	DEL	AC	-	-	rs4990824		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31338031_31338032delAC								ZNF536 (289066 upstream) : DKFZp566F0947 (302751 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	31543399	31543401	+	IGR	DEL	TTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31543399_31543401delTTG								ZNF536 (494434 upstream) : DKFZp566F0947 (97382 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	31592312	31592312	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31592312delA								ZNF536 (543347 upstream) : DKFZp566F0947 (48471 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	32028572	32028572	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:32028572delA								TSHZ3 (188382 upstream) : ZNF507 (807942 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	32552007	32552007	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:32552007delT								TSHZ3 (711817 upstream) : ZNF507 (284507 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	32557809	32557809	+	IGR	DEL	A	-	-	rs10719167		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:32557809delA								TSHZ3 (717619 upstream) : ZNF507 (278705 downstream)																																			---	---	---	---
ANKRD27	84079	broad.mit.edu	37	19	33113679	33113679	+	Intron	DEL	T	-	-	rs77974943		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:33113679delT	uc002ntn.1	-							NM_032139	NP_115515			ankyrin repeat domain 27 (VPS9 domain)						early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)																	---	---	---	---
ANKRD27	84079	broad.mit.edu	37	19	33133275	33133275	+	Intron	DEL	A	-	-	rs71747098		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:33133275delA	uc002ntn.1	-						ANKRD27_uc002nto.1_Intron	NM_032139	NP_115515			ankyrin repeat domain 27 (VPS9 domain)						early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)																	---	---	---	---
TDRD12	91646	broad.mit.edu	37	19	33281512	33281512	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:33281512delA	uc002ntq.2	+						TDRD12_uc002ntr.3_Intron					RecName: Full=Tudor domain-containing protein 12; AltName: Full=ES cell-associated transcript 8 protein;								ATP binding|ATP-dependent helicase activity|nucleic acid binding				0	Esophageal squamous(110;0.137)																	---	---	---	---
GPATCH1	55094	broad.mit.edu	37	19	33587442	33587442	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:33587442delT	uc002nug.1	+							NM_018025	NP_060495			G patch domain containing 1							catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)																	---	---	---	---
GPATCH1	55094	broad.mit.edu	37	19	33595737	33595737	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:33595737delA	uc002nug.1	+							NM_018025	NP_060495			G patch domain containing 1							catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)																	---	---	---	---
Unknown	0	broad.mit.edu	37	19	33750746	33750746	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:33750746delA								SLC7A10 (33990 upstream) : CEBPA (40096 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	33765106	33765107	+	IGR	INS	-	TG	TG	rs137932680	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:33765106_33765107insTG								SLC7A10 (48350 upstream) : CEBPA (25735 downstream)																																			---	---	---	---
PEPD	5184	broad.mit.edu	37	19	33962029	33962029	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:33962029delA	uc002nur.3	-						PEPD_uc010xrr.1_Intron|PEPD_uc010xrs.1_Intron	NM_000285	NP_000276			prolidase isoform 1						cellular amino acid metabolic process|collagen catabolic process|proteolysis		aminopeptidase activity|dipeptidase activity|manganese ion binding|metallocarboxypeptidase activity			ovary(2)	2	Esophageal squamous(110;0.137)																	---	---	---	---
Unknown	0	broad.mit.edu	37	19	34017052	34017052	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34017052delT								PEPD (4251 upstream) : CHST8 (95809 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	34057277	34057278	+	IGR	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34057277_34057278delTC								PEPD (44476 upstream) : CHST8 (55583 downstream)																																			---	---	---	---
CHST8	64377	broad.mit.edu	37	19	34115995	34115996	+	Intron	DEL	TT	-	-	rs112353397		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34115995_34115996delTT	uc002nus.3	+						CHST8_uc002nut.3_Intron	NM_001127895	NP_001121367			carbohydrate (N-acetylgalactosamine 4-0)						carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)																	---	---	---	---
CHST8	64377	broad.mit.edu	37	19	34210652	34210652	+	Intron	DEL	A	-	-	rs66834342		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34210652delA	uc002nus.3	+						CHST8_uc002nut.3_Intron|CHST8_uc002nuu.2_Intron	NM_001127895	NP_001121367			carbohydrate (N-acetylgalactosamine 4-0)						carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)																	---	---	---	---
Unknown	0	broad.mit.edu	37	19	34308753	34308753	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34308753delA								KCTD15 (2088 upstream) : LSM14A (354599 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	34368291	34368291	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34368291delT								KCTD15 (61626 upstream) : LSM14A (295061 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	34529726	34529726	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34529726delG								KCTD15 (223061 upstream) : LSM14A (133626 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	34571664	34571664	+	IGR	DEL	T	-	-	rs112421832		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34571664delT								KCTD15 (264999 upstream) : LSM14A (91688 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	35348490	35348491	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35348490_35348491delTG								ZNF599 (84356 upstream) : ZNF30 (69316 downstream)																																			---	---	---	---
FXYD3	5349	broad.mit.edu	37	19	35605483	35605483	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35605483delT	uc010xsn.1	+						FXYD3_uc010xsj.1_5'Flank|FXYD3_uc010xsk.1_5'Flank|FXYD3_uc010xsl.1_5'Flank|FXYD3_uc010xsm.1_5'Flank|FXYD3_uc002nxw.2_5'Flank|FXYD3_uc002nxv.2_5'Flank|FXYD3_uc010xso.1_5'Flank	NM_001136011	NP_001129483			FXYD domain containing ion transport regulator 3							chloride channel complex|integral to plasma membrane	chloride channel activity				0	all_lung(56;5.38e-08)|Lung NSC(56;8.61e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.54e-20)|OV - Ovarian serous cystadenocarcinoma(14;1.33e-18)|all cancers(14;4.27e-17)|LUSC - Lung squamous cell carcinoma(66;0.0849)													OREG0025427	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	19	36074583	36074584	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36074583_36074584delTT								ATP4A (20023 upstream) : HAUS5 (29062 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	36261724	36261724	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36261724delA								C19orf55 (1647 upstream) : ARHGAP33 (4752 downstream)																																			---	---	---	---
TYROBP	7305	broad.mit.edu	37	19	36398293	36398293	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36398293delC	uc002ocm.2	-						TYROBP_uc002ocn.2_Intron	NM_003332	NP_003323			TYRO protein tyrosine kinase binding protein						axon guidance|cell junction assembly|cellular defense response|intracellular signal transduction|regulation of immune response	integral to plasma membrane|intracellular	identical protein binding|receptor signaling protein activity				0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)															---	---	---	---
Unknown	0	broad.mit.edu	37	19	36481587	36481587	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36481587delA								LRFN3 (45492 upstream) : SDHAF1 (4514 downstream)																																			---	---	---	---
TBCB	1155	broad.mit.edu	37	19	36615895	36615896	+	Intron	INS	-	T	T	rs149698100	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36615895_36615896insT	uc002odg.1	+						TBCB_uc002odh.1_Intron	NM_001281	NP_001272			cytoskeleton associated protein 1						'de novo' posttranslational protein folding|cell differentiation|nervous system development	cytoplasm|microtubule	protein binding				0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)															---	---	---	---
ZNF420	147923	broad.mit.edu	37	19	37602861	37602861	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37602861delT	uc002ofl.2	+							NM_144689	NP_653290			zinc finger protein 420						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)															---	---	---	---
ZNF383	163087	broad.mit.edu	37	19	37727227	37727227	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37727227delA	uc002oft.1	+						ZNF383_uc002ofs.1_Intron|ZNF383_uc002ofu.1_Intron	NM_152604	NP_689817			zinc finger protein 383						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)															---	---	---	---
ZNF569	148266	broad.mit.edu	37	19	37916539	37916539	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37916539delT	uc002ogi.2	-						ZNF569_uc002ogh.2_Intron|ZNF569_uc002ogj.2_Intron	NM_152484	NP_689697			zinc finger protein 569						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)															---	---	---	---
ZNF793	390927	broad.mit.edu	37	19	38025421	38025422	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38025421_38025422delCA	uc010efm.2	+						ZNF793_uc010xts.1_Intron|ZNF793_uc010efo.2_Intron	NM_001013659	NP_001013681			zinc finger protein 793						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)															---	---	---	---
ZNF781	163115	broad.mit.edu	37	19	38186175	38186177	+	5'Flank	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38186175_38186177delAAA	uc002ogy.2	-						ZNF781_uc002ogz.2_5'Flank	NM_152605	NP_689818			zinc finger protein 781						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
WDR87	83889	broad.mit.edu	37	19	38381044	38381045	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38381044_38381045delAA	uc010efu.2	-						WDR87_uc002ohj.2_Intron	NM_031951	NP_114157			NYD-SP11 protein												0																		---	---	---	---
SIPA1L3	23094	broad.mit.edu	37	19	38659137	38659137	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38659137delA	uc002ohk.2	+							NM_015073	NP_055888			signal-induced proliferation-associated 1 like						regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)															---	---	---	---
CATSPERG	57828	broad.mit.edu	37	19	38858649	38858649	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38858649delC	uc002oih.3	+						CATSPERG_uc002oig.3_Intron|CATSPERG_uc002oif.3_Intron|CATSPERG_uc010efw.2_Intron	NM_021185	NP_067008			cation channel, sperm-associated, gamma						cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)|skin(1)	2																		---	---	---	---
RYR1	6261	broad.mit.edu	37	19	39021450	39021450	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39021450delT	uc002oit.2	+						RYR1_uc002oiu.2_Intron|RYR1_uc002oiv.1_Intron|RYR1_uc010xuf.1_Intron	NM_000540	NP_000531			skeletal muscle ryanodine receptor isoform 1						muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)													---	---	---	---
NFKBIB	4793	broad.mit.edu	37	19	39391943	39391944	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39391943_39391944insT	uc002ojw.2	+						SIRT2_uc002oju.1_5'Flank|SIRT2_uc010egj.1_5'Flank|SIRT2_uc002ojv.1_5'Flank|SIRT2_uc002ojt.1_5'Flank|NFKBIB_uc010egk.1_Intron|NFKBIB_uc002ojx.2_Intron|NFKBIB_uc002ojy.2_Intron	NM_002503	NP_002494			nuclear factor of kappa light polypeptide gene						innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription, DNA-dependent	cytosol|nucleus	protein binding|signal transducer activity|transcription coactivator activity			lung(1)|kidney(1)	2	all_cancers(60;4.39e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)															---	---	---	---
SARS2	54938	broad.mit.edu	37	19	39427730	39427730	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39427730delT	uc010xuq.1	-							NM_017827	NP_060297			seryl-tRNA synthetase 2 isoform b precursor						seryl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|serine-tRNA ligase activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(60;2.74e-06)|all_epithelial(25;4.36e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)															---	---	---	---
PAK4	10298	broad.mit.edu	37	19	39625407	39625407	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39625407delT	uc002okj.1	+						PAK4_uc002okl.1_Intron|PAK4_uc002okn.1_Intron|PAK4_uc002okm.1_Intron|PAK4_uc002oko.1_Intron|PAK4_uc002okp.1_Intron	NM_001014831	NP_001014831			p21-activated kinase 4 isoform 1						cellular component movement|signal transduction	Golgi apparatus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	all_cancers(60;1.03e-07)|all_epithelial(25;9.66e-08)|all_lung(34;1.58e-07)|Lung NSC(34;1.88e-07)|Ovarian(47;0.0454)		Epithelial(26;4.82e-25)|all cancers(26;2.94e-22)|Lung(45;0.000797)|LUSC - Lung squamous cell carcinoma(53;0.00113)															---	---	---	---
FCGBP	8857	broad.mit.edu	37	19	40390552	40390552	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40390552delG	uc002omp.3	-							NM_003890	NP_003881			Fc fragment of IgG binding protein precursor							extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)															---	---	---	---
FCGBP	8857	broad.mit.edu	37	19	40419370	40419370	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40419370delA	uc002omp.3	-							NM_003890	NP_003881			Fc fragment of IgG binding protein precursor							extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)															---	---	---	---
ZNF780A	284323	broad.mit.edu	37	19	40590500	40590503	+	Intron	DEL	TTTT	-	-	rs71889243		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40590500_40590503delTTTT	uc002omy.2	-						ZNF780A_uc002omw.3_Intron|ZNF780A_uc002omz.2_Intron|ZNF780A_uc010xvh.1_Intron	NM_001010880	NP_001010880			zinc finger protein 780A isoform b						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)																	---	---	---	---
Unknown	0	broad.mit.edu	37	19	40658975	40658975	+	IGR	DEL	A	-	-	rs35399238		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40658975delA								ZNF780A (62130 upstream) : MAP3K10 (38676 downstream)																																			---	---	---	---
PLD3	23646	broad.mit.edu	37	19	40858873	40858873	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40858873delA	uc002onm.3	+						PLD3_uc002onj.3_Intron|PLD3_uc002onk.3_Intron|PLD3_uc002onl.3_Intron	NM_001031696	NP_001026866			phospholipase D3						lipid catabolic process	endoplasmic reticulum membrane|integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity|protein binding			skin(2)|ovary(1)	3			Lung(22;0.000636)|LUSC - Lung squamous cell carcinoma(20;0.00248)															---	---	---	---
PLD3	23646	broad.mit.edu	37	19	40881078	40881078	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40881078delA	uc002onm.3	+						PLD3_uc002onj.3_Intron|PLD3_uc002onk.3_Intron|PLD3_uc002onl.3_Intron|PLD3_uc002onn.2_Intron	NM_001031696	NP_001026866			phospholipase D3						lipid catabolic process	endoplasmic reticulum membrane|integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity|protein binding			skin(2)|ovary(1)	3			Lung(22;0.000636)|LUSC - Lung squamous cell carcinoma(20;0.00248)															---	---	---	---
SPTBN4	57731	broad.mit.edu	37	19	41071171	41071171	+	Intron	DEL	A	-	-	rs71972087		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41071171delA	uc002ony.2	+						SPTBN4_uc002onz.2_Intron|SPTBN4_uc010egx.2_Intron	NM_020971	NP_066022			spectrin, beta, non-erythrocytic 4 isoform						actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)															---	---	---	---
NUMBL	9253	broad.mit.edu	37	19	41192563	41192564	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41192563_41192564delTG	uc002oon.2	-						NUMBL_uc010xvq.1_Intron|NUMBL_uc002ooo.2_Intron|NUMBL_uc010xvr.1_Intron	NM_004756	NP_004747			numb homolog (Drosophila)-like						cytokine-mediated signaling pathway|lateral ventricle development|neuroblast division in subventricular zone|protein metabolic process	cytoplasm	protein binding			lung(3)|ovary(1)|breast(1)	5			Lung(22;0.000393)|LUSC - Lung squamous cell carcinoma(20;0.00105)															---	---	---	---
Unknown	0	broad.mit.edu	37	19	41577815	41577816	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41577815_41577816delTT								CYP2A7 (43647 upstream) : CYP2A13 (16552 downstream)																																			---	---	---	---
CYP2F1	1572	broad.mit.edu	37	19	41688675	41688675	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41688675delA	uc010xvw.1	+											SubName: Full=cDNA FLJ51986, highly similar to Homo sapiens cytochrome P450, family 2, subfamily F, polypeptide 1 (CYP2F1), mRNA;						naphthalene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0																		---	---	---	---
AXL	558	broad.mit.edu	37	19	41761338	41761338	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41761338delT	uc010ehj.2	+						CYP2F1_uc010xvw.1_Intron|AXL_uc010ehk.2_Intron	NM_021913	NP_068713			AXL receptor tyrosine kinase isoform 1							integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13																		---	---	---	---
CYP2F1	1572	broad.mit.edu	37	19	41861877	41861877	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41861877delG	uc010xvw.1	+						TGFB1_uc002oqh.1_5'Flank|TMEM91_uc002oqi.2_Intron|B9D2_uc002oqj.2_Intron					SubName: Full=cDNA FLJ51986, highly similar to Homo sapiens cytochrome P450, family 2, subfamily F, polypeptide 1 (CYP2F1), mRNA;						naphthalene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	42334351	42334355	+	IGR	DEL	AAAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42334351_42334355delAAAAA								CEACAM3 (18760 upstream) : LYPD4 (6795 downstream)																																			---	---	---	---
ARHGEF1	9138	broad.mit.edu	37	19	42395205	42395206	+	Intron	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42395205_42395206delAC	uc002orx.2	+						ARHGEF1_uc002orw.1_Intron|ARHGEF1_uc002ory.2_Intron|ARHGEF1_uc002orz.2_Intron|ARHGEF1_uc002osa.2_Intron|ARHGEF1_uc002osb.2_Intron	NM_004706	NP_004697			Rho guanine nucleotide exchange factor 1 isoform						cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)														---	---	---	---
ATP1A3	478	broad.mit.edu	37	19	42487235	42487235	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42487235delT	uc002osg.2	-						ATP1A3_uc010xwf.1_Intron|ATP1A3_uc010xwg.1_Intron|ATP1A3_uc010xwh.1_Intron|ATP1A3_uc002osh.2_Intron	NM_152296	NP_689509			Na+/K+ -ATPase alpha 3 subunit						ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2																		---	---	---	---
LIPE	3991	broad.mit.edu	37	19	42922805	42922805	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42922805delA	uc002otr.2	-						uc010eif.1_Intron|LIPE_uc002ots.1_Intron	NM_005357	NP_005348			hormone-sensitive lipase						cholesterol metabolic process|protein phosphorylation|triglyceride catabolic process	caveola|cytosol	hormone-sensitive lipase activity|protein binding			ovary(1)|breast(1)	2		Prostate(69;0.00682)																---	---	---	---
Unknown	0	broad.mit.edu	37	19	43006783	43006784	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:43006783_43006784delTT	uc010eif.1	+						uc002ott.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron					Homo sapiens cDNA FLJ39530 fis, clone PUAEN2004400.																														---	---	---	---
PSG6	5675	broad.mit.edu	37	19	43489045	43489045	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:43489045delA	uc002ovh.1	-						PSG11_uc002ouw.2_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron					SubName: Full=Putative uncharacterized protein PSG6;						female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)																---	---	---	---
Unknown	0	broad.mit.edu	37	19	43805498	43805498	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:43805498delT								PSG9 (31816 upstream) : PRG1 (47710 downstream)																																			---	---	---	---
TEX101	83639	broad.mit.edu	37	19	43890649	43890651	+	5'Flank	DEL	TTT	-	-	rs111734756		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:43890649_43890651delTTT	uc002owk.2	+							NM_031451	NP_113639			testis expressed 101 isoform 1							anchored to membrane|plasma membrane				ovary(1)	1		Prostate(69;0.0199)																---	---	---	---
PHLDB3	653583	broad.mit.edu	37	19	43994164	43994164	+	Intron	DEL	A	-	-	rs77696385		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:43994164delA	uc002own.3	-						PHLDB3_uc010eit.2_Intron	NM_198850	NP_942147			pleckstrin homology-like domain, family B,												0		Prostate(69;0.0153)																---	---	---	---
PHLDB3	653583	broad.mit.edu	37	19	43997782	43997782	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:43997782delA	uc002own.3	-						PHLDB3_uc010eit.2_Intron	NM_198850	NP_942147			pleckstrin homology-like domain, family B,												0		Prostate(69;0.0153)																---	---	---	---
ZNF45	7596	broad.mit.edu	37	19	44424872	44424872	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44424872delC	uc002oxu.1	-						ZNF45_uc002oxw.1_Intron|ZNF45_uc002oxv.1_Intron	NM_003425	NP_003416			zinc finger protein 45						multicellular organismal development	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1																		---	---	---	---
ZNF233	353355	broad.mit.edu	37	19	44768591	44768591	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44768591delT	uc002oyz.1	+						ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF233_uc002oyy.1_Intron	NM_181756	NP_861421			zinc finger protein 233						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2		Prostate(69;0.0435)|all_neural(266;0.226)																---	---	---	---
Unknown	0	broad.mit.edu	37	19	44815167	44815167	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44815167delT								ZNF235 (5989 upstream) : ZFP112 (15540 downstream)																																			---	---	---	---
CBLC	23624	broad.mit.edu	37	19	45280550	45280550	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45280550delA	uc002ozs.2	+						CBLC_uc010ejt.2_5'Flank	NM_012116	NP_036248			Cas-Br-M (murine) ecotropic retroviral						cell surface receptor linked signaling pathway|negative regulation of epidermal growth factor receptor activity|negative regulation of MAP kinase activity|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	calcium ion binding|epidermal growth factor receptor binding|phosphotyrosine binding|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|skin(1)	6	Lung NSC(12;0.00136)|all_lung(12;0.00371)	Ovarian(192;0.231)						M		AML								---	---	---	---
CBLC	23624	broad.mit.edu	37	19	45301012	45301012	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45301012delA	uc002ozs.2	+						CBLC_uc010ejt.2_Intron	NM_012116	NP_036248			Cas-Br-M (murine) ecotropic retroviral						cell surface receptor linked signaling pathway|negative regulation of epidermal growth factor receptor activity|negative regulation of MAP kinase activity|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	calcium ion binding|epidermal growth factor receptor binding|phosphotyrosine binding|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|skin(1)	6	Lung NSC(12;0.00136)|all_lung(12;0.00371)	Ovarian(192;0.231)						M		AML								---	---	---	---
Unknown	0	broad.mit.edu	37	19	45498285	45498285	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45498285delC								CLPTM1 (1687 upstream) : RELB (6427 downstream)																																			---	---	---	---
RELB	5971	broad.mit.edu	37	19	45505595	45505596	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45505595_45505596insT	uc002paj.1	+							NM_006509	NP_006500			reticuloendotheliosis viral oncogene homolog B							nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00986)														---	---	---	---
CKM	1158	broad.mit.edu	37	19	45817616	45817616	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45817616delT	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)													---	---	---	---
GIPR	2696	broad.mit.edu	37	19	46177864	46177864	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46177864delA	uc002pcu.1	+						GIPR_uc002pct.1_Intron|GIPR_uc010xxp.1_Intron|GIPR_uc010xxq.1_Intron|MIR642_hsa-mir-642|MI0003657_5'Flank	NM_000164	NP_000155			gastric inhibitory polypeptide receptor						generation of precursor metabolites and energy|response to nutrient	integral to membrane|plasma membrane				skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0056)|GBM - Glioblastoma multiforme(486;0.0832)|Epithelial(262;0.199)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	46440151	46440151	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46440151delA								NANOS2 (22115 upstream) : NOVA2 (2620 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	46686629	46686632	+	IGR	DEL	TCTC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46686629_46686632delTCTC								IGFL2 (22070 upstream) : DKFZp434J0226 (20051 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	47327451	47327452	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47327451_47327452insA								SLC1A5 (35609 upstream) : SNAR-E (6390 downstream)																																			---	---	---	---
SAE1	10055	broad.mit.edu	37	19	47656348	47656348	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47656348delT	uc002pgc.2	+						SAE1_uc002pgd.2_Intron|SAE1_uc010ekx.2_Intron|SAE1_uc010ekw.2_Intron|SAE1_uc010xyk.1_Intron|SAE1_uc002pge.2_Intron	NM_016402	NP_057486			SubName: Full=SUMO-1 activating enzyme subunit 1, isoform CRA_b; SubName: Full=cDNA, FLJ96708, Homo sapiens SUMO-1 activating enzyme subunit 1 (SAE1), mRNA;						protein sumoylation|protein ubiquitination	nucleus	ATP-dependent protein binding|enzyme activator activity|ligase activity|protein C-terminus binding|protein heterodimerization activity|ubiquitin activating enzyme activity			ovary(1)	1		all_cancers(25;1.13e-05)|all_lung(116;0.000192)|all_epithelial(76;0.000274)|Lung NSC(112;0.000446)|all_neural(266;0.0652)|Ovarian(192;0.15)		all cancers(93;0.00013)|OV - Ovarian serous cystadenocarcinoma(262;0.000146)|Epithelial(262;0.00697)|GBM - Glioblastoma multiforme(486;0.0278)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	47805798	47805799	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47805798_47805799delTT								PRR24 (26819 upstream) : C5AR1 (7305 downstream)																																			---	---	---	---
NAPA	8775	broad.mit.edu	37	19	48001851	48001851	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48001851delT	uc002pha.1	-						NAPA_uc002phb.1_Intron|NAPA_uc002phc.1_Intron|NAPA_uc002phd.1_Intron|NAPA_uc010elf.1_Intron|NAPA_uc010elg.1_Intron|NAPA_uc002phe.2_Intron	NM_003827	NP_003818			N-ethylmaleimide-sensitive factor attachment						cellular membrane fusion|intra-Golgi vesicle-mediated transport|post-Golgi vesicle-mediated transport	cytosol					0		all_cancers(25;1.55e-10)|all_epithelial(76;3.4e-08)|all_lung(116;1.73e-07)|Lung NSC(112;3.95e-07)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		OV - Ovarian serous cystadenocarcinoma(262;0.000466)|all cancers(93;0.000739)|Epithelial(262;0.0168)|GBM - Glioblastoma multiforme(486;0.049)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	48080440	48080441	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48080440_48080441delTT								ZNF541 (21327 upstream) : GLTSCR1 (31012 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	48095253	48095253	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48095253delT								ZNF541 (36140 upstream) : GLTSCR1 (16200 downstream)																																			---	---	---	---
GLTSCR1	29998	broad.mit.edu	37	19	48116894	48116894	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48116894delT	uc002phh.3	+							NM_015711	NP_056526			glioma tumor suppressor candidate region gene 1								protein binding			pancreas(3)	3		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)														---	---	---	---
GLTSCR1	29998	broad.mit.edu	37	19	48147763	48147764	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48147763_48147764insT	uc002phh.3	+							NM_015711	NP_056526			glioma tumor suppressor candidate region gene 1								protein binding			pancreas(3)	3		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)														---	---	---	---
GLTSCR1	29998	broad.mit.edu	37	19	48151499	48151500	+	Intron	INS	-	T	T	rs139526921	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48151499_48151500insT	uc002phh.3	+							NM_015711	NP_056526			glioma tumor suppressor candidate region gene 1								protein binding			pancreas(3)	3		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)														---	---	---	---
SNAR-C2	100170218	broad.mit.edu	37	19	48413782	48413783	+	5'Flank	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48413782_48413783delAA	uc010xyx.1	+							NR_024220				Homo sapiens small ILF3/NF90-associated RNA C2 (SNAR-C2), non-coding RNA.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	48428154	48428155	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48428154_48428155insG								SNAR-A3 (998 upstream) : SNAR-C4 (14643 downstream)																																			---	---	---	---
ELSPBP1	64100	broad.mit.edu	37	19	48519871	48519871	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48519871delT	uc002pht.2	+							NM_022142	NP_071425			epididymal sperm binding protein 1 precursor						single fertilization	extracellular region					0		all_cancers(25;8.7e-09)|all_lung(116;1.15e-06)|all_epithelial(76;1.17e-06)|Lung NSC(112;2.56e-06)|all_neural(266;0.0138)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000253)|all cancers(93;0.00129)|Epithelial(262;0.0314)|GBM - Glioblastoma multiforme(486;0.0606)														---	---	---	---
ZNF114	163071	broad.mit.edu	37	19	48776668	48776669	+	Intron	DEL	TT	-	-	rs3077996		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48776668_48776669delTT	uc002pil.1	+						ZNF114_uc010elv.1_Intron|ZNF114_uc002pim.1_Intron	NM_153608	NP_705836			zinc finger protein 114						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_epithelial(76;8.01e-05)|all_lung(116;0.000112)|Lung NSC(112;0.000192)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;7.56e-05)|all cancers(93;0.000113)|Epithelial(262;0.00962)|GBM - Glioblastoma multiforme(486;0.0153)														---	---	---	---
ZNF114	163071	broad.mit.edu	37	19	48782200	48782200	+	Intron	DEL	A	-	-	rs141911355		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48782200delA	uc002pil.1	+						ZNF114_uc010elv.1_Intron|ZNF114_uc002pim.1_Intron|ZNF114_uc002pin.2_5'Flank	NM_153608	NP_705836			zinc finger protein 114						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_epithelial(76;8.01e-05)|all_lung(116;0.000112)|Lung NSC(112;0.000192)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;7.56e-05)|all cancers(93;0.000113)|Epithelial(262;0.00962)|GBM - Glioblastoma multiforme(486;0.0153)														---	---	---	---
LMTK3	114783	broad.mit.edu	37	19	49005105	49005105	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49005105delC	uc002pjk.2	-							NM_001080434	NP_001073903			lemur tyrosine kinase 3											lung(5)|central_nervous_system(1)	6		all_lung(116;0.000147)|Lung NSC(112;0.000251)|all_epithelial(76;0.000326)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000114)|all cancers(93;0.000141)|Epithelial(262;0.00854)|GBM - Glioblastoma multiforme(486;0.0231)														---	---	---	---
RUVBL2	10856	broad.mit.edu	37	19	49499408	49499408	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49499408delA	uc002plr.1	+						GYS1_uc010xzy.1_5'Flank|GYS1_uc002plp.2_5'Flank|GYS1_uc010emm.2_5'Flank|GYS1_uc010xzz.1_5'Flank|GYS1_uc010yaa.1_5'Flank|RUVBL2_uc002plq.1_Intron|RUVBL2_uc010yab.1_Intron|RUVBL2_uc002pls.1_Intron|RUVBL2_uc010emn.1_Intron|RUVBL2_uc010yac.1_Intron	NM_006666	NP_006657			RuvB-like 2						cellular response to UV|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|protein folding|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|membrane|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|ATP-dependent DNA helicase activity|damaged DNA binding|identical protein binding|unfolded protein binding				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000449)|OV - Ovarian serous cystadenocarcinoma(262;0.000555)|GBM - Glioblastoma multiforme(486;0.00585)|Epithelial(262;0.047)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	49765915	49765915	+	IGR	DEL	A	-	-	rs35417216		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49765915delA								TRPM4 (50824 upstream) : SLC6A16 (26979 downstream)																																			---	---	---	---
FCGRT	2217	broad.mit.edu	37	19	50028921	50028921	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50028921delG	uc002poe.2	+						FCGRT_uc002pod.2_Intron|FCGRT_uc002pog.2_Intron|FCGRT_uc002poi.2_Intron|RCN3_uc002poj.2_5'Flank	NM_001136019	NP_001129491			Fc fragment of IgG, receptor, transporter, alpha						antigen processing and presentation|female pregnancy|immune response	integral to membrane|MHC class I protein complex	IgG binding|receptor activity			ovary(1)	1		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00291)|GBM - Glioblastoma multiforme(134;0.0156)														---	---	---	---
PRR12	57479	broad.mit.edu	37	19	50123757	50123757	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50123757delG	uc002poo.3	+							NM_020719	NP_065770			proline rich 12								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)														---	---	---	---
IRF3	3661	broad.mit.edu	37	19	50163871	50163871	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50163871delT	uc010end.1	-						IRF3_uc002pos.1_Intron|IRF3_uc002pot.1_Intron|IRF3_uc002pox.1_Intron|IRF3_uc002poy.1_Intron|IRF3_uc002pou.2_Intron|IRF3_uc002pov.2_Intron|IRF3_uc002pow.2_Intron	NM_001571	NP_001562			interferon regulatory factor 3						interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytosol|endosome membrane|nucleoplasm|plasma membrane	DNA binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(2)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.02)														---	---	---	---
CPT1C	126129	broad.mit.edu	37	19	50211587	50211587	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50211587delA	uc002ppj.2	+						CPT1C_uc002ppl.3_Intron|CPT1C_uc002ppi.2_Intron|CPT1C_uc002ppk.2_Intron|CPT1C_uc010eng.2_Intron|CPT1C_uc010enh.2_Intron|CPT1C_uc010ybc.1_Intron|CPT1C_uc010eni.1_Intron	NM_152359	NP_689572			carnitine palmitoyltransferase 1C isoform 2						fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)														---	---	---	---
TSKS	60385	broad.mit.edu	37	19	50252323	50252323	+	Intron	DEL	A	-	-	rs10719521		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50252323delA	uc002ppm.2	-							NM_021733	NP_068379			testis-specific kinase substrate								protein binding			large_intestine(1)|skin(1)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(134;0.0145)														---	---	---	---
AP2A1	160	broad.mit.edu	37	19	50307207	50307209	+	Intron	DEL	CTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50307207_50307209delCTT	uc002ppn.2	+						AP2A1_uc002ppo.2_Intron|AP2A1_uc002ppp.1_3'UTR|AP2A1_uc010enk.2_5'Flank	NM_014203	NP_055018			adaptor-related protein complex 2, alpha 1						axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|Golgi to endosome transport|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|clathrin coat of trans-Golgi network vesicle|cytosol	protein binding|protein transporter activity			ovary(2)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.0023)|GBM - Glioblastoma multiforme(134;0.0157)														---	---	---	---
IL4I1	259307	broad.mit.edu	37	19	50421336	50421337	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50421336_50421337delTT	uc002pqu.1	-						IL4I1_uc002pqv.1_Intron|IL4I1_uc010eno.1_Intron|IL4I1_uc002pqw.1_Intron|NUP62_uc002pqx.2_Intron|NUP62_uc002pqy.2_Intron|NUP62_uc002pqz.2_Intron|NUP62_uc002pra.2_Intron|NUP62_uc002prb.2_Intron|NUP62_uc002prc.2_Intron	NM_172374	NP_758962			interleukin 4 induced 1 isoform 2							lysosome	L-amino-acid oxidase activity			lung(1)|ovary(1)|prostate(1)	3		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00245)|OV - Ovarian serous cystadenocarcinoma(262;0.0169)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	50670973	50670973	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50670973delA								C19orf41 (4435 upstream) : MYH14 (35912 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	50678343	50678344	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50678343_50678344delAA								C19orf41 (11805 upstream) : MYH14 (28541 downstream)																																			---	---	---	---
LRRC4B	94030	broad.mit.edu	37	19	51071876	51071877	+	5'Flank	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51071876_51071877insG	uc002pss.2	-							NM_001080457	NP_001073926			leucine rich repeat containing 4B precursor							cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)														---	---	---	---
KLK5	25818	broad.mit.edu	37	19	51448340	51448341	+	Intron	INS	-	CCTTCCTC	CCTTCCTC	rs139911270	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51448340_51448341insCCTTCCTC	uc002pue.2	-						KLK5_uc002puf.2_Intron|KLK5_uc002pug.2_Intron	NM_001077491	NP_001070959			kallikrein-related peptidase 5 preproprotein						epidermis development|positive regulation of G-protein coupled receptor protein signaling pathway|proteolysis	extracellular space	protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00379)|GBM - Glioblastoma multiforme(134;0.00888)														---	---	---	---
KLK14	43847	broad.mit.edu	37	19	51586228	51586229	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51586228_51586229delTT	uc002pvs.1	-							NM_022046	NP_071329			kallikrein 14 preproprotein						epidermis morphogenesis|fertilization|negative regulation of G-protein coupled receptor protein signaling pathway|positive regulation of G-protein coupled receptor protein signaling pathway|proteolysis|seminal clot liquefaction	extracellular space	serine-type endopeptidase activity			skin(1)	1		all_neural(266;0.0199)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00422)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	51618416	51618416	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51618416delT								CTU1 (6769 upstream) : SIGLEC9 (9749 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	51796631	51796631	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51796631delA								C19orf75 (24049 upstream) : IGLON5 (18471 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	52067433	52067434	+	IGR	INS	-	C	C	rs149685693	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52067433_52067434insC								SIGLEC6 (32369 upstream) : ZNF175 (7097 downstream)																																			---	---	---	---
ZNF175	7728	broad.mit.edu	37	19	52085989	52085989	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52085989delT	uc002pxb.2	+							NM_007147	NP_009078			zinc finger protein 175						response to virus	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000426)|OV - Ovarian serous cystadenocarcinoma(262;0.0257)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	52233918	52233918	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52233918delG								HAS1 (6697 upstream) : FPR1 (15109 downstream)																																			---	---	---	---
FPR3	2359	broad.mit.edu	37	19	52328113	52328113	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52328113delA	uc002pxt.1	+	2						NM_002030	NP_002021			formyl peptide receptor-like 2						cellular component movement|chemotaxis	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(4)|breast(1)|skin(1)	6																		---	---	---	---
ZNF577	84765	broad.mit.edu	37	19	52365520	52365520	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52365520delT	uc010ydd.1	-							NR_024181				Homo sapiens cDNA FLJ32291 fis, clone PROST2000572.						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.019)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	52680321	52680321	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52680321delT								ZNF836 (5425 upstream) : PPP2R1A (12870 downstream)																																			---	---	---	---
ZNF480	147657	broad.mit.edu	37	19	52811871	52811871	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52811871delT	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)														---	---	---	---
ZNF528	84436	broad.mit.edu	37	19	52898380	52898380	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52898380delT	uc002pzh.2	+						uc002pzf.1_RNA|uc002pzg.1_RNA|ZNF528_uc002pzi.2_5'Flank	NM_032423	NP_115799			zinc finger protein 528						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)														---	---	---	---
ZNF534	147658	broad.mit.edu	37	19	52955324	52955324	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52955324delT	uc002pzj.1	+	5					ZNF534_uc010epo.1_3'UTR|ZNF578_uc002pzm.2_5'Flank|ZNF578_uc002pzn.2_5'Flank|ZNF578_uc002pzp.3_5'Flank|ZNF578_uc002pzo.1_5'Flank|ZNF578_uc010epp.1_5'Flank					SubName: Full=Putative uncharacterized protein;						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
ZNF808	388558	broad.mit.edu	37	19	53067677	53067677	+	RNA	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53067677delA	uc002pzq.2	+	4		c.4189delA								Homo sapiens zinc finger protein 808, mRNA (cDNA clone IMAGE:3542548), complete cds.						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)														---	---	---	---
ZNF83	55769	broad.mit.edu	37	19	53118860	53118861	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53118860_53118861insA	uc002pzu.3	-						ZNF83_uc002pzv.3_Intron|ZNF83_uc010eps.2_Intron|ZNF83_uc010ept.2_Intron|ZNF83_uc010epu.2_Intron|ZNF83_uc010epv.2_Intron|ZNF83_uc010epw.2_Intron|ZNF83_uc010epx.2_Intron|ZNF83_uc010epy.2_Intron|ZNF83_uc010epz.2_Intron|ZNF83_uc010eqb.1_Intron	NM_018300	NP_060770			zinc finger protein 83 isoform a							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.00841)|GBM - Glioblastoma multiforme(134;0.0244)														---	---	---	---
ZNF28	7576	broad.mit.edu	37	19	53316746	53316746	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53316746delT	uc002qad.2	-						ZNF28_uc002qac.2_Intron|ZNF28_uc010eqe.2_Intron	NM_006969	NP_008900			zinc finger protein 28						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(134;0.0386)|Lung(386;0.145)														---	---	---	---
ZNF320	162967	broad.mit.edu	37	19	53396182	53396183	+	5'Flank	INS	-	CTGT	CTGT	rs139934270	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53396182_53396183insCTGT	uc002qag.2	-						ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Intron|ZNF320_uc002qai.2_Intron	NM_207333	NP_997216			zinc finger protein 320						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)														---	---	---	---
ZNF761	388561	broad.mit.edu	37	19	53953769	53953769	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53953769delT	uc010eqp.2	+						ZNF761_uc010ydy.1_Intron|ZNF761_uc002qbt.1_Intron	NM_001008401	NP_001008401			zinc finger protein 761						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)														---	---	---	---
ZNF331	55422	broad.mit.edu	37	19	54064010	54064010	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54064010delT	uc002qbx.1	+						ZNF331_uc002qby.1_Intron|ZNF331_uc002qbz.1_Intron|ZNF331_uc002qca.1_Intron|ZNF331_uc010eqr.1_Intron|ZNF331_uc002qcb.1_Intron|ZNF331_uc002qcc.1_Intron|ZNF331_uc002qcd.1_Intron	NM_018555	NP_061025			zinc finger protein 331						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)				T	?	follicular thyroid adenoma								---	---	---	---
Unknown	0	broad.mit.edu	37	19	54114531	54114531	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54114531delT								LOC284379 (7780 upstream) : DPRX (20779 downstream)																																			---	---	---	---
MIR519E	574463	broad.mit.edu	37	19	54182971	54182971	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54182971delT	hsa-mir-519e|MI0003145	+						MIR520F_hsa-mir-520f|MI0003146_5'Flank																	0																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	54279186	54279187	+	IGR	DEL	TA	-	-	rs11084286	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54279186_54279187delTA								MIR519A2 (13502 upstream) : MIR371 (11742 downstream)																																			---	---	---	---
PRKCG	5582	broad.mit.edu	37	19	54383924	54383925	+	5'Flank	INS	-	AA	AA	rs140402643	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54383924_54383925insAA	uc002qcq.1	+						PRKCG_uc010eqz.1_5'Flank|PRKCG_uc010yef.1_5'Flank|PRKCG_uc010yeg.1_5'Flank|PRKCG_uc010yeh.1_5'Flank	NM_002739	NP_002730			protein kinase C, gamma						activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)														---	---	---	---
TARM1	441864	broad.mit.edu	37	19	54578041	54578041	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54578041delC	uc010yei.1	-							NM_001135686	NP_001129158			OSCAR-like transcript-2							integral to membrane					0																		---	---	---	---
MBOAT7	79143	broad.mit.edu	37	19	54686126	54686126	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54686126delA	uc002qdq.2	-						MBOAT7_uc010erg.2_Intron|MBOAT7_uc010yem.1_Intron|MBOAT7_uc002qdr.2_Intron|MBOAT7_uc002qds.2_Intron|MBOAT7_uc010yen.1_Intron|MBOAT7_uc002qdt.3_Intron	NM_024298	NP_077274			membrane bound O-acyltransferase domain						phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)																	---	---	---	---
Unknown	0	broad.mit.edu	37	19	54898356	54898356	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54898356delT								LAIR1 (16192 upstream) : TTYH1 (28279 downstream)																																			---	---	---	---
LENG8	114823	broad.mit.edu	37	19	54973060	54973060	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54973060delT	uc002qfw.2	+	16					LENG9_uc010yez.1_3'UTR	NM_052925	NP_443157			leukocyte receptor cluster member 8								protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)														---	---	---	---
LILRB4	11006	broad.mit.edu	37	19	55167759	55167759	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55167759delT	uc002qgo.1	+											Homo sapiens leucocyte immunoglobulin-like receptor-5 (LIR-5) mRNA, complete cds.							integral to membrane|plasma membrane	antigen binding|receptor activity			ovary(3)	3				GBM - Glioblastoma multiforme(193;0.035)														---	---	---	---
EPS8L1	54869	broad.mit.edu	37	19	55586640	55586640	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55586640delT	uc002qis.3	+						EPS8L1_uc010ess.1_Intron|EPS8L1_uc010est.1_5'Flank|EPS8L1_uc010yfr.1_5'Flank|EPS8L1_uc010esu.1_5'Flank	NM_133180	NP_573441			epidermal growth factor receptor pathway							cytoplasm					0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	56051292	56051293	+	IGR	DEL	GT	-	-	rs147055621		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56051292_56051293delGT								SBK2 (3631 upstream) : ZNF579 (37599 downstream)																																			---	---	---	---
ZSCAN5A	79149	broad.mit.edu	37	19	56803110	56803110	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56803110delT	uc002qmr.2	-						ZSCAN5A_uc010ygi.1_Intron	NM_024303	NP_077279			zinc finger and SCAN domain containing 5A						viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3																		---	---	---	---
ZNF667	63934	broad.mit.edu	37	19	56958960	56958960	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56958960delA	uc002qnd.2	-						ZNF667_uc010etl.2_Intron|ZNF667_uc002qne.2_Intron|ZNF667_uc010etm.2_Intron	NM_022103	NP_071386			zinc finger protein 667						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)														---	---	---	---
ZNF471	57573	broad.mit.edu	37	19	57017926	57017926	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57017926delA	uc002qnh.2	+							NM_020813	NP_065864			zinc finger protein 471						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0307)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	57076425	57076425	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57076425delT	uc002qnk.1	-						ZNF470_uc002qnl.3_5'Flank|ZNF470_uc010etn.2_5'Flank					Homo sapiens cDNA FLJ33357 fis, clone BRACE2005189.																														---	---	---	---
ZNF71	58491	broad.mit.edu	37	19	57132721	57132721	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57132721delG	uc002qnm.3	+	3	304	c.66delG	c.(64-66)ACGfs	p.T22fs		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	22						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	57235060	57235061	+	Intron	DEL	AA	-	-	rs4801371	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57235060_57235061delAA	uc010ygp.1	+											Homo sapiens cDNA clone IMAGE:4793694.																														---	---	---	---
AURKC	6795	broad.mit.edu	37	19	57746858	57746858	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57746858delT	uc002qoe.2	+	7					AURKC_uc002qoc.2_3'UTR|AURKC_uc002qod.2_3'UTR|AURKC_uc010etv.2_3'UTR	NM_001015878	NP_001015878			aurora kinase C isoform 1						cell cycle|cytokinesis	condensed chromosome|cytoplasm|midbody|spindle midzone	ATP binding|protein serine/threonine kinase activity			lung(4)|ovary(2)	6		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0122)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	57821037	57821037	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57821037delT								ZNF460 (15601 upstream) : ZNF543 (10840 downstream)																																			---	---	---	---
ZNF543	125919	broad.mit.edu	37	19	57831836	57831836	+	5'Flank	DEL	C	-	-	rs11357584		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57831836delC	uc002qoi.1	+							NM_213598	NP_998763			zinc finger protein 543						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)														---	---	---	---
ZNF547	284306	broad.mit.edu	37	19	57890363	57890363	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57890363delT	uc002qol.2	+	4					ZNF547_uc002qpm.3_Intron	NM_173631	NP_775902			zinc finger protein 547						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)														---	---	---	---
ZNF773	374928	broad.mit.edu	37	19	58012650	58012653	+	Intron	DEL	TTTT	-	-	rs71891400		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58012650_58012653delTTTT	uc002qox.2	+						ZNF547_uc002qpm.3_Intron|ZNF773_uc002qoy.2_Intron|ZNF773_uc002qoz.2_Intron	NM_198542	NP_940944			zinc finger protein 773						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)														---	---	---	---
ZNF547	284306	broad.mit.edu	37	19	58120700	58120700	+	Intron	DEL	A	-	-	rs35296343		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58120700delA	uc002qpm.3	+						ZNF530_uc002qpl.2_Intron					RecName: Full=Zinc finger protein 547;						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)														---	---	---	---
ZNF776	284309	broad.mit.edu	37	19	58206621	58206621	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58206621delA	uc002qpx.2	+							NM_173632	NP_775903			zinc finger protein 776						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0256)														---	---	---	---
ZNF256	10172	broad.mit.edu	37	19	58454219	58454220	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58454219_58454220insA	uc002qqu.2	-						ZNF256_uc010euj.2_Intron	NM_005773	NP_005764			zinc finger protein 256						multicellular organismal development|negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0155)														---	---	---	---
DEFB125	245938	broad.mit.edu	37	20	75738	75738	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:75738delT	uc002wcw.2	+							NM_153325	NP_697020			defensin, beta 125 preproprotein						defense response to bacterium	extracellular region				ovary(1)|central_nervous_system(1)|skin(1)	3		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.156)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	79231	79231	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:79231delT								DEFB125 (1936 upstream) : DEFB126 (44021 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	95308	95308	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:95308delA								DEFB125 (18013 upstream) : DEFB126 (27944 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	98745	98745	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:98745delT								DEFB125 (21450 upstream) : DEFB126 (24507 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	179749	179749	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:179749delA								DEFB128 (9485 upstream) : DEFB129 (28176 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	318197	318197	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:318197delA								SOX12 (7332 upstream) : NRSN2 (9173 downstream)																																			---	---	---	---
NRSN2	80023	broad.mit.edu	37	20	339168	339168	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:339168delA	uc002wdl.2	+							NM_024958	NP_079234			neurensin 2							integral to membrane|plasma membrane|transport vesicle					0		all_cancers(10;0.0834)																---	---	---	---
TRIB3	57761	broad.mit.edu	37	20	370980	370981	+	Intron	INS	-	A	A	rs149152887	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:370980_370981insA	uc002wdm.2	+						TRIB3_uc002wdn.2_Intron	NM_021158	NP_066981			tribbles 3						apoptosis|cellular lipid metabolic process|insulin receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fatty acid biosynthetic process|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein binding|positive regulation of ubiquitin-protein ligase activity|regulation of glucose transport|regulation of MAP kinase activity|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	ATP binding|protein kinase activity|protein kinase binding|protein kinase inhibitor activity|transcription corepressor activity|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			central_nervous_system(2)	2		all_epithelial(17;0.165)|Lung NSC(37;0.191)|Breast(17;0.231)		Colorectal(46;0.101)|COAD - Colon adenocarcinoma(99;0.112)														---	---	---	---
RBCK1	10616	broad.mit.edu	37	20	399020	399020	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:399020delT	uc002wdp.3	+						RBCK1_uc010zpl.1_Intron|RBCK1_uc010zpm.1_Intron|RBCK1_uc002wdq.3_Intron|RBCK1_uc010fzy.2_Intron|RBCK1_uc002wdr.3_Intron	NM_031229	NP_112506			RanBP-type and C3HC4-type zinc finger containing						interspecies interaction between organisms|negative regulation of NF-kappaB transcription factor activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|proteasomal ubiquitin-dependent protein catabolic process|protein linear polyubiquitination|T cell receptor signaling pathway	LUBAC complex	protein binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0		all_epithelial(17;0.172)|Lung NSC(37;0.191)|Breast(17;0.231)																---	---	---	---
CSNK2A1	1457	broad.mit.edu	37	20	498250	498250	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:498250delA	uc002wdw.1	-						CSNK2A1_uc002wdx.1_Intron|CSNK2A1_uc002wdy.1_Intron	NM_177559	NP_808227			casein kinase II alpha 1 subunit isoform a						axon guidance|Wnt receptor signaling pathway	cytosol|NuRD complex|plasma membrane|Sin3 complex	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			ovary(1)	1		Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.0969)															---	---	---	---
CSNK2A1	1457	broad.mit.edu	37	20	507303	507303	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:507303delA	uc002wdw.1	-						CSNK2A1_uc002wdx.1_Intron|CSNK2A1_uc002wdy.1_Intron	NM_177559	NP_808227			casein kinase II alpha 1 subunit isoform a						axon guidance|Wnt receptor signaling pathway	cytosol|NuRD complex|plasma membrane|Sin3 complex	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			ovary(1)	1		Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.0969)															---	---	---	---
CSNK2A1	1457	broad.mit.edu	37	20	525047	525047	+	5'Flank	DEL	T	-	-	rs66508851		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:525047delT	uc002wdw.1	-						CSNK2A1_uc002wdx.1_5'Flank|CSNK2A1_uc002wdy.1_5'Flank	NM_177559	NP_808227			casein kinase II alpha 1 subunit isoform a						axon guidance|Wnt receptor signaling pathway	cytosol|NuRD complex|plasma membrane|Sin3 complex	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			ovary(1)	1		Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.0969)															---	---	---	---
SCRT2	85508	broad.mit.edu	37	20	643655	643656	+	3'UTR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:643655_643656delGT	uc002wec.2	-	2					SRXN1_uc002web.2_Intron	NM_033129	NP_149120			scratch 2 protein						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	671464	671469	+	IGR	DEL	GTGTGT	-	-	rs144715839		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:671464_671469delGTGTGT								SRXN1 (14641 upstream) : C20orf54 (69256 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	710885	710886	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:710885_710886delTT								SRXN1 (54062 upstream) : C20orf54 (29839 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	1021091	1021091	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1021091delT								RSPO4 (38187 upstream) : PSMF1 (72815 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	1037976	1037976	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1037976delT								RSPO4 (55072 upstream) : PSMF1 (55930 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	1080575	1080576	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1080575_1080576insT								RSPO4 (97671 upstream) : PSMF1 (13330 downstream)																																			---	---	---	---
PSMF1	9491	broad.mit.edu	37	20	1110124	1110124	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1110124delC	uc002wel.3	+						PSMF1_uc010zpo.1_Intron|PSMF1_uc002wem.3_Intron|PSMF1_uc010zpp.1_Intron|PSMF1_uc002wen.3_Intron	NM_178578	NP_848693			proteasome inhibitor subunit 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|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	proteasome core complex	endopeptidase inhibitor activity|protein binding				0																		---	---	---	---
C20orf202	400831	broad.mit.edu	37	20	1187219	1187219	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1187219delA	uc002wer.3	+							NM_001009612	NP_001009612			hypothetical protein LOC400831												0																		---	---	---	---
RAD21L1	642636	broad.mit.edu	37	20	1220928	1220928	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1220928delT	uc010gab.1	+							NM_001136566	NP_001130038			RAD21-like 1						chromosome segregation|meiotic prophase I	meiotic cohesin complex|nuclear chromosome					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	1243909	1243909	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1243909delA								RAD21L1 (8764 upstream) : SNPH (3051 downstream)																																			---	---	---	---
SNPH	9751	broad.mit.edu	37	20	1258392	1258393	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1258392_1258393delTG	uc002wes.2	+						SNPH_uc002wet.2_Intron	NM_014723	NP_055538			syntaphilin						synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2																		---	---	---	---
SNPH	9751	broad.mit.edu	37	20	1272296	1272300	+	Intron	DEL	TCTGT	-	-	rs146719446		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1272296_1272300delTCTGT	uc002wes.2	+						SNPH_uc002wet.2_Intron	NM_014723	NP_055538			syntaphilin						synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2																		---	---	---	---
NSFL1C	55968	broad.mit.edu	37	20	1426036	1426036	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1426036delA	uc002wfc.2	-						NSFL1C_uc002wfd.2_Intron|NSFL1C_uc002wfe.2_Intron|NSFL1C_uc002wff.2_Intron|NSFL1C_uc010gag.2_Intron	NM_016143	NP_057227			p47 protein isoform a							chromosome|Golgi stack|nucleus	lipid binding|protein binding				0																		---	---	---	---
SIRPB1	10326	broad.mit.edu	37	20	1549942	1549942	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1549942delA	uc010gai.2	-						SIRPB1_uc002wfk.3_Intron	NM_006065	NP_006056			signal-regulatory protein beta 1 isoform 1						cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1																		---	---	---	---
SIRPB1	10326	broad.mit.edu	37	20	1571751	1571751	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1571751delA	uc010gai.2	-						SIRPB1_uc002wfk.3_Intron	NM_006065	NP_006056			signal-regulatory protein beta 1 isoform 1						cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	1797138	1797138	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1797138delA								SIRPG (158713 upstream) : SIRPA (77675 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	1947664	1947664	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1947664delA	uc002wfu.1	+											Homo sapiens cDNA FLJ33362 fis, clone BRACE2005337.																														---	---	---	---
Unknown	0	broad.mit.edu	37	20	2056532	2056532	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2056532delA								PDYN (81829 upstream) : STK35 (25996 downstream)																																			---	---	---	---
STK35	140901	broad.mit.edu	37	20	2109497	2109498	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2109497_2109498insT	uc002wfw.3	+						STK35_uc010zpu.1_Intron	NM_080836	NP_543026			serine/threonine kinase 35							cytoplasm|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	2163715	2163715	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2163715delT								STK35 (34519 upstream) : TGM3 (112898 downstream)																																			---	---	---	---
TGM3	7053	broad.mit.edu	37	20	2282354	2282354	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2282354delT	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)													---	---	---	---
TGM3	7053	broad.mit.edu	37	20	2292470	2292470	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2292470delT	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)													---	---	---	---
TGM3	7053	broad.mit.edu	37	20	2320883	2320883	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2320883delC	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)													---	---	---	---
TGM6	343641	broad.mit.edu	37	20	2406091	2406093	+	Intron	DEL	ACT	-	-	rs34170813		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2406091_2406093delACT	uc002wfy.1	+						TGM6_uc010gal.1_Intron	NM_198994	NP_945345			transglutaminase 6						cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)													---	---	---	---
Unknown	0	broad.mit.edu	37	20	2437385	2437386	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2437385_2437386delTT								TGM6 (23986 upstream) : SNRPB (4895 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	2512550	2512550	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2512550delG								ZNF343 (7385 upstream) : TMC2 (4703 downstream)																																			---	---	---	---
TMC2	117532	broad.mit.edu	37	20	2586120	2586121	+	Intron	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2586120_2586121delGA	uc002wgf.1	+						TMC2_uc002wgg.1_Intron|TMC2_uc010zpw.1_Intron|TMC2_uc010zpx.1_Intron	NM_080751	NP_542789			transmembrane cochlear-expressed protein 2							integral to membrane				ovary(3)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	2753756	2753757	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2753756_2753757delAA								EBF4 (13003 upstream) : CPXM1 (20959 downstream)																																			---	---	---	---
PTPRA	5786	broad.mit.edu	37	20	2901484	2901484	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2901484delT	uc010zqb.1	+						VPS16_uc002whh.2_Intron|PTPRA_uc002whj.2_Intron|PTPRA_uc010zqc.1_Intron|PTPRA_uc002whk.2_Intron|PTPRA_uc010zqd.1_Intron|PTPRA_uc002whl.2_Intron|PTPRA_uc002whm.2_Intron|PTPRA_uc002whn.2_5'Flank					SubName: Full=cDNA FLJ60525, highly similar to Receptor-type tyrosine-protein phosphatase alpha (EC 3.1.3.48);						axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1																		---	---	---	---
PTPRA	5786	broad.mit.edu	37	20	2917115	2917115	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2917115delT	uc010zqb.1	+						VPS16_uc002whh.2_Intron|PTPRA_uc002whj.2_Intron|PTPRA_uc010zqc.1_Intron|PTPRA_uc002whk.2_Intron|PTPRA_uc010zqd.1_Intron|PTPRA_uc002whl.2_Intron|PTPRA_uc002whm.2_Intron|PTPRA_uc002whn.2_Intron					SubName: Full=cDNA FLJ60525, highly similar to Receptor-type tyrosine-protein phosphatase alpha (EC 3.1.3.48);						axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1																		---	---	---	---
PTPRA	5786	broad.mit.edu	37	20	2936464	2936464	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2936464delT	uc010zqb.1	+						PTPRA_uc002whj.2_Intron|PTPRA_uc010zqc.1_Intron|PTPRA_uc002whk.2_Intron|PTPRA_uc010zqd.1_Intron|PTPRA_uc002whl.2_Intron|PTPRA_uc002whm.2_Intron|PTPRA_uc002whn.2_Intron					SubName: Full=cDNA FLJ60525, highly similar to Receptor-type tyrosine-protein phosphatase alpha (EC 3.1.3.48);						axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1																		---	---	---	---
PTPRA	5786	broad.mit.edu	37	20	2938285	2938285	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2938285delA	uc010zqb.1	+						PTPRA_uc002whj.2_Intron|PTPRA_uc010zqc.1_Intron|PTPRA_uc002whk.2_Intron|PTPRA_uc010zqd.1_Intron|PTPRA_uc002whl.2_Intron|PTPRA_uc002whm.2_Intron|PTPRA_uc002whn.2_Intron					SubName: Full=cDNA FLJ60525, highly similar to Receptor-type tyrosine-protein phosphatase alpha (EC 3.1.3.48);						axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	3170272	3170275	+	IGR	DEL	AAGG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3170272_3170275delAAGG								ProSAPiP1 (16080 upstream) : DDRGK1 (743 downstream)																																			---	---	---	---
C20orf194	25943	broad.mit.edu	37	20	3302392	3302392	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3302392delT	uc002wii.2	-						C20orf194_uc002wij.3_Intron|C20orf194_uc002wik.2_Intron	NM_001009984	NP_001009984			hypothetical protein LOC25943												0																		---	---	---	---
C20orf194	25943	broad.mit.edu	37	20	3319614	3319614	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3319614delT	uc002wii.2	-						C20orf194_uc002wij.3_Intron|C20orf194_uc002wik.2_Intron|C20orf194_uc010gay.1_Intron	NM_001009984	NP_001009984			hypothetical protein LOC25943												0																		---	---	---	---
ATRN	8455	broad.mit.edu	37	20	3520414	3520414	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3520414delT	uc002wim.2	+						ATRN_uc002wil.2_Intron	NM_139321	NP_647537			attractin isoform 1						inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2																		---	---	---	---
ATRN	8455	broad.mit.edu	37	20	3534804	3534804	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3534804delT	uc002wim.2	+						ATRN_uc002wil.2_Intron	NM_139321	NP_647537			attractin isoform 1						inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2																		---	---	---	---
ATRN	8455	broad.mit.edu	37	20	3577009	3577009	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3577009delT	uc002wim.2	+						ATRN_uc002wil.2_Intron	NM_139321	NP_647537			attractin isoform 1						inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2																		---	---	---	---
ATRN	8455	broad.mit.edu	37	20	3601984	3602006	+	Intron	DEL	GAAGTGCAACATTAGTGATTGAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3601984_3602006delGAAGTGCAACATTAGTGATTGAG	uc002wim.2	+							NM_139321	NP_647537			attractin isoform 1						inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2																		---	---	---	---
C20orf27	54976	broad.mit.edu	37	20	3741984	3741986	+	Intron	DEL	TTT	-	-	rs75148929	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3741984_3741986delTTT	uc002wji.1	-						C20orf27_uc002wjf.1_Intron|C20orf27_uc002wjh.1_Intron	NM_001039140	NP_001034229			hypothetical protein LOC54976												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	3788715	3788716	+	5'Flank	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3788715_3788716delCT	uc002wjr.2	+											Homo sapiens, clone IMAGE:5932306, mRNA.																														---	---	---	---
RNF24	11237	broad.mit.edu	37	20	3925726	3925726	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3925726delT	uc002wkh.2	-						RNF24_uc002wki.2_Intron|RNF24_uc002wkj.2_Intron	NM_007219	NP_009150			ring finger protein 24 isoform 1							Golgi membrane|integral to membrane	zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	4061592	4061594	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4061592_4061594delAAA								RNF24 (65376 upstream) : SMOX (67856 downstream)																																			---	---	---	---
SMOX	54498	broad.mit.edu	37	20	4158520	4158520	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4158520delT	uc002wkm.1	+						SMOX_uc002wkk.1_Intron|SMOX_uc002wkl.1_Intron|SMOX_uc002wkn.1_Intron|SMOX_uc002wkp.2_Intron|SMOX_uc010zqo.1_Intron|SMOX_uc002wko.1_Intron	NM_175839	NP_787033			spermine oxidase isoform 1						polyamine biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	polyamine oxidase activity			breast(1)	1					Spermine(DB00127)													---	---	---	---
Unknown	0	broad.mit.edu	37	20	4569731	4569733	+	IGR	DEL	AAA	-	-	rs75816051		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4569731_4569733delAAA								ADRA1D (340072 upstream) : PRNP (97064 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	4754043	4754043	+	IGR	DEL	G	-	-	rs34654188		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4754043delG								PRNT (32729 upstream) : RASSF2 (6627 downstream)																																			---	---	---	---
SLC23A2	9962	broad.mit.edu	37	20	4890132	4890133	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4890132_4890133delTT	uc002wlg.1	-						SLC23A2_uc010zqr.1_Intron|SLC23A2_uc002wlh.1_Intron|SLC23A2_uc002wli.2_Intron	NM_005116	NP_005107			solute carrier family 23 (nucleobase						L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	4999482	4999482	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4999482delA								SLC23A2 (8543 upstream) : C20orf30 (49648 downstream)																																			---	---	---	---
C20orf30	29058	broad.mit.edu	37	20	5080580	5080580	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5080580delA	uc002wll.2	-	5					C20orf30_uc010gbi.2_Intron|C20orf30_uc002wlk.2_3'UTR|C20orf30_uc002wlm.2_3'UTR|C20orf30_uc002wln.2_3'UTR|C20orf30_uc002wlo.2_RNA	NM_001009924	NP_001009924			hypothetical protein LOC29058 isoform 2							integral to membrane					0																		---	---	---	---
CDS2	8760	broad.mit.edu	37	20	5120019	5120019	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5120019delA	uc002wls.2	+						CDS2_uc002wlr.1_Intron|CDS2_uc010zqt.1_Intron|CDS2_uc002wlu.2_Intron|CDS2_uc010zqu.1_Intron	NM_003818	NP_003809			phosphatidate cytidylyltransferase 2						phospholipid biosynthetic process	integral to membrane|mitochondrial inner membrane	phosphatidate cytidylyltransferase activity				0																		---	---	---	---
CDS2	8760	broad.mit.edu	37	20	5161100	5161100	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5161100delT	uc002wls.2	+						CDS2_uc002wlr.1_Intron|CDS2_uc010zqt.1_Intron|CDS2_uc002wlu.2_Intron|CDS2_uc010zqu.1_Intron|CDS2_uc002wlv.2_Intron|CDS2_uc010zqv.1_Intron	NM_003818	NP_003809			phosphatidate cytidylyltransferase 2						phospholipid biosynthetic process	integral to membrane|mitochondrial inner membrane	phosphatidate cytidylyltransferase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	5177237	5177237	+	RNA	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5177237delT	uc002wlw.2	+	1		c.1371delT								Homo sapiens cDNA FLJ12936 fis, clone NT2RP2005018.																														---	---	---	---
Unknown	0	broad.mit.edu	37	20	5463382	5463384	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5463382_5463384delTTT								PROKR2 (166004 upstream) : LOC149837 (15834 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	5489564	5489565	+	IGR	DEL	AA	-	-	rs76386296		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5489564_5489565delAA								LOC149837 (4322 upstream) : GPCPD1 (35516 downstream)																																			---	---	---	---
GPCPD1	56261	broad.mit.edu	37	20	5530838	5530838	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5530838delA	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																		---	---	---	---
GPCPD1	56261	broad.mit.edu	37	20	5560876	5560876	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	5614227	5614227	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5614227delT								GPCPD1 (22555 upstream) : C20orf196 (116816 downstream)																																			---	---	---	---
C20orf196	149840	broad.mit.edu	37	20	5833043	5833044	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5833043_5833044insC	uc002wmf.2	+							NM_152504	NP_689717			hypothetical protein LOC149840												0																		---	---	---	---
MCM8	84515	broad.mit.edu	37	20	5951629	5951630	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5951629_5951630delTT	uc002wmi.2	+						MCM8_uc002wmj.2_Intron|MCM8_uc002wmk.2_Intron|MCM8_uc002wml.2_Intron|MCM8_uc010gbp.2_Intron|MCM8_uc002wmm.2_5'UTR	NM_032485	NP_115874			minichromosome maintenance complex component 8						cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1																		---	---	---	---
CRLS1	54675	broad.mit.edu	37	20	6009603	6009603	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6009603delT	uc002wmn.3	+						CRLS1_uc010gbq.2_Intron|CRLS1_uc010gbr.2_Intron	NM_019095	NP_061968			cardiolipin synthase 1 isoform 1						phospholipid biosynthetic process	integral to membrane|mitochondrial inner membrane	phosphotransferase activity, for other substituted phosphate groups				0																		---	---	---	---
FERMT1	55612	broad.mit.edu	37	20	6061914	6061916	+	Intron	DEL	AAA	-	-	rs71334384		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6061914_6061916delAAA	uc002wmr.2	-						FERMT1_uc002wmq.2_Intron|FERMT1_uc010gbt.2_Intron	NM_017671	NP_060141			kindlin-1						cell adhesion|establishment of epithelial cell polarity|keratinocyte migration|keratinocyte proliferation	cytosol|focal adhesion|ruffle membrane	binding			ovary(1)|pancreas(1)|skin(1)	3																		---	---	---	---
FERMT1	55612	broad.mit.edu	37	20	6078081	6078081	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6078081delA	uc002wmr.2	-						FERMT1_uc010gbt.2_Intron|FERMT1_uc002wms.2_Intron|FERMT1_uc002wmt.2_Intron	NM_017671	NP_060141			kindlin-1						cell adhesion|establishment of epithelial cell polarity|keratinocyte migration|keratinocyte proliferation	cytosol|focal adhesion|ruffle membrane	binding			ovary(1)|pancreas(1)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	6371518	6371519	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6371518_6371519delAA								FERMT1 (267327 upstream) : BMP2 (377226 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	6438084	6438084	+	IGR	DEL	A	-	-	rs73613660		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6438084delA								FERMT1 (333893 upstream) : BMP2 (310661 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	6445725	6445725	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6445725delA								FERMT1 (341534 upstream) : BMP2 (303020 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	6524502	6524502	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6524502delT								FERMT1 (420311 upstream) : BMP2 (224243 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	6665283	6665284	+	IGR	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6665283_6665284delCT								FERMT1 (561092 upstream) : BMP2 (83461 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	6665483	6665483	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6665483delA								FERMT1 (561292 upstream) : BMP2 (83262 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	6686168	6686168	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6686168delA								FERMT1 (581977 upstream) : BMP2 (62577 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	6783508	6783510	+	IGR	DEL	CTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6783508_6783510delCTT								BMP2 (22598 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	6827397	6827397	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6827397delA								BMP2 (66487 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	6903325	6903325	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6903325delA								BMP2 (142415 upstream) : HAO1 (960306 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	6994920	6994921	+	IGR	INS	-	TG	TG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6994920_6994921insTG								BMP2 (234010 upstream) : HAO1 (868710 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	7171683	7171684	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:7171683_7171684insA								BMP2 (410773 upstream) : HAO1 (691947 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	7190248	7190248	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:7190248delT								BMP2 (429338 upstream) : HAO1 (673383 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	7253649	7253650	+	IGR	INS	-	TTG	TTG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:7253649_7253650insTTG								BMP2 (492739 upstream) : HAO1 (609981 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	7618389	7618390	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:7618389_7618390insA								BMP2 (857479 upstream) : HAO1 (245241 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	7657149	7657150	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:7657149_7657150delAA								BMP2 (896239 upstream) : HAO1 (206481 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	7732147	7732150	+	IGR	DEL	TCTC	-	-	rs11468436		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:7732147_7732150delTCTC								BMP2 (971237 upstream) : HAO1 (131481 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	7950678	7950678	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:7950678delT								HAO1 (29585 upstream) : TMX4 (11038 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	8081580	8081581	+	IGR	DEL	AG	-	-	rs138070982		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:8081580_8081581delAG								TMX4 (81187 upstream) : PLCB1 (13519 downstream)																																			---	---	---	---
PLCB1	23236	broad.mit.edu	37	20	8300174	8300174	+	Intron	DEL	A	-	-	rs111997224		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:8300174delA	uc002wnb.2	+						PLCB1_uc010zrb.1_Intron|PLCB1_uc010gbv.1_Intron|PLCB1_uc002wmz.1_Intron|PLCB1_uc002wna.2_Intron	NM_015192	NP_056007			phosphoinositide-specific phospholipase C beta 1						activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12																		---	---	---	---
PLCB1	23236	broad.mit.edu	37	20	8394788	8394788	+	Intron	DEL	A	-	-	rs708917		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:8394788delA	uc002wnb.2	+						PLCB1_uc010zrb.1_Intron|PLCB1_uc010gbv.1_Intron|PLCB1_uc002wmz.1_Intron|PLCB1_uc002wna.2_Intron	NM_015192	NP_056007			phosphoinositide-specific phospholipase C beta 1						activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12																		---	---	---	---
PLCB1	23236	broad.mit.edu	37	20	8432572	8432572	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:8432572delA	uc002wnb.2	+						PLCB1_uc010zrb.1_Intron|PLCB1_uc010gbv.1_Intron|PLCB1_uc002wmz.1_Intron|PLCB1_uc002wna.2_Intron	NM_015192	NP_056007			phosphoinositide-specific phospholipase C beta 1						activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12																		---	---	---	---
PLCB1	23236	broad.mit.edu	37	20	8534730	8534731	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:8534730_8534731delAA	uc002wnb.2	+						PLCB1_uc010zrb.1_Intron|PLCB1_uc010gbv.1_Intron|PLCB1_uc002wmz.1_Intron|PLCB1_uc002wna.2_Intron	NM_015192	NP_056007			phosphoinositide-specific phospholipase C beta 1						activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12																		---	---	---	---
PLCB1	23236	broad.mit.edu	37	20	8598225	8598225	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:8598225delT	uc002wnb.2	+						PLCB1_uc010zrb.1_Intron|PLCB1_uc010gbv.1_Intron|PLCB1_uc002wmz.1_Intron|PLCB1_uc002wna.2_Intron|PLCB1_uc002wnc.1_Intron	NM_015192	NP_056007			phosphoinositide-specific phospholipase C beta 1						activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12																		---	---	---	---
PLCB1	23236	broad.mit.edu	37	20	8802682	8802682	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:8802682delT	uc002wnb.2	+						PLCB1_uc002wna.2_Intron	NM_015192	NP_056007			phosphoinositide-specific phospholipase C beta 1						activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12																		---	---	---	---
PLCB1	23236	broad.mit.edu	37	20	8811324	8811324	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:8811324delT	uc002wnb.2	+						PLCB1_uc002wna.2_Intron	NM_015192	NP_056007			phosphoinositide-specific phospholipase C beta 1						activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12																		---	---	---	---
PLCB4	5332	broad.mit.edu	37	20	9144970	9144970	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9144970delT	uc002wnf.2	+						PLCB4_uc010gbw.1_Intron|PLCB4_uc010gbx.2_Intron|PLCB4_uc002wne.2_Intron	NM_182797	NP_877949			phospholipase C beta 4 isoform b						intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15																		---	---	---	---
PLCB4	5332	broad.mit.edu	37	20	9207825	9207825	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9207825delT	uc002wnf.2	+						PLCB4_uc010gbw.1_Intron|PLCB4_uc010gbx.2_Intron|PLCB4_uc002wne.2_Intron	NM_182797	NP_877949			phospholipase C beta 4 isoform b						intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15																		---	---	---	---
PLCB4	5332	broad.mit.edu	37	20	9323845	9323845	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9323845delT	uc002wnf.2	+						PLCB4_uc010gbw.1_Intron|PLCB4_uc010gbx.2_Intron|PLCB4_uc002wne.2_Intron	NM_182797	NP_877949			phospholipase C beta 4 isoform b						intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15																		---	---	---	---
PLCB4	5332	broad.mit.edu	37	20	9419547	9419547	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9419547delA	uc002wnf.2	+						PLCB4_uc010gbw.1_Intron|PLCB4_uc010gbx.2_Intron|PLCB4_uc002wne.2_Intron|PLCB4_uc002wnh.2_Intron	NM_182797	NP_877949			phospholipase C beta 4 isoform b						intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15																		---	---	---	---
PAK7	57144	broad.mit.edu	37	20	9654910	9654910	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9654910delT	uc002wnl.2	-						PAK7_uc002wnk.2_Intron|PAK7_uc002wnj.2_Intron|PAK7_uc010gby.1_Intron	NM_020341	NP_065074			p21-activated kinase 7								ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	9895902	9895903	+	IGR	INS	-	CAAGA	CAAGA	rs147523320	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9895902_9895903insCAAGA								PAK7 (76215 upstream) : ANKRD5 (119794 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	9938421	9938422	+	IGR	INS	-	TC	TC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9938421_9938422insTC								PAK7 (118734 upstream) : ANKRD5 (77275 downstream)																																			---	---	---	---
ANKRD5	63926	broad.mit.edu	37	20	10033515	10033515	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10033515delA	uc002wno.2	+						uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Intron|ANKRD5_uc010gbz.2_Intron	NM_022096	NP_071379			ankyrin repeat domain protein 5								calcium ion binding			ovary(1)|breast(1)	2																		---	---	---	---
SNAP25	6616	broad.mit.edu	37	20	10253794	10253795	+	Intron	DEL	TT	-	-	rs33941524		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10253794_10253795delTT	uc002wnq.1	+						SNAP25_uc002wnr.1_Intron|SNAP25_uc002wns.1_Intron|SNAP25_uc010gca.1_Intron|SNAP25_uc010gcb.1_Intron|SNAP25_uc010gcc.1_Intron	NM_130811	NP_570824			synaptosomal-associated protein 25 isoform						energy reserve metabolic process|glutamate secretion|neurotransmitter uptake|synaptic vesicle docking involved in exocytosis	cell junction|growth cone|perinuclear region of cytoplasm|synapse|synaptosome				skin(2)	2					Botulinum Toxin Type A(DB00083)													---	---	---	---
MKKS	8195	broad.mit.edu	37	20	10397127	10397127	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10397127delA	uc002wnt.1	-						MKKS_uc002wnu.1_Intron|MKKS_uc010zrd.1_Intron	NM_018848	NP_061336			McKusick-Kaufman syndrome protein						brain morphogenesis|cerebral cortex development|convergent extension involved in gastrulation|detection of mechanical stimulus involved in sensory perception of sound|fat cell differentiation|flagellum assembly|gonad development|heart looping|hippocampus development|intracellular transport|melanosome transport|photoreceptor cell maintenance|pigment granule aggregation in cell center|protein folding|regulation of cilium beat frequency involved in ciliary motility|sensory perception of smell|social behavior|spermatid development|striatum development	cytosol|microtubule organizing center|motile cilium	ATP binding|unfolded protein binding				0														Bardet-Biedl_syndrome				---	---	---	---
MKKS	8195	broad.mit.edu	37	20	10400823	10400824	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10400823_10400824delAA	uc002wnt.1	-						MKKS_uc002wnu.1_Intron|MKKS_uc010zrd.1_Intron	NM_018848	NP_061336			McKusick-Kaufman syndrome protein						brain morphogenesis|cerebral cortex development|convergent extension involved in gastrulation|detection of mechanical stimulus involved in sensory perception of sound|fat cell differentiation|flagellum assembly|gonad development|heart looping|hippocampus development|intracellular transport|melanosome transport|photoreceptor cell maintenance|pigment granule aggregation in cell center|protein folding|regulation of cilium beat frequency involved in ciliary motility|sensory perception of smell|social behavior|spermatid development|striatum development	cytosol|microtubule organizing center|motile cilium	ATP binding|unfolded protein binding				0														Bardet-Biedl_syndrome				---	---	---	---
C20orf94	128710	broad.mit.edu	37	20	10448504	10448504	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10448504delT	uc010zre.1	+							NM_001009608	NP_001009608			hypothetical protein LOC128710								protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	10660169	10660169	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10660169delT								JAG1 (5475 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	10811588	10811588	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10811588delT								JAG1 (156894 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	10858351	10858351	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10858351delT								JAG1 (203657 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	10861058	10861059	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10861058_10861059delTT								JAG1 (206364 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	11071464	11071464	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:11071464delG								JAG1 (416770 upstream) : BTBD3 (800013 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	11153633	11153634	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:11153633_11153634delAA								JAG1 (498939 upstream) : BTBD3 (717843 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	11172566	11172566	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:11172566delA								JAG1 (517872 upstream) : BTBD3 (698911 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	11205582	11205582	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:11205582delA								JAG1 (550888 upstream) : BTBD3 (665895 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	11478848	11478848	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:11478848delT								JAG1 (824154 upstream) : BTBD3 (392629 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	11513258	11513258	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:11513258delA								JAG1 (858564 upstream) : BTBD3 (358219 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	11518665	11518665	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:11518665delT								JAG1 (863971 upstream) : BTBD3 (352812 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	11565281	11565282	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:11565281_11565282delGT								JAG1 (910587 upstream) : BTBD3 (306195 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	11778107	11778107	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:11778107delG								None (None upstream) : BTBD3 (93370 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	11845438	11845438	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:11845438delA								None (None upstream) : BTBD3 (26039 downstream)																																			---	---	---	---
BTBD3	22903	broad.mit.edu	37	20	11899989	11899989	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:11899989delT	uc002wnz.2	+						BTBD3_uc002wny.2_Intron|BTBD3_uc002woa.2_Intron|BTBD3_uc010zrf.1_Intron|BTBD3_uc010zrg.1_5'UTR|BTBD3_uc010zrh.1_5'Flank	NM_014962	NP_055777			BTB/POZ domain containing protein 3 isoform a											ovary(2)|central_nervous_system(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	12244093	12244094	+	IGR	DEL	AA	-	-	rs33923123		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:12244093_12244094delAA								BTBD3 (336851 upstream) : SPTLC3 (745533 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	12247315	12247322	+	IGR	DEL	CAACTTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:12247315_12247322delCAACTTTT								BTBD3 (340073 upstream) : SPTLC3 (742305 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	12256342	12256342	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:12256342delA								BTBD3 (349100 upstream) : SPTLC3 (733285 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	12312861	12312861	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:12312861delT								BTBD3 (405619 upstream) : SPTLC3 (676766 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	12374056	12374056	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:12374056delT								BTBD3 (466814 upstream) : SPTLC3 (615571 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	12397854	12397854	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:12397854delT								BTBD3 (490612 upstream) : SPTLC3 (591773 downstream)																																			---	---	---	---
SPTLC3	55304	broad.mit.edu	37	20	13138312	13138313	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13138312_13138313delAA	uc002wod.1	+							NM_018327	NP_060797			serine palmitoyltransferase, long chain base						sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)													---	---	---	---
ISM1	140862	broad.mit.edu	37	20	13219850	13219850	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13219850delA	uc010gce.1	+						uc002wof.1_Intron	NM_080826	NP_543016			isthmin 1 homolog precursor							extracellular region					0																		---	---	---	---
ISM1	140862	broad.mit.edu	37	20	13254708	13254709	+	Intron	INS	-	TGTA	TGTA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13254708_13254709insTGTA	uc010gce.1	+						TASP1_uc010zri.1_Intron	NM_080826	NP_543016			isthmin 1 homolog precursor							extracellular region					0																		---	---	---	---
TASP1	55617	broad.mit.edu	37	20	13521532	13521532	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13521532delA	uc002woi.2	-						TASP1_uc010zri.1_Intron|TASP1_uc002woh.2_Intron|TASP1_uc010zrj.1_Intron	NM_017714	NP_060184			taspase 1 precursor						asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0																		---	---	---	---
TASP1	55617	broad.mit.edu	37	20	13529088	13529088	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13529088delA	uc002woi.2	-						TASP1_uc010zri.1_Intron|TASP1_uc002woh.2_Intron|TASP1_uc010zrj.1_Intron	NM_017714	NP_060184			taspase 1 precursor						asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0																		---	---	---	---
TASP1	55617	broad.mit.edu	37	20	13549836	13549837	+	Intron	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13549836_13549837delTC	uc002woi.2	-						TASP1_uc010zri.1_Intron|TASP1_uc002woh.2_Intron|TASP1_uc010zrj.1_Intron	NM_017714	NP_060184			taspase 1 precursor						asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0																		---	---	---	---
ESF1	51575	broad.mit.edu	37	20	13735331	13735331	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13735331delC	uc002woj.2	-							NM_016649	NP_057733			ABT1-associated protein						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1																		---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	14071654	14071654	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:14071654delT	uc002wou.2	+						MACROD2_uc002wot.2_Intron	NM_080676	NP_542407			MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	14241016	14241016	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:14241016delA	uc002wou.2	+						MACROD2_uc002wot.2_Intron	NM_080676	NP_542407			MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	14241844	14241844	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:14241844delA	uc002wou.2	+						MACROD2_uc002wot.2_Intron	NM_080676	NP_542407			MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	14396609	14396612	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:14396609_14396612delTTTT	uc002wou.2	+						MACROD2_uc002wot.2_Intron	NM_080676	NP_542407			MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	14500866	14500866	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:14500866delT	uc002wou.2	+						MACROD2_uc002wot.2_Intron	NM_080676	NP_542407			MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	14551200	14551202	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:14551200_14551202delTTT	uc002wou.2	+						MACROD2_uc002wot.2_Intron|MACROD2_uc002wox.2_Intron	NM_080676	NP_542407			MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	14785539	14785540	+	Intron	DEL	GA	-	-	rs58480723		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:14785539_14785540delGA	uc002wou.2	+						MACROD2_uc002wot.2_Intron|MACROD2_uc002wox.2_Intron	NM_080676	NP_542407			MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	15175963	15175964	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:15175963_15175964insT	uc002wou.2	+						MACROD2_uc002wot.2_Intron|MACROD2_uc002woz.2_5'Flank	NM_080676	NP_542407			MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	15419274	15419274	+	Intron	DEL	T	-	-	rs67681178		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:15419274delT	uc002wou.2	+						MACROD2_uc002wot.2_Intron|MACROD2_uc002woz.2_Intron	NM_080676	NP_542407			MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	15509938	15509939	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:15509938_15509939delTG	uc002wou.2	+						MACROD2_uc002wot.2_Intron|MACROD2_uc002woz.2_Intron	NM_080676	NP_542407			MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	15514643	15514643	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:15514643delT	uc002wou.2	+						MACROD2_uc002wot.2_Intron|MACROD2_uc002woz.2_Intron	NM_080676	NP_542407			MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	15530503	15530503	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:15530503delT	uc002wou.2	+						MACROD2_uc002wot.2_Intron|MACROD2_uc002woz.2_Intron	NM_080676	NP_542407			MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	15858086	15858086	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:15858086delA	uc002wou.2	+						MACROD2_uc002wot.2_Intron|MACROD2_uc002woz.2_Intron|MACROD2_uc002wpb.2_Intron	NM_080676	NP_542407			MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	15952842	15952842	+	Intron	DEL	A	-	-	rs73597739	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:15952842delA	uc002wou.2	+						MACROD2_uc002wot.2_Intron|MACROD2_uc002woz.2_Intron|MACROD2_uc002wpb.2_Intron	NM_080676	NP_542407			MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
Unknown	0	broad.mit.edu	37	20	16153382	16153382	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:16153382delA								MACROD2 (119543 upstream) : KIF16B (99367 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	16234397	16234398	+	IGR	INS	-	AC	AC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:16234397_16234398insAC								MACROD2 (200558 upstream) : KIF16B (18351 downstream)																																			---	---	---	---
KIF16B	55614	broad.mit.edu	37	20	16286386	16286386	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:16286386delT	uc002wpg.1	-						KIF16B_uc002wpe.1_Intron|KIF16B_uc002wpf.1_Intron|KIF16B_uc010gch.1_Intron	NM_024704	NP_078980			kinesin-like motor protein C20orf23						cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	16735798	16735798	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:16735798delA								OTOR (2990 upstream) : PCSK2 (470954 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	17072912	17072912	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17072912delT								OTOR (340104 upstream) : PCSK2 (133840 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	17084702	17084702	+	IGR	DEL	T	-	-	rs74177395		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17084702delT								OTOR (351894 upstream) : PCSK2 (122050 downstream)																																			---	---	---	---
PCSK2	5126	broad.mit.edu	37	20	17369210	17369210	+	Intron	DEL	A	-	-	rs79531603	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17369210delA	uc002wpm.2	+						PCSK2_uc002wpl.2_Intron|PCSK2_uc010zrm.1_Intron	NM_002594	NP_002585			proprotein convertase subtilisin/kexin type 2						enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)													---	---	---	---
PCSK2	5126	broad.mit.edu	37	20	17379694	17379694	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17379694delA	uc002wpm.2	+						PCSK2_uc002wpl.2_Intron|PCSK2_uc010zrm.1_Intron	NM_002594	NP_002585			proprotein convertase subtilisin/kexin type 2						enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)													---	---	---	---
BFSP1	631	broad.mit.edu	37	20	17512437	17512437	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17512437delT	uc002wpo.2	-						BFSP1_uc002wpp.2_Intron|BFSP1_uc010zrn.1_Intron|BFSP1_uc010zro.1_Intron	NM_001195	NP_001186			filensin isoform 1							cytoplasm|intermediate filament|membrane	structural constituent of cytoskeleton|structural constituent of eye lens			central_nervous_system(1)	1																		---	---	---	---
BANF2	140836	broad.mit.edu	37	20	17711924	17711924	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17711924delA	uc002wpz.2	+						BANF2_uc010zrs.1_Intron|BANF2_uc002wqa.2_Intron	NM_178477	NP_848572			barrier to autointegration factor 2 isoform 1							cytoplasm|nucleus	DNA binding			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	17749977	17749977	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17749977delA								BANF2 (33460 upstream) : SNX5 (172269 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	17786589	17786589	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17786589delA								BANF2 (70072 upstream) : SNX5 (135657 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	17832422	17832422	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17832422delT								BANF2 (115905 upstream) : SNX5 (89824 downstream)																																			---	---	---	---
C20orf72	92667	broad.mit.edu	37	20	17956198	17956200	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17956198_17956200delAAA	uc002wqh.2	+						C20orf72_uc010gco.2_Intron|C20orf72_uc010gcp.2_Intron	NM_052865	NP_443097			hypothetical protein LOC92667												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	18235587	18235588	+	IGR	DEL	AT	-	-	rs2424133	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:18235587_18235588delAT								CSRP2BP (66572 upstream) : ZNF133 (33533 downstream)																																			---	---	---	---
C20orf12	55184	broad.mit.edu	37	20	18364609	18364609	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:18364609delA	uc010zsa.1	-	21					C20orf12_uc010zrz.1_3'UTR|C20orf12_uc002wqp.3_3'UTR|C20orf12_uc002wqr.3_RNA|C20orf12_uc002wqs.3_3'UTR|C20orf12_uc002wqq.3_3'UTR	NM_001099407	NP_001092877			hypothetical protein LOC55184							intracellular	zinc ion binding			ovary(1)	1		Myeloproliferative disorder(85;0.0122)																---	---	---	---
RBBP9	10741	broad.mit.edu	37	20	18470643	18470643	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:18470643delA	uc002wqy.2	-							NM_006606	NP_006597			retinoblastoma binding protein 9							cytoplasm|nucleus	hydrolase activity			haematopoietic_and_lymphoid_tissue(1)	1																		---	---	---	---
DTD1	92675	broad.mit.edu	37	20	18575914	18575914	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:18575914delT	uc002wrf.3	+							NM_080820	NP_543010			D-tyrosyl-tRNA deacylase 1						D-amino acid catabolic process	cytoplasm	hydrolase activity, acting on ester bonds			ovary(2)	2																		---	---	---	---
DTD1	92675	broad.mit.edu	37	20	18718049	18718049	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:18718049delC	uc002wrf.3	+							NM_080820	NP_543010			D-tyrosyl-tRNA deacylase 1						D-amino acid catabolic process	cytoplasm	hydrolase activity, acting on ester bonds			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	19187732	19187732	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:19187732delT								C20orf79 (392699 upstream) : SLC24A3 (5558 downstream)																																			---	---	---	---
SLC24A3	57419	broad.mit.edu	37	20	19203588	19203588	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:19203588delT	uc002wrl.2	+							NM_020689	NP_065740			solute carrier family 24							integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1																		---	---	---	---
SLC24A3	57419	broad.mit.edu	37	20	19319935	19319935	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:19319935delT	uc002wrl.2	+							NM_020689	NP_065740			solute carrier family 24							integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1																		---	---	---	---
SLC24A3	57419	broad.mit.edu	37	20	19692097	19692098	+	Intron	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:19692097_19692098delCA	uc002wrl.2	+							NM_020689	NP_065740			solute carrier family 24							integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	19836405	19836405	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:19836405delA								SLC24A3 (132865 upstream) : RIN2 (33805 downstream)																																			---	---	---	---
RIN2	54453	broad.mit.edu	37	20	19891186	19891186	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:19891186delT	uc002wro.1	+						RIN2_uc010gcu.1_Intron	NM_018993	NP_061866			Ras and Rab interactor 2						endocytosis|small GTPase mediated signal transduction	cytoplasm	GTPase activator activity|Rab guanyl-nucleotide exchange factor activity			lung(4)|ovary(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	19985532	19985533	+	IGR	INS	-	T	T	rs141261813	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:19985532_19985533insT								RIN2 (2432 upstream) : NAA20 (12404 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	19990001	19990002	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:19990001_19990002delTT								RIN2 (6901 upstream) : NAA20 (7935 downstream)																																			---	---	---	---
C20orf26	26074	broad.mit.edu	37	20	20154820	20154820	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20154820delT	uc002wru.2	+						C20orf26_uc010zse.1_Intron	NM_015585	NP_056400			hypothetical protein LOC26074											ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)														---	---	---	---
C20orf26	26074	broad.mit.edu	37	20	20231976	20231977	+	Intron	INS	-	AC	AC	rs151288479	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20231976_20231977insAC	uc002wru.2	+						C20orf26_uc010zse.1_Intron|C20orf26_uc002wrw.2_Intron|C20orf26_uc002wrv.2_Intron	NM_015585	NP_056400			hypothetical protein LOC26074											ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)														---	---	---	---
C20orf26	26074	broad.mit.edu	37	20	20265724	20265724	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20265724delT	uc002wru.2	+						C20orf26_uc002wrw.2_Intron	NM_015585	NP_056400			hypothetical protein LOC26074											ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)														---	---	---	---
C20orf26	26074	broad.mit.edu	37	20	20276696	20276697	+	Intron	INS	-	TCC	TCC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20276696_20276697insTCC	uc002wru.2	+						C20orf26_uc002wrw.2_Intron	NM_015585	NP_056400			hypothetical protein LOC26074											ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)														---	---	---	---
RALGAPA2	57186	broad.mit.edu	37	20	20389615	20389615	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20389615delA	uc002wrz.2	-						RALGAPA2_uc010gcx.2_Intron|RALGAPA2_uc010zsg.1_Intron	NM_020343	NP_065076			akt substrate AS250						activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1																		---	---	---	---
RALGAPA2	57186	broad.mit.edu	37	20	20405447	20405447	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20405447delA	uc002wrz.2	-						RALGAPA2_uc010gcx.2_Intron|RALGAPA2_uc010zsg.1_Intron	NM_020343	NP_065076			akt substrate AS250						activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1																		---	---	---	---
RALGAPA2	57186	broad.mit.edu	37	20	20485378	20485378	+	Intron	DEL	A	-	-	rs77624464		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20485378delA	uc002wrz.2	-						RALGAPA2_uc010gcx.2_Intron|RALGAPA2_uc010zsg.1_Intron|RALGAPA2_uc002wsa.1_Intron	NM_020343	NP_065076			akt substrate AS250						activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1																		---	---	---	---
RALGAPA2	57186	broad.mit.edu	37	20	20599123	20599123	+	Intron	DEL	A	-	-	rs11478928		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20599123delA	uc002wrz.2	-						RALGAPA2_uc010gcx.2_Intron|RALGAPA2_uc010zsg.1_Intron	NM_020343	NP_065076			akt substrate AS250						activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1																		---	---	---	---
PLK1S1	55857	broad.mit.edu	37	20	21118880	21118880	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:21118880delT	uc002wsb.2	+						PLK1S1_uc010zsh.1_Intron|PLK1S1_uc010zsi.1_Intron|PLK1S1_uc010zsj.1_Intron	NM_018474	NP_060944			polo-like kinase 1 substrate 1 isoform 1						spindle organization	centrosome	protein kinase binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	21424673	21424673	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:21424673delT								NKX2-4 (46626 upstream) : NKX2-2 (66991 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	21554452	21554452	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:21554452delA								NKX2-2 (59788 upstream) : PAX1 (131845 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	22000011	22000011	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:22000011delT								PAX1 (303391 upstream) : LOC284788 (380960 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	22417833	22417833	+	IGR	DEL	T	-	-	rs34789428		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:22417833delT								LOC284788 (16552 upstream) : C20orf56 (123361 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	22791706	22791707	+	IGR	DEL	AA	-	-	rs144184011		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:22791706_22791707delAA								FOXA2 (225605 upstream) : SSTR4 (224350 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	22894209	22894209	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:22894209delT	uc002wsp.2	+											full-length cDNA clone CS0DI028YD21 of Placenta Cot 25-normalized of Homo sapiens (human).																														---	---	---	---
Unknown	0	broad.mit.edu	37	20	22934274	22934274	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:22934274delT	uc002wsp.2	+											full-length cDNA clone CS0DI028YD21 of Placenta Cot 25-normalized of Homo sapiens (human).																														---	---	---	---
Unknown	0	broad.mit.edu	37	20	22960211	22960211	+	IGR	DEL	T	-	-	rs113031237		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:22960211delT								FOXA2 (394110 upstream) : SSTR4 (55846 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	23167383	23167383	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23167383delA	uc002wsw.1	+											Homo sapiens cDNA FLJ34446 fis, clone HLUNG2002050.																														---	---	---	---
Unknown	0	broad.mit.edu	37	20	23194093	23194093	+	IGR	DEL	A	-	-	rs33931914		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23194093delA								CD93 (127116 upstream) : NXT1 (137280 downstream)																																			---	---	---	---
NAPB	63908	broad.mit.edu	37	20	23363291	23363291	+	Intron	DEL	A	-	-	rs76130649		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23363291delA	uc002wta.2	-						NAPB_uc002wtc.2_Intron|NAPB_uc002wtb.2_Intron|NAPB_uc002wtd.3_Intron|NAPB_uc010zss.1_Intron|NAPB_uc010zst.1_Intron	NM_022080	NP_071363			N-ethylmaleimide-sensitive factor attachment						intracellular protein transport|vesicle-mediated transport	membrane				ovary(1)	1	Lung NSC(19;0.0646)|Colorectal(13;0.0993)|all_lung(19;0.143)																	---	---	---	---
Unknown	0	broad.mit.edu	37	20	23414046	23414049	+	IGR	DEL	TTTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23414046_23414049delTTTG								NAPB (11890 upstream) : CSTL1 (6273 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	23478670	23478671	+	IGR	DEL	AG	-	-	rs144909856	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23478670_23478671delAG								CST8 (2015 upstream) : CSTT (21112 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	23480643	23480644	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23480643_23480644delGA								CST8 (3988 upstream) : CSTT (19139 downstream)																																			---	---	---	---
CST9L	128821	broad.mit.edu	37	20	23547153	23547153	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23547153delA	uc002wtk.3	-							NM_080610	NP_542177			cystatin 9-like precursor							extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)																	---	---	---	---
Unknown	0	broad.mit.edu	37	20	23695508	23695508	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23695508delT								CST4 (25846 upstream) : CST1 (32683 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	23706283	23706283	+	IGR	DEL	A	-	-	rs76106970		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23706283delA								CST4 (36621 upstream) : CST1 (21908 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	23712974	23712974	+	IGR	DEL	G	-	-	rs59528536		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23712974delG								CST4 (43312 upstream) : CST1 (15217 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	24006870	24006870	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24006870delA								GGTLC1 (37454 upstream) : TMEM90B (442965 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	24164046	24164047	+	IGR	DEL	AG	-	-	rs6036674	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24164046_24164047delAG								GGTLC1 (194630 upstream) : TMEM90B (285788 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	24217194	24217195	+	IGR	INS	-	T	T	rs138422790	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24217194_24217195insT								GGTLC1 (247778 upstream) : TMEM90B (232640 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	24262762	24262762	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24262762delT								GGTLC1 (293346 upstream) : TMEM90B (187073 downstream)																																			---	---	---	---
TMEM90B	79953	broad.mit.edu	37	20	24541634	24541634	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24541634delT	uc002wtw.1	+							NM_024893	NP_079169			transmembrane protein 90B						response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0																		---	---	---	---
TMEM90B	79953	broad.mit.edu	37	20	24572086	24572086	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24572086delT	uc002wtw.1	+							NM_024893	NP_079169			transmembrane protein 90B						response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	24831600	24831600	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24831600delT								TMEM90B (184433 upstream) : CST7 (98266 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	25088204	25088204	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25088204delA								VSX1 (25437 upstream) : LOC284798 (33230 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	25175830	25175830	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25175830delA	uc002wui.2	-						ENTPD6_uc010zsy.1_5'Flank|ENTPD6_uc010gdj.1_5'Flank|ENTPD6_uc002wuj.2_5'Flank|ENTPD6_uc010zsz.1_5'Flank|ENTPD6_uc002wum.2_5'Flank|ENTPD6_uc010zta.1_5'Flank|ENTPD6_uc002wun.2_5'Flank|ENTPD6_uc002wuk.2_5'Flank|ENTPD6_uc002wul.2_5'Flank|ENTPD6_uc010ztb.1_5'Flank|ENTPD6_uc010ztc.1_5'Flank|ENTPD6_uc002wuo.2_5'Flank					Homo sapiens cDNA FLJ35339 fis, clone PROST2015636.																														---	---	---	---
ABHD12	26090	broad.mit.edu	37	20	25373282	25373283	+	5'Flank	DEL	AA	-	-	rs112897485		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25373282_25373283delAA	uc002wus.1	-						ABHD12_uc002wuq.2_5'Flank|ABHD12_uc002wur.2_5'Flank|ABHD12_uc002wut.1_5'Flank|ABHD12_uc002wuu.1_5'Flank	NM_001042472	NP_001035937			abhydrolase domain containing 12 isoform a							integral to membrane	acylglycerol lipase activity			skin(1)	1																		---	---	---	---
NINL	22981	broad.mit.edu	37	20	25436567	25436567	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25436567delA	uc002wux.1	-						NINL_uc010gdn.1_Intron|NINL_uc002wuw.1_Intron	NM_025176	NP_079452			ninein-like						G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5																		---	---	---	---
NINL	22981	broad.mit.edu	37	20	25543408	25543409	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25543408_25543409delAA	uc002wux.1	-						NINL_uc010gdn.1_Intron|NINL_uc010gdo.1_Intron	NM_025176	NP_079452			ninein-like						G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5																		---	---	---	---
NINL	22981	broad.mit.edu	37	20	25563446	25563446	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25563446delA	uc002wux.1	-						NINL_uc010gdn.1_Intron|NINL_uc010gdo.1_Intron	NM_025176	NP_079452			ninein-like						G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	25642404	25642404	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25642404delT	uc002wuz.2	+											Homo sapiens zinc finger protein 337, mRNA (cDNA clone IMAGE:4826085).																														---	---	---	---
Unknown	0	broad.mit.edu	37	20	25913750	25913750	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25913750delT								FAM182B (64964 upstream) : LOC100134868 (76685 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	26135485	26135485	+	IGR	DEL	T	-	-	rs112384603		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26135485delT								C20orf191 (40808 upstream) : MIR663 (53337 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	29422881	29422883	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29422881_29422883delAAA								None (None upstream) : FRG1B (188996 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	29441935	29441935	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29441935delA								None (None upstream) : FRG1B (169944 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	29502379	29502380	+	IGR	INS	-	GTTG	GTTG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29502379_29502380insGTTG								None (None upstream) : FRG1B (109499 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	29523745	29523746	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29523745_29523746delAC								None (None upstream) : FRG1B (88133 downstream)																																			---	---	---	---
FRG1B	284802	broad.mit.edu	37	20	29609517	29609517	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29609517delA	uc002wvm.1	+						FRG1B_uc010ztj.1_5'Flank|FRG1B_uc010gdr.1_5'Flank	NR_003579				Homo sapiens cDNA FLJ32537 fis, clone SMINT2000400, highly similar to Homo sapiens FRG1 mRNA.												0																		---	---	---	---
FRG1B	284802	broad.mit.edu	37	20	29610788	29610792	+	5'Flank	DEL	TACGT	-	-	rs111652701		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29610788_29610792delTACGT	uc002wvm.1	+						FRG1B_uc010ztj.1_5'Flank|FRG1B_uc010gdr.1_5'Flank	NR_003579				Homo sapiens cDNA FLJ32537 fis, clone SMINT2000400, highly similar to Homo sapiens FRG1 mRNA.												0																		---	---	---	---
FRG1B	284802	broad.mit.edu	37	20	29628778	29628779	+	Intron	INS	-	G	G	rs111578643	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29628778_29628779insG	uc010ztl.1	+						FRG1B_uc002wvm.1_Intron|FRG1B_uc010ztj.1_Intron|FRG1B_uc010gdr.1_Intron|FRG1B_uc010ztk.1_Intron					Homo sapiens cDNA FLJ32537 fis, clone SMINT2000400, highly similar to Homo sapiens FRG1 mRNA.												0																		---	---	---	---
DEFB119	245932	broad.mit.edu	37	20	29968429	29968429	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29968429delT	uc002wvt.2	-						DEFB119_uc002wvs.2_Intron	NM_153289	NP_695021			defensin, beta 119 isoform a precursor						defense response to bacterium	extracellular region					0	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	29999371	29999371	+	IGR	DEL	A	-	-	rs34974734		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29999371delA								DEFB121 (5381 upstream) : DEFB122 (9871 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	30018870	30018870	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30018870delT	uc002wvx.1	-											Homo sapiens DEFB122 mRNA, complete sequence.																														---	---	---	---
Unknown	0	broad.mit.edu	37	20	30041136	30041136	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30041136delT								DEFB123 (3077 upstream) : DEFB124 (12173 downstream)																																			---	---	---	---
HM13	81502	broad.mit.edu	37	20	30141099	30141101	+	Intron	DEL	AAA	-	-	rs34785085		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30141099_30141101delAAA	uc002wwe.2	+						HM13_uc002wwc.2_Intron|HM13_uc002wwd.2_Intron|HM13_uc002wwf.2_Intron|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)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	30179479	30179480	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30179479_30179480delTT								HM13 (22111 upstream) : ID1 (13612 downstream)																																			---	---	---	---
BCL2L1	598	broad.mit.edu	37	20	30260665	30260665	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30260665delT	uc002wwl.2	-						BCL2L1_uc002wwk.2_Intron|BCL2L1_uc002wwm.2_Intron|BCL2L1_uc002wwn.2_Intron	NM_138578	NP_612815			BCL2-like 1 isoform 1						induction of apoptosis by intracellular signals|negative regulation of establishment of protein localization in plasma membrane|negative regulation of survival gene product expression|regulation of mitochondrial membrane permeability|regulation of mitochondrial membrane potential|release of cytochrome c from mitochondria|response to cytokine stimulus	integral to membrane|mitochondrial outer membrane|nuclear membrane	BH3 domain binding|identical protein binding			lung(1)|central_nervous_system(1)	2	all_cancers(5;3.47e-06)|all_epithelial(3;1.83e-06)|Lung NSC(7;2.08e-06)|all_lung(7;3.63e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Epithelial(4;2.97e-06)|all cancers(5;3.21e-05)|OV - Ovarian serous cystadenocarcinoma(3;0.00052)|Colorectal(19;0.0055)|COAD - Colon adenocarcinoma(19;0.0264)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	30318786	30318787	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30318786_30318787delAA								BCL2L1 (7057 upstream) : TPX2 (8117 downstream)																																			---	---	---	---
TPX2	22974	broad.mit.edu	37	20	30325855	30325855	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30325855delT	uc002wwp.1	+						TPX2_uc010gdv.1_5'Flank	NM_012112	NP_036244			TPX2, microtubule-associated protein homolog						activation of protein kinase activity|apoptosis|cell division|cell proliferation|mitosis|regulation of mitotic spindle organization	cytoplasm|microtubule|nucleus|spindle pole	ATP binding|GTP binding|protein kinase binding			large_intestine(1)|ovary(1)	2			Epithelial(4;0.000771)|Colorectal(19;0.00306)|all cancers(5;0.004)|COAD - Colon adenocarcinoma(19;0.0347)|OV - Ovarian serous cystadenocarcinoma(3;0.0656)															---	---	---	---
TPX2	22974	broad.mit.edu	37	20	30358702	30358705	+	Intron	DEL	TTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30358702_30358705delTTTT	uc002wwp.1	+						TPX2_uc010gdv.1_Intron	NM_012112	NP_036244			TPX2, microtubule-associated protein homolog						activation of protein kinase activity|apoptosis|cell division|cell proliferation|mitosis|regulation of mitotic spindle organization	cytoplasm|microtubule|nucleus|spindle pole	ATP binding|GTP binding|protein kinase binding			large_intestine(1)|ovary(1)	2			Epithelial(4;0.000771)|Colorectal(19;0.00306)|all cancers(5;0.004)|COAD - Colon adenocarcinoma(19;0.0347)|OV - Ovarian serous cystadenocarcinoma(3;0.0656)															---	---	---	---
TPX2	22974	broad.mit.edu	37	20	30372994	30372995	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30372994_30372995insT	uc002wwp.1	+						TPX2_uc010gdv.1_Intron	NM_012112	NP_036244			TPX2, microtubule-associated protein homolog						activation of protein kinase activity|apoptosis|cell division|cell proliferation|mitosis|regulation of mitotic spindle organization	cytoplasm|microtubule|nucleus|spindle pole	ATP binding|GTP binding|protein kinase binding			large_intestine(1)|ovary(1)	2			Epithelial(4;0.000771)|Colorectal(19;0.00306)|all cancers(5;0.004)|COAD - Colon adenocarcinoma(19;0.0347)|OV - Ovarian serous cystadenocarcinoma(3;0.0656)															---	---	---	---
TTLL9	164395	broad.mit.edu	37	20	30494882	30494882	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30494882delA	uc010gdx.1	+						TTLL9_uc002wwy.1_Intron|TTLL9_uc002wwz.1_Intron|TTLL9_uc002wxa.1_Intron|TTLL9_uc002wxb.1_Intron|TTLL9_uc010zto.1_Intron|TTLL9_uc002wxc.2_Intron|TTLL9_uc010ztp.1_Intron|TTLL9_uc010ztq.1_5'Flank	NM_001008409	NP_001008409			tubulin tyrosine ligase-like family, member 9						protein modification process	cilium|microtubule|microtubule basal body	ATP binding|tubulin-tyrosine ligase activity			ovary(2)	2			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	30759528	30759528	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30759528delT								TM9SF4 (4467 upstream) : TSPYL3 (17421 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	30771539	30771540	+	IGR	INS	-	A	A	rs74899459		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30771539_30771540insA								TM9SF4 (16478 upstream) : TSPYL3 (5409 downstream)																																			---	---	---	---
PLAGL2	5326	broad.mit.edu	37	20	30784139	30784139	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30784139delT	uc002wxn.2	-	3						NM_002657	NP_002648			pleiomorphic adenoma gene-like 2							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	30854871	30854871	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30854871delT								POFUT1 (28405 upstream) : KIF3B (10596 downstream)																																			---	---	---	---
KIF3B	9371	broad.mit.edu	37	20	30890322	30890323	+	Intron	INS	-	TTCT	TTCT	rs140828312	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30890322_30890323insTTCT	uc002wxq.2	+						KIF3B_uc010ztv.1_Intron	NM_004798	NP_004789			kinesin family member 3B						anterograde axon cargo transport|blood coagulation|determination of left/right symmetry|mitotic centrosome separation|plus-end-directed vesicle transport along microtubule|spindle assembly involved in mitosis	centrosome|cytosol|kinesin II complex|plus-end kinesin complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|Rho GTPase binding			central_nervous_system(3)|ovary(2)	5			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)															---	---	---	---
ASXL1	171023	broad.mit.edu	37	20	30987147	30987147	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30987147delT	uc002wxs.2	+						ASXL1_uc002wxr.1_Intron|ASXL1_uc010geb.2_Intron	NM_015338	NP_056153			additional sex combs like 1 isoform 1						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248								F|N|Mis		MDS|CMML								---	---	---	---
C20orf112	140688	broad.mit.edu	37	20	31074444	31074444	+	Intron	DEL	A	-	-	rs111823457		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31074444delA	uc002wxw.1	-											Homo sapiens cDNA FLJ31724 fis, clone NT2RI2006703, moderately similar to Homo sapiens nolp mRNA.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	31148933	31148933	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31148933delT	uc002wxx.2	-											SubName: Full=LOC284804 protein; Flags: Fragment;																														---	---	---	---
Unknown	0	broad.mit.edu	37	20	31157361	31157361	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31157361delG	uc002wxx.2	-											SubName: Full=LOC284804 protein; Flags: Fragment;																														---	---	---	---
COMMD7	149951	broad.mit.edu	37	20	31298249	31298249	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31298249delA	uc002wya.3	-						COMMD7_uc010ged.2_Intron|COMMD7_uc002wyb.2_Intron	NM_053041	NP_444269			COMM domain containing 7 isoform 1						negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|tumor necrosis factor-mediated signaling pathway		NF-kappaB binding			breast(1)	1																		---	---	---	---
COMMD7	149951	broad.mit.edu	37	20	31300314	31300314	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31300314delA	uc002wya.3	-						COMMD7_uc010ged.2_Intron|COMMD7_uc002wyb.2_Intron	NM_053041	NP_444269			COMM domain containing 7 isoform 1						negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|tumor necrosis factor-mediated signaling pathway		NF-kappaB binding			breast(1)	1																		---	---	---	---
DNMT3B	1789	broad.mit.edu	37	20	31378483	31378483	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31378483delT	uc002wyc.2	+						DNMT3B_uc010ztx.1_Intron|DNMT3B_uc010zty.1_Intron|DNMT3B_uc002wyd.2_Intron|DNMT3B_uc002wye.2_Intron|DNMT3B_uc010gee.2_Intron|DNMT3B_uc010gef.2_Intron|DNMT3B_uc010ztz.1_Intron|DNMT3B_uc010zua.1_Intron|DNMT3B_uc002wyf.2_Intron|DNMT3B_uc002wyg.2_5'Flank	NM_006892	NP_008823			DNA cytosine-5 methyltransferase 3 beta isoform						negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5																		---	---	---	---
DNMT3B	1789	broad.mit.edu	37	20	31394632	31394632	+	Intron	DEL	T	-	-	rs11477763		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31394632delT	uc002wyc.2	+						DNMT3B_uc002wyd.2_Intron|DNMT3B_uc002wye.2_Intron|DNMT3B_uc010gee.2_Intron|DNMT3B_uc010gef.2_Intron|DNMT3B_uc010ztz.1_Intron|DNMT3B_uc010zua.1_Intron|DNMT3B_uc002wyf.2_Intron|DNMT3B_uc002wyg.2_Intron|DNMT3B_uc010geg.2_Intron|DNMT3B_uc010geh.2_Intron	NM_006892	NP_008823			DNA cytosine-5 methyltransferase 3 beta isoform						negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	31470012	31470012	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31470012delA	uc010zub.1	+							NM_001143967	NP_001137439			EF-hand calcium binding domain 8																														---	---	---	---
Unknown	0	broad.mit.edu	37	20	31566525	31566525	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31566525delA								MAPRE1 (128315 upstream) : SUN5 (5057 downstream)																																			---	---	---	---
C20orf186	149954	broad.mit.edu	37	20	31695008	31695008	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31695008delA	uc010zue.1	+							NM_182519	NP_872325			antimicrobial peptide RY2G5 precursor							cytoplasm|extracellular region	lipid binding				0																		---	---	---	---
C20orf70	140683	broad.mit.edu	37	20	31768033	31768033	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31768033delA	uc002wyo.1	+							NM_080574	NP_542141			chromosome 20 open reading frame 70 precursor							extracellular region	lipid binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
CBFA2T2	9139	broad.mit.edu	37	20	32101171	32101172	+	Intron	INS	-	T	T	rs111578137		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32101171_32101172insT	uc002wze.1	+						CBFA2T2_uc010zug.1_Intron	NM_001032999	NP_001028171			core-binding factor, runt domain, alpha subunit							nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2																		---	---	---	---
CBFA2T2	9139	broad.mit.edu	37	20	32161763	32161764	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32161763_32161764delTT	uc002wzg.1	+						CBFA2T2_uc010zug.1_Intron|CBFA2T2_uc002wze.1_Intron|CBFA2T2_uc002wzf.1_Intron|CBFA2T2_uc002wzh.1_Intron|CBFA2T2_uc002wzi.1_5'Flank	NM_005093	NP_005084			core-binding factor, runt domain, alpha subunit							nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2																		---	---	---	---
CBFA2T2	9139	broad.mit.edu	37	20	32230410	32230410	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32230410delA	uc002wzg.1	+						CBFA2T2_uc010zug.1_Intron|CBFA2T2_uc002wze.1_Intron|CBFA2T2_uc002wzf.1_Intron|CBFA2T2_uc002wzh.1_Intron|CBFA2T2_uc002wzi.1_Intron|CBFA2T2_uc002wzj.1_Intron|CBFA2T2_uc002wzk.1_Intron	NM_005093	NP_005084			core-binding factor, runt domain, alpha subunit							nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2																		---	---	---	---
ZNF341	84905	broad.mit.edu	37	20	32337107	32337107	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32337107delT	uc002wzy.2	+						ZNF341_uc002wzx.2_Intron|ZNF341_uc010geq.2_Intron|ZNF341_uc010ger.2_Intron	NM_032819	NP_116208			zinc finger protein 341						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2																		---	---	---	---
ZNF341	84905	broad.mit.edu	37	20	32358333	32358333	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32358333delA	uc002wzy.2	+						ZNF341_uc002wzx.2_Intron|ZNF341_uc010geq.2_Intron|ZNF341_uc010ger.2_Intron	NM_032819	NP_116208			zinc finger protein 341						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2																		---	---	---	---
ZNF341	84905	broad.mit.edu	37	20	32376885	32376885	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32376885delT	uc002wzy.2	+						ZNF341_uc002wzx.2_Intron|ZNF341_uc010geq.2_Intron|ZNF341_uc010ger.2_Intron|ZNF341_uc002wzz.2_Intron	NM_032819	NP_116208			zinc finger protein 341						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2																		---	---	---	---
RALY	22913	broad.mit.edu	37	20	32589582	32589582	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32589582delT	uc002xab.2	+						RALY_uc010zui.1_Intron|RALY_uc002xac.2_Intron|RALY_uc002xad.2_Intron|RALY_uc002xae.1_Intron	NM_016732	NP_057951			RNA binding protein (autoantigenic,							catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	32769620	32769620	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32769620delA								EIF2S2 (69535 upstream) : ASIP (78551 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	32825652	32825652	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32825652delT								EIF2S2 (125567 upstream) : ASIP (22519 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	32933748	32933748	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32933748delA								AHCY (34140 upstream) : ITCH (17314 downstream)																																			---	---	---	---
ITCH	83737	broad.mit.edu	37	20	33028273	33028273	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33028273delT	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																		---	---	---	---
ITCH	83737	broad.mit.edu	37	20	33069165	33069165	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33069165delT	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	33170490	33170490	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33170490delA	uc002xas.2	-						PIGU_uc010zul.1_Intron|PIGU_uc002xat.2_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																		---	---	---	---
PIGU	128869	broad.mit.edu	37	20	33237193	33237194	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33237193_33237194delTT	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																		---	---	---	---
NCOA6	23054	broad.mit.edu	37	20	33354360	33354360	+	Intron	DEL	A	-	-	rs77362920		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33354360delA	uc002xav.2	-						NCOA6_uc002xaw.2_Intron|NCOA6_uc010gew.1_Intron	NM_014071	NP_054790			nuclear receptor coactivator 6						brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7																		---	---	---	---
NCOA6	23054	broad.mit.edu	37	20	33365418	33365418	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33365418delA	uc002xav.2	-						NCOA6_uc002xaw.2_Intron|NCOA6_uc010gew.1_Intron	NM_014071	NP_054790			nuclear receptor coactivator 6						brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7																		---	---	---	---
NCOA6	23054	broad.mit.edu	37	20	33395958	33395958	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33395958delA	uc002xav.2	-						NCOA6_uc002xaw.2_Intron	NM_014071	NP_054790			nuclear receptor coactivator 6						brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	33557653	33557655	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33557653_33557655delTTT								GSS (14052 upstream) : MYH7B (5551 downstream)																																			---	---	---	---
EDEM2	55741	broad.mit.edu	37	20	33704597	33704597	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33704597delT	uc002xbo.2	-						EDEM2_uc010zus.1_Intron|EDEM2_uc002xbq.2_Intron|EDEM2_uc010zut.1_Intron|EDEM2_uc002xbp.2_Intron|EDEM2_uc002xbn.2_Intron|EDEM2_uc002xbr.2_Intron|EDEM2_uc010zuu.1_Intron	NM_018217	NP_060687			ER degradation enhancer, mannosidase alpha-like						post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00936)															---	---	---	---
MMP24	10893	broad.mit.edu	37	20	33841175	33841175	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33841175delT	uc002xbu.2	+						EDEM2_uc010zuv.1_Intron	NM_006690	NP_006681			matrix metalloproteinase 24 preproprotein						proteolysis	integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00252)															---	---	---	---
GDF5	8200	broad.mit.edu	37	20	33913654	33913654	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33913654delA	uc010gfc.1	-						UQCC_uc010zuy.1_Intron|UQCC_uc002xcd.2_Intron|UQCC_uc010zuz.1_Intron|UQCC_uc010zva.1_Intron|UQCC_uc002xce.2_Intron|UQCC_uc002xcg.2_Intron|UQCC_uc010gfb.2_Intron|UQCC_uc010zvb.1_Intron|UQCC_uc002xcf.2_Intron	NM_000557	NP_000548			growth differentiation factor 5 preproprotein						cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)															---	---	---	---
GDF5	8200	broad.mit.edu	37	20	33944603	33944604	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33944603_33944604insA	uc010gfc.1	-						UQCC_uc010zuy.1_Intron|UQCC_uc002xcd.2_Intron|UQCC_uc010zuz.1_Intron|UQCC_uc010zva.1_Intron|UQCC_uc002xce.2_Intron|UQCC_uc002xcg.2_Intron|UQCC_uc010gfb.2_Intron|UQCC_uc010zvb.1_Intron|UQCC_uc002xcf.2_Intron|UQCC_uc002xci.1_Intron|UQCC_uc010gfd.1_Intron	NM_000557	NP_000548			growth differentiation factor 5 preproprotein						cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)															---	---	---	---
GDF5	8200	broad.mit.edu	37	20	33969913	33969913	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33969913delT	uc010gfc.1	-						UQCC_uc010zuy.1_Intron|UQCC_uc002xcd.2_Intron|UQCC_uc010zuz.1_Intron|UQCC_uc010zva.1_Intron|UQCC_uc002xce.2_Intron|UQCC_uc002xcg.2_Intron|UQCC_uc010gfb.2_Intron|UQCC_uc010zvb.1_Intron|UQCC_uc002xcf.2_Intron|UQCC_uc002xci.1_Intron|UQCC_uc010gfd.1_Intron	NM_000557	NP_000548			growth differentiation factor 5 preproprotein						cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)															---	---	---	---
GDF5	8200	broad.mit.edu	37	20	34038114	34038115	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34038114_34038115delAA	uc010zvc.1	-							NM_000557	NP_000548			growth differentiation factor 5 preproprotein						cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)															---	---	---	---
CEP250	11190	broad.mit.edu	37	20	34072440	34072440	+	Intron	DEL	T	-	-	rs11359713		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34072440delT	uc002xcm.2	+						CEP250_uc010zve.1_Intron	NM_007186	NP_009117			centrosomal protein 2						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)															---	---	---	---
RBM12	10137	broad.mit.edu	37	20	34237682	34237682	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34237682delA	uc002xdq.2	-	3					CPNE1_uc010zvj.1_Intron|CPNE1_uc002xde.2_Intron|CPNE1_uc002xdf.2_Intron|CPNE1_uc002xdg.2_Intron|CPNE1_uc010gfi.2_Intron|CPNE1_uc010gfj.2_Intron|CPNE1_uc002xdh.2_Intron|CPNE1_uc002xdi.2_Intron|CPNE1_uc002xdj.2_Intron|CPNE1_uc002xdk.2_Intron|CPNE1_uc002xdl.2_Intron|CPNE1_uc002xdm.2_Intron|CPNE1_uc010gfk.1_Intron|CPNE1_uc002xdn.1_Intron|CPNE1_uc002xdo.1_Intron|CPNE1_uc002xdp.1_Intron|RBM12_uc002xdr.2_3'UTR|RBM12_uc002xds.2_3'UTR	NM_152838	NP_690051			RNA binding motif protein 12							nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.00953)															---	---	---	---
NFS1	9054	broad.mit.edu	37	20	34260179	34260179	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34260179delT	uc002xdw.1	-						CPNE1_uc002xdn.1_Intron|CPNE1_uc002xdo.1_Intron|CPNE1_uc002xdp.1_Intron|NFS1_uc002xdt.1_Intron|NFS1_uc002xdu.1_Intron|NFS1_uc002xdv.1_Intron|NFS1_uc010zvk.1_Intron|NFS1_uc010zvl.1_Intron	NM_021100	NP_066923			NFS1 nitrogen fixation 1 precursor						cysteine metabolic process|iron incorporation into metallo-sulfur cluster|Mo-molybdopterin cofactor biosynthetic process|protein complex assembly|water-soluble vitamin metabolic process	cytosol|mitochondrial matrix|nucleus	cysteine desulfurase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.0886)		L-Alanine(DB00160)|L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)													---	---	---	---
PHF20	51230	broad.mit.edu	37	20	34417843	34417843	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34417843delT	uc002xek.1	+						PHF20_uc002xei.1_Intron|PHF20_uc010gfo.1_Intron|PHF20_uc002xej.1_Intron	NM_016436	NP_057520			PHD finger protein 20						regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)																	---	---	---	---
PHF20	51230	broad.mit.edu	37	20	34482954	34482954	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34482954delT	uc002xek.1	+						PHF20_uc002xei.1_Intron|PHF20_uc010gfo.1_Intron|PHF20_uc002xej.1_Intron	NM_016436	NP_057520			PHD finger protein 20						regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)																	---	---	---	---
PHF20	51230	broad.mit.edu	37	20	34509249	34509249	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34509249delT	uc002xek.1	+							NM_016436	NP_057520			PHD finger protein 20						regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)																	---	---	---	---
Unknown	0	broad.mit.edu	37	20	34661921	34661922	+	IGR	INS	-	AAAT	AAAT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34661921_34661922insAAAT								LOC647979 (23039 upstream) : EPB41L1 (17504 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	34667450	34667450	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34667450delA								LOC647979 (28568 upstream) : EPB41L1 (11976 downstream)																																			---	---	---	---
C20orf4	25980	broad.mit.edu	37	20	34826678	34826682	+	Intron	DEL	AAAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34826678_34826682delAAAAA	uc002xfc.1	+						C20orf4_uc002xfd.1_Intron|C20orf4_uc002xfe.1_Intron	NM_015511	NP_056326			hypothetical protein LOC25980												0	Breast(12;0.0162)	Myeloproliferative disorder(115;0.0393)																---	---	---	---
C20orf4	25980	broad.mit.edu	37	20	34836805	34836805	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34836805delT	uc002xfc.1	+						C20orf4_uc002xfd.1_Intron|C20orf4_uc002xfe.1_Intron	NM_015511	NP_056326			hypothetical protein LOC25980												0	Breast(12;0.0162)	Myeloproliferative disorder(115;0.0393)																---	---	---	---
DLGAP4	22839	broad.mit.edu	37	20	34896808	34896808	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34896808delT	uc002xff.2	+							NM_014902	NP_055717			disks large-associated protein 4 isoform a						cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)																---	---	---	---
DLGAP4	22839	broad.mit.edu	37	20	35131557	35131557	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35131557delT	uc002xff.2	+						DLGAP4_uc010zvp.1_Intron|DLGAP4_uc002xfg.2_Intron|DLGAP4_uc002xfh.2_Intron|DLGAP4_uc002xfi.2_Intron|DLGAP4_uc002xfj.2_Intron	NM_014902	NP_055717			disks large-associated protein 4 isoform a						cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)																---	---	---	---
DLGAP4	22839	broad.mit.edu	37	20	35142565	35142566	+	Intron	INS	-	A	A	rs139401273	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35142565_35142566insA	uc002xff.2	+						DLGAP4_uc010zvp.1_Intron|DLGAP4_uc002xfg.2_Intron|DLGAP4_uc002xfh.2_Intron|DLGAP4_uc002xfi.2_Intron|DLGAP4_uc002xfj.2_Intron|uc002xfk.3_Intron	NM_014902	NP_055717			disks large-associated protein 4 isoform a						cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)																---	---	---	---
NDRG3	57446	broad.mit.edu	37	20	35309733	35309733	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35309733delA	uc002xfw.2	-						NDRG3_uc002xfx.2_Intron|NDRG3_uc010zvq.1_Intron|NDRG3_uc010zvr.1_Intron	NM_032013	NP_114402			N-myc downstream regulated gene 3 isoform a						cell differentiation|negative regulation of cell growth|spermatogenesis	cytoplasm				ovary(1)	1		Myeloproliferative disorder(115;0.00878)																---	---	---	---
NDRG3	57446	broad.mit.edu	37	20	35311349	35311350	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35311349_35311350delAA	uc002xfw.2	-						NDRG3_uc002xfx.2_Intron|NDRG3_uc010zvq.1_Intron|NDRG3_uc010zvr.1_Intron	NM_032013	NP_114402			N-myc downstream regulated gene 3 isoform a						cell differentiation|negative regulation of cell growth|spermatogenesis	cytoplasm				ovary(1)	1		Myeloproliferative disorder(115;0.00878)																---	---	---	---
NDRG3	57446	broad.mit.edu	37	20	35341837	35341838	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35341837_35341838delAA	uc002xfw.2	-						NDRG3_uc002xfx.2_Intron|NDRG3_uc010zvq.1_Intron|NDRG3_uc010zvr.1_Intron	NM_032013	NP_114402			N-myc downstream regulated gene 3 isoform a						cell differentiation|negative regulation of cell growth|spermatogenesis	cytoplasm				ovary(1)	1		Myeloproliferative disorder(115;0.00878)																---	---	---	---
NDRG3	57446	broad.mit.edu	37	20	35349931	35349931	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35349931delA	uc002xfw.2	-						NDRG3_uc002xfx.2_Intron|NDRG3_uc010zvq.1_Intron|NDRG3_uc010zvr.1_Intron	NM_032013	NP_114402			N-myc downstream regulated gene 3 isoform a						cell differentiation|negative regulation of cell growth|spermatogenesis	cytoplasm				ovary(1)	1		Myeloproliferative disorder(115;0.00878)																---	---	---	---
SAMHD1	25939	broad.mit.edu	37	20	35578412	35578413	+	Intron	INS	-	GGCC	GGCC	rs146135198	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35578412_35578413insGGCC	uc002xgh.1	-							NM_015474	NP_056289			SAM domain- and HD domain-containing protein 1						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)																---	---	---	---
RBL1	5933	broad.mit.edu	37	20	35632424	35632425	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35632424_35632425delTT	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)																---	---	---	---
RBL1	5933	broad.mit.edu	37	20	35677604	35677610	+	Intron	DEL	CAAAAAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35677604_35677610delCAAAAAA	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)																---	---	---	---
RBL1	5933	broad.mit.edu	37	20	35682432	35682433	+	Intron	DEL	AC	-	-	rs140926012		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35682432_35682433delAC	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)																---	---	---	---
RBL1	5933	broad.mit.edu	37	20	35684440	35684440	+	Intron	DEL	A	-	-	rs78217757		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)																---	---	---	---
RBL1	5933	broad.mit.edu	37	20	35713177	35713177	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35713177delT	uc002xgi.2	-						RBL1_uc010zvt.1_Intron|RBL1_uc002xgj.1_Intron|RBL1_uc010gfv.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)																---	---	---	---
RBL1	5933	broad.mit.edu	37	20	35727021	35727021	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35727021delT	uc002xgi.2	-						RBL1_uc010zvt.1_5'Flank|RBL1_uc002xgj.1_5'Flank|RBL1_uc010gfv.1_5'Flank	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)																---	---	---	---
RPN2	6185	broad.mit.edu	37	20	35846126	35846126	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35846126delT	uc002xgp.2	+						RPN2_uc002xgo.3_Intron|RPN2_uc010gfw.2_Intron|RPN2_uc002xgq.2_Intron	NM_002951	NP_002942			ribophorin II isoform 1 precursor						post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|nucleus|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(115;0.00878)																---	---	---	---
SRC	6714	broad.mit.edu	37	20	36033634	36033636	+	3'UTR	DEL	TTT	-	-	rs113602060		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36033634_36033636delTTT	uc002xgx.2	+	14					SRC_uc002xgy.2_3'UTR	NM_005417	NP_005408			proto-oncogene tyrosine-protein kinase SRC						axon guidance|bone resorption|cell junction assembly|cellular membrane organization|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular protein kinase cascade|leukocyte migration|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of integrin activation|Ras protein signal transduction|regulation of bone resorption|regulation of vascular permeability|response to interleukin-1|signal complex assembly|T cell costimulation	caveola|cytosol|mitochondrial inner membrane	ATP binding|heme binding|integrin binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|SH3/SH2 adaptor activity			large_intestine(10)|lung(1)|central_nervous_system(1)|endometrium(1)	13		Myeloproliferative disorder(115;0.00878)			Dasatinib(DB01254)													---	---	---	---
Unknown	0	broad.mit.edu	37	20	36041936	36041936	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36041936delC								SRC (8117 upstream) : BLCAP (103884 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	36102978	36102978	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36102978delC								SRC (69159 upstream) : BLCAP (42842 downstream)																																			---	---	---	---
CTNNBL1	56259	broad.mit.edu	37	20	36338967	36338967	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36338967delC	uc010zvw.1	+						CTNNBL1_uc010zvv.1_Intron	NM_030877	NP_110517			beta catenin-like 1						apoptosis|positive regulation of apoptosis|somatic diversification of immunoglobulins	nucleus	enzyme binding			ovary(2)	2		Myeloproliferative disorder(115;0.00878)																---	---	---	---
CTNNBL1	56259	broad.mit.edu	37	20	36415483	36415483	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36415483delT	uc010zvw.1	+						CTNNBL1_uc002xhh.2_Intron|CTNNBL1_uc002xhi.2_Intron|CTNNBL1_uc002xhj.2_Intron	NM_030877	NP_110517			beta catenin-like 1						apoptosis|positive regulation of apoptosis|somatic diversification of immunoglobulins	nucleus	enzyme binding			ovary(2)	2		Myeloproliferative disorder(115;0.00878)																---	---	---	---
VSTM2L	128434	broad.mit.edu	37	20	36553524	36553524	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36553524delT	uc002xhk.3	+							NM_080607	NP_542174			V-set and transmembrane domain containing 2 like											ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.00878)																---	---	---	---
Unknown	0	broad.mit.edu	37	20	36584938	36584938	+	IGR	DEL	T	-	-	rs11475682		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36584938delT								VSTM2L (11193 upstream) : KIAA0406 (26487 downstream)																																			---	---	---	---
KIAA0406	9675	broad.mit.edu	37	20	36646691	36646691	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36646691delA	uc002xhl.2	-						KIAA0406_uc002xhm.2_Intron	NM_014657	NP_055472			hypothetical protein LOC9675								binding				0		Myeloproliferative disorder(115;0.00874)																---	---	---	---
Unknown	0	broad.mit.edu	37	20	36736297	36736297	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36736297delA								RPRD1B (15533 upstream) : TGM2 (20569 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	36807472	36807475	+	IGR	DEL	CAAC	-	-	rs56066694	by1000genomes;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36807472_36807475delCAAC								TGM2 (13772 upstream) : KIAA1755 (31432 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	36915294	36915294	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36915294delA	uc002xia.1	+											Homo sapiens cDNA FLJ31292 fis, clone KIDNE2007422.																														---	---	---	---
RALGAPB	57148	broad.mit.edu	37	20	37182421	37182431	+	Intron	DEL	AAAAAAAAAAA	-	-	rs35371902		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37182421_37182431delAAAAAAAAAAA	uc002xiw.2	+						RALGAPB_uc002xix.2_Intron|RALGAPB_uc002xiy.1_Intron|RALGAPB_uc002xiz.2_Intron	NM_020336	NP_065069			Ral GTPase activating protein, beta subunit						activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2																		---	---	---	---
ACTR5	79913	broad.mit.edu	37	20	37381563	37381563	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37381563delT	uc002xjd.2	+							NM_024855	NP_079131			ARP5 actin-related protein 5 homolog						DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)																---	---	---	---
ACTR5	79913	broad.mit.edu	37	20	37384237	37384237	+	Intron	DEL	G	-	-	rs111326757		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37384237delG	uc002xjd.2	+							NM_024855	NP_079131			ARP5 actin-related protein 5 homolog						DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)																---	---	---	---
PPP1R16B	26051	broad.mit.edu	37	20	37444731	37444731	+	Intron	DEL	A	-	-	rs113433665		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37444731delA	uc002xje.2	+						PPP1R16B_uc010ggb.1_Intron	NM_015568	NP_056383			protein phosphatase 1 regulatory inhibitor						regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)																---	---	---	---
PPP1R16B	26051	broad.mit.edu	37	20	37502387	37502387	+	Intron	DEL	T	-	-	rs71996595		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37502387delT	uc002xje.2	+						PPP1R16B_uc010ggc.2_Intron	NM_015568	NP_056383			protein phosphatase 1 regulatory inhibitor						regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)																---	---	---	---
DHX35	60625	broad.mit.edu	37	20	37607806	37607806	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37607806delT	uc002xjh.2	+						DHX35_uc010zwa.1_Intron|DHX35_uc010zwb.1_Intron|DHX35_uc010zwc.1_Intron	NM_021931	NP_068750			DEAH (Asp-Glu-Ala-His) box polypeptide 35							catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)																---	---	---	---
Unknown	0	broad.mit.edu	37	20	37722235	37722235	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37722235delT								DHX35 (53872 upstream) : LOC339568 (120189 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	37783610	37783610	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37783610delA								DHX35 (115247 upstream) : LOC339568 (58814 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	37798507	37798507	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37798507delA								DHX35 (130144 upstream) : LOC339568 (43917 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	37871475	37871476	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37871475_37871476insA								LOC339568 (18084 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	37962643	37962644	+	IGR	INS	-	AA	AA	rs146911927	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37962643_37962644insAA								LOC339568 (109252 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	37985969	37985969	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37985969delT								LOC339568 (132578 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	38076584	38076584	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:38076584delA								LOC339568 (223193 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	38095377	38095377	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:38095377delT								LOC339568 (241986 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	38164400	38164400	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:38164400delA								LOC339568 (311009 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	38228636	38228636	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:38228636delT								LOC339568 (375245 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	38338081	38338082	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:38338081_38338082insA								LOC339568 (484690 upstream) : MAFB (976437 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	38422565	38422565	+	IGR	DEL	A	-	-	rs71693977		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:38422565delA								LOC339568 (569174 upstream) : MAFB (891954 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	38484240	38484240	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:38484240delA								LOC339568 (630849 upstream) : MAFB (830279 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	38656775	38656776	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:38656775_38656776insT								LOC339568 (803384 upstream) : MAFB (657743 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	38787778	38787778	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:38787778delT								LOC339568 (934387 upstream) : MAFB (526741 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	38825448	38825448	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:38825448delT								LOC339568 (972057 upstream) : MAFB (489071 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	38833867	38833868	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:38833867_38833868delTT								LOC339568 (980476 upstream) : MAFB (480651 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	38886599	38886599	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:38886599delT								None (None upstream) : MAFB (427920 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	39171308	39171308	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39171308delT								None (None upstream) : MAFB (143211 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	39218851	39218851	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39218851delT								None (None upstream) : MAFB (95668 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	39559721	39559721	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39559721delC								MAFB (241845 upstream) : TOP1 (97741 downstream)																																			---	---	---	---
PLCG1	5335	broad.mit.edu	37	20	39773501	39773501	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39773501delA	uc002xjp.1	+						PLCG1_uc002xjo.1_Intron	NM_182811	NP_877963			phospholipase C, gamma 1 isoform b						activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)																---	---	---	---
Unknown	0	broad.mit.edu	37	20	39949955	39949955	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39949955delT								ZHX3 (3713 upstream) : LPIN3 (19605 downstream)																																			---	---	---	---
LPIN3	64900	broad.mit.edu	37	20	39983610	39983611	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39983610_39983611delTT	uc002xjx.2	+						LPIN3_uc010ggh.2_Intron|LPIN3_uc010zwf.1_Intron	NM_022896	NP_075047			lipin 3						fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)																---	---	---	---
Unknown	0	broad.mit.edu	37	20	39999854	39999854	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39999854delT								EMILIN3 (4356 upstream) : CHD6 (31316 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	40015900	40015900	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40015900delT								EMILIN3 (20402 upstream) : CHD6 (15270 downstream)																																			---	---	---	---
CHD6	84181	broad.mit.edu	37	20	40051825	40051825	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40051825delA	uc002xka.1	-							NM_032221	NP_115597			chromodomain helicase DNA binding protein 6						chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)																---	---	---	---
CHD6	84181	broad.mit.edu	37	20	40136240	40136241	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40136240_40136241delTG	uc002xka.1	-						CHD6_uc002xkd.2_Intron|CHD6_uc002xkc.2_Intron	NM_032221	NP_115597			chromodomain helicase DNA binding protein 6						chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)																---	---	---	---
CHD6	84181	broad.mit.edu	37	20	40156290	40156291	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40156290_40156291insA	uc002xka.1	-						CHD6_uc002xkd.2_Intron|CHD6_uc002xkc.2_Intron	NM_032221	NP_115597			chromodomain helicase DNA binding protein 6						chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)																---	---	---	---
Unknown	0	broad.mit.edu	37	20	40300426	40300426	+	IGR	DEL	A	-	-	rs145427691	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40300426delA								CHD6 (53293 upstream) : PTPRT (400967 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	40674436	40674436	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40674436delT								CHD6 (427303 upstream) : PTPRT (26957 downstream)																																			---	---	---	---
PTPRT	11122	broad.mit.edu	37	20	40786263	40786263	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40786263delT	uc002xkg.2	-						PTPRT_uc010ggj.2_Intron|PTPRT_uc010ggi.2_Intron	NM_007050	NP_008981			protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)																---	---	---	---
PTPRT	11122	broad.mit.edu	37	20	41410901	41410902	+	Intron	DEL	CT	-	-	rs11468442		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41410901_41410902delCT	uc002xkg.2	-						PTPRT_uc010ggj.2_Intron	NM_007050	NP_008981			protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)																---	---	---	---
PTPRT	11122	broad.mit.edu	37	20	41536106	41536106	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41536106delT	uc002xkg.2	-						PTPRT_uc010ggj.2_Intron	NM_007050	NP_008981			protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)																---	---	---	---
PTPRT	11122	broad.mit.edu	37	20	41581571	41581571	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41581571delA	uc002xkg.2	-						PTPRT_uc010ggj.2_Intron	NM_007050	NP_008981			protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)																---	---	---	---
PTPRT	11122	broad.mit.edu	37	20	41600176	41600176	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41600176delT	uc002xkg.2	-						PTPRT_uc010ggj.2_Intron	NM_007050	NP_008981			protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)																---	---	---	---
PTPRT	11122	broad.mit.edu	37	20	41603934	41603934	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41603934delA	uc002xkg.2	-						PTPRT_uc010ggj.2_Intron	NM_007050	NP_008981			protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)																---	---	---	---
PTPRT	11122	broad.mit.edu	37	20	41689486	41689486	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41689486delA	uc002xkg.2	-						PTPRT_uc010ggj.2_Intron	NM_007050	NP_008981			protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)																---	---	---	---
PTPRT	11122	broad.mit.edu	37	20	41769001	41769002	+	Intron	INS	-	AC	AC	rs146548500	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41769001_41769002insAC	uc002xkg.2	-						PTPRT_uc010ggj.2_Intron	NM_007050	NP_008981			protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)																---	---	---	---
PTPRT	11122	broad.mit.edu	37	20	41780504	41780505	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41780504_41780505delAA	uc002xkg.2	-						PTPRT_uc010ggj.2_Intron	NM_007050	NP_008981			protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)																---	---	---	---
Unknown	0	broad.mit.edu	37	20	41859347	41859347	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41859347delA								PTPRT (40790 upstream) : SFRS6 (227157 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	41888430	41888433	+	IGR	DEL	ATGG	-	-	rs143540428		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41888430_41888433delATGG								PTPRT (69873 upstream) : SFRS6 (198071 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	41899706	41899706	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41899706delA								PTPRT (81149 upstream) : SFRS6 (186798 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	42043712	42043712	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42043712delA								PTPRT (225155 upstream) : SFRS6 (42792 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	42062073	42062073	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42062073delA								PTPRT (243516 upstream) : SFRS6 (24431 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	42100032	42100032	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42100032delT								SFRS6 (7790 upstream) : L3MBTL (36318 downstream)																																			---	---	---	---
IFT52	51098	broad.mit.edu	37	20	42269671	42269681	+	Intron	DEL	AAAAAAAAAAA	-	-	rs10523117		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42269671_42269681delAAAAAAAAAAA	uc002xkw.2	+						IFT52_uc002xky.2_Intron|IFT52_uc002xkx.2_Intron|IFT52_uc010ggn.2_Intron|IFT52_uc002xkz.2_Intron	NM_016004	NP_057088			intraflagellar transport 52 homolog							intraflagellar transport particle B|microtubule-based flagellum	protein C-terminus binding			ovary(2)	2		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)															---	---	---	---
MYBL2	4605	broad.mit.edu	37	20	42305519	42305519	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42305519delT	uc002xlb.1	+						MYBL2_uc010zwj.1_Intron|MYBL2_uc002xla.1_Intron	NM_002466	NP_002457			MYB-related protein B							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)															---	---	---	---
TOX2	84969	broad.mit.edu	37	20	42542603	42542605	+	5'Flank	DEL	TTT	-	-	rs71337838		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42542603_42542605delTTT	uc010ggo.2	+						TOX2_uc002xle.3_5'Flank|TOX2_uc010ggp.2_5'Flank	NM_001098797	NP_001092267			TOX high mobility group box family member 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)															---	---	---	---
TOX2	84969	broad.mit.edu	37	20	42651240	42651240	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42651240delT	uc002xlf.3	+						TOX2_uc010ggo.2_Intron|TOX2_uc002xle.3_Intron|TOX2_uc010ggp.2_Intron|TOX2_uc002xlg.2_Intron	NM_001098798	NP_001092268			TOX high mobility group box family member 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)															---	---	---	---
TOX2	84969	broad.mit.edu	37	20	42673063	42673063	+	Intron	DEL	A	-	-	rs141449839		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42673063delA	uc002xlf.3	+						TOX2_uc010ggo.2_Intron|TOX2_uc002xle.3_Intron|TOX2_uc010ggp.2_Intron|TOX2_uc002xlg.2_Intron|TOX2_uc010zwk.1_Intron	NM_001098798	NP_001092268			TOX high mobility group box family member 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	42715424	42715424	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42715424delT								TOX2 (17172 upstream) : JPH2 (24913 downstream)																																			---	---	---	---
C20orf111	51526	broad.mit.edu	37	20	42831023	42831024	+	Intron	INS	-	A	A	rs75801719	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42831023_42831024insA	uc002xlk.2	-							NM_016470	NP_057554			oxidative stress responsive 1												0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)															---	---	---	---
HNF4A	3172	broad.mit.edu	37	20	42983480	42983480	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42983480delA	uc002xlv.2	+						HNF4A_uc010zwo.1_5'Flank|HNF4A_uc002xlt.2_5'Flank|HNF4A_uc002xlu.2_5'Flank	NM_175914	NP_787110			hepatocyte nuclear factor 4 alpha isoform d						blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)															---	---	---	---
SERINC3	10955	broad.mit.edu	37	20	43145043	43145043	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43145043delT	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)															---	---	---	---
PKIG	11142	broad.mit.edu	37	20	43192016	43192017	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43192016_43192017delTT	uc002xmg.2	+						PKIG_uc002xmh.2_Intron|PKIG_uc002xmi.2_Intron	NM_181805	NP_861521			cAMP-dependent protein kinase inhibitor gamma								cAMP-dependent protein kinase inhibitor activity|protein binding				0		Myeloproliferative disorder(115;0.0122)	Colorectal(3;0.001)|COAD - Colon adenocarcinoma(18;0.00189)															---	---	---	---
RIMS4	140730	broad.mit.edu	37	20	43414392	43414396	+	Intron	DEL	TTTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43414392_43414396delTTTTT	uc002xms.2	-						RIMS4_uc010ggu.2_Intron	NM_182970	NP_892015			regulating synaptic membrane exocytosis 4						exocytosis|neurotransmitter transport	cell junction|synapse				ovary(4)|central_nervous_system(1)	5		Myeloproliferative disorder(115;0.0122)																---	---	---	---
Unknown	0	broad.mit.edu	37	20	43490658	43490658	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43490658delG								RIMS4 (51746 upstream) : YWHAB (23686 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	43509021	43509021	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43509021delT								RIMS4 (70109 upstream) : YWHAB (5323 downstream)																																			---	---	---	---
STK4	6789	broad.mit.edu	37	20	43637351	43637351	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43637351delT	uc002xnb.2	+						STK4_uc010ggx.2_Intron|STK4_uc010ggy.2_Intron	NM_006282	NP_006273			serine/threonine kinase 4						apoptosis|cell morphogenesis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of apoptosis|protein autophosphorylation	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein homodimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity|transcription factor binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)																---	---	---	---
Unknown	0	broad.mit.edu	37	20	43712802	43712802	+	IGR	DEL	T	-	-	rs71934389		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43712802delT								STK4 (4211 upstream) : KCNS1 (8149 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	43888392	43888392	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43888392delA								SLPI (5186 upstream) : MATN4 (33695 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	43946917	43946917	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43946917delA								RBPJL (455 upstream) : SDC4 (7014 downstream)																																			---	---	---	---
SYS1-DBNDD2	767557	broad.mit.edu	37	20	44030961	44030961	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44030961delT	uc002xnx.2	+							NM_001048225	NP_001041690			SCF apoptosis response protein 1 isoform a												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	44040004	44040004	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44040004delG								SYS1-DBNDD2 (759 upstream) : PIGT (4720 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	44083271	44083272	+	IGR	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44083271_44083272insC								PIGT (28387 upstream) : WFDC2 (15122 downstream)																																			---	---	---	---
WFDC8	90199	broad.mit.edu	37	20	44193660	44193661	+	Intron	INS	-	AAGAAAGAAAGG	AAGAAAGAAAGG	rs144470212	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44193660_44193661insAAGAAAGAAAGG	uc002xow.2	-						WFDC8_uc002xox.2_Intron	NM_181510	NP_852611			WAP four-disulfide core domain 8 precursor							extracellular region	serine-type endopeptidase inhibitor activity				0		Myeloproliferative disorder(115;0.0122)																---	---	---	---
Unknown	0	broad.mit.edu	37	20	44363534	44363535	+	IGR	INS	-	C	C	rs147744213		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44363534_44363535insC								SPINT4 (9199 upstream) : WFDC3 (39312 downstream)																																			---	---	---	---
SLC12A5	57468	broad.mit.edu	37	20	44662851	44662851	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44662851delC	uc010zxl.1	+						SLC12A5_uc002xra.2_Intron|SLC12A5_uc010zxm.1_Intron|SLC12A5_uc002xrb.2_Intron	NM_001134771	NP_001128243			solute carrier family 12 (potassium-chloride						potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)													---	---	---	---
NCOA5	57727	broad.mit.edu	37	20	44689694	44689695	+	3'UTR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44689694_44689695delAA	uc002xrd.2	-	7					NCOA5_uc002xrc.2_3'UTR|NCOA5_uc002xre.2_3'UTR	NM_020967	NP_066018			nuclear receptor coactivator 5						regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)																---	---	---	---
Unknown	0	broad.mit.edu	37	20	44722415	44722415	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44722415delA								NCOA5 (3835 upstream) : CD40 (24491 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	44765530	44765531	+	IGR	DEL	TT	-	-	rs144049358		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44765530_44765531delTT								CD40 (7146 upstream) : CDH22 (36845 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	44776004	44776004	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44776004delT								CD40 (17620 upstream) : CDH22 (26372 downstream)																																			---	---	---	---
CDH22	64405	broad.mit.edu	37	20	44826927	44826932	+	Intron	DEL	ACACAC	-	-	rs74176855		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44826927_44826932delACACAC	uc002xrm.2	-						CDH22_uc010ghk.1_Intron	NM_021248	NP_067071			cadherin 22 precursor						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)																---	---	---	---
SLC13A3	64849	broad.mit.edu	37	20	45211240	45211240	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45211240delA	uc002xsf.1	-						SLC13A3_uc010ghn.1_Intron|SLC13A3_uc010zxw.1_Intron|SLC13A3_uc002xsg.1_Intron|SLC13A3_uc010gho.1_Intron|SLC13A3_uc010zxx.1_Intron|SLC13A3_uc010zxv.1_Intron	NM_022829	NP_073740			solute carrier family 13 member 3 isoform a							integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)													---	---	---	---
Unknown	0	broad.mit.edu	37	20	45484940	45484941	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45484940_45484941delAA								SLC2A10 (119957 upstream) : EYA2 (38322 downstream)																																			---	---	---	---
EYA2	2139	broad.mit.edu	37	20	45610792	45610792	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45610792delT	uc002xsm.2	+						EYA2_uc010ghp.2_Intron|EYA2_uc002xsn.2_Intron|EYA2_uc002xso.2_Intron|EYA2_uc002xsp.2_Intron	NM_005244	NP_005235			eyes absent 2 isoform a						DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)																---	---	---	---
EYA2	2139	broad.mit.edu	37	20	45613021	45613021	+	Intron	DEL	A	-	-	rs146520608		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45613021delA	uc002xsm.2	+						EYA2_uc010ghp.2_Intron|EYA2_uc002xsn.2_Intron|EYA2_uc002xso.2_Intron|EYA2_uc002xsp.2_Intron	NM_005244	NP_005235			eyes absent 2 isoform a						DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)																---	---	---	---
EYA2	2139	broad.mit.edu	37	20	45712885	45712885	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45712885delA	uc002xsm.2	+						EYA2_uc010ghp.2_Intron|EYA2_uc002xsn.2_Intron|EYA2_uc002xso.2_Intron|EYA2_uc002xsp.2_Intron|EYA2_uc002xsq.2_Intron	NM_005244	NP_005235			eyes absent 2 isoform a						DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)																---	---	---	---
EYA2	2139	broad.mit.edu	37	20	45781450	45781450	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45781450delA	uc002xsm.2	+						EYA2_uc010ghp.2_Intron|EYA2_uc002xsn.2_Intron|EYA2_uc002xso.2_Intron|EYA2_uc002xsp.2_Intron|EYA2_uc002xsq.2_Intron	NM_005244	NP_005235			eyes absent 2 isoform a						DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)																---	---	---	---
EYA2	2139	broad.mit.edu	37	20	45787157	45787157	+	Intron	DEL	A	-	-	rs63484263		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45787157delA	uc002xsm.2	+						EYA2_uc010ghp.2_Intron|EYA2_uc002xsn.2_Intron|EYA2_uc002xso.2_Intron|EYA2_uc002xsp.2_Intron|EYA2_uc002xsq.2_Intron	NM_005244	NP_005235			eyes absent 2 isoform a						DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)																---	---	---	---
ZMYND8	23613	broad.mit.edu	37	20	45946746	45946746	+	Intron	DEL	T	-	-	rs78065094		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45946746delT	uc002xta.1	-						ZMYND8_uc010ghr.1_Intron|ZMYND8_uc002xst.1_Intron|ZMYND8_uc002xsu.1_Intron|ZMYND8_uc002xsv.1_Intron|ZMYND8_uc002xsw.1_Intron|ZMYND8_uc002xsx.1_Intron|ZMYND8_uc002xsy.1_Intron|ZMYND8_uc002xsz.1_Intron|ZMYND8_uc010zxy.1_Intron|ZMYND8_uc002xtb.1_Intron|ZMYND8_uc002xss.2_Intron|ZMYND8_uc010zxz.1_Intron|ZMYND8_uc002xtc.1_Intron|ZMYND8_uc002xtd.1_Intron|ZMYND8_uc002xte.1_Intron|ZMYND8_uc010zya.1_Intron|ZMYND8_uc002xtf.1_Intron|ZMYND8_uc002xtg.2_Intron|ZMYND8_uc010ghs.1_Intron|ZMYND8_uc002xth.2_Intron|LOC100131496_uc010zyb.1_5'Flank	NM_012408	NP_036540			zinc finger, MYND-type containing 8 isoform b								protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)															---	---	---	---
ZMYND8	23613	broad.mit.edu	37	20	45976870	45976870	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45976870delT	uc002xta.1	-						ZMYND8_uc010ghr.1_5'Flank|ZMYND8_uc002xst.1_5'Flank|ZMYND8_uc002xsu.1_5'Flank|ZMYND8_uc002xsv.1_5'Flank|ZMYND8_uc002xsw.1_5'Flank|ZMYND8_uc002xsx.1_5'Flank|ZMYND8_uc002xsy.1_5'Flank|ZMYND8_uc002xsz.1_Intron|ZMYND8_uc010zxy.1_Intron|ZMYND8_uc002xtb.1_Intron|ZMYND8_uc002xss.2_Intron|ZMYND8_uc010zxz.1_Intron|ZMYND8_uc002xtc.1_Intron|ZMYND8_uc002xtd.1_Intron|ZMYND8_uc002xte.1_Intron|ZMYND8_uc010zya.1_Intron|ZMYND8_uc002xtf.1_Intron|ZMYND8_uc010ghs.1_5'Flank|ZMYND8_uc002xth.2_Intron	NM_012408	NP_036540			zinc finger, MYND-type containing 8 isoform b								protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	46063410	46063410	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:46063410delA								ZMYND8 (77936 upstream) : NCOA3 (67247 downstream)																																			---	---	---	---
SULF2	55959	broad.mit.edu	37	20	46377636	46377636	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:46377636delA	uc002xto.2	-						SULF2_uc002xtr.2_Intron|SULF2_uc002xtq.2_Intron|SULF2_uc010ghv.1_Intron	NM_018837	NP_061325			sulfatase 2 isoform a precursor						bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	46421242	46421242	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:46421242delT								SULF2 (5882 upstream) : LOC284749 (567412 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	46499401	46499402	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:46499401_46499402delTT								SULF2 (84041 upstream) : LOC284749 (489252 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	46914756	46914756	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:46914756delT								SULF2 (499396 upstream) : LOC284749 (73898 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	47168373	47168374	+	IGR	INS	-	AAAC	AAAC	rs145687226	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47168373_47168374insAAAC								LOC284749 (168992 upstream) : PREX1 (72419 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	47227807	47227808	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47227807_47227808delAC								LOC284749 (228426 upstream) : PREX1 (12985 downstream)																																			---	---	---	---
PREX1	57580	broad.mit.edu	37	20	47385312	47385312	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47385312delA	uc002xtw.1	-							NM_020820	NP_065871			phosphatidylinositol-3,4,						actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	47467152	47467152	+	IGR	DEL	T	-	-	rs114672235	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47467152delT								PREX1 (22732 upstream) : ARFGEF2 (71123 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	47507667	47507667	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47507667delA								PREX1 (63247 upstream) : ARFGEF2 (30608 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	47512128	47512129	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47512128_47512129insT								PREX1 (67708 upstream) : ARFGEF2 (26146 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	47523678	47523679	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47523678_47523679insT								PREX1 (79258 upstream) : ARFGEF2 (14596 downstream)																																			---	---	---	---
ARFGEF2	10564	broad.mit.edu	37	20	47644293	47644295	+	Intron	DEL	GTA	-	-	rs68087998		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47644293_47644295delGTA	uc002xtx.3	+						ARFGEF2_uc010zyf.1_Intron	NM_006420	NP_006411			ADP-ribosylation factor guanine						exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)															---	---	---	---
STAU1	6780	broad.mit.edu	37	20	47734962	47734962	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47734962delA	uc002xud.2	-						STAU1_uc002xua.2_Intron|STAU1_uc002xub.2_Intron|STAU1_uc002xuc.2_Intron|STAU1_uc002xue.2_Intron|STAU1_uc002xuf.2_Intron|STAU1_uc002xug.2_Intron	NM_017453	NP_059347			staufen isoform b							microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)															---	---	---	---
STAU1	6780	broad.mit.edu	37	20	47757093	47757093	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47757093delA	uc002xud.2	-						STAU1_uc002xua.2_Intron|STAU1_uc002xub.2_Intron|STAU1_uc002xuc.2_Intron|STAU1_uc002xue.2_Intron|STAU1_uc002xuf.2_Intron|STAU1_uc002xug.2_Intron	NM_017453	NP_059347			staufen isoform b							microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)															---	---	---	---
STAU1	6780	broad.mit.edu	37	20	47769940	47769940	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47769940delA	uc002xud.2	-						STAU1_uc002xua.2_Intron|STAU1_uc002xub.2_Intron|STAU1_uc002xuc.2_Intron|STAU1_uc002xue.2_Intron|STAU1_uc002xuf.2_Intron|STAU1_uc002xug.2_Intron	NM_017453	NP_059347			staufen isoform b							microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)															---	---	---	---
DDX27	55661	broad.mit.edu	37	20	47838273	47838273	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47838273delA	uc002xuh.2	+							NM_017895	NP_060365			DEAD (Asp-Glu-Ala-Asp) box polypeptide 27							nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)															---	---	---	---
ZNFX1	57169	broad.mit.edu	37	20	47862492	47862492	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47862492delA	uc002xui.2	-	14						NM_021035	NP_066363			zinc finger, NFX1-type containing 1								metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)															---	---	---	---
ZNFX1	57169	broad.mit.edu	37	20	47879630	47879631	+	Intron	INS	-	C	C	rs140168293	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47879630_47879631insC	uc002xui.2	-							NM_021035	NP_066363			zinc finger, NFX1-type containing 1								metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	47912628	47912628	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47912628delT								C20orf199 (6835 upstream) : KCNB1 (75877 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	47913367	47913367	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47913367delT								C20orf199 (7574 upstream) : KCNB1 (75138 downstream)																																			---	---	---	---
KCNB1	3745	broad.mit.edu	37	20	48069547	48069555	+	Intron	DEL	AAAAAAAAA	-	-	rs71339432		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48069547_48069555delAAAAAAAAA	uc002xur.1	-						KCNB1_uc002xus.1_Intron	NM_004975	NP_004966			potassium voltage-gated channel, Shab-related						energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)															---	---	---	---
KCNB1	3745	broad.mit.edu	37	20	48089110	48089110	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48089110delA	uc002xur.1	-						KCNB1_uc002xus.1_Intron	NM_004975	NP_004966			potassium voltage-gated channel, Shab-related						energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)															---	---	---	---
KCNB1	3745	broad.mit.edu	37	20	48097355	48097355	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48097355delT	uc002xur.1	-						KCNB1_uc002xus.1_Intron	NM_004975	NP_004966			potassium voltage-gated channel, Shab-related						energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	48110504	48110504	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48110504delT								KCNB1 (10014 upstream) : PTGIS (9909 downstream)																																			---	---	---	---
PTGIS	5740	broad.mit.edu	37	20	48126296	48126296	+	Intron	DEL	T	-	-	rs79211397		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48126296delT	uc002xut.2	-						PTGIS_uc010zyi.1_Intron	NM_000961	NP_000952			prostaglandin I2 synthase						hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|prostaglandin-I synthase activity			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(12;2.37e-05)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)		Phenylbutazone(DB00812)													---	---	---	---
Unknown	0	broad.mit.edu	37	20	48220529	48220530	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48220529_48220530delAA								PTGIS (35822 upstream) : B4GALT5 (28955 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	48239536	48239536	+	IGR	DEL	A	-	-	rs71757198		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48239536delA								PTGIS (54829 upstream) : B4GALT5 (9949 downstream)																																			---	---	---	---
SLC9A8	23315	broad.mit.edu	37	20	48492279	48492279	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48492279delT	uc002xuv.1	+						SLC9A8_uc010zym.1_Intron|SLC9A8_uc010gic.2_Intron|SLC9A8_uc010gid.2_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)															---	---	---	---
SLC9A8	23315	broad.mit.edu	37	20	48494743	48494744	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48494743_48494744delAA	uc002xuv.1	+						SLC9A8_uc010zym.1_Intron|SLC9A8_uc010gic.2_Intron|SLC9A8_uc010gid.2_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)															---	---	---	---
SLC9A8	23315	broad.mit.edu	37	20	48495561	48495561	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48495561delA	uc002xuv.1	+						SLC9A8_uc010zym.1_Intron|SLC9A8_uc010gic.2_Intron|SLC9A8_uc010gid.2_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	48624265	48624265	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48624265delT								SNAI1 (18847 upstream) : TMEM189-UBE2V1 (73398 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	48674548	48674549	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48674548_48674549delTT								SNAI1 (69130 upstream) : TMEM189-UBE2V1 (23114 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	48694317	48694317	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48694317delA								SNAI1 (88899 upstream) : TMEM189-UBE2V1 (3346 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	48813039	48813048	+	IGR	DEL	TTTTTTTTTT	-	-	rs11475476		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48813039_48813048delTTTTTTTTTT								CEBPB (3827 upstream) : PTPN1 (313843 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	48996424	48996425	+	IGR	INS	-	CATT	CATT	rs146191816	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48996424_48996425insCATT								CEBPB (187212 upstream) : PTPN1 (130466 downstream)																																			---	---	---	---
PTPN1	5770	broad.mit.edu	37	20	49147071	49147071	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49147071delT	uc002xvl.2	+						PTPN1_uc010zys.1_Intron	NM_002827	NP_002818			protein tyrosine phosphatase, non-receptor type						blood coagulation|interferon-gamma-mediated signaling pathway|negative regulation of insulin receptor signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol|endoplasmic reticulum membrane	protein tyrosine phosphatase activity|zinc ion binding				0		Lung NSC(126;0.163)			Clodronate(DB00720)|Tiludronate(DB01133)													---	---	---	---
FAM65C	140876	broad.mit.edu	37	20	49205934	49205935	+	Intron	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49205934_49205935insC	uc002xvm.2	-						FAM65C_uc010zyt.1_Intron	NM_080829	NP_543019			hypothetical protein LOC140876											ovary(2)	2																		---	---	---	---
FAM65C	140876	broad.mit.edu	37	20	49235818	49235818	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49235818delA	uc002xvm.2	-						FAM65C_uc010zyt.1_Intron|FAM65C_uc010zyu.1_Intron|FAM65C_uc002xvn.1_Intron	NM_080829	NP_543019			hypothetical protein LOC140876											ovary(2)	2																		---	---	---	---
FAM65C	140876	broad.mit.edu	37	20	49300618	49300618	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49300618delA	uc010zyt.1	-						FAM65C_uc010zyu.1_Intron	NM_080829	NP_543019			hypothetical protein LOC140876											ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	49333987	49333987	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49333987delT								FAM65C (26071 upstream) : PARD6B (14094 downstream)																																			---	---	---	---
PARD6B	84612	broad.mit.edu	37	20	49355491	49355491	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49355491delT	uc002xvo.2	+							NM_032521	NP_115910			PAR-6 beta						axonogenesis|cell cycle|cell division|establishment or maintenance of cell polarity|protein complex assembly|regulation of cell migration|tight junction assembly	cytosol|tight junction	protein binding			kidney(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	49379289	49379292	+	IGR	DEL	ACAC	-	-	rs11468973		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49379289_49379292delACAC								PARD6B (9012 upstream) : BCAS4 (32175 downstream)																																			---	---	---	---
BCAS4	55653	broad.mit.edu	37	20	49425240	49425240	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49425240delT	uc002xvq.2	+						BCAS4_uc002xvp.1_Intron|BCAS4_uc002xvr.2_Intron|BCAS4_uc002xvs.2_Intron	NM_017843	NP_060313			breast carcinoma amplified sequence 4 isoform a							cytoplasm					0																		---	---	---	---
BCAS4	55653	broad.mit.edu	37	20	49432244	49432244	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49432244delT	uc002xvq.2	+						BCAS4_uc002xvp.1_Intron|BCAS4_uc002xvr.2_Intron|BCAS4_uc002xvs.2_Intron	NM_017843	NP_060313			breast carcinoma amplified sequence 4 isoform a							cytoplasm					0																		---	---	---	---
BCAS4	55653	broad.mit.edu	37	20	49455381	49455381	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49455381delA	uc002xvq.2	+						BCAS4_uc002xvp.1_Intron|BCAS4_uc002xvr.2_Intron|BCAS4_uc002xvs.2_Intron	NM_017843	NP_060313			breast carcinoma amplified sequence 4 isoform a							cytoplasm					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	49499158	49499158	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49499158delA								BCAS4 (5445 upstream) : ADNP (7725 downstream)																																			---	---	---	---
DPM1	8813	broad.mit.edu	37	20	49556166	49556166	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49556166delT	uc002xvw.1	-						DPM1_uc002xvv.1_Intron|DPM1_uc002xvx.1_Intron	NM_003859	NP_003850			dolichyl-phosphate mannosyltransferase 1						C-terminal protein lipidation|dolichol metabolic process|dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|protein N-linked glycosylation via asparagine|protein O-linked mannosylation	dolichol-phosphate-mannose synthase complex|endoplasmic reticulum membrane|membrane fraction	dolichyl-phosphate beta-D-mannosyltransferase activity|dolichyl-phosphate-mannose-protein mannosyltransferase activity|protein binding			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	49602058	49602058	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49602058delT								MOCS3 (24238 upstream) : KCNG1 (18136 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	49674220	49674220	+	IGR	DEL	A	-	-	rs77570627		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49674220delA								KCNG1 (34545 upstream) : NFATC2 (333546 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	49685434	49685434	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49685434delA								KCNG1 (45759 upstream) : NFATC2 (322332 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	49719181	49719181	+	IGR	DEL	T	-	-	rs113414530		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49719181delT								KCNG1 (79506 upstream) : NFATC2 (288585 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	49874471	49874472	+	IGR	INS	-	A	A	rs79799992		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49874471_49874472insA								KCNG1 (234796 upstream) : NFATC2 (133294 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	49877196	49877197	+	IGR	INS	-	T	T	rs141762037	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49877196_49877197insT								KCNG1 (237521 upstream) : NFATC2 (130569 downstream)																																			---	---	---	---
NFATC2	4773	broad.mit.edu	37	20	50013465	50013465	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50013465delT	uc002xwd.2	-						NFATC2_uc002xwc.2_Intron|NFATC2_uc010zyv.1_Intron|NFATC2_uc010zyw.1_Intron|NFATC2_uc010zyx.1_Intron|NFATC2_uc010zyy.1_Intron|NFATC2_uc010zyz.1_Intron|NFATC2_uc002xwe.2_Intron	NM_173091	NP_775114			nuclear factor of activated T-cells,						B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)																	---	---	---	---
NFATC2	4773	broad.mit.edu	37	20	50063359	50063360	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50063359_50063360insG	uc002xwd.2	-						NFATC2_uc002xwc.2_Intron|NFATC2_uc010zyv.1_Intron|NFATC2_uc010zyw.1_Intron|NFATC2_uc010zyx.1_Intron|NFATC2_uc010zyy.1_Intron|NFATC2_uc010zyz.1_Intron|NFATC2_uc002xwe.2_Intron	NM_173091	NP_775114			nuclear factor of activated T-cells,						B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)																	---	---	---	---
Unknown	0	broad.mit.edu	37	20	50206481	50206482	+	IGR	DEL	AA	-	-	rs149671498		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50206481_50206482delAA								NFATC2 (27313 upstream) : ATP9A (6832 downstream)																																			---	---	---	---
ATP9A	10079	broad.mit.edu	37	20	50232749	50232749	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50232749delA	uc002xwg.1	-						ATP9A_uc010gih.1_Intron|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036			ATPase, class II, type 9A						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	50316773	50316774	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50316773_50316774delAA	uc002xwg.1	-						ATP9A_uc010gih.1_Intron|ATP9A_uc002xwf.1_5'Flank	NM_006045	NP_006036			ATPase, class II, type 9A						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																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	50551245	50551245	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50551245delC								SALL4 (132197 upstream) : ZFP64 (149306 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	50844481	50844481	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50844481delT								ZFP64 (35957 upstream) : TSHZ2 (744396 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	50952176	50952176	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50952176delT								ZFP64 (143652 upstream) : TSHZ2 (636701 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	51243662	51243662	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:51243662delT								ZFP64 (435138 upstream) : TSHZ2 (345215 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	51299986	51299986	+	IGR	DEL	A	-	-	rs33991775		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:51299986delA								ZFP64 (491462 upstream) : TSHZ2 (288891 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	51319731	51319731	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:51319731delT								ZFP64 (511207 upstream) : TSHZ2 (269146 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	51319886	51319886	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:51319886delT								ZFP64 (511362 upstream) : TSHZ2 (268991 downstream)																																			---	---	---	---
TSHZ2	128553	broad.mit.edu	37	20	51642892	51642893	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:51642892_51642893delTT	uc002xwo.2	+							NM_173485	NP_775756			teashirt zinc finger homeobox 2						multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)															---	---	---	---
TSHZ2	128553	broad.mit.edu	37	20	51645513	51645513	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:51645513delT	uc002xwo.2	+							NM_173485	NP_775756			teashirt zinc finger homeobox 2						multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	52243242	52243242	+	IGR	DEL	A	-	-	rs151066778	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52243242delA								ZNF217 (32441 upstream) : SUMO1P1 (247800 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	52390388	52390389	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52390388_52390389delAA								ZNF217 (179587 upstream) : SUMO1P1 (100653 downstream)																																	OREG0031600	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	---	---	---	---
Unknown	0	broad.mit.edu	37	20	52406796	52406797	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52406796_52406797insT								ZNF217 (195995 upstream) : SUMO1P1 (84245 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	52434530	52434530	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52434530delT								ZNF217 (223729 upstream) : SUMO1P1 (56512 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	52532410	52532410	+	IGR	DEL	A	-	-	rs11479803		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52532410delA								SUMO1P1 (40162 upstream) : BCAS1 (27669 downstream)																																	OREG0026052	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	20	52535350	52535351	+	IGR	DEL	AA	-	-	rs76494388		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52535350_52535351delAA								SUMO1P1 (43102 upstream) : BCAS1 (24728 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	52894804	52894804	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52894804delG								PFDN4 (58313 upstream) : DOK5 (197453 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	52920970	52920972	+	IGR	DEL	TTT	-	-	rs113048481		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52920970_52920972delTTT								PFDN4 (84479 upstream) : DOK5 (171285 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	52978783	52978784	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52978783_52978784delCA								PFDN4 (142292 upstream) : DOK5 (113473 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	53032915	53032915	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:53032915delT								PFDN4 (196424 upstream) : DOK5 (59342 downstream)																																			---	---	---	---
DOK5	55816	broad.mit.edu	37	20	53109226	53109227	+	Intron	DEL	TG	-	-	rs66992940		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:53109226_53109227delTG	uc002xwy.2	+						DOK5_uc010gin.2_Intron|DOK5_uc002xwz.2_Intron	NM_018431	NP_060901			docking protein 5								insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)															---	---	---	---
DOK5	55816	broad.mit.edu	37	20	53189176	53189176	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:53189176delT	uc002xwy.2	+						DOK5_uc010gin.2_Intron|DOK5_uc002xwz.2_Intron	NM_018431	NP_060901			docking protein 5								insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)															---	---	---	---
DOK5	55816	broad.mit.edu	37	20	53238228	53238229	+	Intron	DEL	AA	-	-	rs11483914		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:53238228_53238229delAA	uc002xwy.2	+						DOK5_uc010gin.2_Intron|DOK5_uc002xwz.2_Intron	NM_018431	NP_060901			docking protein 5								insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	53340160	53340161	+	IGR	DEL	TG	-	-	rs11466842		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:53340160_53340161delTG								DOK5 (72451 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	53597193	53597194	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:53597193_53597194delAA								DOK5 (329484 upstream) : CBLN4 (975303 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	53607873	53607874	+	IGR	INS	-	A	A	rs78697359		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:53607873_53607874insA								DOK5 (340164 upstream) : CBLN4 (964623 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	53695007	53695007	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:53695007delT								DOK5 (427298 upstream) : CBLN4 (877490 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	54038501	54038501	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54038501delT								DOK5 (770792 upstream) : CBLN4 (533996 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	54076837	54076842	+	IGR	DEL	TTTTTT	-	-	rs72301654		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54076837_54076842delTTTTTT								DOK5 (809128 upstream) : CBLN4 (495655 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	54131997	54131998	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54131997_54131998insA								DOK5 (864288 upstream) : CBLN4 (440499 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	54134894	54134894	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54134894delT								DOK5 (867185 upstream) : CBLN4 (437603 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	54321478	54321478	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54321478delA								None (None upstream) : CBLN4 (251019 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	54397581	54397584	+	IGR	DEL	CTCT	-	-	rs34775129		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54397581_54397584delCTCT								None (None upstream) : CBLN4 (174913 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	54461067	54461068	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54461067_54461068insT								None (None upstream) : CBLN4 (111429 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	54768668	54768668	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54768668delT								CBLN4 (188656 upstream) : MC3R (55120 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	54879127	54879127	+	IGR	DEL	A	-	-	rs11451247		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54879127delA								MC3R (54256 upstream) : C20orf108 (54856 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	54928172	54928172	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54928172delT								MC3R (103301 upstream) : C20orf108 (5811 downstream)																																			---	---	---	---
GCNT7	140687	broad.mit.edu	37	20	55083352	55083352	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55083352delA	uc010zzg.1	-						C20orf43_uc002xxt.2_Intron|C20orf43_uc010zzf.1_Intron|C20orf43_uc002xxu.2_Intron|C20orf43_uc002xxv.2_Intron	NM_080615	NP_542182			glucosaminyl (N-acetyl) transferase family							Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity				0																		---	---	---	---
C20orf107	388799	broad.mit.edu	37	20	55108662	55108662	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55108662delT	uc010zzh.1	+						C20orf107_uc002xxz.2_Intron	NM_001013646	NP_001013668			hypothetical protein LOC388799 precursor							integral to membrane					0			Colorectal(105;0.202)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	55322762	55322762	+	IGR	DEL	A	-	-	rs112288836		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55322762delA								TFAP2C (108426 upstream) : BMP7 (421047 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	55405393	55405393	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55405393delT								TFAP2C (191057 upstream) : BMP7 (338416 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	55542834	55542834	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55542834delT								TFAP2C (328498 upstream) : BMP7 (200975 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	55587695	55587695	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55587695delT								TFAP2C (373359 upstream) : BMP7 (156114 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	55607233	55607234	+	IGR	INS	-	GT	GT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55607233_55607234insGT								TFAP2C (392897 upstream) : BMP7 (136575 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	55707182	55707182	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55707182delA								TFAP2C (492846 upstream) : BMP7 (36627 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	55720363	55720364	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55720363_55720364delAC								TFAP2C (506027 upstream) : BMP7 (23445 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	55733386	55733387	+	IGR	DEL	CG	-	-	rs150831509	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55733386_55733387delCG								TFAP2C (519050 upstream) : BMP7 (10422 downstream)																																			---	---	---	---
BMP7	655	broad.mit.edu	37	20	55829704	55829704	+	Intron	DEL	A	-	-	rs111712917		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55829704delA	uc010gip.1	-						BMP7_uc010giq.1_Intron|BMP7_uc002xyc.2_Intron	NM_001719	NP_001710			bone morphogenetic protein 7 precursor						BMP signaling pathway|cartilage development|cellular response to hypoxia|epithelial to mesenchymal transition|growth|mesonephros development|negative regulation of glomerular mesangial cell proliferation|negative regulation of MAP kinase activity|negative regulation of mitosis|negative regulation of neuron differentiation|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of phosphorylation|negative regulation of striated muscle cell apoptosis|negative regulation of transcription, DNA-dependent|ossification|pathway-restricted SMAD protein phosphorylation|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|protein localization to nucleus|regulation of removal of superoxide radicals|SMAD protein signal transduction|steroid hormone mediated signaling pathway|ureteric bud development	extracellular space	cytokine activity|growth factor activity			skin(1)	1	all_lung(29;0.0133)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;2.49e-13)|Epithelial(14;1.74e-08)|all cancers(14;2.05e-07)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	55897613	55897614	+	5'Flank	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55897613_55897614delTT	hsa-mir-4325|MI0015865	-																																									---	---	---	---
SPO11	23626	broad.mit.edu	37	20	55906733	55906733	+	Intron	DEL	T	-	-	rs67108426		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55906733delT	uc002xye.2	+						SPO11_uc002xyf.2_Intron	NM_012444	NP_036576			meiotic recombination protein SPO11 isoform a						female gamete generation|reciprocal meiotic recombination	chromosome|nucleus	ATP binding|DNA binding|hydrolase activity			breast(2)|skin(1)	3	Lung NSC(12;0.0066)|all_lung(29;0.0188)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;1.73e-14)|Epithelial(14;9.02e-10)|all cancers(14;9.31e-09)										Editing_and_processing_nucleases					---	---	---	---
Unknown	0	broad.mit.edu	37	20	56007291	56007291	+	IGR	DEL	T	-	-	rs76713311		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56007291delT								RBM38 (22907 upstream) : CTCFL (56589 downstream)																																			---	---	---	---
CTCFL	140690	broad.mit.edu	37	20	56075659	56075659	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56075659delT	uc010gix.1	-						CTCFL_uc010giw.1_Intron|CTCFL_uc002xym.2_Intron|CTCFL_uc010giz.1_Intron|CTCFL_uc010giy.1_Intron|CTCFL_uc010gja.1_Intron|CTCFL_uc010gjb.1_Intron|CTCFL_uc010gjc.1_Intron|CTCFL_uc010gjd.1_Intron|CTCFL_uc010gje.2_Intron|CTCFL_uc010gjf.2_Intron|CTCFL_uc010gjg.2_Intron|CTCFL_uc010giu.2_Intron|CTCFL_uc010giv.2_Intron	NM_080618	NP_542185			CCCTC-binding factor-like protein						cell cycle|DNA methylation involved in gamete generation|histone methylation|positive regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|regulation of histone H3-K4 methylation|transcription, DNA-dependent	cytoplasm|nucleus	histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|skin(1)	4	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)															---	---	---	---
CTCFL	140690	broad.mit.edu	37	20	56102244	56102244	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56102244delA	uc010gix.1	-						CTCFL_uc010giw.1_5'Flank|CTCFL_uc002xym.2_5'Flank|CTCFL_uc010giz.1_5'Flank|CTCFL_uc010giy.1_5'Flank|CTCFL_uc010gja.1_5'Flank|CTCFL_uc010gjb.1_5'Flank|CTCFL_uc010gjc.1_5'Flank|CTCFL_uc010gjd.1_5'Flank|CTCFL_uc010gje.2_5'Flank|CTCFL_uc010gjf.2_5'Flank|CTCFL_uc010gjg.2_5'Flank|CTCFL_uc010gjh.1_5'Flank|CTCFL_uc010gji.1_5'Flank|CTCFL_uc010gjj.1_5'Flank|CTCFL_uc010gjk.1_5'Flank|CTCFL_uc010gjl.1_5'Flank	NM_080618	NP_542185			CCCTC-binding factor-like protein						cell cycle|DNA methylation involved in gamete generation|histone methylation|positive regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|regulation of histone H3-K4 methylation|transcription, DNA-dependent	cytoplasm|nucleus	histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|skin(1)	4	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	56144823	56144823	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56144823delA								PCK1 (3316 upstream) : ZBP1 (34081 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	56207775	56207775	+	IGR	DEL	T	-	-	rs11479151		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56207775delT								ZBP1 (12143 upstream) : PMEPA1 (15679 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	56303189	56303189	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56303189delA								PMEPA1 (16648 upstream) : C20orf85 (422794 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	56329969	56329969	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56329969delT								PMEPA1 (43428 upstream) : C20orf85 (396014 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	56376409	56376409	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56376409delT								PMEPA1 (89868 upstream) : C20orf85 (349574 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	56524463	56524466	+	IGR	DEL	GATG	-	-	rs57467643		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56524463_56524466delGATG								PMEPA1 (237922 upstream) : C20orf85 (201517 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	56580891	56580892	+	IGR	INS	-	A	A	rs149763471	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56580891_56580892insA								PMEPA1 (294350 upstream) : C20orf85 (145091 downstream)																																			---	---	---	---
PPP4R1L	55370	broad.mit.edu	37	20	56809359	56809359	+	Intron	DEL	A	-	-	rs79383333		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56809359delA	uc002xyw.2	-						PPP4R1L_uc010gjn.1_Intron					Homo sapiens PRO1085 mRNA, complete cds.												0																OREG0026074	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	20	56953406	56953406	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56953406delT								RAB22A (10846 upstream) : VAPB (10839 downstream)																																			---	---	---	---
VAPB	9217	broad.mit.edu	37	20	57002518	57002518	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57002518delT	uc002xza.2	+						VAPB_uc002xzb.2_Intron|VAPB_uc010zzo.1_Intron|VAPB_uc002xzc.2_Intron	NM_004738	NP_004729			VAMP-associated protein B/C						cell death|endoplasmic reticulum unfolded protein response|positive regulation of viral genome replication|sphingolipid metabolic process|virus-host interaction	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	beta-tubulin binding|enzyme binding|protein heterodimerization activity|protein homodimerization activity|structural molecule activity			kidney(1)	1	Lung NSC(12;0.000615)|all_lung(29;0.00186)		BRCA - Breast invasive adenocarcinoma(13;6.2e-12)|Epithelial(14;3.7e-08)|all cancers(14;3.88e-07)															---	---	---	---
APCDD1L	164284	broad.mit.edu	37	20	57068712	57068712	+	Intron	DEL	A	-	-	rs34836445		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57068712delA	uc002xze.1	-						APCDD1L_uc010zzp.1_Intron	NM_153360	NP_699191			adenomatosis polyposis coli down-regulated							integral to membrane				ovary(1)	1	Lung NSC(12;0.000856)|all_lung(29;0.0025)		BRCA - Breast invasive adenocarcinoma(13;5.6e-11)|Epithelial(14;1.67e-07)|all cancers(14;1.48e-06)															---	---	---	---
APCDD1L	164284	broad.mit.edu	37	20	57084049	57084050	+	Intron	INS	-	GTGT	GTGT	rs149764499	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57084049_57084050insGTGT	uc002xze.1	-						APCDD1L_uc010zzp.1_Intron	NM_153360	NP_699191			adenomatosis polyposis coli down-regulated							integral to membrane				ovary(1)	1	Lung NSC(12;0.000856)|all_lung(29;0.0025)		BRCA - Breast invasive adenocarcinoma(13;5.6e-11)|Epithelial(14;1.67e-07)|all cancers(14;1.48e-06)															---	---	---	---
GNAS	2778	broad.mit.edu	37	20	57419853	57419853	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57419853delA	uc010gjq.2	+						GNASAS_uc002xzs.1_Intron|GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron	NM_000516	NP_000507			GNAS complex locus GNASL						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)			---	---	---	---
GNAS	2778	broad.mit.edu	37	20	57445608	57445608	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57445608delA	uc002xzw.2	+						GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_Intron	NM_080425	NP_536350			GNAS complex locus XLas						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)	OREG0026080	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	20	57536740	57536740	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57536740delA								GNAS (50491 upstream) : TH1L (19571 downstream)																																			---	---	---	---
CTSZ	1522	broad.mit.edu	37	20	57584587	57584587	+	5'Flank	DEL	T	-	-	rs71971092		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57584587delT	uc002yai.2	-						CTSZ_uc002yaj.3_5'Flank	NM_001336	NP_001327			cathepsin Z preproprotein						proteolysis	endoplasmic reticulum|extracellular space|lysosome	cysteine-type endopeptidase activity			kidney(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	57654187	57654187	+	IGR	DEL	T	-	-	rs68024969		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57654187delT								SLMO2 (36286 upstream) : ZNF831 (111888 downstream)																																			---	---	---	---
ZNF831	128611	broad.mit.edu	37	20	57797031	57797031	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57797031delT	uc002yan.2	+							NM_178457	NP_848552			zinc finger protein 831							intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)																	---	---	---	---
Unknown	0	broad.mit.edu	37	20	57836050	57836057	+	IGR	DEL	ACACACAC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57836050_57836057delACACACAC								ZNF831 (1885 upstream) : EDN3 (39442 downstream)																																			---	---	---	---
EDN3	1908	broad.mit.edu	37	20	57887091	57887091	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57887091delT	uc002yap.2	+						EDN3_uc002yao.1_Intron|EDN3_uc002yaq.2_Intron|EDN3_uc002yar.2_Intron|EDN3_uc002yas.2_Intron	NM_000114	NP_000105			endothelin 3 isoform 1 preproprotein						cell surface receptor linked signaling pathway|inositol phosphate-mediated signaling|neutrophil chemotaxis|peptide hormone secretion|positive regulation of heart rate|positive regulation of hormone secretion|positive regulation of leukocyte chemotaxis|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of systemic arterial blood pressure by endothelin|regulation of vasoconstriction|vein smooth muscle contraction	extracellular space|soluble fraction	endothelin B receptor binding|hormone activity			skin(1)	1	all_lung(29;0.0115)																	---	---	---	---
Unknown	0	broad.mit.edu	37	20	58073304	58073304	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58073304delA								EDN3 (172258 upstream) : PHACTR3 (79260 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	58144616	58144627	+	IGR	DEL	TGGATGGACGGA	-	-	rs146255331	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58144616_58144627delTGGATGGACGGA								EDN3 (243570 upstream) : PHACTR3 (7937 downstream)																																			---	---	---	---
PHACTR3	116154	broad.mit.edu	37	20	58295478	58295479	+	Intron	INS	-	G	G	rs72185940		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58295478_58295479insG	uc002yau.2	+						PHACTR3_uc002yat.2_Intron|PHACTR3_uc010zzw.1_Intron|PHACTR3_uc002yav.2_Intron|PHACTR3_uc002yaw.2_5'Flank|PHACTR3_uc002yax.2_5'Flank	NM_080672	NP_542403			phosphatase and actin regulator 3 isoform 1							nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)															---	---	---	---
PHACTR3	116154	broad.mit.edu	37	20	58309474	58309474	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58309474delT	uc002yau.2	+						PHACTR3_uc002yat.2_Intron|PHACTR3_uc010zzw.1_Intron|PHACTR3_uc002yav.2_Intron|PHACTR3_uc002yaw.2_Intron|PHACTR3_uc002yax.2_Intron	NM_080672	NP_542403			phosphatase and actin regulator 3 isoform 1							nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)															---	---	---	---
PHACTR3	116154	broad.mit.edu	37	20	58315721	58315721	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58315721delT	uc002yau.2	+						PHACTR3_uc002yat.2_Intron|PHACTR3_uc010zzw.1_Intron|PHACTR3_uc002yav.2_Intron|PHACTR3_uc002yaw.2_Intron|PHACTR3_uc002yax.2_Intron	NM_080672	NP_542403			phosphatase and actin regulator 3 isoform 1							nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)															---	---	---	---
PHACTR3	116154	broad.mit.edu	37	20	58348590	58348590	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58348590delC	uc002yau.2	+						PHACTR3_uc002yat.2_Intron|PHACTR3_uc010zzw.1_Intron|PHACTR3_uc002yav.2_Intron|PHACTR3_uc002yaw.2_Intron|PHACTR3_uc002yax.2_Intron	NM_080672	NP_542403			phosphatase and actin regulator 3 isoform 1							nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)															---	---	---	---
PHACTR3	116154	broad.mit.edu	37	20	58349814	58349815	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58349814_58349815delAA	uc002yau.2	+						PHACTR3_uc002yat.2_Intron|PHACTR3_uc010zzw.1_Intron|PHACTR3_uc002yav.2_Intron|PHACTR3_uc002yaw.2_Intron|PHACTR3_uc002yax.2_Intron	NM_080672	NP_542403			phosphatase and actin regulator 3 isoform 1							nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)															---	---	---	---
SYCP2	10388	broad.mit.edu	37	20	58458693	58458693	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58458693delA	uc002yaz.2	-							NM_014258	NP_055073			synaptonemal complex protein 2						cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)															---	---	---	---
CDH26	60437	broad.mit.edu	37	20	58538914	58538915	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58538914_58538915delAA	uc002ybe.2	+						CDH26_uc010zzy.1_Intron	NM_177980	NP_817089			cadherin-like 26 isoform a						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)															---	---	---	---
CDH26	60437	broad.mit.edu	37	20	58583267	58583267	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58583267delT	uc002ybe.2	+						CDH26_uc002ybf.1_Intron|CDH26_uc010zzy.1_Intron|CDH26_uc002ybg.2_Intron|CDH26_uc002ybh.2_Intron|CDH26_uc002ybi.2_Intron	NM_177980	NP_817089			cadherin-like 26 isoform a						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	59268077	59268077	+	IGR	DEL	A	-	-	rs111244940		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59268077delA								MIR646 (384452 upstream) : CDH4 (559482 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	59322317	59322317	+	IGR	DEL	T	-	-	rs11477914		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59322317delT								MIR646 (438692 upstream) : CDH4 (505242 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	59379608	59379608	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59379608delA								MIR646 (495983 upstream) : CDH4 (447951 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	59381214	59381214	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59381214delT								MIR646 (497589 upstream) : CDH4 (446345 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	59445663	59445663	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59445663delT								MIR646 (562038 upstream) : CDH4 (381896 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	59568747	59568747	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59568747delT								MIR646 (685122 upstream) : CDH4 (258812 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	59587945	59587945	+	IGR	DEL	T	-	-	rs116967222	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59587945delT								MIR646 (704320 upstream) : CDH4 (239614 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	59690044	59690044	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59690044delC								MIR646 (806419 upstream) : CDH4 (137515 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	59767379	59767379	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59767379delT								MIR646 (883754 upstream) : CDH4 (60180 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	59788721	59788721	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59788721delT								MIR646 (905096 upstream) : CDH4 (38838 downstream)																																			---	---	---	---
CDH4	1002	broad.mit.edu	37	20	59904497	59904498	+	Intron	INS	-	C	C	rs67723154		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59904497_59904498insC	uc002ybn.1	+							NM_001794	NP_001785			cadherin 4, type 1 preproprotein						adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)															---	---	---	---
CDH4	1002	broad.mit.edu	37	20	59990765	59990766	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59990765_59990766delTT	uc002ybn.1	+							NM_001794	NP_001785			cadherin 4, type 1 preproprotein						adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)															---	---	---	---
CDH4	1002	broad.mit.edu	37	20	60324698	60324698	+	Intron	DEL	A	-	-	rs150171436		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60324698delA	uc002ybn.1	+						CDH4_uc002ybp.1_Intron	NM_001794	NP_001785			cadherin 4, type 1 preproprotein						adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	60535060	60535060	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60535060delT								MIR1257 (6342 upstream) : TAF4 (14795 downstream)																																			---	---	---	---
TAF4	6874	broad.mit.edu	37	20	60614901	60614902	+	Intron	DEL	AA	-	-	rs10577811		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60614901_60614902delAA	uc002ybs.2	-							NM_003185	NP_003176			TBP-associated factor 4						interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	60689696	60689696	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60689696delA								TAF4 (48830 upstream) : LSM14B (7821 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	60805713	60805714	+	5'Flank	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60805713_60805714delCA	uc002ycj.1	+											Homo sapiens cDNA FLJ44790 fis, clone BRACE3039288.																														---	---	---	---
OSBPL2	9885	broad.mit.edu	37	20	60822726	60822728	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60822726_60822728delTTT	uc002yck.1	+						OSBPL2_uc002ycl.1_Intron|OSBPL2_uc011aah.1_Intron	NM_144498	NP_653081			oxysterol-binding protein-like protein 2 isoform						lipid transport		lipid binding			ovary(1)|central_nervous_system(1)	2	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;1.33e-06)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	61019838	61019838	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61019838delC								C20orf151 (17249 upstream) : GATA5 (18715 downstream)																																			---	---	---	---
DIDO1	11083	broad.mit.edu	37	20	61523115	61523116	+	Intron	DEL	TT	-	-	rs71331963		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61523115_61523116delTT	uc002ydr.1	-						DIDO1_uc002yds.1_Intron|DIDO1_uc002ydt.1_Intron|DIDO1_uc002ydu.1_Intron	NM_033081	NP_149072			death inducer-obliterator 1 isoform c						apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)																	---	---	---	---
DIDO1	11083	broad.mit.edu	37	20	61524332	61524332	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61524332delA	uc002ydr.1	-						DIDO1_uc002yds.1_Intron|DIDO1_uc002ydt.1_Intron|DIDO1_uc002ydu.1_Intron	NM_033081	NP_149072			death inducer-obliterator 1 isoform c						apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)																	---	---	---	---
DIDO1	11083	broad.mit.edu	37	20	61539336	61539336	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61539336delT	uc002ydr.1	-						DIDO1_uc002yds.1_Intron|DIDO1_uc002ydt.1_Intron|DIDO1_uc002ydu.1_Intron|DIDO1_uc002ydv.1_Intron|DIDO1_uc002ydw.1_Intron|DIDO1_uc002ydx.1_Intron|DIDO1_uc011aao.1_Intron	NM_033081	NP_149072			death inducer-obliterator 1 isoform c						apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)																	---	---	---	---
SLC17A9	63910	broad.mit.edu	37	20	61586492	61586492	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61586492delT	uc002yea.3	+						SLC17A9_uc002ydz.3_Intron|SLC17A9_uc011aap.1_Intron	NM_022082	NP_071365			vesicular nucleotide transporter SLC17A9						exocytosis|transmembrane transport	integral to membrane	transporter activity			ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	61717431	61717432	+	IGR	DEL	TG	-	-	rs71924787		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61717431_61717432delTG								NCRNA00029 (49051 upstream) : HAR1B (9413 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	61743091	61743091	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61743091delT								HAR1A (7354 upstream) : MIR124-3 (66761 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	61972311	61972311	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61972311delA								COL20A1 (10027 upstream) : CHRNA4 (2354 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	62027881	62027882	+	5'Flank	INS	-	G	G	rs147645849	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62027881_62027882insG	uc002yew.1	-											Homo sapiens cDNA FLJ31705 fis, clone NT2RI2006183, weakly similar to Proline-rich protein M14 precursor.																														---	---	---	---
KCNQ2	3785	broad.mit.edu	37	20	62039001	62039002	+	Intron	INS	-	GG	GG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62039001_62039002insGG	uc002yey.1	-						KCNQ2_uc002yez.1_Intron|KCNQ2_uc002yfa.1_Intron|KCNQ2_uc002yfb.1_Intron	NM_172107	NP_742105			potassium voltage-gated channel KQT-like protein						axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)													---	---	---	---
EEF1A2	1917	broad.mit.edu	37	20	62123710	62123713	+	Intron	DEL	GATG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62123710_62123713delGATG	uc002yfd.1	-						EEF1A2_uc002yfe.1_Intron|EEF1A2_uc010gkg.1_Intron	NM_001958	NP_001949			eukaryotic translation elongation factor 1 alpha							nucleus	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	62141743	62141743	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62141743delT								EEF1A2 (11238 upstream) : PPDPF (10390 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	62142339	62142339	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62142339delT								EEF1A2 (11834 upstream) : PPDPF (9794 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	20	62215803	62215804	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62215803_62215804delTT								PRIC285 (10211 upstream) : GMEB2 (3151 downstream)																																			---	---	---	---
ZGPAT	84619	broad.mit.edu	37	20	62342954	62342955	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62342954_62342955delTT	uc002ygk.2	+						ZGPAT_uc002ygi.2_Intron|ZGPAT_uc002ygj.2_Intron|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Intron|ZGPAT_uc002ygm.2_Intron|ZGPAT_uc002ygn.3_Intron	NM_032527	NP_115916			zinc finger, CCCH-type with G patch domain						negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)																	---	---	---	---
ZBTB46	140685	broad.mit.edu	37	20	62391128	62391128	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62391128delT	uc002ygv.1	-						ZBTB46_uc002ygu.2_Intron	NM_025224	NP_079500			zinc finger and BTB domain containing 46						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)																	---	---	---	---
ZBTB46	140685	broad.mit.edu	37	20	62414316	62414316	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62414316delA	uc002ygv.1	-						ZBTB46_uc002ygu.2_Intron	NM_025224	NP_079500			zinc finger and BTB domain containing 46						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)																	---	---	---	---
DNAJC5	80331	broad.mit.edu	37	20	62544366	62544366	+	Intron	DEL	T	-	-	rs34011099		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62544366delT	uc002yhf.2	+						DNAJC5_uc002yhg.1_Intron	NM_025219	NP_079495			DnaJ (Hsp40) homolog, subfamily C, member 5						neurotransmitter secretion|protein folding	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|melanosome|plasma membrane	heat shock protein binding|unfolded protein binding			pancreas(1)	1	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)																	---	---	---	---
DNAJC5	80331	broad.mit.edu	37	20	62544752	62544752	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62544752delT	uc002yhf.2	+						DNAJC5_uc002yhg.1_Intron	NM_025219	NP_079495			DnaJ (Hsp40) homolog, subfamily C, member 5						neurotransmitter secretion|protein folding	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|melanosome|plasma membrane	heat shock protein binding|unfolded protein binding			pancreas(1)	1	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)																	---	---	---	---
RGS19	10287	broad.mit.edu	37	20	62707239	62707240	+	Intron	DEL	TT	-	-	rs72046415		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62707239_62707240delTT	uc002yhy.2	-						RGS19_uc002yhz.2_Intron|RGS19_uc002yia.2_Intron|RGS19_uc002yib.2_Intron	NM_005873	NP_005864			G protein signalling regulator 19						autophagy|G-protein coupled receptor protein signaling pathway|negative regulation of signal transduction|small GTPase mediated signal transduction	Golgi apparatus|membrane fraction|plasma membrane	GTPase activator activity|protein binding|signal transducer activity			skin(1)	1	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)																	---	---	---	---
Unknown	0	broad.mit.edu	37	21	9649170	9649170	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:9649170delA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	9735165	9735166	+	Intron	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:9735165_9735166delAG	uc011abu.1	+											Homo sapiens, clone IMAGE:4720764, mRNA.																														---	---	---	---
Unknown	0	broad.mit.edu	37	21	9843914	9843915	+	IGR	INS	-	TG	TG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:9843914_9843915insTG								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	10417854	10417854	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10417854delA								None (None upstream) : TPTE (488889 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	10426013	10426013	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10426013delA								None (None upstream) : TPTE (480730 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	10619960	10619961	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10619960_10619961insA								None (None upstream) : TPTE (286782 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	10775702	10775703	+	IGR	INS	-	ATGGA	ATGGA	rs62219479		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10775702_10775703insATGGA								None (None upstream) : TPTE (131040 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	10815072	10815081	+	IGR	DEL	AATGGAATGC	-	-	rs150426227		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10815072_10815081delAATGGAATGC								None (None upstream) : TPTE (91662 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	10846713	10846713	+	IGR	DEL	A	-	-	rs112940503		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10846713delA								None (None upstream) : TPTE (60030 downstream)																																			---	---	---	---
TPTE	7179	broad.mit.edu	37	21	10924429	10924429	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10924429delA	uc002yip.1	-						TPTE_uc002yis.1_Intron|TPTE_uc002yiq.1_Intron|TPTE_uc002yir.1_Intron|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870			transmembrane phosphatase with tensin homology						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)														---	---	---	---
TPTE	7179	broad.mit.edu	37	21	10977994	10977994	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10977994delA	uc002yip.1	-						TPTE_uc002yis.1_Intron|TPTE_uc002yiq.1_Intron|TPTE_uc002yir.1_Intron|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870			transmembrane phosphatase with tensin homology						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)														---	---	---	---
BAGE2	85319	broad.mit.edu	37	21	11035564	11035566	+	Intron	DEL	TTG	-	-	rs61475281		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11035564_11035566delTTG	uc002yit.1	-						TPTE_uc002yis.1_Intron	NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			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)														---	---	---	---
BAGE2	85319	broad.mit.edu	37	21	11062746	11062746	+	Intron	DEL	T	-	-	rs146294616		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11062746delT	uc002yit.1	-						BAGE_uc002yiw.1_5'Flank|BAGE_uc002yix.2_Intron	NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			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)														---	---	---	---
Unknown	0	broad.mit.edu	37	21	11149249	11149249	+	IGR	DEL	C	-	-	rs55718578		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11149249delC								BAGE (50312 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	14367575	14367575	+	IGR	DEL	C	-	-	rs140643406		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:14367575delC								None (None upstream) : C21orf99 (42912 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	14657213	14657213	+	IGR	DEL	A	-	-	rs80147990		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:14657213delA								C21orf99 (166644 upstream) : POTED (325285 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	14898959	14898960	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:14898959_14898960delAA								C21orf99 (408390 upstream) : POTED (83538 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	15254759	15254760	+	IGR	INS	-	ACTAAAGG	ACTAAAGG	rs138284873	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:15254759_15254760insACTAAAGG								C21orf15 (34074 upstream) : C21orf81 (61336 downstream)																																			---	---	---	---
C21orf81	391267	broad.mit.edu	37	21	15347257	15347258	+	Intron	INS	-	A	A	rs80199214		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:15347257_15347258insA	uc002yji.2	-							NR_027270				Homo sapiens C21orf81 protein (C21orf81) mRNA, complete cds.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	21	15630706	15630706	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:15630706delT								RBM11 (30015 upstream) : ABCC13 (15414 downstream)																																			---	---	---	---
SAMSN1	64092	broad.mit.edu	37	21	15858446	15858446	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:15858446delA	uc002yju.1	-						SAMSN1_uc010gky.1_Intron|SAMSN1_uc002yjv.1_Intron	NM_022136	NP_071419			SAM domain, SH3 domain and nuclear localization						negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)														---	---	---	---
Unknown	0	broad.mit.edu	37	21	16090018	16090018	+	IGR	DEL	C	-	-	rs1153354	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:16090018delC								SAMSN1 (134295 upstream) : NRIP1 (243538 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	16822923	16822923	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:16822923delT								NRIP1 (385797 upstream) : USP25 (279573 downstream)																																			---	---	---	---
USP25	29761	broad.mit.edu	37	21	17163799	17163799	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:17163799delT	uc002yjy.1	+						USP25_uc011aby.1_Intron|USP25_uc002yjz.1_Intron|USP25_uc010gla.1_Intron	NM_013396	NP_037528			ubiquitin specific peptidase 25						protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)														---	---	---	---
USP25	29761	broad.mit.edu	37	21	17238573	17238573	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:17238573delT	uc002yjy.1	+						USP25_uc011aby.1_Intron|USP25_uc002yjz.1_Intron|USP25_uc010gla.1_Intron	NM_013396	NP_037528			ubiquitin specific peptidase 25						protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)														---	---	---	---
Unknown	0	broad.mit.edu	37	21	18855389	18855389	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:18855389delA								C21orf34 (873295 upstream) : CXADR (29941 downstream)																																			---	---	---	---
CXADR	1525	broad.mit.edu	37	21	18882443	18882443	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:18882443delA	uc002yki.2	+						CXADR_uc002ykh.1_5'Flank|CXADR_uc010gld.1_5'Flank|CXADR_uc010gle.1_5'Flank	NM_001338	NP_001329			coxsackie virus and adenovirus receptor						blood coagulation|cell adhesion|interspecies interaction between organisms|leukocyte migration|regulation of immune response	adherens junction|basolateral plasma membrane|extracellular region|integral to plasma membrane|nucleus|tight junction	receptor activity			ovary(1)	1				Epithelial(23;0.000206)|all cancers(11;0.000302)|OV - Ovarian serous cystadenocarcinoma(11;0.0194)|Lung(58;0.0233)|COAD - Colon adenocarcinoma(22;0.0389)|Colorectal(24;0.0483)|LUSC - Lung squamous cell carcinoma(23;0.0782)														---	---	---	---
TMPRSS15	5651	broad.mit.edu	37	21	19725379	19725379	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:19725379delA	uc002ykw.2	-							NM_002772	NP_002763			enterokinase precursor						proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	21	20239959	20239959	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:20239959delT								TMPRSS15 (463989 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	20756829	20756829	+	IGR	DEL	A	-	-	rs72101922		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:20756829delA								TMPRSS15 (980859 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	21480861	21480861	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:21480861delA								None (None upstream) : C21orf131 (634053 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	21735614	21735614	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:21735614delT								None (None upstream) : C21orf131 (379300 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	23284512	23284512	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:23284512delA								NCAM2 (373298 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	23586298	23586298	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:23586298delT								NCAM2 (675084 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	23895374	23895374	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:23895374delA								NCAM2 (984160 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	24718940	24718941	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:24718940_24718941insG								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	25769410	25769410	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:25769410delA								None (None upstream) : NCRNA00158 (988724 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	26311332	26311332	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:26311332delA								None (None upstream) : NCRNA00158 (446802 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	27218944	27218944	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:27218944delT								GABPA (74174 upstream) : APP (33918 downstream)																																			---	---	---	---
APP	351	broad.mit.edu	37	21	27290136	27290137	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:27290136_27290137insA	uc002ylz.2	-						APP_uc011acg.1_Intron|APP_uc010glk.2_Intron|APP_uc002yma.2_Intron|APP_uc011ach.1_Intron|APP_uc002ymb.2_Intron|APP_uc010glj.2_Intron|APP_uc011aci.1_Intron	NM_000484	NP_000475			amyloid beta A4 protein isoform a precursor						adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)																---	---	---	---
APP	351	broad.mit.edu	37	21	27382268	27382268	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:27382268delA	uc002ylz.2	-						APP_uc010glk.2_Intron|APP_uc002yma.2_Intron|APP_uc011ach.1_Intron|APP_uc002ymb.2_Intron|APP_uc010glj.2_Intron|APP_uc011aci.1_Intron|APP_uc011acj.1_Intron	NM_000484	NP_000475			amyloid beta A4 protein isoform a precursor						adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)																---	---	---	---
Unknown	0	broad.mit.edu	37	21	28019093	28019093	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:28019093delA								CYYR1 (73512 upstream) : ADAMTS1 (189515 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	29505097	29505098	+	Intron	DEL	AA	-	-	rs11292412		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:29505097_29505098delAA	uc002ymk.1	+						uc002yml.2_Intron					Homo sapiens cDNA FLJ35800 fis, clone TESTI2005933.																														---	---	---	---
RNF160	26046	broad.mit.edu	37	21	30315571	30315571	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:30315571delA	uc002ymr.2	-							NM_015565	NP_056380			zinc finger protein 294								ligase activity|zinc ion binding				0																		---	---	---	---
RNF160	26046	broad.mit.edu	37	21	30330614	30330614	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:30330614delT	uc002ymr.2	-							NM_015565	NP_056380			zinc finger protein 294								ligase activity|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	21	30374090	30374091	+	IGR	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:30374090_30374091insG								RNF160 (8813 upstream) : RWDD2B (3991 downstream)																																			---	---	---	---
RWDD2B	10069	broad.mit.edu	37	21	30378685	30378685	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:30378685delA	uc002yms.2	-	5					RWDD2B_uc002ymt.2_3'UTR|RWDD2B_uc002ymu.2_RNA|RWDD2B_uc002ymv.2_3'UTR	NM_016940	NP_058636			RWD domain containing 2B												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	21	30877709	30877709	+	IGR	DEL	A	-	-	rs67009573		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:30877709delA								BACH1 (143492 upstream) : GRIK1 (31547 downstream)																																			---	---	---	---
KRTAP20-2	337976	broad.mit.edu	37	21	32006646	32006646	+	5'Flank	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:32006646delA	uc011adg.1	+							NM_181616	NP_853647			keratin associated protein 20-2							intermediate filament				central_nervous_system(1)	1																		---	---	---	---
TIAM1	7074	broad.mit.edu	37	21	32874898	32874898	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:32874898delA	uc002yow.1	-						TIAM1_uc002yox.1_Intron	NM_003253	NP_003244			T-cell lymphoma invasion and metastasis 1						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10																		---	---	---	---
SFRS15	57466	broad.mit.edu	37	21	33068866	33068866	+	Intron	DEL	A	-	-	rs33982658		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:33068866delA	uc002ypd.2	-						SFRS15_uc002ype.2_Intron|SFRS15_uc010glu.2_Intron|SFRS15_uc002ypf.1_Intron	NM_020706	NP_065757			splicing factor, arginine/serine-rich 15 isoform							nucleus	nucleotide binding|RNA binding				0																		---	---	---	---
SFRS15	57466	broad.mit.edu	37	21	33074259	33074259	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:33074259delA	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	21	33629222	33629223	+	IGR	INS	-	A	A	rs147477590	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:33629222_33629223insA								NCRNA00159 (100406 upstream) : C21orf45 (11309 downstream)																																			---	---	---	---
URB1	9875	broad.mit.edu	37	21	33697865	33697865	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:33697865delA	uc002ypn.2	-							NM_014825	NP_055640			URB1 ribosome biogenesis 1 homolog							nucleolus	protein binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	21	33895236	33895236	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:33895236delA								C21orf63 (7539 upstream) : TCP10L (51916 downstream)																																			---	---	---	---
SYNJ1	8867	broad.mit.edu	37	21	34046043	34046045	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:34046043_34046045delAAA	uc002yqh.2	-						SYNJ1_uc011ads.1_Intron|SYNJ1_uc002yqf.2_Intron|SYNJ1_uc002yqg.2_Intron|SYNJ1_uc002yqi.2_Intron	NM_003895	NP_003886			synaptojanin 1 isoform a								inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5																		---	---	---	---
GCFC1	94104	broad.mit.edu	37	21	34133214	34133215	+	Intron	DEL	GT	-	-	rs71981845		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:34133214_34133215delGT	uc002yqn.2	-						GCFC1_uc002yqo.2_Intron|GCFC1_uc002yqp.2_Intron|GCFC1_uc002yqr.2_Intron	NM_016631	NP_057715			GC-rich sequence DNA-binding factor candidate							cytosol|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2																		---	---	---	---
CRYZL1	9946	broad.mit.edu	37	21	34985764	34985764	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:34985764delA	uc011adw.1	-						DONSON_uc002ysn.1_Intron|CRYZL1_uc002ysr.1_Intron|CRYZL1_uc002yss.1_Intron|CRYZL1_uc002yst.1_Intron	NM_145858	NP_665857			crystallin, zeta-like 1						quinone cofactor metabolic process	cytosol	NADP binding|NADPH:quinone reductase activity|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	21	35399661	35399661	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:35399661delT								ATP5O (111503 upstream) : MRPS6 (46162 downstream)																																			---	---	---	---
RUNX1	861	broad.mit.edu	37	21	36720768	36720768	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:36720768delA	uc002yut.1	-											Synthetic construct DNA, clone: pF1KB4846, Homo sapiens RUNX1 gene for runt-related transcription factor 1, complete cds, without stop codon, in Flexi system.						myeloid cell differentiation|negative regulation of granulocyte differentiation|positive regulation of angiogenesis|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus|nucleus	ATP binding|calcium ion binding|DNA binding|DNA binding|protein binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			haematopoietic_and_lymphoid_tissue(383)|lung(2)|ovary(1)|central_nervous_system(1)	387								T	RPL22|MDS1|EVI1|CBFA2T3|CBFA2T1|ETV6|LAF4	AML|preB- ALL|T-ALL				Platelet_disorder_associated_with_Myeloid_Malignancies				---	---	---	---
RUNX1	861	broad.mit.edu	37	21	37339966	37339966	+	Intron	DEL	T	-	-	rs111893393		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:37339966delT	uc002yut.1	-											Synthetic construct DNA, clone: pF1KB4846, Homo sapiens RUNX1 gene for runt-related transcription factor 1, complete cds, without stop codon, in Flexi system.						myeloid cell differentiation|negative regulation of granulocyte differentiation|positive regulation of angiogenesis|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus|nucleus	ATP binding|calcium ion binding|DNA binding|DNA binding|protein binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			haematopoietic_and_lymphoid_tissue(383)|lung(2)|ovary(1)|central_nervous_system(1)	387								T	RPL22|MDS1|EVI1|CBFA2T3|CBFA2T1|ETV6|LAF4	AML|preB- ALL|T-ALL				Platelet_disorder_associated_with_Myeloid_Malignancies				---	---	---	---
CBR3	874	broad.mit.edu	37	21	37510082	37510082	+	Intron	DEL	A	-	-	rs73902170		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:37510082delA	uc002yve.2	+						uc002yvc.1_Intron|uc002yvd.1_Intron	NM_001236	NP_001227			carbonyl reductase 3							cytosol|nucleus	carbonyl reductase (NADPH) activity|NADPH binding				0																		---	---	---	---
MORC3	23515	broad.mit.edu	37	21	37711418	37711418	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:37711418delA	uc002yvi.2	+							NM_015358	NP_056173			MORC family CW-type zinc finger 3						cell aging|maintenance of protein location in nucleus|negative regulation of fibroblast proliferation|peptidyl-serine phosphorylation|protein stabilization	aggresome|intermediate filament cytoskeleton|PML body	ATP binding|zinc ion binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	21	37806210	37806211	+	IGR	DEL	TT	-	-	rs72351757		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:37806210_37806211delTT								CHAF1B (17086 upstream) : CLDN14 (26709 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	38028467	38028467	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:38028467delA								CLDN14 (79600 upstream) : SIM2 (43524 downstream)																																			---	---	---	---
TTC3	7267	broad.mit.edu	37	21	38536332	38536332	+	Intron	DEL	T	-	-	rs143828047	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:38536332delT	uc002yvz.2	+						TTC3_uc011aee.1_Intron|TTC3_uc002ywa.2_Intron|TTC3_uc002ywb.2_Intron|TTC3_uc010gnf.2_Intron|TTC3_uc002ywc.2_Intron|TTC3_uc002ywd.1_Intron	NM_001001894	NP_001001894			tetratricopeptide repeat domain 3						protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)																---	---	---	---
Unknown	0	broad.mit.edu	37	21	39424526	39424526	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:39424526delA								KCNJ6 (135830 upstream) : DSCR4 (1788 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	40250362	40250363	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:40250362_40250363delAA								ETS2 (53486 upstream) : PSMG1 (297027 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	21	40483675	40483676	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:40483675_40483676delAC								ETS2 (286799 upstream) : PSMG1 (63714 downstream)																																			---	---	---	---
PSMG1	8624	broad.mit.edu	37	21	40553531	40553531	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:40553531delA	uc002yxi.2	-						PSMG1_uc002yxj.2_Intron|PSMG1_uc010gob.2_Intron	NM_003720	NP_003711			Down syndrome critical region protein 2 isoform						proteasome assembly	endoplasmic reticulum	protein binding				0		Prostate(19;8.44e-08)																---	---	---	---
DSCAM	1826	broad.mit.edu	37	21	41997692	41997692	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:41997692delA	uc002yyq.1	-						DSCAM_uc002yyr.1_Intron	NM_001389	NP_001380			Down syndrome cell adhesion molecule isoform						cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)																---	---	---	---
Unknown	0	broad.mit.edu	37	21	42503367	42503368	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:42503367_42503368delGT								DSCAM (284328 upstream) : C21orf130 (10059 downstream)																																			---	---	---	---
BACE2	25825	broad.mit.edu	37	21	42598165	42598165	+	Intron	DEL	T	-	-	rs72030128		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:42598165delT	uc002yyw.2	+						BACE2_uc002yyx.2_Intron|BACE2_uc002yyy.2_Intron	NM_012105	NP_036237			beta-site APP-cleaving enzyme 2 isoform A						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)																---	---	---	---
PKNOX1	5316	broad.mit.edu	37	21	44393368	44393368	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44393368delT	uc002zcq.1	+						PKNOX1_uc002zcp.1_5'Flank|PKNOX1_uc011aex.1_5'Flank	NM_004571	NP_004562			PBX/knotted 1 homeobox 1								sequence-specific DNA binding			large_intestine(2)	2																		---	---	---	---
PKNOX1	5316	broad.mit.edu	37	21	44424359	44424360	+	Intron	DEL	AT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44424359_44424360delAT	uc002zcq.1	+						PKNOX1_uc002zcp.1_Intron|PKNOX1_uc011aex.1_Intron|PKNOX1_uc002zcr.2_5'Flank	NM_004571	NP_004562			PBX/knotted 1 homeobox 1								sequence-specific DNA binding			large_intestine(2)	2																		---	---	---	---
CBS	875	broad.mit.edu	37	21	44492285	44492285	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44492285delG	uc002zcu.2	-	3	264	c.19delC	c.(19-21)CAGfs	p.Q7fs	CBS_uc002zct.2_Frame_Shift_Del_p.Q7fs|CBS_uc002zcw.3_Frame_Shift_Del_p.Q7fs|CBS_uc002zcv.2_Frame_Shift_Del_p.Q7fs	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	7					cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)													---	---	---	---
Unknown	0	broad.mit.edu	37	21	44756079	44756081	+	IGR	DEL	CAC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44756079_44756081delCAC								CRYAA (163166 upstream) : SIK1 (78317 downstream)																																			---	---	---	---
PDXK	8566	broad.mit.edu	37	21	45170614	45170615	+	Intron	INS	-	TG	TG	rs138835795	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45170614_45170615insTG	uc002zdm.3	+						PDXK_uc010gpj.2_Intron|PDXK_uc002zdn.3_Intron|PDXK_uc002zdq.3_Intron	NM_003681	NP_003672			pyridoxal kinase						cell proliferation|pyridoxal 5'-phosphate salvage	cytosol	ATP binding|lithium ion binding|magnesium ion binding|potassium ion binding|protein homodimerization activity|pyridoxal kinase activity|pyridoxal phosphate binding|sodium ion binding|zinc ion binding				0				Colorectal(79;0.109)|READ - Rectum adenocarcinoma(84;0.161)|STAD - Stomach adenocarcinoma(101;0.18)	Pyridoxal(DB00147)|Pyridoxine(DB00165)													---	---	---	---
TRAPPC10	7109	broad.mit.edu	37	21	45434265	45434265	+	Intron	DEL	T	-	-	rs66469677		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45434265delT	uc002zea.2	+						TRAPPC10_uc010gpo.2_Intron|TRAPPC10_uc002zdz.2_Intron	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																		---	---	---	---
C21orf29	54084	broad.mit.edu	37	21	45936488	45936489	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45936488_45936489insA	uc002zfe.1	-						C21orf29_uc010gpv.1_Intron|C21orf90_uc002zff.3_5'Flank|C21orf90_uc002zfg.3_5'Flank	NM_144991	NP_659428			chromosome 21 open reading frame 29 precursor						cell adhesion	extracellular region	structural molecule activity				0																		---	---	---	---
KRTAP10-9	386676	broad.mit.edu	37	21	46047615	46047615	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46047615delC	uc002zfp.3	+	1	576	c.527delC	c.(526-528)TCCfs	p.S176fs	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198690	NP_941963	P60411	KR109_HUMAN	keratin associated protein 10-9	176	16.|25 X 5 AA repeats of C-C-X(3).					keratin filament					0																		---	---	---	---
PTTG1IP	754	broad.mit.edu	37	21	46271692	46271692	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46271692delT	uc002zgb.1	-						PTTG1IP_uc011afj.1_Intron|PTTG1IP_uc011afk.1_Intron	NM_004339	NP_004330			pituitary tumor-transforming gene 1						protein import into nucleus	cytoplasm|integral to membrane|nucleus				ovary(1)	1				Colorectal(79;0.0659)														---	---	---	---
Unknown	0	broad.mit.edu	37	21	46821275	46821275	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46821275delT								LOC642852 (104007 upstream) : COL18A1 (3822 downstream)																																			---	---	---	---
COL6A2	1292	broad.mit.edu	37	21	47544496	47544496	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47544496delG	uc002zia.1	+						COL6A2_uc002zhy.1_Intron|COL6A2_uc002zhz.1_Intron|COL6A2_uc002zib.1_Intron|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840			alpha 2 type VI collagen isoform 2C2 precursor						axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)														---	---	---	---
PCNT	5116	broad.mit.edu	37	21	47833896	47833896	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47833896delT	uc002zji.3	+						PCNT_uc002zjj.2_Intron	NM_006031	NP_006022			pericentrin						cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)																	---	---	---	---
DIP2A	23181	broad.mit.edu	37	21	47923415	47923415	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47923415delC	uc002zjo.2	+						DIP2A_uc011afy.1_Intron|DIP2A_uc011afz.1_Intron|DIP2A_uc002zjl.2_Intron|DIP2A_uc002zjm.2_Intron|DIP2A_uc010gql.2_Intron|DIP2A_uc002zjn.2_Intron|DIP2A_uc002zjp.1_5'Flank	NM_015151	NP_055966			disco-interacting protein 2A isoform a						multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)														---	---	---	---
DIP2A	23181	broad.mit.edu	37	21	47965032	47965032	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47965032delT	uc002zjo.2	+						DIP2A_uc011afy.1_Intron|DIP2A_uc011afz.1_Intron|DIP2A_uc002zjl.2_Intron|DIP2A_uc002zjm.2_Intron|DIP2A_uc010gql.2_Intron|DIP2A_uc002zjn.2_Intron|DIP2A_uc002zjp.1_Intron|DIP2A_uc002zjq.2_Intron	NM_015151	NP_055966			disco-interacting protein 2A isoform a						multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)														---	---	---	---
Unknown	0	broad.mit.edu	37	21	48084988	48084988	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:48084988delA								PRMT2 (126 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	16206154	16206154	+	IGR	DEL	T	-	-	rs5746305		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:16206154delT								None (None upstream) : POTEH (50178 downstream)																																			---	---	---	---
POTEH	23784	broad.mit.edu	37	22	16289841	16289843	+	5'Flank	DEL	AAA	-	-	rs111299449		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:16289841_16289843delAAA	uc010gqp.2	-						POTEH_uc002zlg.1_5'Flank|POTEH_uc002zlh.1_5'Flank|POTEH_uc002zlj.1_5'Flank	NM_001136213	NP_001129685			ANKRD26-like family C, member 3											skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	22	16312252	16312252	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:16312252delG								POTEH (24315 upstream) : OR11H1 (136574 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	16394028	16394028	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:16394028delT								POTEH (106091 upstream) : OR11H1 (54798 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	16691266	16691267	+	IGR	DEL	GG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:16691266_16691267delGG								OR11H1 (241462 upstream) : CCT8L2 (380381 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	17046751	17046751	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17046751delA								OR11H1 (596947 upstream) : CCT8L2 (24897 downstream)																																			---	---	---	---
CCT8L2	150160	broad.mit.edu	37	22	17075872	17075872	+	5'Flank	DEL	A	-	-	rs148690764		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17075872delA	uc002zlp.1	-							NM_014406	NP_055221			T-complex protein 1						cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)																---	---	---	---
psiTPTE22	387590	broad.mit.edu	37	22	17116171	17116171	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17116171delT	uc002zls.1	+						psiTPTE22_uc002zlr.2_Intron|psiTPTE22_uc002zlt.2_Intron					Homo sapiens cDNA FLJ10437 fis, clone NT2RP1000581.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	22	17240024	17240025	+	IGR	INS	-	T	T	rs141066862	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17240024_17240025insT								psiTPTE22 (60503 upstream) : XKR3 (24288 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	17310900	17310901	+	IGR	DEL	CA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17310900_17310901delCA								HSFYL1 (675 upstream) : GAB4 (131928 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	17388696	17388696	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17388696delA								HSFYL1 (78471 upstream) : GAB4 (54133 downstream)																																			---	---	---	---
CECR1	51816	broad.mit.edu	37	22	17673720	17673721	+	Intron	DEL	AA	-	-	rs35262317		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17673720_17673721delAA	uc002zmk.1	-						CECR1_uc010gqu.1_Intron|CECR1_uc011agi.1_Intron|CECR1_uc011agj.1_Intron|CECR1_uc002zmj.1_Intron	NM_017424	NP_059120			cat eye syndrome critical region protein 1						adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)																---	---	---	---
Unknown	0	broad.mit.edu	37	22	17807223	17807224	+	IGR	INS	-	A	A	rs140792954		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17807223_17807224insA								CECR1 (104485 upstream) : CECR2 (33615 downstream)																																			---	---	---	---
BCL2L13	23786	broad.mit.edu	37	22	18185939	18185940	+	Intron	DEL	AC	-	-	rs66571114		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:18185939_18185940delAC	uc002zmw.2	+						BCL2L13_uc002zmu.2_3'UTR|BCL2L13_uc002zmv.2_3'UTR|BCL2L13_uc002zmx.2_Intron|BCL2L13_uc002zmy.2_Intron|BCL2L13_uc010gqy.2_Intron|BCL2L13_uc011agk.1_Intron|BCL2L13_uc010gqz.2_Intron|BCL2L13_uc002zmz.2_Intron	NM_015367	NP_056182			BCL2-like 13 (apoptosis facilitator)						induction of apoptosis	integral to membrane|mitochondrial membrane|nucleus	caspase activator activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4		all_epithelial(15;0.123)		Lung(27;0.199)														---	---	---	---
MICAL3	57553	broad.mit.edu	37	22	18510245	18510245	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:18510245delT	uc002zng.3	-						MICAL3_uc002znh.2_5'Flank|MICAL3_uc010grf.2_5'Flank|MICAL3_uc011agm.1_5'Flank|FLJ41941_uc002zno.1_5'Flank	NM_015241	NP_056056			microtubule associated monoxygenase, calponin							cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)														---	---	---	---
Unknown	0	broad.mit.edu	37	22	18843613	18843613	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:18843613delG	uc002zoe.2	+											Homo sapiens cDNA FLJ76361 complete cds.																														---	---	---	---
PRODH	5625	broad.mit.edu	37	22	18924558	18924558	+	5'Flank	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:18924558delT	uc010grl.2	-						PRODH_uc002zoj.3_5'Flank|PRODH_uc002zol.3_5'Flank|PRODH_uc002zok.3_5'Flank	NM_016335	NP_057419			proline dehydrogenase 1						glutamate biosynthetic process|induction of apoptosis by oxidative stress|proline catabolic process	mitochondrial inner membrane|mitochondrial matrix	proline dehydrogenase activity			breast(1)	1					L-Proline(DB00172)													---	---	---	---
DGCR5	26220	broad.mit.edu	37	22	19015240	19015240	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19015240delC	uc002zon.1	+											Homo sapiens mRNA for KIAA1647 protein, partial cds.												0																		---	---	---	---
DGCR2	9993	broad.mit.edu	37	22	19027231	19027232	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19027231_19027232insT	uc002zoq.1	-						DGCR2_uc002zor.1_Intron|DGCR2_uc011agr.1_Intron	NM_005137	NP_005128			integral membrane protein DGCR2 precursor						cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)																	---	---	---	---
Unknown	0	broad.mit.edu	37	22	19151185	19151185	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19151185delT								GSC2 (13389 upstream) : SLC25A1 (11910 downstream)																																			---	---	---	---
CLTCL1	8218	broad.mit.edu	37	22	19273966	19273967	+	Intron	INS	-	C	C	rs148788554	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19273966_19273967insC	uc002zpb.2	-						CLTCL1_uc011agv.1_Intron|CLTCL1_uc011agw.1_Intron	NM_007098	NP_009029			clathrin, heavy polypeptide-like 1 isoform 1						anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)							T	?	ALCL								---	---	---	---
Unknown	0	broad.mit.edu	37	22	19573350	19573350	+	IGR	DEL	T	-	-	rs66519446		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19573350delT								LOC150185 (18988 upstream) : SEPT5 (128637 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	19583568	19583569	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19583568_19583569insT								LOC150185 (29206 upstream) : SEPT5 (118418 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	19619566	19619566	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19619566delT								LOC150185 (65204 upstream) : SEPT5 (82421 downstream)																																	OREG0026299	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
TBX1	6899	broad.mit.edu	37	22	19749657	19749657	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19749657delT	uc002zqb.2	+						TBX1_uc002zqa.1_Intron|TBX1_uc002zqc.2_Intron	NM_080646	NP_542377			T-box 1 isoform A						embryonic viscerocranium morphogenesis|heart development|parathyroid gland development|pharyngeal system development|regulation of transcription from RNA polymerase II promoter|soft palate development|thymus development	nucleus	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)	2	Colorectal(54;0.0993)	all_lung(157;3.05e-06)																---	---	---	---
KLHL22	84861	broad.mit.edu	37	22	20822381	20822382	+	Intron	INS	-	AGGT	AGGT	rs147864360	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:20822381_20822382insAGGT	uc002zsl.1	-						KLHL22_uc011ahr.1_Intron|KLHL22_uc002zsm.1_Intron	NM_032775	NP_116164			kelch-like						cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	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)															---	---	---	---
MED15	51586	broad.mit.edu	37	22	20911859	20911860	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:20911859_20911860delTT	uc002zsp.2	+						MED15_uc002zsn.1_Intron|MED15_uc002zso.2_Intron|MED15_uc002zsq.2_Intron|MED15_uc010gso.2_Intron|MED15_uc002zsr.2_Intron|MED15_uc011ahs.1_Intron|MED15_uc011aht.1_Intron|MED15_uc002zss.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)															---	---	---	---
PI4KA	5297	broad.mit.edu	37	22	21074571	21074571	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21074571delT	uc002zsz.3	-						PI4KA_uc010gsp.2_Intron|PI4KA_uc002zsy.3_Intron	NM_058004	NP_477352			phosphatidylinositol 4-kinase type 3 alpha						phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)															---	---	---	---
PI4KA	5297	broad.mit.edu	37	22	21110092	21110094	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21110092_21110094delAAA	uc002zsz.3	-							NM_058004	NP_477352			phosphatidylinositol 4-kinase type 3 alpha						phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)															---	---	---	---
PI4KA	5297	broad.mit.edu	37	22	21172117	21172117	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21172117delA	uc002zsz.3	-						PI4KA_uc010gsq.1_Intron	NM_058004	NP_477352			phosphatidylinositol 4-kinase type 3 alpha						phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)															---	---	---	---
SLC7A4	6545	broad.mit.edu	37	22	21389151	21389151	+	5'Flank	DEL	A	-	-	rs79766347		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21389151delA	uc002zud.2	-						SLC7A4_uc002zue.2_5'Flank|MIR649_hsa-mir-649|MI0003664_5'Flank	NM_004173	NP_004164			solute carrier family 7 (cationic amino acid						cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)													---	---	---	---
Unknown	0	broad.mit.edu	37	22	21494724	21494725	+	IGR	INS	-	T	T	rs77177020		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21494724_21494725insT								LOC400891 (76269 upstream) : POM121L8P (141989 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	22230475	22230475	+	IGR	DEL	T	-	-	rs34059154		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22230475delT								MAPK1 (8505 upstream) : PPM1F (43318 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	22260692	22260692	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22260692delT								MAPK1 (38722 upstream) : PPM1F (13101 downstream)																																			---	---	---	---
LOC96610	96610	broad.mit.edu	37	22	22952798	22952798	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22952798delA	uc011aim.1	+											Parts of antibodies, mostly variable regions.												0																		---	---	---	---
BCR	613	broad.mit.edu	37	22	23616242	23616242	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:23616242delT	uc002zww.2	+						BCR_uc002zwx.2_Intron|BCR_uc011aiy.1_Intron|BCR_uc010gtx.1_Intron	NM_004327	NP_004318			breakpoint cluster region isoform 1						regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12								T	ABL1| FGFR1|JAK2 	CML|ALL|AML								---	---	---	---
Unknown	0	broad.mit.edu	37	22	23712779	23712780	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:23712779_23712780delAA								BCR (52556 upstream) : ZDHHC8P1 (20013 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	23979994	23979994	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:23979994delA								C22orf43 (5507 upstream) : LOC91316 (683 downstream)																																			---	---	---	---
MMP11	4320	broad.mit.edu	37	22	24125123	24125124	+	Intron	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24125123_24125124insG	uc002zxx.2	+						MMP11_uc002zxy.2_Intron|MMP11_uc002zxz.2_Intron	NM_005940	NP_005931			matrix metalloproteinase 11 preproprotein						collagen catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|large_intestine(1)	3		Medulloblastoma(6;9.86e-08)|all_neural(6;0.000318)																---	---	---	---
MMP11	4320	broad.mit.edu	37	22	24125452	24125452	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24125452delT	uc002zxx.2	+						MMP11_uc002zxy.2_Intron|MMP11_uc002zxz.2_Intron	NM_005940	NP_005931			matrix metalloproteinase 11 preproprotein						collagen catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|large_intestine(1)	3		Medulloblastoma(6;9.86e-08)|all_neural(6;0.000318)																---	---	---	---
MIF	4282	broad.mit.edu	37	22	24235750	24235751	+	5'Flank	INS	-	CATT	CATT	rs142590767	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24235750_24235751insCATT	uc002zyr.1	+						MIF_uc011aje.1_5'Flank	NM_002415	NP_002406			macrophage migration inhibitory factor						cell proliferation|cell surface receptor linked signaling pathway|inflammatory response|innate immune response|negative regulation of apoptosis|negative regulation of cell aging|negative regulation of cell cycle arrest|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of gene expression|positive regulation of B cell proliferation|positive regulation of cytokine secretion|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase A signaling cascade|prostaglandin biosynthetic process|protein homotrimerization|regulation of macrophage activation	cell surface|cytoplasm|extracellular space	cell surface binding|chemoattractant activity|cytokine activity|cytokine receptor binding|dopachrome isomerase activity|phenylpyruvate tautomerase activity				0																		---	---	---	---
GSTT1	2952	broad.mit.edu	37	22	24383670	24383671	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24383670_24383671delTT	uc002zze.3	-						GSTT1_uc002zzf.3_Intron|GSTT1_uc010gug.2_Intron|GSTT1_uc011ajl.1_Intron|GSTT1_uc010guh.2_Intron|GSTT1_uc010gui.1_Intron	NM_000853	NP_000844			glutathione S-transferase theta 1						glutathione metabolic process	cytosol|soluble fraction	glutathione peroxidase activity|glutathione transferase activity			ovary(1)	1					Glutathione(DB00143)									Myelodysplasia_and_Acute_Myeloid_Leukemia_(AML)_Familial				---	---	---	---
SGSM1	129049	broad.mit.edu	37	22	25231008	25231008	+	Intron	DEL	C	-	-	rs139642	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:25231008delC	uc003abg.2	+						SGSM1_uc003abh.2_Intron|SGSM1_uc010guu.1_Intron|SGSM1_uc003abj.2_Intron|SGSM1_uc003abf.2_Intron	NM_001039948	NP_001035037			RUN and TBC1 domain containing 2 isoform 1							Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5																		---	---	---	---
CRYBB3	1417	broad.mit.edu	37	22	25596416	25596417	+	Intron	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:25596416_25596417delGA	uc003abo.1	+							NM_004076	NP_004067			crystallin, beta B3						visual perception		protein binding|structural constituent of eye lens				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	22	25849189	25849192	+	Intron	DEL	TATC	-	-	rs150971955		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:25849189_25849192delTATC	uc003abt.2	+						uc003abu.2_Intron|uc003abv.2_5'Flank					Homo sapiens cDNA clone IMAGE:3542716, partial cds.																														---	---	---	---
ADRBK2	157	broad.mit.edu	37	22	26066474	26066474	+	Intron	DEL	A	-	-	rs11363963		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26066474delA	uc003abx.3	+						ADRBK2_uc010gux.2_Intron|ADRBK2_uc003abw.2_Intron|ADRBK2_uc003aby.3_Intron	NM_005160	NP_005151			beta-adrenergic receptor kinase 2								ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity			lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)													---	---	---	---
Unknown	0	broad.mit.edu	37	22	26532221	26532221	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26532221delA								MYO18B (105214 upstream) : SEZ6L (33259 downstream)																																			---	---	---	---
SEZ6L	23544	broad.mit.edu	37	22	26735209	26735209	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26735209delA	uc003acb.2	+						SEZ6L_uc003acc.2_Intron|SEZ6L_uc011akc.1_Intron|SEZ6L_uc003acd.2_Intron|SEZ6L_uc011akd.1_Intron|SEZ6L_uc003ace.2_Intron|SEZ6L_uc003acf.1_Intron|SEZ6L_uc010gvc.1_Intron	NM_021115	NP_066938			seizure related 6 homolog (mouse)-like							endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6																		---	---	---	---
SEZ6L	23544	broad.mit.edu	37	22	26736200	26736200	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26736200delA	uc003acb.2	+						SEZ6L_uc003acc.2_Intron|SEZ6L_uc011akc.1_Intron|SEZ6L_uc003acd.2_Intron|SEZ6L_uc011akd.1_Intron|SEZ6L_uc003ace.2_Intron|SEZ6L_uc003acf.1_Intron|SEZ6L_uc010gvc.1_Intron	NM_021115	NP_066938			seizure related 6 homolog (mouse)-like							endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6																		---	---	---	---
SEZ6L	23544	broad.mit.edu	37	22	26737239	26737239	+	Intron	DEL	A	-	-	rs113865144		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26737239delA	uc003acb.2	+						SEZ6L_uc003acc.2_Intron|SEZ6L_uc011akc.1_Intron|SEZ6L_uc003acd.2_Intron|SEZ6L_uc011akd.1_Intron|SEZ6L_uc003ace.2_Intron|SEZ6L_uc003acf.1_Intron|SEZ6L_uc010gvc.1_Intron	NM_021115	NP_066938			seizure related 6 homolog (mouse)-like							endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6																		---	---	---	---
Unknown	0	broad.mit.edu	37	22	27298563	27298569	+	IGR	DEL	CTCGCTC	-	-	rs116848153	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:27298563_27298569delCTCGCTC								MIAT (183614 upstream) : MN1 (845697 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	27598340	27598340	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:27598340delT								MIAT (483391 upstream) : MN1 (545926 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	27683034	27683034	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:27683034delA								MIAT (568085 upstream) : MN1 (461232 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	28016184	28016184	+	IGR	DEL	C	-	-	rs34713398		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:28016184delC								MIAT (901235 upstream) : MN1 (128082 downstream)																																			---	---	---	---
TTC28	23331	broad.mit.edu	37	22	28903224	28903224	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:28903224delA	uc003adp.3	-							NM_001145418	NP_001138890			tetratricopeptide repeat domain 28								binding				0																		---	---	---	---
TTC28	23331	broad.mit.edu	37	22	28967962	28967963	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:28967962_28967963delAA	uc003adp.3	-							NM_001145418	NP_001138890			tetratricopeptide repeat domain 28								binding				0																		---	---	---	---
TTC28	23331	broad.mit.edu	37	22	28968368	28968368	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:28968368delA	uc003adp.3	-							NM_001145418	NP_001138890			tetratricopeptide repeat domain 28								binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	22	29219566	29219569	+	IGR	DEL	ACAC	-	-	rs113074198		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:29219566_29219569delACAC								XBP1 (23006 upstream) : ZNRF3 (60321 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	29819372	29819372	+	IGR	DEL	T	-	-	rs67350067		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:29819372delT								AP1B1 (34803 upstream) : RFPL1S (13634 downstream)																																			---	---	---	---
MTMR3	8897	broad.mit.edu	37	22	30353251	30353252	+	Intron	DEL	TA	-	-	rs5763640	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30353251_30353252delTA	uc003agv.3	+						MTMR3_uc003agu.3_Intron|MTMR3_uc003agw.3_Intron	NM_021090	NP_066576			myotubularin-related protein 3 isoform c						phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)															---	---	---	---
MTMR3	8897	broad.mit.edu	37	22	30384736	30384737	+	Intron	DEL	TT	-	-	rs5763672		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30384736_30384737delTT	uc003agv.3	+						MTMR3_uc003agu.3_Intron|MTMR3_uc003agw.3_Intron	NM_021090	NP_066576			myotubularin-related protein 3 isoform c						phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)															---	---	---	---
HORMAD2	150280	broad.mit.edu	37	22	30507905	30507905	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)															---	---	---	---
SF3A1	10291	broad.mit.edu	37	22	30728917	30728919	+	3'UTR	DEL	AAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30728917_30728919delAAG	uc003ahl.2	-	16						NM_005877	NP_005868			splicing factor 3a, subunit 1, 120kDa isoform 1						nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|U2-type spliceosomal complex	protein binding|RNA binding			ovary(3)|large_intestine(1)|pancreas(1)	5																		---	---	---	---
SEC14L3	266629	broad.mit.edu	37	22	30867382	30867382	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30867382delT	uc003ahy.2	-						SEC14L3_uc003ahz.2_Intron|SEC14L3_uc003aia.2_Intron|SEC14L3_uc003aib.2_Intron	NM_174975	NP_777635			SEC14-like 3							integral to membrane|intracellular	lipid binding|transporter activity			ovary(3)|pancreas(1)|skin(1)	5					Vitamin E(DB00163)													---	---	---	---
SEC14L4	284904	broad.mit.edu	37	22	30898713	30898713	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30898713delT	uc003aid.2	-						SEC14L4_uc011akz.1_Intron|SEC14L4_uc003aie.2_Intron|SEC14L4_uc003aif.2_Intron	NM_174977	NP_777637			SEC14p-like protein TAP3 isoform a							integral to membrane|intracellular	lipid binding|transporter activity			skin(1)	1					Vitamin E(DB00163)													---	---	---	---
OSBP2	23762	broad.mit.edu	37	22	31200491	31200491	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31200491delT	uc003aiy.1	+						OSBP2_uc011ala.1_Intron|OSBP2_uc010gwc.1_Intron|OSBP2_uc003aix.1_Intron|OSBP2_uc011alb.1_Intron|OSBP2_uc003aiz.1_Intron|OSBP2_uc003aja.1_Intron	NM_030758	NP_110385			oxysterol binding protein 2 isoform a						lipid transport	membrane	lipid binding			breast(1)|skin(1)	2																		---	---	---	---
OSBP2	23762	broad.mit.edu	37	22	31236197	31236198	+	Intron	DEL	AA	-	-	rs145829486		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31236197_31236198delAA	uc003aiy.1	+						OSBP2_uc011ala.1_Intron|OSBP2_uc010gwc.1_Intron|OSBP2_uc003aix.1_Intron|OSBP2_uc011alb.1_Intron|OSBP2_uc003aiz.1_Intron|OSBP2_uc003aja.1_Intron|OSBP2_uc011alc.1_Intron	NM_030758	NP_110385			oxysterol binding protein 2 isoform a						lipid transport	membrane	lipid binding			breast(1)|skin(1)	2																		---	---	---	---
TUG1	55000	broad.mit.edu	37	22	31367602	31367602	+	RNA	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31367602delT	uc003ajf.1	+	1		c.1969delT			TUG1_uc003ajg.2_RNA|TUG1_uc003ajh.2_RNA|TUG1_uc003aji.2_RNA|TUG1_uc003ajj.2_5'Flank					Homo sapiens cDNA FLJ20618 fis, clone KAT05049.												0																		---	---	---	---
SMTN	6525	broad.mit.edu	37	22	31497462	31497462	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31497462delG	uc003ajl.1	+						SMTN_uc003ajk.1_Intron|SMTN_uc003ajm.1_Intron|SMTN_uc011ale.1_Intron|SMTN_uc011alf.1_Intron|SMTN_uc003ajn.1_Intron|SMTN_uc011alg.1_Intron|SMTN_uc003ajo.1_Intron|SMTN_uc010gwe.1_Intron|SMTN_uc003ajp.1_5'Flank	NM_006932	NP_008863			smoothelin isoform c						muscle organ development|smooth muscle contraction	actin cytoskeleton|cytoplasm	actin binding|structural constituent of muscle			large_intestine(2)|pancreas(1)	3																		---	---	---	---
INPP5J	27124	broad.mit.edu	37	22	31526500	31526501	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31526500_31526501delAA	uc003aju.3	+						INPP5J_uc003ajv.3_Intron|INPP5J_uc003ajs.3_Intron|INPP5J_uc011alk.1_Intron|INPP5J_uc010gwg.2_Intron|INPP5J_uc003ajw.2_Intron|INPP5J_uc003ajt.3_Intron|INPP5J_uc003ajx.2_Intron|INPP5J_uc003ajy.2_Intron|INPP5J_uc003ajz.2_Intron	NM_001002837	NP_001002837			phosphatidylinositol (4,5) bisphosphate							cytoplasm|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|SH3 domain binding			skin(1)	1																		---	---	---	---
RNF185	91445	broad.mit.edu	37	22	31583922	31583924	+	Intron	DEL	TGT	-	-	rs57904256		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31583922_31583924delTGT	uc003akb.2	+						RNF185_uc010gwh.2_Intron|RNF185_uc011alm.1_Intron|RNF185_uc003akc.2_Intron|RNF185_uc003ake.2_Intron	NM_152267	NP_689480			ring finger protein 185 isoform 1							integral to membrane	zinc ion binding				0																		---	---	---	---
SFI1	9814	broad.mit.edu	37	22	31972621	31972621	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31972621delT	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																		---	---	---	---
C22orf30	253143	broad.mit.edu	37	22	32082591	32082591	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:32082591delT	uc003alp.3	-						C22orf30_uc003alo.1_Intron|C22orf30_uc010gwj.1_Intron	NM_173566	NP_775837			hypothetical protein LOC253143												0																		---	---	---	---
C22orf42	150297	broad.mit.edu	37	22	32546963	32546963	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:32546963delA	uc003amd.2	-							NM_001010859	NP_001010859			chromosome 22 open reading frame 42											ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	22	32562636	32562636	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:32562636delA								C22orf42 (7393 upstream) : RFPL2 (23786 downstream)																																			---	---	---	---
C22orf28	51493	broad.mit.edu	37	22	32795551	32795551	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:32795551delA	uc003amm.2	-						C22orf28_uc011ama.1_Intron	NM_014306	NP_055121			hypothetical protein LOC51493						cell-matrix adhesion|substrate adhesion-dependent cell spreading|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|tRNA-splicing ligase complex	ATP binding|metal ion binding|RNA ligase (ATP) activity|vinculin binding				0																		---	---	---	---
SYN3	8224	broad.mit.edu	37	22	32999185	32999185	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:32999185delC	uc003amx.2	-						SYN3_uc003amy.2_Intron|SYN3_uc003amz.2_Intron	NM_003490	NP_003481			synapsin III isoform IIIa						neurotransmitter secretion	cell junction|synaptic vesicle membrane	ATP binding|ligase activity			skin(1)	1																		---	---	---	---
SYN3	8224	broad.mit.edu	37	22	33034949	33034949	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:33034949delT	uc003amx.2	-						SYN3_uc003amy.2_Intron|SYN3_uc003amz.2_Intron	NM_003490	NP_003481			synapsin III isoform IIIa						neurotransmitter secretion	cell junction|synaptic vesicle membrane	ATP binding|ligase activity			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	22	33459235	33459235	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:33459235delT								SYN3 (4858 upstream) : LARGE (209828 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	33635522	33635527	+	IGR	DEL	TTTTTT	-	-	rs143703639		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:33635522_33635527delTTTTTT								SYN3 (181145 upstream) : LARGE (33536 downstream)																																			---	---	---	---
LARGE	9215	broad.mit.edu	37	22	33903431	33903431	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:33903431delA	uc003and.3	-						LARGE_uc011amd.1_Intron|LARGE_uc003ane.3_Intron|LARGE_uc010gwp.2_Intron|LARGE_uc011ame.1_Intron|LARGE_uc011amf.1_Intron|LARGE_uc010gwq.1_Intron	NM_004737	NP_004728			like-glycosyltransferase						glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)																---	---	---	---
LARGE	9215	broad.mit.edu	37	22	33970443	33970443	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:33970443delT	uc003and.3	-						LARGE_uc011amd.1_5'Flank|LARGE_uc003ane.3_Intron|LARGE_uc010gwp.2_Intron|LARGE_uc011ame.1_Intron|LARGE_uc011amf.1_Intron|LARGE_uc010gwq.1_5'Flank	NM_004737	NP_004728			like-glycosyltransferase						glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)																---	---	---	---
LARGE	9215	broad.mit.edu	37	22	34003543	34003543	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:34003543delA	uc003and.3	-						LARGE_uc003ane.3_Intron|LARGE_uc010gwp.2_Intron|LARGE_uc011ame.1_Intron|LARGE_uc011amf.1_Intron	NM_004737	NP_004728			like-glycosyltransferase						glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)																---	---	---	---
LARGE	9215	broad.mit.edu	37	22	34012522	34012522	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:34012522delA	uc003and.3	-						LARGE_uc003ane.3_Intron|LARGE_uc010gwp.2_Intron|LARGE_uc011ame.1_Intron|LARGE_uc011amf.1_Intron	NM_004737	NP_004728			like-glycosyltransferase						glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)																---	---	---	---
LARGE	9215	broad.mit.edu	37	22	34246895	34246895	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:34246895delA	uc003and.3	-						LARGE_uc003ane.3_Intron|LARGE_uc010gwp.2_Intron|LARGE_uc011ame.1_Intron|LARGE_uc011amf.1_Intron	NM_004737	NP_004728			like-glycosyltransferase						glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)																---	---	---	---
Unknown	0	broad.mit.edu	37	22	34459454	34459454	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:34459454delA								LARGE (140870 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	34710101	34710101	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:34710101delT								LARGE (391517 upstream) : ISX (752028 downstream)																																			---	---	---	---
HMOX1	3162	broad.mit.edu	37	22	35784807	35784807	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:35784807delA	uc003ant.1	+							NM_002133	NP_002124			heme oxygenase (decyclizing) 1						angiogenesis|anti-apoptosis|cell death|cellular iron ion homeostasis|endothelial cell proliferation|erythrocyte homeostasis|heme catabolic process|heme oxidation|intracellular protein kinase cascade|low-density lipoprotein particle clearance|negative regulation of leukocyte migration|negative regulation of smooth muscle cell proliferation|positive regulation of chemokine biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of smooth muscle cell proliferation|protein homooligomerization|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hydrogen peroxide|response to nicotine|smooth muscle hyperplasia|transmembrane transport|wound healing involved in inflammatory response	endoplasmic reticulum membrane|extracellular space|microsome	enzyme binding|heme binding|heme oxygenase (decyclizing) activity|protein homodimerization activity|signal transducer activity			ovary(1)	1					NADH(DB00157)													---	---	---	---
Unknown	0	broad.mit.edu	37	22	35895953	35895954	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:35895953_35895954insT								MCM5 (75459 upstream) : RASD2 (41398 downstream)																																			---	---	---	---
RBM9	23543	broad.mit.edu	37	22	36184440	36184440	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36184440delC	uc003aon.3	-						RBM9_uc003aog.3_Intron|RBM9_uc003aol.3_Intron|RBM9_uc003aoj.3_Intron|RBM9_uc003aok.3_Intron|RBM9_uc003aoh.3_Intron|RBM9_uc003aom.3_Intron|RBM9_uc010gwu.2_Intron|RBM9_uc003aoo.3_Intron|RBM9_uc003aop.3_Intron	NM_001082578	NP_001076047			RNA binding motif protein 9 isoform 5						estrogen receptor signaling pathway|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of cell proliferation|RNA splicing	cytoplasm|nucleus	nucleotide binding|RNA binding|transcription corepressor activity|transcription factor binding				0																		---	---	---	---
RBM9	23543	broad.mit.edu	37	22	36319653	36319653	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36319653delT	uc003aon.3	-						RBM9_uc010gwu.2_Intron|RBM9_uc003aoo.3_Intron	NM_001082578	NP_001076047			RNA binding motif protein 9 isoform 5						estrogen receptor signaling pathway|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of cell proliferation|RNA splicing	cytoplasm|nucleus	nucleotide binding|RNA binding|transcription corepressor activity|transcription factor binding				0																		---	---	---	---
RBM9	23543	broad.mit.edu	37	22	36383006	36383006	+	Intron	DEL	T	-	-	rs75910515		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36383006delT	uc003aon.3	-						RBM9_uc003aoo.3_Intron	NM_001082578	NP_001076047			RNA binding motif protein 9 isoform 5						estrogen receptor signaling pathway|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of cell proliferation|RNA splicing	cytoplasm|nucleus	nucleotide binding|RNA binding|transcription corepressor activity|transcription factor binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	22	36438687	36438687	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36438687delT								RBM9 (14102 upstream) : APOL3 (97685 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	36607741	36607742	+	IGR	INS	-	GG	GG	rs146832622	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36607741_36607742insGG								APOL4 (6862 upstream) : APOL2 (14514 downstream)																																			---	---	---	---
MYH9	4627	broad.mit.edu	37	22	36744887	36744887	+	Intron	DEL	C	-	-	rs56147525		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36744887delC	uc003apg.2	-						MYH9_uc003api.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				---	---	---	---
CACNG2	10369	broad.mit.edu	37	22	37059086	37059086	+	Intron	DEL	A	-	-	rs112291671		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37059086delA	uc003aps.1	-							NM_006078	NP_006069			voltage-dependent calcium channel gamma-2						membrane depolarization|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	protein binding|voltage-gated calcium channel activity				0																		---	---	---	---
CACNG2	10369	broad.mit.edu	37	22	37084426	37084426	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37084426delA	uc003aps.1	-							NM_006078	NP_006069			voltage-dependent calcium channel gamma-2						membrane depolarization|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	protein binding|voltage-gated calcium channel activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	22	38184641	38184642	+	IGR	INS	-	AACA	AACA	rs142409308	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38184641_38184642insAACA								TRIOBP (12079 upstream) : H1F0 (16472 downstream)																																			---	---	---	---
EIF3L	51386	broad.mit.edu	37	22	38270142	38270142	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38270142delA	uc003auf.2	+						EIF3L_uc003aue.1_Intron|EIF3L_uc011ann.1_Intron|EIF3L_uc003aug.2_Intron|EIF3L_uc003auh.2_Intron	NM_016091	NP_057175			eukaryotic translation initiation factor 3							eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)	1																		---	---	---	---
PLA2G6	8398	broad.mit.edu	37	22	38556852	38556852	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38556852delA	uc003auy.1	-						PLA2G6_uc003auz.1_Intron|PLA2G6_uc003ava.1_Intron|PLA2G6_uc003avb.2_Intron|PLA2G6_uc010gxk.1_Intron|PLA2G6_uc011ano.1_Intron	NM_003560	NP_003551			phospholipase A2, group VI isoform a						cardiolipin biosynthetic process|cell death|lipid catabolic process	centrosome|membrane				ovary(1)	1	Melanoma(58;0.045)				Quinacrine(DB01103)													---	---	---	---
TMEM184B	25829	broad.mit.edu	37	22	38632495	38632495	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38632495delT	uc003avf.1	-						TMEM184B_uc003avg.1_Intron|TMEM184B_uc003avh.1_Intron|TMEM184B_uc010gxl.1_Intron	NM_012264	NP_036396			transmembrane protein 184B							integral to membrane					0	Melanoma(58;0.045)																	---	---	---	---
Unknown	0	broad.mit.edu	37	22	38676837	38676837	+	IGR	DEL	C	-	-	rs11704002	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38676837delC								TMEM184B (7821 upstream) : CSNK1E (9861 downstream)																																			---	---	---	---
CSNK1E	1454	broad.mit.edu	37	22	38737203	38737203	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38737203delT	uc003avm.1	-						LOC400927_uc010gxm.2_Intron	NM_152221	NP_689407			casein kinase 1 epsilon						DNA repair|G2/M transition of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|signal transduction	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)	3	Melanoma(58;0.045)																	---	---	---	---
APOBEC3F	200316	broad.mit.edu	37	22	39437909	39437910	+	Intron	INS	-	A	A	rs35632133		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:39437909_39437910insA	uc003aww.2	+						APOBEC3F_uc003awv.2_Intron|APOBEC3F_uc011aog.1_Intron	NM_145298	NP_660341			apolipoprotein B mRNA editing enzyme, catalytic						base conversion or substitution editing|DNA cytosine deamination|innate immune response|interspecies interaction between organisms|negative regulation of retroviral genome replication|negative regulation of transposition|positive regulation of defense response to virus by host|response to virus|viral reproduction	apolipoprotein B mRNA editing enzyme complex|cytosol|mitochondrion	cytidine deaminase activity|dCTP deaminase activity|protein homodimerization activity|RNA binding|zinc ion binding				0	Melanoma(58;0.04)																	---	---	---	---
CACNA1I	8911	broad.mit.edu	37	22	39971786	39971786	+	Intron	DEL	T	-	-	rs67493157		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:39971786delT	uc003ayc.2	+						CACNA1I_uc003ayd.2_Intron	NM_021096	NP_066919			calcium channel, voltage-dependent, T type,						axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)													---	---	---	---
TNRC6B	23112	broad.mit.edu	37	22	40620511	40620511	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:40620511delT	uc011aor.1	+						TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Intron	NM_001162501	NP_001155973			trinucleotide repeat containing 6B isoform 1						gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0																		---	---	---	---
TNRC6B	23112	broad.mit.edu	37	22	40633833	40633834	+	Intron	INS	-	G	G	rs149011083	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:40633833_40633834insG	uc011aor.1	+						TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Intron	NM_001162501	NP_001155973			trinucleotide repeat containing 6B isoform 1						gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0																		---	---	---	---
SLC25A17	10478	broad.mit.edu	37	22	41190622	41190622	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41190622delA	uc003azc.2	-						SLC25A17_uc010gyg.2_Intron|SLC25A17_uc011aou.1_Intron|SLC25A17_uc003azd.2_Intron|SLC25A17_uc011aov.1_Intron	NM_006358	NP_006349			solute carrier family 25 (mitochondrial carrier;						fatty acid alpha-oxidation	integral to plasma membrane|mitochondrial inner membrane|peroxisomal membrane	adenine nucleotide transmembrane transporter activity|protein binding				0																		---	---	---	---
XPNPEP3	63929	broad.mit.edu	37	22	41264850	41264850	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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																		---	---	---	---
XPNPEP3	63929	broad.mit.edu	37	22	41334245	41334245	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41334245delT	uc011aoy.1	+							NM_022098				X-prolyl aminopeptidase (aminopeptidase P) 3,						cellular process	mitochondrion	aminopeptidase activity|manganese ion binding|metallopeptidase activity				0																		---	---	---	---
RANGAP1	5905	broad.mit.edu	37	22	41665092	41665092	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41665092delT	uc003azs.2	-						RANGAP1_uc003azt.2_Intron|RANGAP1_uc003azu.2_Intron|RANGAP1_uc011aoz.1_Intron	NM_002883	NP_002874			Ran GTPase activating protein 1						mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	22	42643446	42643448	+	IGR	DEL	AAA	-	-	rs66696047		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:42643446_42643448delAAA								TCF20 (32001 upstream) : NFAM1 (132967 downstream)																																			---	---	---	---
PACSIN2	11252	broad.mit.edu	37	22	43364292	43364292	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43364292delT	uc003bdg.3	-							NM_007229	NP_009160			protein kinase C and casein kinase substrate in						actin cytoskeleton organization|endocytosis	cytoplasmic membrane-bounded vesicle	transporter activity				0		Glioma(61;0.222)																---	---	---	---
Unknown	0	broad.mit.edu	37	22	43426872	43426873	+	IGR	INS	-	T	T	rs150187451	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43426872_43426873insT								PACSIN2 (15721 upstream) : TTLL1 (8651 downstream)																																			---	---	---	---
SCUBE1	80274	broad.mit.edu	37	22	43606359	43606359	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43606359delC	uc003bdt.1	-							NM_173050	NP_766638			signal peptide, CUB domain, EGF-like 1						adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)																---	---	---	---
SCUBE1	80274	broad.mit.edu	37	22	43732964	43732965	+	Intron	DEL	TG	-	-	rs34868094		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43732964_43732965delTG	uc003bdt.1	-						SCUBE1_uc003bdu.1_Intron	NM_173050	NP_766638			signal peptide, CUB domain, EGF-like 1						adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)																---	---	---	---
EFCAB6	64800	broad.mit.edu	37	22	44123313	44123314	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44123313_44123314insA	uc003bdy.1	-						EFCAB6_uc003bdz.1_Intron|EFCAB6_uc010gzi.1_Intron|EFCAB6_uc010gzk.1_Intron|EFCAB6_uc011aqa.1_Intron|EFCAB6_uc003bea.1_Intron|EFCAB6_uc003beb.3_Intron	NM_022785	NP_073622			CAP-binding protein complex interacting protein						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)																---	---	---	---
EFCAB6	64800	broad.mit.edu	37	22	44158928	44158928	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44158928delT	uc003bdy.1	-						EFCAB6_uc003bdz.1_Intron|EFCAB6_uc010gzi.1_Intron|EFCAB6_uc011aqa.1_Intron|EFCAB6_uc003bea.1_Intron|EFCAB6_uc003beb.3_Intron	NM_022785	NP_073622			CAP-binding protein complex interacting protein						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)																---	---	---	---
SAMM50	25813	broad.mit.edu	37	22	44371821	44371821	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44371821delA	uc003bej.2	+						SAMM50_uc011aqd.1_Intron|SAMM50_uc003bek.2_5'UTR	NM_015380	NP_056195			sorting and assembly machinery component 50						protein import into mitochondrial outer membrane	integral to membrane|integral to membrane of membrane fraction|mitochondrial sorting and assembly machinery complex	protein binding			skin(1)	1		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)																---	---	---	---
KIAA1644	85352	broad.mit.edu	37	22	44696728	44696728	+	Intron	DEL	C	-	-	rs71330744		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44696728delC	uc003bet.2	-							NM_001099294	NP_001092764			hypothetical protein LOC85352 precursor							integral to membrane				ovary(1)	1		all_neural(38;0.0762)|Ovarian(80;0.105)|Glioma(61;0.222)																---	---	---	---
Unknown	0	broad.mit.edu	37	22	45015311	45015312	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45015311_45015312delGT								NCRNA00207 (46982 upstream) : PRR5 (49281 downstream)																																			---	---	---	---
PRR5-ARHGAP8	553158	broad.mit.edu	37	22	45164347	45164348	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45164347_45164348delTT	uc003bfd.2	+						PRR5-ARHGAP8_uc003bfc.2_Intron|PRR5-ARHGAP8_uc011aqi.1_Intron|PRR5-ARHGAP8_uc011aqj.1_Intron|ARHGAP8_uc003bfi.2_Intron|ARHGAP8_uc010gzv.2_Intron|ARHGAP8_uc003bfj.2_Intron|ARHGAP8_uc003bfk.2_Intron|PRR5-ARHGAP8_uc003bfg.1_Intron	NM_181335	NP_851852			Rho GTPase activating protein 8 isoform 2											skin(2)	2																		---	---	---	---
PRR5-ARHGAP8	553158	broad.mit.edu	37	22	45168046	45168046	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45168046delT	uc003bfd.2	+						PRR5-ARHGAP8_uc003bfc.2_Intron|PRR5-ARHGAP8_uc011aqi.1_Intron|PRR5-ARHGAP8_uc011aqj.1_Intron|ARHGAP8_uc003bfi.2_Intron|ARHGAP8_uc010gzv.2_Intron|ARHGAP8_uc003bfj.2_Intron|ARHGAP8_uc003bfk.2_Intron|PRR5-ARHGAP8_uc003bfg.1_Intron	NM_181335	NP_851852			Rho GTPase activating protein 8 isoform 2											skin(2)	2																		---	---	---	---
PHF21B	112885	broad.mit.edu	37	22	45381484	45381484	+	Intron	DEL	A	-	-	rs79359763		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45381484delA	uc003bfn.2	-						PHF21B_uc003bfm.2_Intron|PHF21B_uc011aqk.1_Intron|PHF21B_uc011aql.1_Intron|PHF21B_uc011aqm.1_Intron	NM_138415	NP_612424			PHD finger protein 21B isoform 1								zinc ion binding			ovary(2)|skin(1)	3		all_neural(38;0.00802)|Glioma(61;0.0353)|Ovarian(80;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0203)														---	---	---	---
Unknown	0	broad.mit.edu	37	22	45676118	45676122	+	IGR	DEL	GTTTT	-	-	rs2350626	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45676118_45676122delGTTTT								C22orf9 (39468 upstream) : UPK3A (4767 downstream)																																			---	---	---	---
SMC1B	27127	broad.mit.edu	37	22	45754477	45754477	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45754477delA	uc003bgc.2	-						SMC1B_uc003bgd.2_Intron	NM_148674	NP_683515			SMC1 structural maintenance of chromosomes						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)														---	---	---	---
Unknown	0	broad.mit.edu	37	22	45885635	45885635	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45885635delA								RIBC2 (57342 upstream) : FBLN1 (13084 downstream)																																			---	---	---	---
WNT7B	7477	broad.mit.edu	37	22	46362822	46362823	+	Intron	INS	-	T	T	rs143193956	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46362822_46362823insT	uc003bgo.2	-						WNT7B_uc010haa.2_Intron	NM_058238	NP_478679			wingless-type MMTV integration site family,						activation of JUN kinase activity|anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|central nervous system vasculogenesis|chorio-allantoic fusion|developmental growth involved in morphogenesis|embryonic placenta morphogenesis|establishment or maintenance of polarity of embryonic epithelium|fibroblast proliferation|forebrain regionalization|inner medullary collecting duct development|lens fiber cell development|lobar bronchus development|lung epithelium development|lung morphogenesis|lung-associated mesenchyme development|mammary gland epithelium development|metanephric collecting duct development|metanephric loop of Henle development|metanephros morphogenesis|negative regulation of smoothened signaling pathway|outer medullary collecting duct development|oxygen homeostasis|positive regulation of JNK cascade|positive regulation of osteoblast differentiation|renal inner medulla development|renal outer medulla development|stem cell proliferation|synapse organization|trachea cartilage morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled binding|signal transducer activity			lung(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|LUAD - Lung adenocarcinoma(64;0.247)														---	---	---	---
LOC400931	400931	broad.mit.edu	37	22	46464583	46464584	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46464583_46464584delTT	uc003bgr.3	+											SubName: Full=FLJ27365 protein, isoform CRA_a; SubName: Full=Novel transcript;												0																		---	---	---	---
LOC400931	400931	broad.mit.edu	37	22	46489262	46489262	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46489262delT	uc003bgr.3	+						LOC400931_uc003bgu.2_Intron|LOC400931_uc003bgt.3_Intron					SubName: Full=FLJ27365 protein, isoform CRA_a; SubName: Full=Novel transcript;												0																		---	---	---	---
CELSR1	9620	broad.mit.edu	37	22	46794393	46794393	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46794393delC	uc003bhw.1	-						CELSR1_uc011arc.1_Intron	NM_014246	NP_055061			cadherin EGF LAG seven-pass G-type receptor 1						central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)														---	---	---	---
CELSR1	9620	broad.mit.edu	37	22	46854319	46854319	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46854319delC	uc003bhw.1	-							NM_014246	NP_055061			cadherin EGF LAG seven-pass G-type receptor 1						central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)														---	---	---	---
CELSR1	9620	broad.mit.edu	37	22	46925163	46925163	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46925163delA	uc003bhw.1	-							NM_014246	NP_055061			cadherin EGF LAG seven-pass G-type receptor 1						central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)														---	---	---	---
Unknown	0	broad.mit.edu	37	22	47010757	47010758	+	IGR	DEL	CA	-	-	rs67259334		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:47010757_47010758delCA								CELSR1 (77690 upstream) : GRAMD4 (11900 downstream)																																			---	---	---	---
CERK	64781	broad.mit.edu	37	22	47091435	47091435	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:47091435delT	uc003bia.2	-						CERK_uc010hae.2_Intron	NM_022766	NP_073603			ceramide kinase						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|ceramide metabolic process	integral to membrane of membrane fraction|membrane|nucleus	ATP binding|ceramide kinase activity|diacylglycerol kinase activity|magnesium ion binding			skin(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)														---	---	---	---
TBC1D22A	25771	broad.mit.edu	37	22	47186443	47186443	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:47186443delT	uc003bib.2	+						TBC1D22A_uc010haf.2_Intron|TBC1D22A_uc003bic.2_Intron|TBC1D22A_uc003bie.2_Intron|TBC1D22A_uc003bid.2_Intron|TBC1D22A_uc010hag.2_Intron|TBC1D22A_uc003bif.2_Intron	NM_014346	NP_055161			TBC1 domain family, member 22A							intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)														---	---	---	---
TBC1D22A	25771	broad.mit.edu	37	22	47475430	47475430	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:47475430delA	uc003bib.2	+						TBC1D22A_uc010haf.2_Intron|TBC1D22A_uc003bic.2_Intron|TBC1D22A_uc003bie.2_Intron|TBC1D22A_uc003bid.2_Intron|TBC1D22A_uc010hag.2_Intron|TBC1D22A_uc003bif.2_Intron	NM_014346	NP_055161			TBC1 domain family, member 22A							intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)														---	---	---	---
Unknown	0	broad.mit.edu	37	22	47926383	47926383	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:47926383delA								TBC1D22A (356661 upstream) : FAM19A5 (958905 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	48323331	48323331	+	IGR	DEL	G	-	-	rs35851502		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:48323331delG								TBC1D22A (753609 upstream) : FAM19A5 (561957 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	48396688	48396688	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:48396688delG								TBC1D22A (826966 upstream) : FAM19A5 (488600 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	48488329	48488330	+	IGR	INS	-	A	A	rs112912029		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:48488329_48488330insA								TBC1D22A (918607 upstream) : FAM19A5 (396958 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	48794349	48794349	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:48794349delC								None (None upstream) : FAM19A5 (90939 downstream)																																			---	---	---	---
FAM19A5	25817	broad.mit.edu	37	22	49100013	49100014	+	Intron	DEL	CA	-	-	rs4925447		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:49100013_49100014delCA	uc003bim.3	+						FAM19A5_uc003bio.3_Intron	NM_001082967	NP_001076436			family with sequence similarity 19 (chemokine							extracellular region|integral to membrane				large_intestine(1)	1		all_cancers(38;2.95e-11)|all_epithelial(38;3.07e-10)|all_lung(38;2.89e-05)|Breast(42;0.000396)|Lung NSC(38;0.000471)|Ovarian(80;0.00934)|Lung SC(80;0.195)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0227)|BRCA - Breast invasive adenocarcinoma(115;0.119)														---	---	---	---
C22orf34	348645	broad.mit.edu	37	22	49850027	49850027	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:49850027delT	uc003biq.2	-											Homo sapiens cDNA FLJ42972 fis, clone BRSTN2019129.												0																		---	---	---	---
BRD1	23774	broad.mit.edu	37	22	50185826	50185826	+	Intron	DEL	A	-	-	rs11290240		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50185826delA	uc003biv.2	-						BRD1_uc011arf.1_Intron|BRD1_uc011arg.1_Intron|BRD1_uc011arh.1_Intron|BRD1_uc003biu.3_Intron	NM_014577	NP_055392			bromodomain containing protein 1						histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)														---	---	---	---
Unknown	0	broad.mit.edu	37	22	50776602	50776603	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50776602_50776603delGT								FAM116B (11113 upstream) : SAPS2 (5157 downstream)																																			---	---	---	---
SAPS2	9701	broad.mit.edu	37	22	50841639	50841639	+	Intron	DEL	A	-	-	rs77926794		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50841639delA	uc003blb.1	+						SAPS2_uc003bky.1_Intron|SAPS2_uc003bkz.1_Intron|SAPS2_uc003blc.2_Intron|SAPS2_uc003bla.1_Intron	NM_014678	NP_055493			SAPS domain family, member 2							cytoplasm|intracellular membrane-bounded organelle	protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.222)														---	---	---	---
NCAPH2	29781	broad.mit.edu	37	22	50956724	50956724	+	Intron	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50956724delG	uc003blr.3	+						NCAPH2_uc003blq.3_Intron|NCAPH2_uc003blv.2_Intron|NCAPH2_uc010hbb.2_Intron|NCAPH2_uc003blu.3_Intron|NCAPH2_uc003bls.3_Intron|NCAPH2_uc003blt.3_Intron|NCAPH2_uc003blw.3_Intron|NCAPH2_uc003blx.3_Intron|NCAPH2_uc003bly.3_Intron	NM_152299	NP_689512			kleisin beta isoform 2						chromosome condensation	chromosome|nucleus				ovary(1)|skin(1)	2		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;0.212)														---	---	---	---
Unknown	0	broad.mit.edu	37	X	417919	417920	+	IGR	INS	-	AT	AT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:417919_417920insAT								PPP2R3B (70292 upstream) : SHOX (167159 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	425952	425952	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:425952delT								PPP2R3B (78325 upstream) : SHOX (159127 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	486848	486850	+	IGR	DEL	AAG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:486848_486850delAAG								PPP2R3B (139221 upstream) : SHOX (98229 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	499807	499807	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:499807delA								PPP2R3B (152180 upstream) : SHOX (85272 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	537560	537560	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:537560delT								PPP2R3B (189933 upstream) : SHOX (47519 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	845624	845625	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:845624_845625insT								SHOX (225479 upstream) : CRLF2 (469262 downstream)																																			---	---	---	---
ASMT	438	broad.mit.edu	37	X	1747825	1747826	+	Intron	INS	-	TC	TC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1747825_1747826insTC	uc004cqd.2	+						ASMT_uc010ncy.2_Intron|ASMT_uc004cqe.2_Intron	NM_004043	NP_004034			acetylserotonin O-methyltransferase						melatonin biosynthetic process|translation	cytosol	acetylserotonin O-methyltransferase activity|S-methyltransferase activity			skin(1)	1		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)																---	---	---	---
DHRSX	207063	broad.mit.edu	37	X	2145628	2145629	+	Intron	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2145628_2145629insA	uc004cqf.3	-							NM_145177	NP_660160			dehydrogenase/reductase (SDR family) X-linked								binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)																---	---	---	---
DHRSX	207063	broad.mit.edu	37	X	2209751	2209752	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2209751_2209752delTT	uc004cqf.3	-							NM_145177	NP_660160			dehydrogenase/reductase (SDR family) X-linked								binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)																---	---	---	---
DHRSX	207063	broad.mit.edu	37	X	2324485	2324485	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2324485delT	uc004cqf.3	-							NM_145177	NP_660160			dehydrogenase/reductase (SDR family) X-linked								binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)																---	---	---	---
Unknown	0	broad.mit.edu	37	X	2583202	2583205	+	RNA	DEL	CCTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2583202_2583205delCCTT	uc004cql.2	+	1		c.858_861delCCTT								Homo sapiens cDNA FLJ39679 fis, clone SMINT2010068.																														---	---	---	---
Unknown	0	broad.mit.edu	37	X	2583923	2583923	+	RNA	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2583923delC	uc004cql.2	+	1		c.1579delC								Homo sapiens cDNA FLJ39679 fis, clone SMINT2010068.																														---	---	---	---
CD99	4267	broad.mit.edu	37	X	2632012	2632012	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2632012delT	uc004cqm.2	+						CD99_uc010nda.2_Intron|CD99_uc004cqn.2_Intron|CD99_uc004cqo.2_Intron	NM_002414	NP_002405			CD99 antigen isoform a precursor						cell adhesion	cytoplasm|integral to plasma membrane				skin(1)	1																		---	---	---	---
MXRA5	25878	broad.mit.edu	37	X	3240185	3240185	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:3240185delA	uc004crg.3	-	5	3698	c.3541delT	c.(3541-3543)TCTfs	p.S1181fs		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1181						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)																---	---	---	---
Unknown	0	broad.mit.edu	37	X	5324107	5324107	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:5324107delA								None (None upstream) : NLGN4X (483977 downstream)																																			---	---	---	---
NLGN4X	57502	broad.mit.edu	37	X	5947478	5947478	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:5947478delA	uc010ndh.2	-						NLGN4X_uc004crp.2_Intron|NLGN4X_uc004crq.2_Intron|NLGN4X_uc010ndi.2_Intron|NLGN4X_uc004crr.2_Intron|NLGN4X_uc010ndj.2_Intron	NM_181332	NP_851849			X-linked neuroligin 4 precursor						brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	8712207	8712208	+	IGR	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:8712207_8712208delAA								KAL1 (11980 upstream) : FAM9A (46631 downstream)																																			---	---	---	---
FAM9A	171482	broad.mit.edu	37	X	8763306	8763307	+	In_Frame_Ins	INS	-	CTG	CTG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:8763306_8763307insCTG	uc004csg.2	-	7	754_755	c.643_644insCAG	c.(643-645)GAA>GCAGAA	p.214_215insA		NM_174951	NP_777611	Q8IZU1	FAM9A_HUMAN	family with sequence similarity 9, member A	214_215	Glu-rich.					nucleolus					0		Hepatocellular(5;0.219)																---	---	---	---
FAM9A	171482	broad.mit.edu	37	X	8764320	8764320	+	Frame_Shift_Del	DEL	T	-	-	rs1985393		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:8764320delT	uc004csg.2	-	6	588	c.477delA	c.(475-477)AAAfs	p.K159fs		NM_174951	NP_777611	Q8IZU1	FAM9A_HUMAN	family with sequence similarity 9, member A	159						nucleolus					0		Hepatocellular(5;0.219)																---	---	---	---
AMELX	265	broad.mit.edu	37	X	11318840	11318840	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:11318840delA	uc004cut.2	+	6					ARHGAP6_uc004cup.1_Intron|ARHGAP6_uc004cuo.1_Intron|ARHGAP6_uc004cur.1_Intron|ARHGAP6_uc004cun.1_Intron|ARHGAP6_uc011mif.1_Intron|AMELX_uc004cus.2_3'UTR|AMELX_uc004cuu.2_3'UTR	NM_001142	NP_001133			amelogenin (X chromosome) isoform 1 precursor						cell adhesion|cell proliferation|chondrocyte differentiation|enamel mineralization|epithelial to mesenchymal transition|ion homeostasis|odontogenesis of dentine-containing tooth|osteoblast differentiation|positive regulation of collagen biosynthetic process|positive regulation of tooth mineralization|signal transduction	proteinaceous extracellular matrix	cell surface binding|growth factor activity|hydroxyapatite binding|identical protein binding|structural constituent of tooth enamel				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	12133751	12133751	+	IGR	DEL	T	-	-	rs112736959		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:12133751delT								MSL3 (339881 upstream) : FRMPD4 (22834 downstream)																																			---	---	---	---
GPM6B	2824	broad.mit.edu	37	X	13792851	13792851	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:13792851delT	uc004cvz.2	-						GPM6B_uc004cvx.2_Intron|GPM6B_uc011min.1_Intron|GPM6B_uc004cwa.2_Intron|GPM6B_uc004cvw.2_Intron|GPM6B_uc011mim.1_Intron|GPM6B_uc004cvy.2_Intron	NM_005278	NP_005269			glycoprotein M6B isoform 3						cell differentiation|nervous system development	integral to membrane					0																		---	---	---	---
CA5B	11238	broad.mit.edu	37	X	15790676	15790676	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:15790676delG	uc004cxe.2	+	4	515	c.398delG	c.(397-399)TGGfs	p.W133fs		NM_007220	NP_009151	Q9Y2D0	CAH5B_HUMAN	carbonic anhydrase VB, mitochondrial precursor	133					one-carbon metabolic process	mitochondrion	carbonate dehydratase activity|zinc ion binding				0	Hepatocellular(33;0.183)																	---	---	---	---
Unknown	0	broad.mit.edu	37	X	16385457	16385457	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:16385457delT								GRPR (213817 upstream) : CTPS2 (220667 downstream)																																			---	---	---	---
CTPS2	56474	broad.mit.edu	37	X	16688837	16688837	+	Intron	DEL	T	-	-	rs72340997		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:16688837delT	uc004cxk.2	-						CTPS2_uc004cxl.2_Intron|CTPS2_uc004cxm.2_Intron	NM_001144002	NP_001137474			cytidine triphosphate synthase II						glutamine metabolic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine nucleotide biosynthetic process	cytosol	ATP binding|CTP synthase activity			ovary(1)	1	Hepatocellular(33;0.0997)																	---	---	---	---
TXLNG	55787	broad.mit.edu	37	X	16859492	16859492	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:16859492delT	uc004cxq.1	+						TXLNG_uc010ney.1_Intron	NM_018360	NP_060830			gamma-taxilin						cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane				lung(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	17999166	17999166	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:17999166delT								RAI2 (119709 upstream) : BEND2 (181887 downstream)																																			---	---	---	---
SCML2	10389	broad.mit.edu	37	X	18260725	18260725	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:18260725delA	uc004cyl.2	-						SCML2_uc004cyk.3_Intron|SCML2_uc010nfd.1_Intron|SCML2_uc011miz.1_Intron|SCML2_uc010nfc.2_Intron	NM_006089	NP_006080			sex comb on midleg-like 2						anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)																	---	---	---	---
SCML2	10389	broad.mit.edu	37	X	18278429	18278429	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:18278429delA	uc004cyl.2	-						SCML2_uc004cyk.3_Intron|SCML2_uc010nfd.1_Intron|SCML2_uc011miz.1_Intron|SCML2_uc010nfc.2_Intron	NM_006089	NP_006080			sex comb on midleg-like 2						anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)																	---	---	---	---
CDKL5	6792	broad.mit.edu	37	X	18597856	18597856	+	Intron	DEL	A	-	-	rs12013924		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:18597856delA	uc004cym.2	+						CDKL5_uc004cyn.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)																	---	---	---	---
CDKL5	6792	broad.mit.edu	37	X	18664273	18664273	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:18664273delT	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)																	---	---	---	---
PPEF1	5475	broad.mit.edu	37	X	18748213	18748213	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:18748213delT	uc004cyq.2	+						PPEF1_uc004cyp.2_Intron|PPEF1_uc004cyr.2_Intron|PPEF1_uc004cys.2_Intron|PPEF1_uc011mja.1_Intron|PPEF1_uc011mjb.1_5'Flank	NM_006240	NP_006231			protein phosphatase with EF hand calcium-binding						detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)																	---	---	---	---
PPEF1	5475	broad.mit.edu	37	X	18791887	18791888	+	Intron	INS	-	CT	CT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:18791887_18791888insCT	uc004cyq.2	+						PPEF1_uc004cyp.2_Intron|PPEF1_uc004cyr.2_Intron|PPEF1_uc004cys.2_Intron|PPEF1_uc011mja.1_Intron|PPEF1_uc011mjb.1_Intron	NM_006240	NP_006231			protein phosphatase with EF hand calcium-binding						detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)																	---	---	---	---
SH3KBP1	30011	broad.mit.edu	37	X	19817976	19817977	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:19817976_19817977insT	uc004czm.2	-						SH3KBP1_uc004czl.2_5'Flank	NM_031892	NP_114098			SH3-domain kinase binding protein 1 isoform a						apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0																		---	---	---	---
RPS6KA3	6197	broad.mit.edu	37	X	20253005	20253007	+	Intron	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:20253005_20253007delAAA	uc004czu.2	-						RPS6KA3_uc004czv.2_Intron|RPS6KA3_uc011mjl.1_Intron|RPS6KA3_uc011mjm.1_Intron	NM_004586	NP_004577			ribosomal protein S6 kinase, 90kDa, polypeptide						axon guidance|central nervous system development|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|skeletal system development|stress-activated MAPK cascade|synaptic transmission|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|caspase inhibitor activity|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(4)|stomach(1)|ovary(1)|lung(1)|breast(1)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	20847873	20847873	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:20847873delA								RPS6KA3 (562350 upstream) : CNKSR2 (545107 downstream)																																			---	---	---	---
CNKSR2	22866	broad.mit.edu	37	X	21613201	21613201	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:21613201delT	uc004czx.1	+						CNKSR2_uc004czw.2_Intron|CNKSR2_uc011mjn.1_Intron|CNKSR2_uc011mjo.1_Intron|CNKSR2_uc004czy.2_Intron	NM_014927	NP_055742			connector enhancer of kinase suppressor of Ras						regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2																		---	---	---	---
MBTPS2	51360	broad.mit.edu	37	X	21900384	21900384	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:21900384delT	uc004dae.2	+						MBTPS2_uc010nfr.2_Intron	NM_015884	NP_056968			membrane-bound transcription factor peptidase,						cholesterol metabolic process|proteolysis	Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	22271277	22271277	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:22271277delG								PHEX (4801 upstream) : ZNF645 (19783 downstream)																																			---	---	---	---
CXorf58	254158	broad.mit.edu	37	X	23945136	23945136	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:23945136delA	uc004daz.1	+						CXorf58_uc011mju.1_Intron	NM_152761	NP_689974			hypothetical protein LOC254158												0																		---	---	---	---
ZFX	7543	broad.mit.edu	37	X	24225363	24225366	+	Intron	DEL	TTTT	-	-	rs62796264		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:24225363_24225366delTTTT	uc004dbf.2	+						ZFX_uc004dbd.1_Intron|ZFX_uc010nfx.1_Intron|ZFX_uc004dbe.2_Intron|ZFX_uc011mjv.1_Intron|ZFX_uc010nfy.1_Intron|ZFX_uc010nfz.2_5'Flank	NM_003410	NP_003401			zinc finger protein, X-linked						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	24302739	24302739	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:24302739delT								ZFX (70112 upstream) : FAM48B2 (26241 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	26857464	26857464	+	IGR	DEL	A	-	-	rs75552732		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:26857464delA								VENTXP1 (278296 upstream) : SMEK3P (620864 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	27509866	27509866	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:27509866delT								SMEK3P (28408 upstream) : DCAF8L2 (255060 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	30781433	30781434	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:30781433_30781434insA								GK (32709 upstream) : TAB3 (64126 downstream)																																			---	---	---	---
DMD	1756	broad.mit.edu	37	X	31139543	31139544	+	3'UTR	INS	-	TG	TG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:31139543_31139544insTG	uc004dda.1	-	79					DMD_uc004dcq.1_3'UTR|DMD_uc004dcr.1_3'UTR|DMD_uc004dcs.1_3'UTR|DMD_uc004dct.1_3'UTR|DMD_uc004dcu.1_3'UTR|DMD_uc004dcv.1_3'UTR|DMD_uc004dcw.2_3'UTR|DMD_uc004dcx.2_3'UTR|DMD_uc004dcz.2_3'UTR|DMD_uc004dcy.1_3'UTR|DMD_uc004ddb.1_3'UTR|DMD_uc004dcm.1_3'UTR|DMD_uc004dcn.1_3'UTR|DMD_uc004dco.1_3'UTR|DMD_uc004dcp.1_3'UTR|DMD_uc011mkb.1_3'UTR	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)																---	---	---	---
DMD	1756	broad.mit.edu	37	X	31227807	31227808	+	Frame_Shift_Del	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:31227807_31227808delAA	uc004dda.1	-	65	9614_9615	c.9370_9371delTT	c.(9370-9372)TTGfs	p.L3124fs	DMD_uc004dcq.1_Frame_Shift_Del_p.L395fs|DMD_uc004dcr.1_Frame_Shift_Del_p.L664fs|DMD_uc004dcs.1_Frame_Shift_Del_p.L664fs|DMD_uc004dct.1_Frame_Shift_Del_p.L664fs|DMD_uc004dcu.1_Frame_Shift_Del_p.L664fs|DMD_uc004dcv.1_Frame_Shift_Del_p.L664fs|DMD_uc004dcw.2_Frame_Shift_Del_p.L1780fs|DMD_uc004dcx.2_Frame_Shift_Del_p.L1783fs|DMD_uc004dcz.2_Frame_Shift_Del_p.L3001fs|DMD_uc004dcy.1_Frame_Shift_Del_p.L3120fs|DMD_uc004ddb.1_Frame_Shift_Del_p.L3116fs|DMD_uc004dcm.1_Frame_Shift_Del_p.L56fs|DMD_uc004dcn.1_Frame_Shift_Del_p.L56fs|DMD_uc004dco.1_Frame_Shift_Del_p.L56fs|DMD_uc004dcp.1_Frame_Shift_Del_p.L56fs|DMD_uc011mkb.1_Frame_Shift_Del_p.L56fs|DMD_uc010ngm.2_Frame_Shift_Del_p.L56fs	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3124	Interaction with SYNM (By similarity).				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)																---	---	---	---
DMD	1756	broad.mit.edu	37	X	31950371	31950371	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:31950371delT	uc004dda.1	-						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|DMD_uc010ngo.1_Intron|DMD_uc010ngn.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)																---	---	---	---
Unknown	0	broad.mit.edu	37	X	33795856	33795856	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:33795856delT								DMD (438130 upstream) : FAM47A (352019 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	35077922	35077922	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:35077922delT								FAM47B (114888 upstream) : MAGEB16 (738537 downstream)																																			---	---	---	---
CXorf22	170063	broad.mit.edu	37	X	35969868	35969869	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:35969868_35969869insT	uc004ddj.2	+						CXorf22_uc010ngv.2_Intron	NM_152632	NP_689845			hypothetical protein LOC170063											large_intestine(1)|lung(1)|ovary(1)	3																		---	---	---	---
RPGR	6103	broad.mit.edu	37	X	38144668	38144668	+	3'UTR	DEL	T	-	-	rs66997072		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:38144668delT	uc004ded.1	-	15					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																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	38325836	38325836	+	IGR	DEL	T	-	-	rs66969033		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:38325836delT								OTC (45134 upstream) : TSPAN7 (94895 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	39731934	39731934	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:39731934delT								None (None upstream) : BCOR (178567 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	39906068	39906068	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:39906068delT								None (None upstream) : BCOR (4433 downstream)																																			---	---	---	---
BCOR	54880	broad.mit.edu	37	X	39913265	39913265	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:39913265delA	uc004den.3	-	14	5142	c.4850delT	c.(4849-4851)TTAfs	p.L1617fs	BCOR_uc004dep.3_Frame_Shift_Del_p.L1583fs|BCOR_uc004deo.3_Frame_Shift_Del_p.L1565fs|BCOR_uc010nhb.2_Frame_Shift_Del_p.L325fs|BCOR_uc004dem.3_Frame_Shift_Del_p.L1583fs	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	1617					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4																		---	---	---	---
MED14	9282	broad.mit.edu	37	X	40540221	40540221	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:40540221delA	uc004dex.3	-							NM_004229	NP_004220			mediator complex subunit 14						androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4																		---	---	---	---
MED14	9282	broad.mit.edu	37	X	40569406	40569407	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:40569406_40569407insT	uc004dex.3	-						MED14_uc010nhe.1_Intron	NM_004229	NP_004220			mediator complex subunit 14						androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4																		---	---	---	---
USP9X	8239	broad.mit.edu	37	X	41031402	41031402	+	Intron	DEL	A	-	-	rs143523515		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:41031402delA	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																		---	---	---	---
USP9X	8239	broad.mit.edu	37	X	41043387	41043387	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:41043387delT	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																		---	---	---	---
USP9X	8239	broad.mit.edu	37	X	41084468	41084468	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:41084468delT	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																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	41182355	41182355	+	IGR	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:41182355delG								USP9X (86525 upstream) : DDX3X (10296 downstream)																																			---	---	---	---
CASK	8573	broad.mit.edu	37	X	41429005	41429005	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:41429005delA	uc004dfl.3	-						CASK_uc004dfj.3_Intron|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																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	43366395	43366396	+	IGR	INS	-	AC	AC	rs3073470		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:43366395_43366396insAC								PPP1R2P9 (728909 upstream) : MAOA (149013 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	44671129	44671131	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:44671129_44671131delTTT								FUNDC1 (268908 upstream) : DUSP21 (32118 downstream)																																			---	---	---	---
KDM6A	7403	broad.mit.edu	37	X	44896871	44896872	+	Intron	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:44896871_44896872insT	uc004dge.3	+						KDM6A_uc010nhk.2_Intron|KDM6A_uc011mkz.1_Intron|KDM6A_uc011mla.1_Intron|KDM6A_uc011mlb.1_Intron|KDM6A_uc011mlc.1_Intron	NM_021140	NP_066963			ubiquitously transcribed tetratricopeptide						histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen	p.0(2)|p.?(1)		kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84								D|N|F|S		renal|oesophageal SCC|MM								---	---	---	---
KDM6A	7403	broad.mit.edu	37	X	44935878	44935880	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:44935878_44935880delTTT	uc004dge.3	+						KDM6A_uc010nhk.2_Intron|KDM6A_uc011mkz.1_Intron|KDM6A_uc011mla.1_Intron|KDM6A_uc011mlb.1_Intron|KDM6A_uc011mlc.1_Intron|KDM6A_uc011mld.1_Intron	NM_021140	NP_066963			ubiquitously transcribed tetratricopeptide						histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84								D|N|F|S		renal|oesophageal SCC|MM								---	---	---	---
KDM6A	7403	broad.mit.edu	37	X	44938317	44938317	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:44938317delA	uc004dge.3	+						KDM6A_uc010nhk.2_Intron|KDM6A_uc011mkz.1_Intron|KDM6A_uc011mla.1_Intron|KDM6A_uc011mlb.1_Intron|KDM6A_uc011mlc.1_Intron|KDM6A_uc011mld.1_Intron	NM_021140	NP_066963			ubiquitously transcribed tetratricopeptide						histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84								D|N|F|S		renal|oesophageal SCC|MM								---	---	---	---
RGN	9104	broad.mit.edu	37	X	46945238	46945238	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:46945238delA	uc004dgz.1	+						RGN_uc004dha.1_Intron|RGN_uc010nho.1_Intron|RGN_uc010nhp.1_Intron	NM_152869	NP_690608			regucalcin						cellular calcium ion homeostasis|positive regulation of ATPase activity|regulation of calcium-mediated signaling	cytoplasm|nucleus	calcium ion binding|enzyme regulator activity|gluconolactonase activity|zinc ion binding				0																		---	---	---	---
USP11	8237	broad.mit.edu	37	X	47101826	47101826	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:47101826delT	uc004dhp.2	+						USP11_uc004dhq.2_Intron	NM_004651	NP_004642			ubiquitin specific peptidase 11						protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3																		---	---	---	---
SSX3	10214	broad.mit.edu	37	X	48209231	48209231	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:48209231delT	uc004djd.1	-						SSX3_uc004dje.2_Intron	NM_021014	NP_066294			synovial sarcoma, X breakpoint 3 isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding				0																		---	---	---	---
WDR45	11152	broad.mit.edu	37	X	48933099	48933101	+	In_Frame_Del	DEL	AGG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:48933099_48933101delAGG	uc004dmk.1	-	9	921_923	c.749_751delCCT	c.(748-753)TCCTTC>TTC	p.S250del	PRAF2_uc004dmh.2_5'Flank|PRAF2_uc004dmi.2_5'Flank|PRAF2_uc011mmt.1_In_Frame_Del_p.S148del|WDR45_uc004dmj.1_In_Frame_Del_p.S211del|WDR45_uc004dml.1_In_Frame_Del_p.S251del|WDR45_uc004dmm.1_In_Frame_Del_p.S215del|WDR45_uc010nim.1_Intron|WDR45_uc004dmn.1_In_Frame_Del_p.S141del|WDR45_uc004dmo.1_In_Frame_Del_p.S273del|WDR45_uc004dmp.1_In_Frame_Del_p.S251del	NM_001029896	NP_001025067	Q9Y484	WIPI4_HUMAN	WD repeat domain 45 isoform 2	250	WD 3.				autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1																		---	---	---	---
SPANXN5	494197	broad.mit.edu	37	X	52826254	52826254	+	Intron	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:52826254delC	uc004drc.1	-							NM_001009616	NP_001009616			SPANX family, member N5												0	Ovarian(276;0.236)																	---	---	---	---
IQSEC2	23096	broad.mit.edu	37	X	53267572	53267572	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53267572delT	uc004dsd.2	-						IQSEC2_uc004dsc.2_Intron	NM_001111125	NP_001104595			IQ motif and Sec7 domain 2 isoform1						regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3																		---	---	---	---
UBQLN2	29978	broad.mit.edu	37	X	56592200	56592200	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:56592200delA	uc004dus.2	+	1					UBQLN2_uc011moq.1_3'UTR	NM_013444	NP_038472			ubiquilin 2							cytoplasm|nucleus|plasma membrane	binding			ovary(1)|skin(1)	2																		---	---	---	---
SPIN2A	54466	broad.mit.edu	37	X	57162104	57162104	+	3'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:57162104delT	uc004dvb.2	-	2						NM_019003	NP_061876			spindlin family, member 2						cell cycle|gamete generation						0																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	58287575	58287575	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:58287575delA								ZXDA (350508 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	58545256	58545256	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:58545256delT								ZXDA (608189 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	61793154	61793154	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:61793154delT								None (None upstream) : SPIN4 (773954 downstream)																																			---	---	---	---
FAM123B	139285	broad.mit.edu	37	X	63412648	63412648	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:63412648delA	uc004dvo.2	-	2	792	c.519delT	c.(517-519)TTTfs	p.F173fs		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	173					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)|p.F173fs*36(2)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	65538195	65538197	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:65538195_65538197delAAA								HEPH (50967 upstream) : EDA2R (277286 downstream)																																			---	---	---	---
DLG3	1741	broad.mit.edu	37	X	69722114	69722115	+	Frame_Shift_Del	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:69722114_69722115delCT	uc004dyi.1	+	19	2777_2778	c.2449_2450delCT	c.(2449-2451)CTCfs	p.L817fs	DLG3_uc004dyj.1_Frame_Shift_Del_p.L512fs|DLG3_uc011mpn.1_Frame_Shift_Del_p.L365fs	NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a	817					axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)																	---	---	---	---
TAF1	6872	broad.mit.edu	37	X	70626427	70626427	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:70626427delT	uc004dzu.3	+						BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Intron|TAF1_uc004dzv.3_Intron|TAF1_uc010nld.1_5'Flank|TAF1_uc010nle.1_5'Flank|TAF1_uc010nlf.1_5'Flank|TAF1_uc004dzx.2_5'Flank|TAF1_uc004dzy.2_5'Flank	NM_138923	NP_620278			TBP-associated factor 1 isoform 2						G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)																---	---	---	---
NHSL2	340527	broad.mit.edu	37	X	71264810	71264811	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:71264810_71264811delAA	uc011mqa.1	+							NM_001013627	NP_001013649			NHS-like 2												0	Renal(35;0.156)																	---	---	---	---
PIN4	5303	broad.mit.edu	37	X	71416535	71416537	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:71416535_71416537delTTT	uc004eam.2	+						PIN4_uc004eao.1_Intron	NM_006223	NP_006214			protein (peptidyl-prolyl cis/trans isomerase)						protein folding|rRNA processing	cytoplasm|mitochondrial matrix|mitochondrial matrix|nucleolus|nucleolus|preribosome|spindle|spindle	bent DNA binding|DNA binding|double-stranded DNA binding|peptidyl-prolyl cis-trans isomerase activity				0	Renal(35;0.156)																	---	---	---	---
HDAC8	55869	broad.mit.edu	37	X	71787889	71787889	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:71787889delA	uc004eau.2	-						HDAC8_uc011mqe.1_5'Flank|HDAC8_uc011mqf.1_Intron|HDAC8_uc011mqg.1_Intron|HDAC8_uc011mqh.1_Intron|HDAC8_uc010nlk.1_Intron|HDAC8_uc004eav.2_Intron|HDAC8_uc004eaw.2_Intron	NM_018486	NP_060956			histone deacetylase 8						chromatin assembly or disassembly|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|nuclear chromosome	histone deacetylase activity (H3-K16 specific)|metal ion 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)|transcription factor binding				0	Renal(35;0.156)				Vorinostat(DB02546)													---	---	---	---
PHKA1	5255	broad.mit.edu	37	X	71932855	71932855	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:71932855delT	uc004eax.3	-						PHKA1_uc004eay.3_Intron|PHKA1_uc011mqi.1_Intron	NM_002637	NP_002628			phosphorylase kinase, alpha 1 (muscle) isoform						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)																	---	---	---	---
CHIC1	53344	broad.mit.edu	37	X	72899574	72899574	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:72899574delT	uc004ebk.3	+						CHIC1_uc010nlo.2_Intron|CHIC1_uc011mql.1_Intron|CHIC1_uc004ebl.3_Intron	NM_001039840	NP_001034929			cysteine-rich hydrophobic domain 1							cytoplasmic membrane-bounded vesicle|plasma membrane					0	Renal(35;0.156)																	---	---	---	---
XIST	7503	broad.mit.edu	37	X	73072090	73072091	+	RNA	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73072090_73072091insA	uc004ebm.1	-	1		c.498_499insT				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0																		---	---	---	---
NCRNA00182	100302692	broad.mit.edu	37	X	73393541	73393542	+	Intron	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73393541_73393542delTG	uc010nlq.1	-											Homo sapiens cDNA FLJ33139 fis, clone UTERU1000109.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	73884566	73884567	+	IGR	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73884566_73884567delTT								RLIM (50105 upstream) : KIAA2022 (68125 downstream)																																			---	---	---	---
ABCB7	22	broad.mit.edu	37	X	74273180	74273180	+	3'UTR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:74273180delA	uc004eca.2	-	16					ABCB7_uc004ebz.2_3'UTR|ABCB7_uc011mqn.1_3'UTR|ABCB7_uc010nls.2_3'UTR|ABCB7_uc010nlt.2_3'UTR	NM_004299	NP_004290			ATP-binding cassette, sub-family B, member 7						cellular iron ion homeostasis	integral to membrane|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|heme transporter activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	75462900	75462902	+	IGR	DEL	AAA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:75462900_75462902delAAA								CXorf26 (64867 upstream) : MAGEE1 (185215 downstream)																																			---	---	---	---
ATRX	546	broad.mit.edu	37	X	76920287	76920287	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:76920287delA	uc004ecp.3	-						ATRX_uc004ecq.3_Intron|ATRX_uc004eco.3_Intron|ATRX_uc004ecr.2_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						---	---	---	---
ATRX	546	broad.mit.edu	37	X	76972554	76972554	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:76972554delA	uc004ecp.3	-						ATRX_uc004ecq.3_Intron|ATRX_uc004eco.3_Intron|ATRX_uc004ecr.2_Intron|ATRX_uc010nlx.1_Intron|ATRX_uc010nly.1_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						---	---	---	---
ATP7A	538	broad.mit.edu	37	X	77207080	77207080	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:77207080delT	uc004ecx.3	+						ATP7A_uc004ecv.2_Intron|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																		---	---	---	---
HMGN5	79366	broad.mit.edu	37	X	80370463	80370463	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:80370463delT	uc004eee.1	-	7	863	c.534delA	c.(532-534)AAAfs	p.K178fs		NM_030763	NP_110390	P82970	HMGN5_HUMAN	high-mobility group nucleosome binding domain 5	178					chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin|nucleolus	chromatin binding|DNA binding			lung(1)	1																		---	---	---	---
APOOL	139322	broad.mit.edu	37	X	84309335	84309335	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:84309335delT	uc004eem.2	+						APOOL_uc010nmp.2_Intron	NM_198450	NP_940852			apolipoprotein O-like precursor							extracellular region					0																		---	---	---	---
ZNF711	7552	broad.mit.edu	37	X	84523275	84523284	+	Intron	DEL	TTTTTTTTTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:84523275_84523284delTTTTTTTTTT	uc004eeo.2	+						ZNF711_uc004eep.2_Intron|ZNF711_uc004eeq.2_Intron|ZNF711_uc011mqy.1_Intron	NM_021998	NP_068838			zinc finger protein 711						positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4																		---	---	---	---
CHM	1121	broad.mit.edu	37	X	85134074	85134074	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:85134074delA	uc004eet.2	-						CHM_uc011mqz.1_Intron	NM_000390	NP_000381			choroideremia isoform a						intracellular protein transport|protein geranylgeranylation|response to stimulus|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(1)	1		all_lung(315;5.41e-06)																---	---	---	---
Unknown	0	broad.mit.edu	37	X	88171302	88171303	+	IGR	DEL	GA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:88171302_88171303delGA								CPXCR1 (161519 upstream) : None (None downstream)																																			---	---	---	---
PCDH11X	27328	broad.mit.edu	37	X	91090380	91090380	+	5'UTR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:91090380delT	uc004efk.1	+	1					PCDH11X_uc004efl.1_5'UTR|PCDH11X_uc004efo.1_5'Flank|PCDH11X_uc010nmv.1_5'Flank|PCDH11X_uc004efm.1_5'Flank|PCDH11X_uc004efn.1_5'Flank|PCDH11X_uc004efh.1_Intron|PCDH11X_uc004efj.1_5'UTR	NM_032968	NP_116750			protocadherin 11 X-linked isoform c						homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2																		---	---	---	---
DIAPH2	1730	broad.mit.edu	37	X	95990724	95990724	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:95990724delT	uc004efu.3	+						DIAPH2_uc004eft.3_Intron|DIAPH2_uc004efs.2_Intron	NM_006729	NP_006720			diaphanous 2 isoform 156						cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4																		---	---	---	---
SYTL4	94121	broad.mit.edu	37	X	99930891	99930892	+	3'UTR	DEL	AT	-	-	rs67841104		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:99930891_99930892delAT	uc004egd.3	-	19					SYTL4_uc004egc.2_3'UTR|SYTL4_uc010nnb.2_3'UTR|SYTL4_uc010nnc.2_3'UTR|SYTL4_uc004ege.3_3'UTR|SYTL4_uc004egf.3_3'UTR	NM_080737	NP_542775			synaptotagmin-like 4						exocytosis|intracellular protein transport	extrinsic to membrane|plasma membrane|synaptic vesicle|transport vesicle membrane	neurexin binding|phospholipid binding|Rab GTPase binding|transporter activity|zinc ion binding			ovary(2)	2					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)													---	---	---	---
Unknown	0	broad.mit.edu	37	X	102271780	102271781	+	IGR	DEL	GT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:102271780_102271781delGT								RAB40AL (78553 upstream) : BEX1 (45800 downstream)																																			---	---	---	---
NRK	203447	broad.mit.edu	37	X	105184251	105184251	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:105184251delT	uc004emd.2	+							NM_198465	NP_940867			Nik related kinase								ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14															HNSCC(51;0.14)			---	---	---	---
TBC1D8B	54885	broad.mit.edu	37	X	106070675	106070675	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:106070675delT	uc004emo.2	+						MORC4_uc004emp.3_Intron|TBC1D8B_uc004emm.2_3'UTR|TBC1D8B_uc004emn.2_Intron	NM_017752	NP_060222			TBC1 domain family, member 8B (with GRAM domain)							intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
CXorf41	139212	broad.mit.edu	37	X	106486388	106486388	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:106486388delT	uc004enc.2	+						CXorf41_uc004end.2_Intron	NM_173494	NP_775765			hypothetical protein LOC139212												0																		---	---	---	---
ATG4A	115201	broad.mit.edu	37	X	107377269	107377270	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:107377269_107377270delTT	uc004enr.2	+						ATG4A_uc004ent.2_Intron|ATG4A_uc004ens.2_Intron|ATG4A_uc011msl.1_Intron|ATG4A_uc010npi.2_Intron|ATG4A_uc004enu.2_Intron	NM_052936	NP_443168			autophagy-related cysteine endopeptidase 2						autophagy|protein transport|proteolysis	cytoplasm	cysteine-type peptidase activity			pancreas(1)	1																		---	---	---	---
AMMECR1	9949	broad.mit.edu	37	X	109468198	109468198	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:109468198delA	uc004eoo.2	-						AMMECR1_uc004eop.2_Intron|AMMECR1_uc004eoq.2_Intron	NM_015365	NP_056180			AMMECR1 protein isoform 1												0																		---	---	---	---
CHRDL1	91851	broad.mit.edu	37	X	109987565	109987565	+	Intron	DEL	T	-	-	rs72463163		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:109987565delT	uc004eou.3	-						CHRDL1_uc004eov.2_Intron|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																		---	---	---	---
AMOT	154796	broad.mit.edu	37	X	112023978	112023978	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:112023978delA	uc004eps.2	-						AMOT_uc004epr.2_Intron|AMOT_uc011mtc.1_Intron|hsa-mir-4329|MI0015901_RNA	NM_133265	NP_573572			angiomotin isoform 2						actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	113736014	113736015	+	IGR	DEL	AC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:113736014_113736015delAC								None (None upstream) : HTR2C (82536 downstream)																																			---	---	---	---
LRCH2	57631	broad.mit.edu	37	X	114347948	114347948	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:114347948delA	uc010nqe.2	-						LRCH2_uc004epz.2_Intron	NM_020871	NP_065922			leucine-rich repeats and calponin homology (CH)											ovary(1)	1																		---	---	---	---
AGTR2	186	broad.mit.edu	37	X	115303402	115303402	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:115303402delT	uc004eqh.3	+							NM_000686	NP_000677			angiotensin II receptor, type 2						behavior|blood vessel remodeling|brain development|G-protein signaling, coupled to cGMP nucleotide second messenger|intracellular protein kinase cascade|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of heart rate|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of nitric-oxide synthase activity|positive regulation of phosphoprotein phosphatase activity|positive regulation of vasodilation|regulation of systemic arterial blood pressure by circulatory renin-angiotensin		angiotensin type II receptor activity|receptor antagonist activity			ovary(2)|lung(1)	3																		---	---	---	---
KLHL13	90293	broad.mit.edu	37	X	117079235	117079235	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:117079235delT	uc004eql.2	-						KLHL13_uc004eqk.2_Intron|KLHL13_uc011mtn.1_Intron|KLHL13_uc011mto.1_Intron|KLHL13_uc011mtp.1_Intron|KLHL13_uc004eqm.2_Intron|KLHL13_uc011mtq.1_Intron	NM_033495	NP_277030			kelch-like 13						cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex				kidney(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	117405584	117405584	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:117405584delT								KLHL13 (154796 upstream) : WDR44 (74458 downstream)																																			---	---	---	---
DOCK11	139818	broad.mit.edu	37	X	117700293	117700293	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:117700293delT	uc004eqp.2	+						DOCK11_uc004eqq.2_Intron	NM_144658	NP_653259			dedicator of cytokinesis 11						blood coagulation	cytosol	GTP binding			ovary(3)	3																		---	---	---	---
DOCK11	139818	broad.mit.edu	37	X	117752829	117752829	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:117752829delT	uc004eqp.2	+						DOCK11_uc004eqq.2_Intron	NM_144658	NP_653259			dedicator of cytokinesis 11						blood coagulation	cytosol	GTP binding			ovary(3)	3																		---	---	---	---
IL13RA1	3597	broad.mit.edu	37	X	117880827	117880827	+	Intron	DEL	A	-	-	rs144642926	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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	118852951	118852951	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:118852951delA								SEPT6 (25618 upstream) : ANKRD58 (39625 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	119054690	119054690	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:119054690delT								AKAP14 (13 upstream) : NKAP (4334 downstream)																																			---	---	---	---
CUL4B	8450	broad.mit.edu	37	X	119675355	119675356	+	Intron	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:119675355_119675356delAA	uc004esw.2	-						CUL4B_uc010nqq.2_Intron|CUL4B_uc004esv.2_Intron	NM_003588	NP_003579			cullin 4B isoform 1						cell cycle|DNA repair|ubiquitin-dependent protein catabolic process	Cul4B-RING ubiquitin ligase complex|nucleus	protein binding|ubiquitin protein ligase binding			lung(1)|central_nervous_system(1)|pancreas(1)	3																		---	---	---	---
THOC2	57187	broad.mit.edu	37	X	122753440	122753440	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:122753440delA	uc004etu.2	-						THOC2_uc010nqt.1_Intron|THOC2_uc004etw.1_Intron	NM_001081550	NP_001075019			THO complex 2						intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3																		---	---	---	---
THOC2	57187	broad.mit.edu	37	X	122754875	122754875	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:122754875delA	uc004etu.2	-						THOC2_uc010nqt.1_Intron|THOC2_uc004etw.1_Intron	NM_001081550	NP_001075019			THO complex 2						intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3																		---	---	---	---
STAG2	10735	broad.mit.edu	37	X	123105964	123105964	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:123105964delT	uc004etz.3	+						STAG2_uc004eua.2_Intron|STAG2_uc004eub.2_Intron|STAG2_uc004euc.2_Intron|STAG2_uc004eud.2_Intron|STAG2_uc004eue.2_Intron	NM_006603	NP_006594			stromal antigen 2 isoform b						cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5																		---	---	---	---
STAG2	10735	broad.mit.edu	37	X	123185436	123185436	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:123185436delT	uc004etz.3	+						STAG2_uc004eua.2_Intron|STAG2_uc004eub.2_Intron|STAG2_uc004euc.2_Intron|STAG2_uc004eud.2_Intron|STAG2_uc004eue.2_Intron	NM_006603	NP_006594			stromal antigen 2 isoform b						cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	128401098	128401098	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:128401098delA								None (None upstream) : SMARCA1 (179382 downstream)																																			---	---	---	---
OCRL	4952	broad.mit.edu	37	X	128699698	128699698	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:128699698delT	uc004euq.2	+						OCRL_uc004eur.2_Intron	NM_000276	NP_000267			phosphatidylinositol polyphosphate 5-phosphatase						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	129686117	129686119	+	IGR	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:129686117_129686119delTTT								FAM45B (55385 upstream) : ENOX2 (71240 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	131396456	131396456	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:131396456delA	uc004ewr.1	+											Homo sapiens cDNA FLJ38120 fis, clone D3OST3000195.																														---	---	---	---
USP26	83844	broad.mit.edu	37	X	132160413	132160413	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:132160413delT	uc010nrm.1	-	6	2306	c.1836delA	c.(1834-1836)AAAfs	p.K612fs	USP26_uc011mvf.1_Frame_Shift_Del_p.K612fs	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	612					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
GPC3	2719	broad.mit.edu	37	X	132776318	132776318	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:132776318delT	uc004exe.1	-						GPC3_uc004exd.1_Intron|GPC3_uc010nrn.1_Intron|GPC3_uc011mvh.1_Intron|GPC3_uc010nro.1_Intron	NM_004484	NP_004475			glypican 3 isoform 2 precursor							extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding|peptidyl-dipeptidase inhibitor activity			lung(2)|prostate(1)|breast(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)							T|D|Mis|N|F|S			Wilms tumour			Simpson-Golabi-Behmel_syndrome				---	---	---	---
PHF6	84295	broad.mit.edu	37	X	133548080	133548080	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:133548080delT	uc004exj.2	+						PHF6_uc004exk.2_Intron|PHF6_uc011mvk.1_Intron|PHF6_uc004exh.2_Intron|PHF6_uc010nrr.2_Intron|PHF6_uc004exi.2_Intron	NM_001015877	NP_001015877			PHD finger protein 6 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
FAM122B	159090	broad.mit.edu	37	X	133915842	133915842	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:133915842delT	uc004exr.2	-						FAM122B_uc004exq.2_Intron|FAM122B_uc004exs.2_Intron|FAM122B_uc004ext.2_Intron|FAM122B_uc004exu.2_Intron|FAM122B_uc011mvp.1_Intron|FAM122B_uc004exv.2_Intron	NM_145284	NP_660327			hypothetical protein LOC159090												0	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
Unknown	0	broad.mit.edu	37	X	134076182	134076182	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:134076182delA								MOSPD1 (26885 upstream) : LOC644538 (48786 downstream)																																			---	---	---	---
DDX26B	203522	broad.mit.edu	37	X	134685909	134685909	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:134685909delT	uc004eyw.3	+							NM_182540	NP_872346			DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide												0	Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
GPR112	139378	broad.mit.edu	37	X	135482406	135482406	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:135482406delT	uc004ezu.1	+						GPR112_uc010nsb.1_Intron	NM_153834	NP_722576			G-protein coupled receptor 112						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
HTATSF1	27336	broad.mit.edu	37	X	135585109	135585109	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:135585109delT	uc004ezw.2	+						HTATSF1_uc004ezx.2_Intron	NM_001163280	NP_001156752			HIV-1 Tat specific factor 1						regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|viral genome replication	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
Unknown	0	broad.mit.edu	37	X	136022876	136022877	+	Intron	DEL	TT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:136022876_136022877delTT	uc004fai.1	+											Homo sapiens cDNA FLJ31132 fis, clone IMR322000953.																														---	---	---	---
Unknown	0	broad.mit.edu	37	X	136065450	136065450	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:136065450delT	uc004fai.1	+											Homo sapiens cDNA FLJ31132 fis, clone IMR322000953.																														---	---	---	---
Unknown	0	broad.mit.edu	37	X	138549493	138549494	+	IGR	DEL	TG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:138549493_138549494delTG								FGF13 (262308 upstream) : F9 (63401 downstream)																																			---	---	---	---
MCF2	4168	broad.mit.edu	37	X	138678636	138678636	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:138678636delA	uc004fau.2	-						MCF2_uc004fav.2_Intron|MCF2_uc011mwl.1_Intron|MCF2_uc010nsh.1_Intron|MCF2_uc011mwm.1_Intron|MCF2_uc011mwn.1_Intron|MCF2_uc004faw.2_Intron|MCF2_uc011mwo.1_Intron	NM_005369	NP_005360			MCF.2 cell line derived transforming sequence						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
MCF2	4168	broad.mit.edu	37	X	138700010	138700010	+	Intron	DEL	A	-	-	rs72084181		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:138700010delA	uc004fau.2	-						MCF2_uc004fav.2_Intron|MCF2_uc011mwl.1_Intron|MCF2_uc010nsh.1_Intron|MCF2_uc011mwm.1_Intron|MCF2_uc011mwn.1_Intron|MCF2_uc004faw.2_Intron|MCF2_uc011mwo.1_Intron	NM_005369	NP_005360			MCF.2 cell line derived transforming sequence						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
MCF2	4168	broad.mit.edu	37	X	138701772	138701773	+	Frame_Shift_Ins	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:138701772_138701773insT	uc004fau.2	-	7	1074_1075	c.780_781insA	c.(778-783)AAATTGfs	p.K260fs	MCF2_uc004fav.2_Frame_Shift_Ins_p.K260fs|MCF2_uc011mwl.1_Frame_Shift_Ins_p.K221fs|MCF2_uc010nsh.1_Frame_Shift_Ins_p.K260fs|MCF2_uc011mwm.1_Frame_Shift_Ins_p.K221fs|MCF2_uc011mwn.1_Frame_Shift_Ins_p.K405fs|MCF2_uc004faw.2_Frame_Shift_Ins_p.K320fs|MCF2_uc011mwo.1_Frame_Shift_Ins_p.K320fs	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	260_261	Spectrin.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
ATP11C	286410	broad.mit.edu	37	X	138850654	138850654	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:138850654delT	uc004faz.2	-						ATP11C_uc004fax.2_5'Flank|ATP11C_uc004fay.2_Intron|ATP11C_uc004fba.2_Intron	NM_173694	NP_775965			ATPase, class VI, type 11C isoform a						ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
ATP11C	286410	broad.mit.edu	37	X	138865164	138865164	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:138865164delA	uc004faz.2	-						ATP11C_uc004fay.2_Intron|ATP11C_uc004fba.2_Intron	NM_173694	NP_775965			ATPase, class VI, type 11C isoform a						ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
SPANXC	64663	broad.mit.edu	37	X	140355351	140355351	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:140355351delA	uc004fbl.2	-											Homo sapiens nuclear-associated protein SPAN-Xa (SPANX) mRNA, complete cds.							cytoplasm|nucleus					0	Acute lymphoblastic leukemia(192;7.65e-05)																	---	---	---	---
Unknown	0	broad.mit.edu	37	X	140985752	140985752	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:140985752delT								MAGEC3 (135 upstream) : MAGEC1 (5928 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	142024569	142024569	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:142024569delT								MAGEC2 (731493 upstream) : SPANXN4 (89135 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	144288635	144288636	+	IGR	INS	-	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:144288635_144288636insA								None (None upstream) : SPANXN1 (40471 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	145784295	145784296	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:145784295_145784296insT								MIR891A (674905 upstream) : CXorf51 (107006 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	146263205	146263206	+	IGR	DEL	AG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:146263205_146263206delAG								CXorf51 (371281 upstream) : MIR513C (8016 downstream)																																			---	---	---	---
FMR1	2332	broad.mit.edu	37	X	147007212	147007214	+	Intron	DEL	TTT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:147007212_147007214delTTT	uc010nst.2	+						FMR1_uc011mwz.1_Intron|FMR1_uc004fcj.2_Intron|FMR1_uc004fck.3_Intron|FMR1_uc004fcl.3_5'Flank	NM_002024	NP_002015			fragile X mental retardation 1						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	148039849	148039849	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:148039849delT	uc004fcp.2	+						AFF2_uc004fcq.2_Intron|AFF2_uc004fcr.2_Intron|AFF2_uc011mxb.1_Intron|AFF2_uc004fcs.2_Intron|AFF2_uc011mxc.1_Intron	NM_002025	NP_002016			fragile X mental retardation 2						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)																	---	---	---	---
MAMLD1	10046	broad.mit.edu	37	X	149559625	149559625	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:149559625delT	uc011mxu.1	+						MAMLD1_uc011mxt.1_Intron					RecName: Full=Mastermind-like domain-containing protein 1;          Short=Protein CG1; AltName: Full=F18;						male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
GABRA3	2556	broad.mit.edu	37	X	151514221	151514221	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:151514221delA	uc010ntk.1	-							NM_000808	NP_000799			gamma-aminobutyric acid A receptor, alpha 3						gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)													---	---	---	---
Unknown	0	broad.mit.edu	37	X	151637591	151637591	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:151637591delA								GABRA3 (17760 upstream) : GABRQ (169046 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	153900454	153900454	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153900454delT								CTAG2 (18612 upstream) : GAB3 (3073 downstream)																																			---	---	---	---
F8	2157	broad.mit.edu	37	X	154157686	154157686	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:154157686delT	uc004fmt.2	-	14	4550	c.4379delA	c.(4378-4380)AATfs	p.N1460fs		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	1460	B.		N -> K (in HEMA).		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	154197881	154197881	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:154197881delA	uc004fmt.2	-							NM_000132	NP_000123			coagulation factor VIII isoform a precursor						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)													---	---	---	---
PRKY	5616	broad.mit.edu	37	Y	7224149	7224149	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:7224149delA	uc004fre.2	+							NM_002760	NP_002751			RecName: Full=Serine/threonine-protein kinase PRKX;          EC=2.7.11.1; AltName: Full=Protein kinase PKX1;												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	Y	9952881	9952881	+	IGR	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:9952881delC								TTTY22 (302027 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	Y	9962422	9962422	+	IGR	DEL	G	-	-	rs141716206		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:9962422delG								TTTY22 (311568 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	Y	10054310	10054310	+	IGR	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:10054310delA								TTTY22 (403456 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	Y	13267772	13267773	+	IGR	INS	-	CC	CC			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13267772_13267773insCC								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	Y	13411573	13411573	+	IGR	DEL	G	-	-	rs78116409		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13411573delG								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	Y	13637596	13637597	+	IGR	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13637596_13637597insT								None (None upstream) : None (None downstream)																																			---	---	---	---
USP9Y	8287	broad.mit.edu	37	Y	14949982	14949982	+	Intron	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:14949982delT	uc004fst.1	+						USP9Y_uc010nwu.1_Intron	NM_004654	NP_004645			ubiquitin specific protease 9, Y-linked						BMP signaling pathway|protein deubiquitination|spermatogenesis|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0																		---	---	---	---
UTY	7404	broad.mit.edu	37	Y	15448218	15448218	+	Intron	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:15448218delA	uc004fsx.1	-						UTY_uc004fsw.1_Intron|UTY_uc010nwx.1_Intron|UTY_uc004fsy.2_Intron|UTY_uc004fsz.2_Intron	NM_007125	NP_009056			tetratricopeptide repeat protein isoform 3						chromatin modification	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	Y	28671979	28671979	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:28671979delT								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	Y	28689258	28689258	+	IGR	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:28689258delT								None (None upstream) : None (None downstream)																																			---	---	---	---
NOC2L	26155	broad.mit.edu	37	1	883877	883877	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:883877G>A	uc001abz.3	-	13	1609	c.1550C>T	c.(1549-1551)GCG>GTG	p.A517V	NOC2L_uc001aby.3_Missense_Mutation_p.A314V|NOC2L_uc009vjq.2_Missense_Mutation_p.A517V	NM_015658	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog	517						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	897043	897043	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:897043G>A	uc001aca.1	+	3	509	c.402G>A	c.(400-402)ACG>ACA	p.T134T	NOC2L_uc001abz.3_5'Flank|NOC2L_uc009vjq.2_5'Flank|NOC2L_uc009vjr.1_5'Flank|KLHL17_uc001acb.1_Silent_p.T10T|KLHL17_uc010nya.1_Silent_p.T10T|KLHL17_uc001acc.1_5'Flank|KLHL17_uc010nyb.1_5'Flank	NM_198317	NP_938073	Q6TDP4	KLH17_HUMAN	kelch-like 17	134	BTB.				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)														---	---	---	---
CDK11B	984	broad.mit.edu	37	1	1575784	1575784	+	Missense_Mutation	SNP	C	A	A	rs146017299	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:1575784C>A	uc001agv.1	-	15	1216	c.1105G>T	c.(1105-1107)GGG>TGG	p.G369W	CDK11B_uc009vkj.2_Missense_Mutation_p.G26W|CDK11B_uc001ags.1_Missense_Mutation_p.G227W|CDK11B_uc001agt.1_Missense_Mutation_p.G152W|CDK11B_uc001aha.1_Missense_Mutation_p.G335W|CDK11B_uc001agw.1_Missense_Mutation_p.G324W|CDK11B_uc001agy.1_Missense_Mutation_p.G367W|CDK11B_uc001agx.1_Missense_Mutation_p.G358W|CDK11B_uc001agz.1_Missense_Mutation_p.G113W	NM_033486	NP_277021	P21127	CD11B_HUMAN	cell division cycle 2-like 1 (PITSLRE proteins)	382	Glu-rich.				apoptosis|cell proliferation|mitosis|regulation of cell growth|regulation of mRNA processing|regulation of transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity|protein binding			skin(1)	1																		---	---	---	---
NADK	65220	broad.mit.edu	37	1	1693452	1693452	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:1693452G>A	uc009vkw.2	-	3	323	c.202C>T	c.(202-204)CCA>TCA	p.P68S	NADK_uc001aic.2_Missense_Mutation_p.P68S|NADK_uc001aid.3_Missense_Mutation_p.P68S|NADK_uc001aie.2_Missense_Mutation_p.P68S|NADK_uc009vkx.1_5'UTR	NM_023018	NP_075394	O95544	NADK_HUMAN	NAD kinase	68					ATP metabolic process|NAD metabolic process|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|NAD+ kinase activity|protein binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;8.75e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.33e-23)|GBM - Glioblastoma multiforme(42;1.35e-07)|Colorectal(212;0.000203)|COAD - Colon adenocarcinoma(227;0.000225)|Kidney(185;0.00265)|STAD - Stomach adenocarcinoma(132;0.00655)|BRCA - Breast invasive adenocarcinoma(365;0.00855)|KIRC - Kidney renal clear cell carcinoma(229;0.0382)|Lung(427;0.207)														---	---	---	---
MMEL1	79258	broad.mit.edu	37	1	2527522	2527522	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:2527522G>A	uc001ajy.2	-	15	1640	c.1426C>T	c.(1426-1428)CGG>TGG	p.R476W	MMEL1_uc009vlg.1_RNA	NM_033467	NP_258428	Q495T6	MMEL1_HUMAN	membrane metallo-endopeptidase-like 1	476	Lumenal (Potential).				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)														---	---	---	---
WDR8	49856	broad.mit.edu	37	1	3551635	3551635	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:3551635G>A	uc001ako.2	-	8	850	c.742C>T	c.(742-744)CGC>TGC	p.R248C	WDR8_uc001akn.3_Missense_Mutation_p.R248C|WDR8_uc010nzi.1_3'UTR	NM_017818	NP_060288	Q9P2S5	WRP73_HUMAN	WD repeat domain 8	248	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)														---	---	---	---
TP73	7161	broad.mit.edu	37	1	3624161	3624161	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:3624161G>A	uc001akp.2	+	4	345	c.235G>A	c.(235-237)GCG>ACG	p.A79T	TP73_uc001akq.2_Missense_Mutation_p.A79T|TP73_uc010nzj.1_Missense_Mutation_p.A30T|TP73_uc001akr.2_Missense_Mutation_p.A30T|TP73_uc009vlk.1_Missense_Mutation_p.A30T|TP73_uc001aks.2_Missense_Mutation_p.A30T|TP73_uc009vll.2_Missense_Mutation_p.A8T|TP73_uc010nzk.1_Missense_Mutation_p.A8T	NM_005427	NP_005418	O15350	P73_HUMAN	tumor protein p73 isoform a	79					cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mismatch repair|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of JUN kinase activity|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|protein tetramerization|response to gamma radiation|response to X-ray	chromatin|cytosol|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|metal ion binding|p53 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|transcription repressor activity			ovary(1)|lung(1)	2	all_cancers(77;0.0395)|Ovarian(185;0.0634)|Lung NSC(156;0.188)|all_lung(157;0.198)	all_epithelial(116;7.42e-17)|all_lung(118;1.86e-06)|Lung NSC(185;0.000163)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.109)|Ovarian(437;0.127)		Epithelial(90;5.57e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.87e-22)|GBM - Glioblastoma multiforme(42;5.72e-16)|Colorectal(212;2.22e-05)|COAD - Colon adenocarcinoma(227;8.48e-05)|Kidney(185;0.000539)|BRCA - Breast invasive adenocarcinoma(365;0.000868)|STAD - Stomach adenocarcinoma(132;0.0072)|KIRC - Kidney renal clear cell carcinoma(229;0.00751)|Lung(427;0.226)														---	---	---	---
KIAA0562	9731	broad.mit.edu	37	1	3768869	3768869	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:3768869G>A	uc001aky.2	-	2	462	c.103C>T	c.(103-105)CGG>TGG	p.R35W	KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Missense_Mutation_p.R35W	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	35						centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)														---	---	---	---
CHD5	26038	broad.mit.edu	37	1	6214925	6214925	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6214925G>T	uc001amb.1	-	5	640	c.540C>A	c.(538-540)CCC>CCA	p.P180P		NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	180					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)														---	---	---	---
RNF207	388591	broad.mit.edu	37	1	6278394	6278394	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6278394G>A	uc001amg.2	+	17	1872	c.1698G>A	c.(1696-1698)ACG>ACA	p.T566T	RNF207_uc010nzp.1_RNA	NM_207396	NP_997279	Q6ZRF8	RN207_HUMAN	ring finger protein 207	566						intracellular	zinc ion binding				0	Ovarian(185;0.0634)	all_cancers(23;1.22e-38)|all_epithelial(116;4.25e-22)|all_lung(118;7.95e-08)|Lung NSC(185;1.6e-06)|all_neural(13;3.18e-06)|all_hematologic(16;8.99e-06)|Acute lymphoblastic leukemia(12;0.000365)|Breast(487;0.000496)|Renal(390;0.0007)|Colorectal(325;0.00104)|Glioma(11;0.00203)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)|Medulloblastoma(700;0.211)		Epithelial(90;4.84e-38)|GBM - Glioblastoma multiforme(13;5.77e-32)|OV - Ovarian serous cystadenocarcinoma(86;2.88e-19)|Colorectal(212;6.9e-08)|COAD - Colon adenocarcinoma(227;8.13e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.00311)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.182)														---	---	---	---
GPR153	387509	broad.mit.edu	37	1	6311422	6311422	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6311422C>A	uc001amp.1	-	4	1215	c.955G>T	c.(955-957)GCC>TCC	p.A319S	GPR153_uc001amo.1_5'Flank	NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	319	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)														---	---	---	---
ZBTB48	3104	broad.mit.edu	37	1	6642155	6642155	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6642155G>A	uc009vmc.1	+	3	851	c.728G>A	c.(727-729)GGC>GAC	p.G243D	ZBTB48_uc001anx.2_Missense_Mutation_p.G243D|ZBTB48_uc009vmd.1_Missense_Mutation_p.G243D	NM_005341	NP_005332	P10074	ZBT48_HUMAN	zinc finger and BTB domain containing 48	243						cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.35e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00109)|STAD - Stomach adenocarcinoma(132;0.017)|READ - Rectum adenocarcinoma(331;0.0642)														---	---	---	---
PHF13	148479	broad.mit.edu	37	1	6680350	6680350	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6680350G>A	uc001aob.3	+	3	1000	c.629G>A	c.(628-630)CGA>CAA	p.R210Q		NM_153812	NP_722519	Q86YI8	PHF13_HUMAN	PHD finger protein 13	210					cell division|chromatin modification|mitotic chromosome condensation	nucleoplasm	chromatin binding|methylated histone residue binding|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;1.46e-33)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.19e-07)|COAD - Colon adenocarcinoma(227;1.3e-05)|Kidney(185;4.88e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000501)|KIRC - Kidney renal clear cell carcinoma(229;0.000871)|STAD - Stomach adenocarcinoma(132;0.0165)|READ - Rectum adenocarcinoma(331;0.0642)														---	---	---	---
CAMTA1	23261	broad.mit.edu	37	1	7700554	7700554	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:7700554A>C	uc001aoi.2	+	7	812	c.605A>C	c.(604-606)GAC>GCC	p.D202A		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	202					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)														---	---	---	---
CAMTA1	23261	broad.mit.edu	37	1	7797322	7797322	+	Missense_Mutation	SNP	C	T	T	rs149702154		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:7797322C>T	uc001aoi.2	+	15	3557	c.3350C>T	c.(3349-3351)GCG>GTG	p.A1117V	CAMTA1_uc010nzv.1_Missense_Mutation_p.A204V|CAMTA1_uc001aok.3_Missense_Mutation_p.A160V|CAMTA1_uc001aoj.2_Missense_Mutation_p.A73V	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1117	ANK 2.				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)														---	---	---	---
TNFRSF9	3604	broad.mit.edu	37	1	7993308	7993308	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:7993308G>A	uc001aot.2	-	7	721	c.593C>T	c.(592-594)GCG>GTG	p.A198V		NM_001561	NP_001552	Q07011	TNR9_HUMAN	tumor necrosis factor receptor superfamily,	198	Helical; (Potential).				induction of apoptosis|negative regulation of cell proliferation	integral to plasma membrane	binding|receptor activity			large_intestine(1)|lung(1)|ovary(1)|skin(1)	4	Ovarian(185;0.0634)|all_lung(157;0.151)	all_epithelial(116;9.63e-21)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.000625)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.93e-71)|GBM - Glioblastoma multiforme(8;3.72e-37)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;7.71e-06)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000419)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00103)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
TNFRSF9	3604	broad.mit.edu	37	1	7998400	7998400	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:7998400C>A	uc001aot.2	-							NM_001561	NP_001552			tumor necrosis factor receptor superfamily,						induction of apoptosis|negative regulation of cell proliferation	integral to plasma membrane	binding|receptor activity			large_intestine(1)|lung(1)|ovary(1)|skin(1)	4	Ovarian(185;0.0634)|all_lung(157;0.151)	all_epithelial(116;9.63e-21)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.000625)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.93e-71)|GBM - Glioblastoma multiforme(8;3.72e-37)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;7.71e-06)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000419)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00103)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
RERE	473	broad.mit.edu	37	1	8425885	8425885	+	Silent	SNP	C	T	T	rs139440766		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:8425885C>T	uc001ape.2	-	14	2244	c.1434G>A	c.(1432-1434)CCG>CCA	p.P478P	RERE_uc001apf.2_Silent_p.P478P|RERE_uc010nzx.1_Silent_p.P210P|RERE_uc001apd.2_5'UTR	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	478					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)														---	---	---	---
CA6	765	broad.mit.edu	37	1	9005999	9005999	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:9005999G>A	uc001apm.2	+	1	78	c.54G>A	c.(52-54)CAG>CAA	p.Q18Q	CA6_uc009vmn.2_Silent_p.Q18Q	NM_001215	NP_001206	P23280	CAH6_HUMAN	carbonic anhydrase VI precursor	18					one-carbon metabolic process	extracellular region	carbonate dehydratase activity|zinc ion binding			ovary(2)	2	Ovarian(185;0.112)|all_lung(157;0.143)	all_epithelial(116;1.02e-19)|all_lung(118;3.6e-06)|Lung NSC(185;7.94e-06)|Renal(390;0.000147)|Breast(348;0.00123)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.9e-07)|COAD - Colon adenocarcinoma(227;8.28e-05)|Kidney(185;0.000268)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|STAD - Stomach adenocarcinoma(132;0.00184)|BRCA - Breast invasive adenocarcinoma(304;0.00192)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
SLC2A7	155184	broad.mit.edu	37	1	9063462	9063462	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:9063462C>T	uc009vmo.1	-	12	1436	c.1436G>A	c.(1435-1437)CGC>CAC	p.R479H		NM_207420	NP_997303	Q6PXP3	GTR7_HUMAN	intestinal facilitative glucose transporter 7	479	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sugar transmembrane transporter activity				0	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.04e-07)|COAD - Colon adenocarcinoma(227;7.66e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00177)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|READ - Rectum adenocarcinoma(331;0.0642)														---	---	---	---
SLC2A5	6518	broad.mit.edu	37	1	9097693	9097693	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:9097693C>T	uc001apo.2	-	12	1750	c.1458G>A	c.(1456-1458)CCG>CCA	p.P486P	SLC2A5_uc010nzy.1_Silent_p.P427P|SLC2A5_uc010nzz.1_Silent_p.P371P|SLC2A5_uc010oaa.1_Silent_p.P442P|SLC2A5_uc010oab.1_Silent_p.P486P	NM_003039	NP_003030	P22732	GTR5_HUMAN	solute carrier family 2 (facilitated	486	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to membrane|plasma membrane	fructose transmembrane transporter activity|glucose transmembrane transporter activity			pancreas(2)|ovary(1)	3	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.78e-07)|COAD - Colon adenocarcinoma(227;8.83e-05)|Kidney(185;0.000286)|KIRC - Kidney renal clear cell carcinoma(229;0.00103)|STAD - Stomach adenocarcinoma(132;0.0019)|BRCA - Breast invasive adenocarcinoma(304;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
H6PD	9563	broad.mit.edu	37	1	9324910	9324910	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:9324910C>T	uc001apt.2	+	5	2631	c.2358C>T	c.(2356-2358)TAC>TAT	p.Y786Y		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	786	6-phosphogluconolactonase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)													---	---	---	---
UBE4B	10277	broad.mit.edu	37	1	10155571	10155571	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10155571G>A	uc001aqs.3	+	3	977	c.264G>A	c.(262-264)TCG>TCA	p.S88S	UBE4B_uc001aqr.3_Silent_p.S88S|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_5'UTR	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	88					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-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;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)														---	---	---	---
UBE4B	10277	broad.mit.edu	37	1	10197233	10197233	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10197233G>A	uc001aqs.3	+	17	3046	c.2333G>A	c.(2332-2334)CGC>CAC	p.R778H	UBE4B_uc001aqr.3_Missense_Mutation_p.R649H|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_Missense_Mutation_p.R233H|UBE4B_uc001aqt.1_Missense_Mutation_p.R118H	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	778					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-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;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)														---	---	---	---
CASZ1	54897	broad.mit.edu	37	1	10706370	10706370	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10706370C>T	uc001aro.2	-	17	3831	c.3511G>A	c.(3511-3513)GCC>ACC	p.A1171T		NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	1171					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)														---	---	---	---
ANGPTL7	10218	broad.mit.edu	37	1	11253813	11253813	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11253813G>A	uc001ase.2	+	3	893	c.654G>A	c.(652-654)CGG>CGA	p.R218R	MTOR_uc001asd.2_Intron	NM_021146	NP_066969	O43827	ANGL7_HUMAN	angiopoietin-like 7 precursor	218	Fibrinogen C-terminal.				response to oxidative stress|signal transduction	extracellular region	receptor binding				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000818)|all_lung(284;0.00105)|Colorectal(325;0.0062)|Breast(348;0.0139)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.39e-06)|COAD - Colon adenocarcinoma(227;0.000244)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0487)														---	---	---	---
MTOR	2475	broad.mit.edu	37	1	11308151	11308151	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11308151G>A	uc001asd.2	-	7	962	c.841C>T	c.(841-843)CGT>TGT	p.R281C		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	281					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29																		---	---	---	---
PTCHD2	57540	broad.mit.edu	37	1	11562098	11562098	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11562098G>A	uc001ash.3	+	2	1187	c.1049G>A	c.(1048-1050)GGC>GAC	p.G350D	PTCHD2_uc001asi.1_Missense_Mutation_p.G350D	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	350	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)														---	---	---	---
PTCHD2	57540	broad.mit.edu	37	1	11574496	11574496	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11574496C>T	uc001ash.3	+	4	1504	c.1366C>T	c.(1366-1368)CGC>TGC	p.R456C	PTCHD2_uc001asi.1_Missense_Mutation_p.R456C	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	456	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)														---	---	---	---
PTCHD2	57540	broad.mit.edu	37	1	11596418	11596418	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11596418C>T	uc001ash.3	+	21	3992	c.3854C>T	c.(3853-3855)GCC>GTC	p.A1285V		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	1285	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)														---	---	---	---
NPPA	4878	broad.mit.edu	37	1	11907202	11907202	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11907202C>T	uc001ati.2	-	2	517	c.418G>A	c.(418-420)GCC>ACC	p.A140T	CLCN6_uc010oav.1_Intron|CLCN6_uc010oaw.1_Intron|CLCN6_uc010oax.1_Intron|CLCN6_uc010oay.1_Intron|CLCN6_uc010oaz.1_Intron|CLCN6_uc010oba.1_Intron	NM_006172	NP_006163	P01160	ANF_HUMAN	natriuretic peptide precursor A preproprotein	140					cGMP biosynthetic process|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size	extracellular region	hormone activity			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00149)|all_lung(284;0.00189)|Breast(348;0.00586)|Colorectal(325;0.0062)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0556)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.04e-06)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|Kidney(185;0.000733)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
PLOD1	5351	broad.mit.edu	37	1	12024350	12024350	+	Missense_Mutation	SNP	C	T	T	rs11553676		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12024350C>T	uc001atm.2	+	12	1412	c.1321C>T	c.(1321-1323)CGG>TGG	p.R441W	PLOD1_uc010obb.1_Missense_Mutation_p.R488W	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	441					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)													---	---	---	---
VPS13D	55187	broad.mit.edu	37	1	12387789	12387789	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12387789G>A	uc001atv.2	+	36	8216	c.8075G>A	c.(8074-8076)AGC>AAC	p.S2692N	VPS13D_uc001atw.2_Missense_Mutation_p.S2692N|VPS13D_uc001atx.2_Missense_Mutation_p.S1880N|VPS13D_uc001aty.1_Missense_Mutation_p.S430N	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2692					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)														---	---	---	---
DHRS3	9249	broad.mit.edu	37	1	12640620	12640620	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12640620G>A	uc001auc.2	-	2	737	c.270C>T	c.(268-270)TGC>TGT	p.C90C	DHRS3_uc001aub.2_Silent_p.C5C|DHRS3_uc009vnm.2_Silent_p.C90C|DHRS3_uc001aud.3_Silent_p.C90C|DHRS3_uc001aue.1_RNA	NM_004753	NP_004744	O75911	DHRS3_HUMAN	dehydrogenase/reductase (SDR family) member 3	90					retinol metabolic process|visual perception	integral to membrane	electron carrier activity|NADP-retinol dehydrogenase activity|nucleotide binding			skin(1)	1	Ovarian(185;0.249)	Lung NSC(185;4.11e-05)|all_lung(284;4.58e-05)|Renal(390;0.000147)|Colorectal(325;0.000585)|Breast(348;0.000596)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|Colorectal(212;9.25e-07)|COAD - Colon adenocarcinoma(227;0.000326)|BRCA - Breast invasive adenocarcinoma(304;0.000344)|Kidney(185;0.00235)|KIRC - Kidney renal clear cell carcinoma(229;0.00656)|STAD - Stomach adenocarcinoma(313;0.00798)|READ - Rectum adenocarcinoma(331;0.0419)	Vitamin A(DB00162)													---	---	---	---
PRAMEF12	390999	broad.mit.edu	37	1	12836065	12836065	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12836065G>A	uc001aui.2	+	2	694	c.667G>A	c.(667-669)GCC>ACC	p.A223T		NM_001080830	NP_001074299	O95522	PRA12_HUMAN	PRAME family member 12	223										ovary(3)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
PRAMEF1	65121	broad.mit.edu	37	1	12854205	12854205	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12854205G>A	uc001auj.1	+	3	532	c.429G>A	c.(427-429)GAG>GAA	p.E143E		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	143											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
LOC649330	649330	broad.mit.edu	37	1	12907861	12907861	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12907861G>A	uc009vno.2	-	1	377	c.282C>T	c.(280-282)AAC>AAT	p.N94N	HNRNPCL1_uc010obf.1_Silent_p.N94N	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	94							nucleic acid binding|nucleotide binding				0																		---	---	---	---
PRAMEF14	729528	broad.mit.edu	37	1	13669154	13669154	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:13669154A>G	uc009vnw.1	-	4	1215	c.1032T>C	c.(1030-1032)GGT>GGC	p.G344G		NM_001099854	NP_001093324	Q5SWL7	PRA14_HUMAN	PRAME family member 14	344											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
PRDM2	7799	broad.mit.edu	37	1	14105372	14105372	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:14105372C>T	uc001avi.2	+	8	1938	c.1082C>T	c.(1081-1083)CCG>CTG	p.P361L	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.P361L|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Missense_Mutation_p.P118L|PRDM2_uc001avk.2_Missense_Mutation_p.P160L|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	361	C2H2-type 1.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)														---	---	---	---
PRDM2	7799	broad.mit.edu	37	1	14105506	14105506	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:14105506C>T	uc001avi.2	+	8	2072	c.1216C>T	c.(1216-1218)CGG>TGG	p.R406W	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.R406W|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Missense_Mutation_p.R163W|PRDM2_uc001avk.2_Missense_Mutation_p.R205W|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	406	C2H2-type 2.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)														---	---	---	---
SPEN	23013	broad.mit.edu	37	1	16255155	16255155	+	Missense_Mutation	SNP	G	A	A	rs149173601	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16255155G>A	uc001axk.1	+	11	2624	c.2420G>A	c.(2419-2421)CGC>CAC	p.R807H	SPEN_uc010obp.1_Missense_Mutation_p.R766H	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	807	Arg-rich.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)														---	---	---	---
SPEN	23013	broad.mit.edu	37	1	16257770	16257770	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16257770G>A	uc001axk.1	+	11	5239	c.5035G>A	c.(5035-5037)GTC>ATC	p.V1679I	SPEN_uc010obp.1_Missense_Mutation_p.V1638I	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1679					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)														---	---	---	---
ZBTB17	7709	broad.mit.edu	37	1	16272720	16272720	+	Missense_Mutation	SNP	C	T	T	rs148471565		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16272720C>T	uc001axl.3	-	5	703	c.464G>A	c.(463-465)CGC>CAC	p.R155H	ZBTB17_uc010obq.1_Missense_Mutation_p.R72H|ZBTB17_uc010obr.1_Missense_Mutation_p.R155H|ZBTB17_uc010obs.1_Missense_Mutation_p.R79H|ZBTB17_uc010obt.1_Missense_Mutation_p.R92H|ZBTB17_uc010obu.1_Missense_Mutation_p.R79H|ZBTB17_uc009vom.1_Missense_Mutation_p.R98H|ZBTB17_uc010obv.1_Missense_Mutation_p.R155H	NM_003443	NP_003434	Q13105	ZBT17_HUMAN	zinc finger and BTB domain containing 17	155					negative regulation of cell cycle	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|Colorectal(212;4.12e-07)|COAD - Colon adenocarcinoma(227;2.43e-05)|BRCA - Breast invasive adenocarcinoma(304;9.97e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
NBPF1	55672	broad.mit.edu	37	1	16901707	16901707	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16901707C>T	uc009vos.1	-	20	3025	c.2137G>A	c.(2137-2139)GAT>AAT	p.D713N	NBPF1_uc009vot.1_Missense_Mutation_p.D171N|NBPF1_uc001ayz.1_Missense_Mutation_p.D171N|NBPF1_uc010oce.1_Missense_Mutation_p.D442N	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	713	NBPF 3.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)														---	---	---	---
ATP13A2	23400	broad.mit.edu	37	1	17314944	17314944	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17314944C>T	uc001baa.2	-	24	2825	c.2635G>A	c.(2635-2637)GGC>AGC	p.G879S	ATP13A2_uc001azz.1_Missense_Mutation_p.G26S|ATP13A2_uc001bab.2_Missense_Mutation_p.G874S|ATP13A2_uc001bac.2_Missense_Mutation_p.G835S	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	879	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)														---	---	---	---
PADI2	11240	broad.mit.edu	37	1	17413176	17413176	+	Missense_Mutation	SNP	C	T	T	rs138756249	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17413176C>T	uc001baf.2	-	7	756	c.674G>A	c.(673-675)CGC>CAC	p.R225H	PADI2_uc010ocm.1_Missense_Mutation_p.A144T|PADI2_uc001bag.1_Missense_Mutation_p.R225H	NM_007365	NP_031391	Q9Y2J8	PADI2_HUMAN	peptidyl arginine deiminase, type II	225					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(3)|pancreas(1)|central_nervous_system(1)|skin(1)	6		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000422)|Renal(390;0.000518)|all_lung(284;0.000546)|Ovarian(437;0.00671)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;1.49e-05)|COAD - Colon adenocarcinoma(227;1.54e-05)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)	L-Citrulline(DB00155)													---	---	---	---
PADI3	51702	broad.mit.edu	37	1	17596768	17596768	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17596768C>T	uc001bai.2	+	7	733	c.693C>T	c.(691-693)GGC>GGT	p.G231G		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	231					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)													---	---	---	---
RCC2	55920	broad.mit.edu	37	1	17743117	17743117	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17743117G>A	uc001bal.2	-	7	932	c.885C>T	c.(883-885)ATC>ATT	p.I295I	RCC2_uc001bam.2_Silent_p.I295I	NM_001136204	NP_001129676	Q9P258	RCC2_HUMAN	regulator of chromosome condensation 2	295	RCC1 4.				cell division|mitotic prometaphase	chromosome, centromeric region|cytosol|microtubule|nucleolus|spindle					0		Colorectal(325;0.000147)|Breast(348;0.00122)|Renal(390;0.00145)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;7.69e-06)|COAD - Colon adenocarcinoma(227;1.19e-05)|Kidney(64;0.000189)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.0135)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)														---	---	---	---
KLHDC7A	127707	broad.mit.edu	37	1	18808238	18808238	+	Missense_Mutation	SNP	G	A	A	rs145131334		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:18808238G>A	uc001bax.2	+	1	815	c.763G>A	c.(763-765)GCC>ACC	p.A255T	KLHDC7A_uc009vpg.2_Missense_Mutation_p.A37T	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	255						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
KLHDC7A	127707	broad.mit.edu	37	1	18808833	18808833	+	Missense_Mutation	SNP	C	T	T	rs77562571	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:18808833C>T	uc001bax.2	+	1	1410	c.1358C>T	c.(1357-1359)GCG>GTG	p.A453V	KLHDC7A_uc009vpg.2_Missense_Mutation_p.A235V	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	453						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
ALDH4A1	8659	broad.mit.edu	37	1	19199402	19199402	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:19199402C>T	uc001bbb.2	-	15	1905	c.1629G>A	c.(1627-1629)TCG>TCA	p.S543S	ALDH4A1_uc010ocu.1_Silent_p.S483S|ALDH4A1_uc001bbc.2_Silent_p.S543S	NM_170726	NP_733844	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4A1 isoform a precursor	543					proline biosynthetic process|proline catabolic process	mitochondrial matrix	1-pyrroline-5-carboxylate dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	NADH(DB00157)													---	---	---	---
UBR4	23352	broad.mit.edu	37	1	19468163	19468163	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:19468163T>C	uc001bbi.2	-	56	8292	c.8288A>G	c.(8287-8289)GAC>GGC	p.D2763G	UBR4_uc001bbk.1_Missense_Mutation_p.D445G	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2763					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)														---	---	---	---
UBR4	23352	broad.mit.edu	37	1	19478277	19478277	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:19478277G>A	uc001bbi.2	-	48	7077	c.7073C>T	c.(7072-7074)ACT>ATT	p.T2358I	UBR4_uc001bbk.1_Missense_Mutation_p.T12I|UBR4_uc001bbl.1_Missense_Mutation_p.T295I|UBR4_uc001bbm.1_Missense_Mutation_p.T1570I	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2358					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)														---	---	---	---
UBR4	23352	broad.mit.edu	37	1	19524463	19524463	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:19524463G>A	uc001bbi.2	-	6	733	c.729C>T	c.(727-729)AAC>AAT	p.N243N		NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	243					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)														---	---	---	---
KIAA0090	23065	broad.mit.edu	37	1	19566419	19566419	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:19566419G>A	uc001bbo.2	-	8	890	c.847C>T	c.(847-849)CCA>TCA	p.P283S	KIAA0090_uc001bbp.2_Missense_Mutation_p.P283S|KIAA0090_uc001bbq.2_Missense_Mutation_p.P283S|KIAA0090_uc001bbr.2_Missense_Mutation_p.P261S	NM_015047	NP_055862	Q8N766	K0090_HUMAN	hypothetical protein LOC23065 precursor	283	Extracellular (Potential).					integral to membrane	protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|Breast(348;0.00366)|all_lung(284;0.00519)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;3.84e-05)|Kidney(64;0.000191)|KIRC - Kidney renal clear cell carcinoma(64;0.00274)|GBM - Glioblastoma multiforme(114;0.005)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0656)														---	---	---	---
MUL1	79594	broad.mit.edu	37	1	20827511	20827511	+	Missense_Mutation	SNP	G	A	A	rs117689813	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:20827511G>A	uc001bdi.3	-	4	888	c.731C>T	c.(730-732)GCG>GTG	p.A244V		NM_024544	NP_078820	Q969V5	MUL1_HUMAN	mitochondrial ubiquitin ligase activator of NFKB	244	Helical; (Potential).				activation of caspase activity|activation of JUN kinase activity|induction of apoptosis|mitochondrial fission|mitochondrion localization|negative regulation of cell growth|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to mitochondrial outer membrane|nucleus|peroxisome	identical protein binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00748)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000137)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)														---	---	---	---
RAP1GAP	5909	broad.mit.edu	37	1	21926080	21926080	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21926080C>T	uc001bex.2	-	21	1941	c.1683G>A	c.(1681-1683)GCG>GCA	p.A561A	RAP1GAP_uc001bev.2_Silent_p.A646A|RAP1GAP_uc001bew.2_Silent_p.A625A|RAP1GAP_uc001bey.2_Silent_p.A587A	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	561					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)														---	---	---	---
USP48	84196	broad.mit.edu	37	1	22030030	22030030	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22030030A>G	uc001bfb.2	-	21	2835	c.2597T>C	c.(2596-2598)GTC>GCC	p.V866A	USP48_uc001bfa.2_Missense_Mutation_p.V404A|USP48_uc010odq.1_Missense_Mutation_p.V878A|USP48_uc009vqc.2_Missense_Mutation_p.V800A|USP48_uc001bfc.2_Missense_Mutation_p.V866A|USP48_uc001bfd.1_Intron	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	866					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)														---	---	---	---
EPHB2	2048	broad.mit.edu	37	1	23191488	23191488	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:23191488C>T	uc009vqj.1	+	5	1231	c.1086C>T	c.(1084-1086)TGC>TGT	p.C362C	EPHB2_uc001bge.2_Silent_p.C362C|EPHB2_uc001bgf.2_Silent_p.C362C|EPHB2_uc010odu.1_Silent_p.C362C|hsa-mir-4253|MI0015860_5'Flank	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	362	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)										Hereditary_Prostate_Cancer				---	---	---	---
LDLRAP1	26119	broad.mit.edu	37	1	25883728	25883728	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:25883728C>T	uc001bkl.3	+	4	543	c.429C>T	c.(427-429)TGC>TGT	p.C143C		NM_015627	NP_056442	Q5SW96	ARH_HUMAN	low density lipoprotein receptor adaptor protein	143	PID.				amyloid precursor protein metabolic process|cholesterol homeostasis|cholesterol metabolic process|positive regulation of receptor-mediated endocytosis|receptor internalization|receptor-mediated endocytosis of low-density lipoprotein particle involved in cholesterol transport|regulation of establishment of protein localization in plasma membrane|regulation of protein binding	basal plasma membrane|cytosol|early endosome|internal side of plasma membrane|neurofilament|recycling endosome	beta-amyloid binding|clathrin binding|low-density lipoprotein particle receptor binding|phosphatidylinositol-4,5-bisphosphate binding|phosphotyrosine binding|protein binding, bridging|protein complex binding|receptor signaling complex scaffold activity|signaling adaptor activity			ovary(1)	1		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;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.63e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000728)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000969)|GBM - Glioblastoma multiforme(114;0.00914)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
EXTL1	2134	broad.mit.edu	37	1	26349584	26349584	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26349584G>A	uc001blf.2	+	1	1314	c.447G>A	c.(445-447)ATG>ATA	p.M149I		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1	149	Lumenal (Potential).				skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-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;6.44e-26)|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;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
EXTL1	2134	broad.mit.edu	37	1	26361326	26361326	+	Splice_Site	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26361326G>T	uc001blf.2	+	10	2547	c.1680_splice	c.e10-1	p.R560_splice		NM_004455	NP_004446			exostoses-like 1						skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-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;6.44e-26)|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;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
RPS6KA1	6195	broad.mit.edu	37	1	26883596	26883596	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26883596G>A	uc001bmr.1	+						RPS6KA1_uc010ofe.1_Intron|RPS6KA1_uc010off.1_Intron|RPS6KA1_uc001bms.1_Intron|RPS6KA1_uc009vsl.1_Intron	NM_002953	NP_002944			ribosomal protein S6 kinase, 90kDa, polypeptide						axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|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|caspase inhibitor activity|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)														---	---	---	---
RPS6KA1	6195	broad.mit.edu	37	1	26900639	26900639	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26900639T>C	uc001bmr.1	+	22	2318	c.2155T>C	c.(2155-2157)TCA>CCA	p.S719P	RPS6KA1_uc010ofe.1_Missense_Mutation_p.S627P|RPS6KA1_uc001bms.1_Missense_Mutation_p.S728P|RPS6KA1_uc009vsl.1_Missense_Mutation_p.S562P	NM_002953	NP_002944	Q15418	KS6A1_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	719					axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|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|caspase inhibitor activity|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)														---	---	---	---
ARID1A	8289	broad.mit.edu	37	1	27105886	27105886	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27105886C>T	uc001bmv.1	+	20	5870	c.5497C>T	c.(5497-5499)CGT>TGT	p.R1833C	ARID1A_uc001bmu.1_Missense_Mutation_p.R1616C|ARID1A_uc001bmx.1_Missense_Mutation_p.R679C|ARID1A_uc009vsm.1_Missense_Mutation_p.R161C|ARID1A_uc009vsn.1_Missense_Mutation_p.R75C	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1833					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)				Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								---	---	---	---
GPR3	2827	broad.mit.edu	37	1	27720703	27720703	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27720703G>A	uc001bod.2	+	2	496	c.401G>A	c.(400-402)CGC>CAC	p.R134H		NM_005281	NP_005272	P46089	GPR3_HUMAN	G protein-coupled receptor 3	134	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane				ovary(1)	1		Breast(348;1.53e-05)|Ovarian(437;0.0606)|all_lung(284;0.157)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;2.81e-26)|Colorectal(126;1.24e-08)|KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;4.45e-06)|Lung(427;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|LUSC - Lung squamous cell carcinoma(448;0.008)|READ - Rectum adenocarcinoma(331;0.0419)														---	---	---	---
PPP1R8	5511	broad.mit.edu	37	1	28176610	28176610	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28176610C>T	uc001bov.1	+	7	763	c.709C>T	c.(709-711)CGT>TGT	p.R237C	PPP1R8_uc001bow.1_Missense_Mutation_p.R95C|PPP1R8_uc001box.1_Missense_Mutation_p.R13C|PPP1R8_uc009vtc.1_RNA|PPP1R8_uc009vtd.1_RNA	NM_014110	NP_054829	Q12972	PP1R8_HUMAN	protein phosphatase 1 regulatory inhibitor	237	Nuclear localization signal 2.			KKKR->AAAA: Abolishes nuclear import; when associated with A-195-197-A.	mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|RNA splicing|transcription, DNA-dependent	cytoplasm|nuclear speck|spliceosomal complex	DNA binding|endonuclease activity|protein binding|protein serine/threonine phosphatase inhibitor activity|ribonuclease E activity|RNA binding				0		Colorectal(325;3.46e-05)|all_lung(284;0.000129)|Lung NSC(340;0.000259)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;2.76e-24)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00248)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
SNHG12	85028	broad.mit.edu	37	1	28906889	28906889	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28906889G>A	uc001bqk.2	-						SNHG12_uc001bql.2_Intron|SNHG12_uc001bqm.2_RNA|SNHG12_uc001bqn.2_RNA|SNHG12_uc001bqo.2_Intron|SNHG12_uc001bqp.2_Intron|SNORD99_uc001bqq.1_5'Flank|SNORA61_uc001bqr.2_5'Flank	NR_024127				Homo sapiens PNAS-123 mRNA, complete cds.												0																		---	---	---	---
YTHDF2	51441	broad.mit.edu	37	1	29070189	29070189	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:29070189C>T	uc001brc.2	+	4	1904	c.1407C>T	c.(1405-1407)GGC>GGT	p.G469G	YTHDF2_uc001brd.2_Silent_p.G466G|YTHDF2_uc010ofx.1_Silent_p.G419G|YTHDF2_uc001bre.2_Silent_p.G419G	NM_016258	NP_057342	Q9Y5A9	YTHD2_HUMAN	high glucose-regulated protein 8	469	YTH.				humoral immune response					ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.000601)|all_lung(284;0.000771)|Breast(348;0.00502)|Renal(390;0.00758)|all_neural(195;0.0227)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;5.46e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0221)|KIRC - Kidney renal clear cell carcinoma(1967;0.0296)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
EPB41	2035	broad.mit.edu	37	1	29365769	29365769	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:29365769G>C	uc001brm.1	+	10	1474	c.1467G>C	c.(1465-1467)TTG>TTC	p.L489F	EPB41_uc001brg.1_Missense_Mutation_p.L280F|EPB41_uc001brh.1_Missense_Mutation_p.L280F|EPB41_uc001bri.1_Missense_Mutation_p.L454F|EPB41_uc001brj.1_Missense_Mutation_p.L280F|EPB41_uc009vtk.1_Missense_Mutation_p.L454F|EPB41_uc001brk.2_Missense_Mutation_p.L489F|EPB41_uc001brl.1_Missense_Mutation_p.L489F|EPB41_uc009vtl.1_Missense_Mutation_p.L280F|EPB41_uc009vtm.1_Missense_Mutation_p.L122F	NM_203342	NP_976217	P11171	41_HUMAN	erythrocyte membrane protein band 4.1	489	FERM.				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)														---	---	---	---
MECR	51102	broad.mit.edu	37	1	29533360	29533360	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:29533360T>C	uc001brq.1	-	4	500	c.464A>G	c.(463-465)GAC>GGC	p.D155G	MECR_uc001brp.1_Missense_Mutation_p.D79G|MECR_uc001brr.1_Missense_Mutation_p.D79G|MECR_uc001brs.1_RNA|MECR_uc001brt.1_Missense_Mutation_p.D79G|MECR_uc010ofz.1_Missense_Mutation_p.D155G	NM_016011	NP_057095	Q9BV79	MECR_HUMAN	trans-2-enoyl-CoA reductase, mitochondrial	155					fatty acid biosynthetic process	mitochondrion	trans-2-enoyl-CoA reductase (NADPH) activity|zinc ion binding			ovary(1)	1		Colorectal(325;0.000389)|Breast(348;0.00765)|Lung NSC(340;0.0081)|all_lung(284;0.00914)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.39e-07)|COAD - Colon adenocarcinoma(152;2.04e-05)|STAD - Stomach adenocarcinoma(196;0.0195)|BRCA - Breast invasive adenocarcinoma(304;0.053)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.137)														---	---	---	---
FABP3	2170	broad.mit.edu	37	1	31838774	31838774	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:31838774C>T	uc001bss.1	-	4	423	c.361G>A	c.(361-363)GGC>AGC	p.G121S		NM_004102	NP_004093	P05413	FABPH_HUMAN	fatty acid binding protein 3	121					negative regulation of cell proliferation					ovary(1)	1		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0629)|Breast(348;0.0707)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0185)|READ - Rectum adenocarcinoma(331;0.149)														---	---	---	---
TINAGL1	64129	broad.mit.edu	37	1	32042850	32042850	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32042850G>A	uc001bta.2	+	2	227	c.101G>A	c.(100-102)GGT>GAT	p.G34D	TINAGL1_uc001bsz.2_Intron|TINAGL1_uc010ogi.1_Missense_Mutation_p.G34D|TINAGL1_uc010ogj.1_Missense_Mutation_p.G34D|TINAGL1_uc010ogk.1_Missense_Mutation_p.G34D	NM_022164	NP_071447	Q9GZM7	TINAL_HUMAN	tubulointerstitial nephritis antigen-like 1	34					endosome transport|immune response|proteolysis	extracellular region	cysteine-type endopeptidase activity|extracellular matrix structural constituent|polysaccharide binding|scavenger receptor activity				0		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		STAD - Stomach adenocarcinoma(196;0.0526)|READ - Rectum adenocarcinoma(331;0.145)														---	---	---	---
SPOCD1	90853	broad.mit.edu	37	1	32265460	32265460	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32265460C>T	uc001bts.1	-	6	1791	c.1733G>A	c.(1732-1734)GGC>GAC	p.G578D	SPOCD1_uc001btt.2_5'Flank|SPOCD1_uc001btu.2_Missense_Mutation_p.G578D|SPOCD1_uc001btv.2_Missense_Mutation_p.G71D|SPOCD1_uc001btw.1_5'Flank	NM_144569	NP_653170	Q6ZMY3	SPOC1_HUMAN	SPOC domain containing 1	578					transcription, DNA-dependent					ovary(5)|breast(1)	6		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)|Ovarian(437;0.199)		STAD - Stomach adenocarcinoma(196;0.18)														---	---	---	---
EIF3I	8668	broad.mit.edu	37	1	32690021	32690021	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32690021G>A	uc001bur.3	+	5	728	c.195G>A	c.(193-195)AAG>AAA	p.K65K	C1orf91_uc001buo.3_5'Flank|C1orf91_uc001bup.3_5'Flank|C1orf91_uc009vub.1_5'Flank|C1orf91_uc010oha.1_5'Flank|C1orf91_uc001buq.3_5'Flank|EIF3I_uc009vuc.2_Silent_p.K65K|EIF3I_uc001bus.2_Silent_p.K17K	NM_003757	NP_003748	Q13347	EIF3I_HUMAN	eukaryotic translation initiation factor 3,	65	WD 2.					cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)																---	---	---	---
PHC2	1912	broad.mit.edu	37	1	33836643	33836643	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:33836643G>A	uc001bxg.1	-	3	440	c.386C>T	c.(385-387)GCG>GTG	p.A129V	PHC2_uc001bxh.1_Missense_Mutation_p.A129V|PHC2_uc009vuh.1_Missense_Mutation_p.A129V|PHC2_uc001bxi.1_Missense_Mutation_p.A129V	NM_198040	NP_932157	Q8IXK0	PHC2_HUMAN	polyhomeotic-like 2 isoform a	129					multicellular organismal development	PcG protein complex	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)																---	---	---	---
PHC2	1912	broad.mit.edu	37	1	33840979	33840979	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:33840979C>T	uc001bxg.1	-	1	216	c.162G>A	c.(160-162)CGG>CGA	p.R54R	PHC2_uc001bxh.1_Silent_p.R54R|PHC2_uc009vuh.1_Silent_p.R54R|PHC2_uc001bxi.1_Silent_p.R54R	NM_198040	NP_932157	Q8IXK0	PHC2_HUMAN	polyhomeotic-like 2 isoform a	54					multicellular organismal development	PcG protein complex	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)																---	---	---	---
ZSCAN20	7579	broad.mit.edu	37	1	33944899	33944899	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:33944899G>A	uc001bxj.3	+	2	177	c.10G>A	c.(10-12)GCC>ACC	p.A4T	ZSCAN20_uc001bxk.2_Missense_Mutation_p.A4T|ZSCAN20_uc009vui.2_Missense_Mutation_p.A4T	NM_145238	NP_660281	P17040	ZSC20_HUMAN	zinc finger protein 31	4					viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)																---	---	---	---
CSMD2	114784	broad.mit.edu	37	1	33985194	33985194	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:33985194T>C	uc001bxn.1	-	69	10417	c.10388A>G	c.(10387-10389)GAC>GGC	p.D3463G	CSMD2_uc001bxm.1_Missense_Mutation_p.D3607G	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3463	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)																---	---	---	---
CSMD2	114784	broad.mit.edu	37	1	34128652	34128652	+	Missense_Mutation	SNP	C	T	T	rs142169949	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34128652C>T	uc001bxn.1	-	26	4002	c.3973G>A	c.(3973-3975)GTG>ATG	p.V1325M	CSMD2_uc001bxm.1_Missense_Mutation_p.V1365M|CSMD2_uc001bxo.1_Missense_Mutation_p.V238M	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1325	CUB 8.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)																---	---	---	---
ZMYM4	9202	broad.mit.edu	37	1	35855553	35855553	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:35855553C>T	uc001byt.2	+	15	2521	c.2441C>T	c.(2440-2442)GCC>GTC	p.A814V	ZMYM4_uc009vuu.2_Missense_Mutation_p.A782V|ZMYM4_uc001byu.2_Missense_Mutation_p.A490V|ZMYM4_uc009vuv.2_Missense_Mutation_p.A553V	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	814	MYM-type 9.				multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)																---	---	---	---
PSMB2	5690	broad.mit.edu	37	1	36074953	36074953	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36074953C>T	uc001bzf.1	-	4	452	c.342G>A	c.(340-342)GCG>GCA	p.A114A	PSMB2_uc001bzd.1_Silent_p.A114A|PSMB2_uc010ohz.1_Silent_p.A89A|PSMB2_uc001bzg.1_Silent_p.A114A	NM_002794	NP_002785	P49721	PSB2_HUMAN	proteasome beta 2 subunit	114					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)			Bortezomib(DB00188)													---	---	---	---
CLSPN	63967	broad.mit.edu	37	1	36203693	36203693	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36203693C>T	uc001bzi.2	-	22	3644	c.3564G>A	c.(3562-3564)CAG>CAA	p.Q1188Q	CLSPN_uc009vux.2_Silent_p.Q1124Q	NM_022111	NP_071394	Q9HAW4	CLSPN_HUMAN	claspin	1188					activation of protein kinase activity|cell cycle|cellular component disassembly involved in apoptosis|DNA repair|DNA replication|G2/M transition DNA damage checkpoint|mitotic cell cycle DNA replication checkpoint|peptidyl-serine phosphorylation	nucleoplasm	anaphase-promoting complex binding|DNA binding			breast(2)|ovary(2)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)																---	---	---	---
EIF2C4	192670	broad.mit.edu	37	1	36297542	36297542	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36297542G>A	uc001bzj.1	+							NM_017629	NP_060099			eukaryotic translation initiation factor 2C, 4						mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)																---	---	---	---
EIF2C1	26523	broad.mit.edu	37	1	36367904	36367904	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36367904G>A	uc001bzl.2	+	11	1576	c.1363G>A	c.(1363-1365)GCA>ACA	p.A455T	EIF2C1_uc001bzk.2_Missense_Mutation_p.A380T|EIF2C1_uc009vuy.2_Intron	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	455					negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)																---	---	---	---
THRAP3	9967	broad.mit.edu	37	1	36752132	36752132	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36752132C>T	uc001cae.3	+	4	525	c.301C>T	c.(301-303)CGA>TGA	p.R101*	THRAP3_uc001caf.3_Nonsense_Mutation_p.R101*|THRAP3_uc001cag.1_Nonsense_Mutation_p.R101*	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	101	Arg-rich.|Ser-rich.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)						T	USP6	aneurysmal bone cysts								---	---	---	---
OSCP1	127700	broad.mit.edu	37	1	36886127	36886127	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36886127G>A	uc001cap.2	-	9	1021	c.939C>T	c.(937-939)GGC>GGT	p.G313G	OSCP1_uc001caq.2_Silent_p.G303G	NM_145047	NP_659484	Q8WVF1	OSCP1_HUMAN	oxidored-nitro domain-containing protein isoform	313					transport	basal plasma membrane				ovary(2)|central_nervous_system(1)|pancreas(1)	4																OREG0013368	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
GRIK3	2899	broad.mit.edu	37	1	37346268	37346268	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:37346268G>A	uc001caz.2	-	3	652	c.517C>T	c.(517-519)CGG>TGG	p.R173W	GRIK3_uc001cba.1_Missense_Mutation_p.R173W	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	173	Extracellular (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)													---	---	---	---
EPHA10	284656	broad.mit.edu	37	1	38227345	38227345	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:38227345G>A	uc009vvi.2	-	3	668	c.582C>T	c.(580-582)GAC>GAT	p.D194D	EPHA10_uc001cbw.3_Silent_p.D194D	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	194	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)																---	---	---	---
MACF1	23499	broad.mit.edu	37	1	39797772	39797772	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39797772G>A	uc010oiu.1	+	1	963	c.832G>A	c.(832-834)GCC>ACC	p.A278T	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1843	Plectin 4.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)															---	---	---	---
MACF1	23499	broad.mit.edu	37	1	39926453	39926453	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39926453C>T	uc010oiu.1	+	57	16970	c.16839C>T	c.(16837-16839)GGC>GGT	p.G5613G	MACF1_uc010ois.1_Silent_p.G5111G|MACF1_uc001cde.1_5'Flank|MACF1_uc001cdf.1_5'Flank	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	7069	EF-hand 1.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)															---	---	---	---
MACF1	23499	broad.mit.edu	37	1	39951352	39951352	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39951352C>T	uc010oiu.1	+	64	17834	c.17703C>T	c.(17701-17703)AGC>AGT	p.S5901S	MACF1_uc010ois.1_Silent_p.S5393S|MACF1_uc001cde.1_Silent_p.S307S|MACF1_uc001cdf.1_Silent_p.S276S|MACF1_uc001cdg.2_3'UTR|MACF1_uc001cdh.2_3'UTR	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	7351	Ser-rich.|C-terminal tail (By similarity).				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)															---	---	---	---
PPIE	10450	broad.mit.edu	37	1	40205879	40205879	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40205879C>T	uc001cds.1	+	2	117	c.74C>T	c.(73-75)GCG>GTG	p.A25V	PPIE_uc001cdt.1_5'UTR|PPIE_uc010oiy.1_5'UTR|PPIE_uc001cdu.1_RNA|PPIE_uc001cdv.2_Missense_Mutation_p.A25V|PPIE_uc001cdw.2_Missense_Mutation_p.A25V|PPIE_uc001cdx.1_5'Flank	NM_006112	NP_006103	Q9UNP9	PPIE_HUMAN	peptidylprolyl isomerase E isoform 1	25	RRM.				protein folding|regulation of transcription, DNA-dependent	catalytic step 2 spliceosome	cyclosporin A binding|nucleotide binding|peptidyl-prolyl cis-trans isomerase activity|protein binding|RNA binding				0	all_cancers(7;1.63e-13)|all_lung(5;2.27e-16)|all_epithelial(6;1.35e-15)|Lung NSC(20;1.49e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;2.7e-17)|all cancers(16;5.5e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)															---	---	---	---
MYCL1	4610	broad.mit.edu	37	1	40363547	40363547	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40363547G>A	uc001cer.1	-	3	809	c.592C>T	c.(592-594)CCC>TCC	p.P198S	MYCL1_uc001ces.1_Missense_Mutation_p.P198S	NM_001033082	NP_001028254	P12524	MYCL1_HUMAN	l-myc-1 proto-oncogene isoform 1	198						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 								---	---	---	---
RLF	6018	broad.mit.edu	37	1	40702413	40702413	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40702413G>A	uc001cfc.3	+	8	2070	c.2039G>A	c.(2038-2040)CGT>CAT	p.R680H	RLF_uc001cfd.3_Missense_Mutation_p.R371H	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	680	C2H2-type 2.				chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)															---	---	---	---
SMAP2	64744	broad.mit.edu	37	1	40887722	40887722	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40887722C>T	uc001cfj.2	+	10	1304	c.1239C>T	c.(1237-1239)GGC>GGT	p.G413G	SMAP2_uc001cfk.2_Silent_p.G383G|SMAP2_uc010oji.1_Silent_p.G330G|SMAP2_uc010ojj.1_Silent_p.G229G	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	413	Interaction with PICALM (By similarity).				regulation of ARF GTPase activity	cytoplasm|nucleus	ARF GTPase activator activity|zinc ion binding				0	Lung NSC(20;1.56e-05)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.04e-17)															---	---	---	---
ZNF643	65243	broad.mit.edu	37	1	40928564	40928564	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40928564G>T	uc001cfn.1	+	5	1205	c.908G>T	c.(907-909)GGG>GTG	p.G303V	ZNF643_uc001cfl.1_Missense_Mutation_p.G201V|ZNF643_uc001cfm.1_Missense_Mutation_p.G169V	NM_023070	NP_075558	Q9UJL9	ZN643_HUMAN	zinc finger protein 643	303					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;5.25e-18)															---	---	---	---
DEM1	64789	broad.mit.edu	37	1	40981166	40981166	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40981166C>T	uc001cfp.2	+	3	1155	c.950C>T	c.(949-951)GCC>GTC	p.A317V	DEM1_uc001cfq.2_Missense_Mutation_p.A317V|DEM1_uc001cfr.2_Missense_Mutation_p.A317V|DEM1_uc001cfs.2_Missense_Mutation_p.A317V	NM_022774	NP_073611	Q9H790	EXO5_HUMAN	defects in morphology 1 homolog	317							DNA binding|exonuclease activity				0																		---	---	---	---
KCNQ4	9132	broad.mit.edu	37	1	41300742	41300742	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:41300742C>T	uc001cgh.1	+	12	1799	c.1717C>T	c.(1717-1719)CTG>TTG	p.L573L	KCNQ4_uc001cgi.1_Silent_p.L519L	NM_004700	NP_004691	P56696	KCNQ4_HUMAN	potassium voltage-gated channel KQT-like protein	573	Cytoplasmic.|A-domain (Tetramerization).				sensory perception of sound	basal plasma membrane|voltage-gated potassium channel complex				central_nervous_system(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.38e-17)															---	---	---	---
CTPS	1503	broad.mit.edu	37	1	41463094	41463094	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:41463094A>G	uc001cgk.3	+	9	1409	c.901A>G	c.(901-903)ATT>GTT	p.I301V	CTPS_uc010ojo.1_Missense_Mutation_p.I70V|CTPS_uc001cgl.3_Missense_Mutation_p.I301V|CTPS_uc010ojq.1_Missense_Mutation_p.I145V|CTPS_uc009vwe.2_Missense_Mutation_p.I21V	NM_001905	NP_001896	P17812	PYRG1_HUMAN	CTP synthase	301	Glutamine amidotransferase type-1.				CTP biosynthetic process|glutamine metabolic process|nucleobase, nucleoside and nucleotide interconversion|response to drug	cytosol	ATP binding|CTP synthase activity|protein binding				0	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)			L-Glutamine(DB00130)													---	---	---	---
SLFNL1	200172	broad.mit.edu	37	1	41483534	41483534	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:41483534G>A	uc001cgm.1	-	3	950	c.730C>T	c.(730-732)CGG>TGG	p.R244W	SLFNL1_uc009vwf.1_Missense_Mutation_p.R244W|SLFNL1_uc001cgn.1_Missense_Mutation_p.R185W|SLFNL1_uc009vwg.1_Missense_Mutation_p.R244W	NM_144990	NP_659427	Q499Z3	SLNL1_HUMAN	schlafen-like 1	244							ATP binding			skin(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0393)																---	---	---	---
FOXJ3	22887	broad.mit.edu	37	1	42664858	42664858	+	Missense_Mutation	SNP	C	T	T	rs146466322		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:42664858C>T	uc001che.2	-	9	986	c.674G>A	c.(673-675)CGC>CAC	p.R225H	FOXJ3_uc001chf.2_Missense_Mutation_p.R225H|FOXJ3_uc001chg.2_Missense_Mutation_p.R225H|FOXJ3_uc001chh.1_Missense_Mutation_p.R191H	NM_014947	NP_055762	Q9UPW0	FOXJ3_HUMAN	forkhead box J3	225					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)	2	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)																---	---	---	---
LEPRE1	64175	broad.mit.edu	37	1	43213468	43213468	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43213468C>T	uc001chv.2	-	13	1953	c.1840G>A	c.(1840-1842)GCC>ACC	p.A614T	LEPRE1_uc001chw.2_Missense_Mutation_p.A614T|LEPRE1_uc001chx.3_Missense_Mutation_p.A614T	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1	614	Fe2OG dioxygenase.				negative regulation of cell proliferation	endoplasmic reticulum|proteinaceous extracellular matrix	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 3-dioxygenase activity			ovary(3)|lung(1)	4	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)			L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)													---	---	---	---
SLC2A1	6513	broad.mit.edu	37	1	43396803	43396803	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43396803C>T	uc001cik.2	-	3	714	c.189G>A	c.(187-189)ACG>ACA	p.T63T		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	63	Extracellular (Potential).				carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)											OREG0013425	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
KIAA0467	23334	broad.mit.edu	37	1	43889992	43889992	+	5'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43889992C>T	uc001cjk.1	+	2					KIAA0467_uc009vws.1_Missense_Mutation_p.A787V	NM_015284	NP_056099			hypothetical protein LOC23334							peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)																---	---	---	---
KIAA0467	23334	broad.mit.edu	37	1	43896333	43896333	+	Silent	SNP	C	T	T	rs149192929	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43896333C>T	uc001cjk.1	+	17	2412	c.1950C>T	c.(1948-1950)GGC>GGT	p.G650G		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	1549						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)																---	---	---	---
KIAA0467	23334	broad.mit.edu	37	1	43904428	43904428	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43904428G>A	uc001cjk.1	+	32	4332	c.3870G>A	c.(3868-3870)ACG>ACA	p.T1290T		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	2189						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)																---	---	---	---
PTPRF	5792	broad.mit.edu	37	1	44086246	44086246	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44086246C>T	uc001cjr.2	+	31	5700	c.5360C>T	c.(5359-5361)GCC>GTC	p.A1787V	PTPRF_uc001cjs.2_Missense_Mutation_p.A1778V|PTPRF_uc001cju.2_Missense_Mutation_p.A1176V|PTPRF_uc009vwt.2_Missense_Mutation_p.A1347V|PTPRF_uc001cjv.2_Missense_Mutation_p.A1258V|PTPRF_uc001cjw.2_Missense_Mutation_p.A1013V	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1787	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)																---	---	---	---
KDM4A	9682	broad.mit.edu	37	1	44128589	44128589	+	Missense_Mutation	SNP	C	T	T	rs140820309		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44128589C>T	uc001cjx.2	+	5	620	c.454C>T	c.(454-456)CGG>TGG	p.R152W	KDM4A_uc010oki.1_Missense_Mutation_p.R152W	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	152	JmjC.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding	p.R152W(1)		skin(1)	1																		---	---	---	---
KDM4A	9682	broad.mit.edu	37	1	44137305	44137305	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44137305G>A	uc001cjx.2	+	11	1659	c.1493G>A	c.(1492-1494)CGC>CAC	p.R498H	KDM4A_uc010oki.1_Intron	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	498					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1																		---	---	---	---
B4GALT2	8704	broad.mit.edu	37	1	44446911	44446911	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44446911G>A	uc001clg.2	+	2	449	c.79G>A	c.(79-81)GCC>ACC	p.A27T	B4GALT2_uc001clh.2_5'UTR|B4GALT2_uc010okl.1_Missense_Mutation_p.A56T|B4GALT2_uc001cli.2_Missense_Mutation_p.A27T	NM_003780	NP_003771	O60909	B4GT2_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	27	Helical; Signal-anchor for type II membrane protein; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			N-Acetyl-D-glucosamine(DB00141)													---	---	---	---
SLC6A9	6536	broad.mit.edu	37	1	44467145	44467145	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44467145C>T	uc001cll.2	-	9	1528	c.1336G>A	c.(1336-1338)GAG>AAG	p.E446K	SLC6A9_uc009vxe.2_Missense_Mutation_p.E302K|SLC6A9_uc010okm.1_Missense_Mutation_p.E373K|SLC6A9_uc001clm.2_Missense_Mutation_p.E392K|SLC6A9_uc009vxd.2_RNA|SLC6A9_uc010okn.1_Missense_Mutation_p.E377K|SLC6A9_uc001cln.2_Missense_Mutation_p.E373K|SLC6A9_uc010oko.1_Missense_Mutation_p.E262K|SLC6A9_uc010okp.1_RNA	NM_201649	NP_964012	P48067	SC6A9_HUMAN	solute carrier family 6 member 9 isoform 2	446						integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)													---	---	---	---
SLC6A9	6536	broad.mit.edu	37	1	44489952	44489952	+	5'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44489952C>T	uc001cln.2	-	2					SLC6A9_uc010okm.1_5'UTR|SLC6A9_uc010oko.1_5'UTR|SLC6A9_uc010okp.1_RNA	NM_001024845	NP_001020016			solute carrier family 6 member 9 isoform 3							integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)													---	---	---	---
RNF220	55182	broad.mit.edu	37	1	44877906	44877906	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44877906G>A	uc001clv.1	+	2	497	c.137G>A	c.(136-138)CGA>CAA	p.R46Q	RNF220_uc001clw.1_Missense_Mutation_p.R46Q	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	46					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2																		---	---	---	---
RNF220	55182	broad.mit.edu	37	1	45110700	45110700	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45110700C>T	uc001clv.1	+	10	1617	c.1257C>T	c.(1255-1257)GGC>GGT	p.G419G	RNF220_uc001clw.1_Silent_p.G419G|RNF220_uc010oky.1_Silent_p.G206G|RNF220_uc010okz.1_Silent_p.G161G|RNF220_uc001clx.1_Silent_p.G135G|RNF220_uc001cly.1_Silent_p.G98G|RNF220_uc001clz.1_Silent_p.G98G|RNF220_uc001cma.1_Silent_p.G98G|TMEM53_uc001cmb.1_Intron	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	419					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2																		---	---	---	---
BEND5	79656	broad.mit.edu	37	1	49208298	49208298	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:49208298G>T	uc001crx.3	-	4	935	c.891C>A	c.(889-891)GGC>GGA	p.G297G	AGBL4_uc001cru.2_Intron|AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron|BEND5_uc001crw.3_Silent_p.G128G	NM_024603	NP_078879	Q7L4P6	BEND5_HUMAN	BEN domain containing 5	297										skin(1)	1																		---	---	---	---
FAF1	11124	broad.mit.edu	37	1	51050377	51050377	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:51050377G>A	uc009vyx.1	-	11	1010	c.947C>T	c.(946-948)GCC>GTC	p.A316V	FAF1_uc009vyw.1_Intron|FAF1_uc001cse.1_Missense_Mutation_p.A316V|FAF1_uc010onc.1_Missense_Mutation_p.A74V	NM_007051	NP_008982	Q9UNN5	FAF1_HUMAN	FAS-associated factor 1	316					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)														---	---	---	---
TTC39A	22996	broad.mit.edu	37	1	51767382	51767382	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:51767382G>A	uc001csl.2	-	12	1128	c.1023C>T	c.(1021-1023)TGC>TGT	p.C341C	TTC39A_uc001csk.2_Silent_p.C306C|TTC39A_uc010ond.1_Silent_p.C278C|TTC39A_uc010one.1_Silent_p.C305C|TTC39A_uc010onf.1_Silent_p.C309C|TTC39A_uc001csn.2_Silent_p.C340C|TTC39A_uc001cso.1_3'UTR|TTC39A_uc009vyy.1_Silent_p.C278C	NM_001080494	NP_001073963	Q5SRH9	TT39A_HUMAN	tetratricopeptide repeat domain 39A isoform 2	341	TPR 1.						binding			skin(1)	1																		---	---	---	---
ORC1L	4998	broad.mit.edu	37	1	52861918	52861918	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52861918G>A	uc001ctt.2	-	5	740	c.521C>T	c.(520-522)GCG>GTG	p.A174V	ORC1L_uc010oni.1_Missense_Mutation_p.A174V|ORC1L_uc001ctu.2_Missense_Mutation_p.A174V|ORC1L_uc009vzd.2_5'UTR	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	174					cell cycle checkpoint|DNA-dependent DNA replication initiation|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	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0																		---	---	---	---
ZCCHC11	23318	broad.mit.edu	37	1	52954594	52954594	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52954594C>T	uc001ctx.2	-	9	1736	c.1502G>A	c.(1501-1503)CGC>CAC	p.R501H	ZCCHC11_uc001cty.2_Missense_Mutation_p.R501H|ZCCHC11_uc001ctz.2_Missense_Mutation_p.R501H|ZCCHC11_uc009vze.1_Missense_Mutation_p.R501H|ZCCHC11_uc009vzf.1_Missense_Mutation_p.R260H|ZCCHC11_uc001cub.2_Missense_Mutation_p.R501H|ZCCHC11_uc001cuc.2_RNA	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	501					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3																		---	---	---	---
USP24	23358	broad.mit.edu	37	1	55562761	55562761	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55562761G>A	uc001cyg.3	-	46	5320	c.5320C>T	c.(5320-5322)CGA>TGA	p.R1774*		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	1934					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13																		---	---	---	---
CYP2J2	1573	broad.mit.edu	37	1	60375619	60375619	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:60375619A>G	uc001czq.2	-	5	703	c.698T>C	c.(697-699)TTT>TCT	p.F233S		NM_000775	NP_000766	P51589	CP2J2_HUMAN	cytochrome P450, family 2, subfamily J,	233					epoxygenase P450 pathway|linoleic acid metabolic process|regulation of heart contraction|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	arachidonic acid 11,12-epoxygenase activity|arachidonic acid 14,15-epoxygenase activity|aromatase activity|electron carrier activity|heme binding|linoleic acid epoxygenase activity			ovary(1)	1	all_cancers(7;0.000396)																	---	---	---	---
INADL	10207	broad.mit.edu	37	1	62293227	62293227	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62293227G>A	uc001dab.2	+	16	2066	c.1952G>A	c.(1951-1953)CGC>CAC	p.R651H	INADL_uc009waf.1_Missense_Mutation_p.R651H|INADL_uc001daa.2_Missense_Mutation_p.R651H|INADL_uc001dad.3_Missense_Mutation_p.R348H|INADL_uc001dac.2_RNA	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	651					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4																		---	---	---	---
DOCK7	85440	broad.mit.edu	37	1	62993865	62993865	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62993865A>G	uc001daq.2	-	31	3927	c.3893T>C	c.(3892-3894)GTC>GCC	p.V1298A	DOCK7_uc001dan.2_Missense_Mutation_p.V1159A|DOCK7_uc001dao.2_Missense_Mutation_p.V1159A|DOCK7_uc001dap.2_Missense_Mutation_p.V1267A|DOCK7_uc001dam.2_Missense_Mutation_p.V478A|DOCK7_uc010oov.1_Intron	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1298					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2																		---	---	---	---
DOCK7	85440	broad.mit.edu	37	1	63113777	63113777	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:63113777C>T	uc001daq.2	-	6	766	c.732G>A	c.(730-732)GAG>GAA	p.E244E	DOCK7_uc001dan.2_Silent_p.E136E|DOCK7_uc001dao.2_Silent_p.E136E|DOCK7_uc001dap.2_Silent_p.E244E|DOCK7_uc009wah.1_Silent_p.E244E	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	244					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2																		---	---	---	---
ITGB3BP	23421	broad.mit.edu	37	1	63912521	63912521	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:63912521C>T	uc001dba.1	-	8	522	c.491G>A	c.(490-492)CGT>CAT	p.R164H	ITGB3BP_uc001dbb.1_Missense_Mutation_p.R203H|ITGB3BP_uc001dbc.1_RNA|ITGB3BP_uc001dbd.1_Intron	NM_014288	NP_055103	Q13352	CENPR_HUMAN	integrin beta 3 binding protein	164					apoptosis|cell adhesion|CenH3-containing nucleosome assembly at centromere|induction of apoptosis by extracellular signals|mitotic prometaphase|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome, centromeric region|cytosol|membrane fraction|nucleoplasm	protein C-terminus binding|signal transducer activity				0																		---	---	---	---
EFCAB7	84455	broad.mit.edu	37	1	63991248	63991248	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:63991248C>T	uc001dbf.2	+	2	299	c.5C>T	c.(4-6)GCG>GTG	p.A2V	ITGB3BP_uc001dba.1_5'Flank|ITGB3BP_uc001dbb.1_5'Flank|ITGB3BP_uc001dbc.1_5'Flank|ITGB3BP_uc001dbd.1_5'Flank|ITGB3BP_uc009wak.1_5'Flank	NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	2							calcium ion binding				0																		---	---	---	---
EFCAB7	84455	broad.mit.edu	37	1	63999206	63999206	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:63999206C>T	uc001dbf.2	+	5	862	c.568C>T	c.(568-570)CGT>TGT	p.R190C		NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	190							calcium ion binding				0																		---	---	---	---
EFCAB7	84455	broad.mit.edu	37	1	64034139	64034139	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:64034139C>T	uc001dbf.2	+	12	1950	c.1656C>T	c.(1654-1656)ATC>ATT	p.I552I		NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	552							calcium ion binding				0																		---	---	---	---
CACHD1	57685	broad.mit.edu	37	1	65138932	65138932	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65138932A>G	uc001dbo.1	+	18	2554	c.2449A>G	c.(2449-2451)ACC>GCC	p.T817A	CACHD1_uc001dbp.1_Missense_Mutation_p.T572A|CACHD1_uc001dbq.1_Missense_Mutation_p.T572A|CACHD1_uc010opa.1_Missense_Mutation_p.T61A	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	868	Extracellular (Potential).				calcium ion transport	integral to membrane				ovary(2)	2																		---	---	---	---
JAK1	3716	broad.mit.edu	37	1	65307123	65307123	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65307123G>A	uc001dbu.1	-						JAK1_uc009wam.1_Intron|JAK1_uc009wal.1_Intron	NM_002227	NP_002218			janus kinase 1						interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)				Mis		ALL								---	---	---	---
JAK1	3716	broad.mit.edu	37	1	65344791	65344791	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65344791G>A	uc001dbu.1	-	4	495	c.246C>T	c.(244-246)GAC>GAT	p.D82D	JAK1_uc009wam.1_Silent_p.D70D|JAK1_uc001dbv.2_5'Flank	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	82	FERM.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)				Mis		ALL								---	---	---	---
DNAJC6	9829	broad.mit.edu	37	1	65851520	65851520	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65851520G>A	uc001dcd.1	+	7	919	c.755G>A	c.(754-756)CGC>CAC	p.R252H	DNAJC6_uc001dcc.1_Missense_Mutation_p.R283H|DNAJC6_uc010opc.1_Missense_Mutation_p.R239H|DNAJC6_uc001dce.1_Missense_Mutation_p.R309H	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	252	C2 tensin-type.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3																		---	---	---	---
IL23R	149233	broad.mit.edu	37	1	67724598	67724598	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67724598T>G	uc001ddo.2	+	11	1762	c.1677T>G	c.(1675-1677)AGT>AGG	p.S559R	IL23R_uc009waz.2_Missense_Mutation_p.S356R|IL23R_uc010opi.1_RNA|IL23R_uc010opj.1_Missense_Mutation_p.S157R|IL23R_uc010opk.1_3'UTR|IL23R_uc010opl.1_Missense_Mutation_p.S141R|IL23R_uc010opm.1_RNA|IL23R_uc001ddq.2_Missense_Mutation_p.S305R|IL23R_uc010opn.1_Missense_Mutation_p.S404R|IL23R_uc001ddr.2_RNA|IL23R_uc010ops.1_Missense_Mutation_p.S356R|IL23R_uc010opt.1_Missense_Mutation_p.S200R|IL23R_uc010opu.1_Missense_Mutation_p.S255R|IL23R_uc010opv.1_Missense_Mutation_p.S317R|IL23R_uc010opw.1_Missense_Mutation_p.S194R|IL23R_uc010opx.1_Missense_Mutation_p.S200R|IL23R_uc010opy.1_Missense_Mutation_p.S326R|IL23R_uc010opz.1_Missense_Mutation_p.S200R|IL23R_uc010oqa.1_Missense_Mutation_p.S200R|IL23R_uc010oqb.1_Missense_Mutation_p.S388R|IL23R_uc010oqc.1_Missense_Mutation_p.S275R|IL23R_uc010oqd.1_Missense_Mutation_p.S194R|IL23R_uc010oqe.1_Missense_Mutation_p.S157R|IL23R_uc010oqf.1_Missense_Mutation_p.S157R|IL23R_uc010oqg.1_Missense_Mutation_p.S157R|IL23R_uc010oqh.1_Missense_Mutation_p.S200R|IL23R_uc001dds.2_Missense_Mutation_p.S304R|IL23R_uc001ddt.2_Missense_Mutation_p.S157R	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor	559	Cytoplasmic (Potential).				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																		---	---	---	---
IL12RB2	3595	broad.mit.edu	37	1	67838350	67838350	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67838350A>G	uc001ddu.2	+	12	2241	c.1601A>G	c.(1600-1602)AAG>AGG	p.K534R	IL12RB2_uc010oqi.1_Missense_Mutation_p.K534R|IL12RB2_uc010oqj.1_Missense_Mutation_p.K534R|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Intron|IL12RB2_uc010oqm.1_Missense_Mutation_p.K534R|IL12RB2_uc010oqn.1_Intron	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	534	Fibronectin type-III 5.|Extracellular (Potential).				positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
WLS	79971	broad.mit.edu	37	1	68659743	68659743	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:68659743A>C	uc001def.1	-	2	545	c.274T>G	c.(274-276)TTT>GTT	p.F92V	uc001deb.1_Intron|uc001dec.1_Intron|WLS_uc001dee.2_Missense_Mutation_p.F90V|WLS_uc001deg.1_Intron|WLS_uc001deh.1_Missense_Mutation_p.F92V|WLS_uc009wbf.1_Missense_Mutation_p.F47V	NM_024911	NP_079187	Q5T9L3	WLS_HUMAN	G protein-coupled receptor 177 isoform 1	92	Lumenal (Potential).				multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Wnt receptor signaling pathway	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	signal transducer activity				0																		---	---	---	---
RPE65	6121	broad.mit.edu	37	1	68912408	68912408	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:68912408A>T	uc001dei.1	-	3	284	c.230T>A	c.(229-231)GTC>GAC	p.V77D		NM_000329	NP_000320	Q16518	RPE65_HUMAN	retinal pigment epithelium-specific protein	77					visual perception	cytoplasm|plasma membrane	all-trans-retinyl-palmitate hydrolase activity|metal ion binding|retinol isomerase activity			ovary(1)	1																		---	---	---	---
LRRC7	57554	broad.mit.edu	37	1	70478695	70478695	+	Silent	SNP	C	T	T	rs149111202	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:70478695C>T	uc001dep.2	+	11	1089	c.1059C>T	c.(1057-1059)CGC>CGT	p.R353R	LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	353	LRR 15.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14																		---	---	---	---
SFRS11	9295	broad.mit.edu	37	1	70700384	70700384	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:70700384C>T	uc001des.2	+	5	577	c.453C>T	c.(451-453)GGC>GGT	p.G151G	SFRS11_uc001det.2_Silent_p.G151G|SFRS11_uc001deu.2_Silent_p.G151G|SFRS11_uc001dev.2_5'UTR|SFRS11_uc001dew.2_Silent_p.G91G	NM_004768	NP_004759	Q05519	SRS11_HUMAN	splicing factor, arginine/serine-rich 11	151					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				0																		---	---	---	---
ANKRD13C	81573	broad.mit.edu	37	1	70766510	70766510	+	Silent	SNP	C	T	T	rs138861589		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:70766510C>T	uc001dex.3	-	7	1184	c.858G>A	c.(856-858)GCG>GCA	p.A286A	ANKRD13C_uc009wbk.2_Silent_p.A251A	NM_030816	NP_110443	Q8N6S4	AN13C_HUMAN	ankyrin repeat domain 13C	286					protein retention in ER lumen|regulation of anoikis|regulation of receptor biosynthetic process	endoplasmic reticulum membrane|perinuclear region of cytoplasm	receptor binding				0																		---	---	---	---
TNNI3K	51086	broad.mit.edu	37	1	74665521	74665521	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:74665521C>T	uc001dge.1	+						LRRIQ3_uc001dfy.3_5'Flank|LRRIQ3_uc001dfz.3_5'Flank|TNNI3K_uc001dgc.1_Intron|TNNI3K_uc001dgd.2_Intron|FPGT_uc010oqt.1_Intron|FPGT_uc010oqu.1_Intron|FPGT_uc001dgb.1_Intron|FPGT_uc010oqv.1_Intron	NM_001112808	NP_001106279			TNNI3 interacting kinase isoform a							cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10																		---	---	---	---
MSH4	4438	broad.mit.edu	37	1	76272758	76272758	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:76272758G>A	uc001dhd.1	+	3	561	c.520G>A	c.(520-522)GCA>ACA	p.A174T		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	174					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5													MMR					---	---	---	---
ST6GALNAC3	256435	broad.mit.edu	37	1	76877955	76877955	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:76877955G>A	uc001dhh.2	+	3	639	c.476G>A	c.(475-477)CGC>CAC	p.R159H	ST6GALNAC3_uc001dhg.3_Missense_Mutation_p.R159H|ST6GALNAC3_uc010orh.1_Missense_Mutation_p.R94H	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1	159	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5																		---	---	---	---
USP33	23032	broad.mit.edu	37	1	78187762	78187762	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78187762G>A	uc001dht.2	-	14	1949	c.1602C>T	c.(1600-1602)GGC>GGT	p.G534G	USP33_uc001dhs.2_Silent_p.G255G|USP33_uc001dhu.2_Silent_p.G503G|USP33_uc001dhv.2_Silent_p.G339G|USP33_uc001dhw.2_Silent_p.G534G	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	534					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3																		---	---	---	---
FAM73A	374986	broad.mit.edu	37	1	78272690	78272690	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78272690G>A	uc001dhx.2	+	5	573	c.541G>A	c.(541-543)GCT>ACT	p.A181T	FAM73A_uc010ork.1_Missense_Mutation_p.A181T|FAM73A_uc010orl.1_Missense_Mutation_p.A143T|FAM73A_uc001dhy.1_5'UTR	NM_198549	NP_940951	Q8NAN2	FA73A_HUMAN	hypothetical protein LOC374986	181						integral to membrane				ovary(1)	1				Colorectal(170;0.226)														---	---	---	---
NEXN	91624	broad.mit.edu	37	1	78383873	78383873	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78383873C>T	uc001dic.3	+	5	659	c.362C>T	c.(361-363)ACG>ATG	p.T121M	NEXN_uc001dia.3_Missense_Mutation_p.T121M|NEXN_uc009wcb.1_Missense_Mutation_p.T57M|NEXN_uc001dib.3_Missense_Mutation_p.T57M|NEXN_uc001did.1_Missense_Mutation_p.T45M|NEXN_uc001dif.1_Missense_Mutation_p.T13M	NM_144573	NP_653174	Q0ZGT2	NEXN_HUMAN	nexilin (F actin binding protein)	121	Glu-rich.				regulation of cell migration|regulation of cytoskeleton organization	cytoskeleton|Z disc	actin filament binding|structural constituent of muscle			ovary(2)	2				Colorectal(170;0.114)														---	---	---	---
IFI44	10561	broad.mit.edu	37	1	79128420	79128420	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:79128420C>A	uc001dip.3	+	8	1269	c.1145C>A	c.(1144-1146)GCT>GAT	p.A382D		NM_006417	NP_006408	Q8TCB0	IFI44_HUMAN	interferon-induced, hepatitis C-associated	382					response to virus	cytoplasm				ovary(1)|central_nervous_system(1)	2																		---	---	---	---
LPHN2	23266	broad.mit.edu	37	1	82416716	82416716	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:82416716C>A	uc001dit.3	+	8	1688	c.1507C>A	c.(1507-1509)CTC>ATC	p.L503I	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Missense_Mutation_p.L503I|LPHN2_uc001div.2_Missense_Mutation_p.L503I|LPHN2_uc009wcd.2_Missense_Mutation_p.L503I|LPHN2_uc001diw.2_Missense_Mutation_p.L74I	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	503	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)														---	---	---	---
RPF1	80135	broad.mit.edu	37	1	84961086	84961086	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:84961086G>A	uc001djv.3	+	6	692	c.647G>A	c.(646-648)GGC>GAC	p.G216D		NM_025065	NP_079341	Q9H9Y2	RPF1_HUMAN	RNA processing factor 1	216	Brix.				rRNA processing|translation	nucleolus	aminoacyl-tRNA ligase activity|ATP binding|rRNA binding				0																		---	---	---	---
WDR63	126820	broad.mit.edu	37	1	85559307	85559307	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:85559307G>A	uc001dkt.2	+	9	1215	c.1024G>A	c.(1024-1026)GTC>ATC	p.V342I	WDR63_uc009wcl.2_Missense_Mutation_p.V303I	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	342										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)														---	---	---	---
COL24A1	255631	broad.mit.edu	37	1	86590944	86590944	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:86590944C>T	uc001dlj.2	-	3	1117	c.1075G>A	c.(1075-1077)GCA>ACA	p.A359T	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.A359T	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	359					cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)														---	---	---	---
COL24A1	255631	broad.mit.edu	37	1	86591810	86591810	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:86591810G>A	uc001dlj.2	-	3	251	c.209C>T	c.(208-210)CCG>CTG	p.P70L	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.P70L	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	70	TSP N-terminal.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)														---	---	---	---
CLCA2	9635	broad.mit.edu	37	1	86900199	86900199	+	Splice_Site	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:86900199A>G	uc001dlr.3	+	6	907	c.745_splice	c.e6-2	p.V249_splice		NM_006536	NP_006527			chloride channel accessory 2 precursor						cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)														---	---	---	---
SEP15	9403	broad.mit.edu	37	1	87333766	87333766	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:87333766T>C	uc010osi.1	-	5	649	c.336A>G	c.(334-336)AAA>AAG	p.K112K	SEP15_uc010osj.1_Intron	NM_004261	NP_004252	O60613	SEP15_HUMAN	15 kDa selenoprotein isoform 1 precursor	109					'de novo' posttranslational protein folding	endoplasmic reticulum lumen	selenium binding				0		Lung NSC(277;0.153)		all cancers(265;0.00744)|Epithelial(280;0.0333)														---	---	---	---
HS2ST1	9653	broad.mit.edu	37	1	87538675	87538675	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:87538675C>T	uc010osk.1	+	2	568	c.183C>T	c.(181-183)GGC>GGT	p.G61G	HS2ST1_uc001dmc.3_Silent_p.G61G|LOC339524_uc001dme.1_Silent_p.G22G	NM_012262	NP_036394	Q7LGA3	HS2ST_HUMAN	heparan sulfate 2-O-sulfotransferase 1 isoform	61	Lumenal (Potential).					Golgi membrane|integral to membrane				central_nervous_system(1)	1		Lung NSC(277;0.153)		all cancers(265;0.00699)|Epithelial(280;0.0261)														---	---	---	---
GBP7	388646	broad.mit.edu	37	1	89630432	89630432	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:89630432G>A	uc001dna.2	-	3	439	c.300C>T	c.(298-300)GGC>GGT	p.G100G		NM_207398	NP_997281	Q8N8V2	GBP7_HUMAN	guanylate binding protein 4-like	100	GTP (By similarity).					integral to membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.0908)		all cancers(265;0.00835)|Epithelial(280;0.0322)														---	---	---	---
GBP6	163351	broad.mit.edu	37	1	89847396	89847396	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:89847396G>A	uc001dnf.2	+	7	1289	c.1015G>A	c.(1015-1017)GCC>ACC	p.A339T	GBP6_uc010ost.1_Missense_Mutation_p.A209T	NM_198460	NP_940862	Q6ZN66	GBP6_HUMAN	guanylate binding protein family, member 6	339							GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)														---	---	---	---
LRRC8D	55144	broad.mit.edu	37	1	90398905	90398905	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:90398905G>A	uc001dnm.2	+	3	703	c.278G>A	c.(277-279)CGG>CAG	p.R93Q	LRRC8D_uc001dnn.2_Missense_Mutation_p.R93Q	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	93						integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)														---	---	---	---
LRRC8D	55144	broad.mit.edu	37	1	90400837	90400837	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:90400837G>A	uc001dnm.2	+	3	2635	c.2210G>A	c.(2209-2211)AGC>AAC	p.S737N	LRRC8D_uc001dnn.2_Missense_Mutation_p.S737N	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	737	LRR 10.					integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)														---	---	---	---
HFM1	164045	broad.mit.edu	37	1	91818691	91818691	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:91818691G>T	uc001doa.3	-	15	1848	c.1748C>A	c.(1747-1749)GCT>GAT	p.A583D	HFM1_uc009wdb.2_5'Flank|HFM1_uc010osu.1_Missense_Mutation_p.A262D|HFM1_uc010osv.1_Missense_Mutation_p.A267D	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	583	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)														---	---	---	---
HFM1	164045	broad.mit.edu	37	1	91844024	91844024	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:91844024C>T	uc001doa.3	-	10	1272	c.1172G>A	c.(1171-1173)AGC>AAC	p.S391N	HFM1_uc010osu.1_Missense_Mutation_p.S70N|HFM1_uc010osv.1_Missense_Mutation_p.S75N|HFM1_uc001doc.1_Missense_Mutation_p.S391N	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	391	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)														---	---	---	---
CDC7	8317	broad.mit.edu	37	1	91977470	91977470	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:91977470C>T	uc001doe.2	+	6	727	c.562C>T	c.(562-564)CGC>TGC	p.R188C	CDC7_uc001dof.2_Missense_Mutation_p.R188C|CDC7_uc010osw.1_Missense_Mutation_p.R160C|CDC7_uc009wdc.2_Missense_Mutation_p.R188C|CDC7_uc009wdd.2_5'Flank	NM_003503	NP_003494	O00311	CDC7_HUMAN	cell division cycle 7	188	Protein kinase.				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)														---	---	---	---
GLMN	11146	broad.mit.edu	37	1	92737086	92737086	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92737086C>T	uc001dor.2	-	8	974	c.859G>A	c.(859-861)GCT>ACT	p.A287T	GLMN_uc009wdg.2_RNA|GLMN_uc001dos.2_Missense_Mutation_p.A287T	NM_053274	NP_444504	Q92990	GLMN_HUMAN	glomulin	287	Potential.				muscle cell differentiation|negative regulation of T cell proliferation|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of phosphorylation|regulation of gene expression, epigenetic|vasculogenesis	intracellular	hepatocyte growth factor receptor binding			skin(1)	1		all_lung(203;0.00827)|Lung NSC(277;0.0295)		all cancers(265;0.00702)|GBM - Glioblastoma multiforme(16;0.0381)|Epithelial(280;0.0989)										Multiple_Glomus_Tumors_(of_the_Skin)_Familial				---	---	---	---
MTF2	22823	broad.mit.edu	37	1	93584943	93584943	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:93584943G>A	uc009wdj.2	+	8	1074	c.782G>A	c.(781-783)CGT>CAT	p.R261H	MTF2_uc001dph.2_Missense_Mutation_p.R159H|MTF2_uc010oth.1_Missense_Mutation_p.R159H|MTF2_uc009wdk.2_Missense_Mutation_p.R261H|MTF2_uc001dpi.3_Silent_p.T29T|MTF2_uc010oti.1_Missense_Mutation_p.R159H|MTF2_uc001dpj.3_Missense_Mutation_p.R159H|MTF2_uc001dpl.3_Missense_Mutation_p.R159H	NM_007358	NP_031384	Q9Y483	MTF2_HUMAN	metal response element binding transcription	261						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)														---	---	---	---
BCAR3	8412	broad.mit.edu	37	1	94140374	94140374	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:94140374C>T	uc001dpz.2	-	2	388	c.113G>A	c.(112-114)CGC>CAC	p.R38H	BCAR3_uc001dqa.2_Missense_Mutation_p.R38H|BCAR3_uc001dqb.2_Missense_Mutation_p.R38H	NM_003567	NP_003558	O75815	BCAR3_HUMAN	breast cancer antiestrogen resistance 3	38					response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)														---	---	---	---
GCLM	2730	broad.mit.edu	37	1	94360188	94360188	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:94360188T>C	uc001dqg.1	-	6	930	c.637A>G	c.(637-639)ACT>GCT	p.T213A		NM_002061	NP_002052	P48507	GSH0_HUMAN	glutamate-cysteine ligase regulatory protein	213					glutamate metabolic process|glutathione biosynthetic process|regulation of blood vessel size|response to drug|response to oxidative stress|xenobiotic metabolic process	cytosol|soluble fraction	glutamate-cysteine ligase catalytic subunit binding			ovary(1)	1		all_lung(203;0.000815)|Lung NSC(277;0.00363)		all cancers(265;0.00566)|GBM - Glioblastoma multiforme(16;0.0203)|Epithelial(280;0.131)	L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)													---	---	---	---
LPPR5	163404	broad.mit.edu	37	1	99380468	99380468	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:99380468G>A	uc001dsb.2	-	5	1029	c.807C>T	c.(805-807)TGC>TGT	p.C269C	LPPR5_uc001dsc.2_Silent_p.C269C	NM_001037317	NP_001032394	Q32ZL2	LPPR5_HUMAN	phosphatidic acid phosphatase type 2d isoform 1	269	Helical; (Potential).					integral to membrane	hydrolase activity				0																		---	---	---	---
AGL	178	broad.mit.edu	37	1	100340251	100340251	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100340251C>T	uc001dsi.1	+	8	1367	c.967C>T	c.(967-969)CGA>TGA	p.R323*	AGL_uc001dsj.1_Nonsense_Mutation_p.R323*|AGL_uc001dsk.1_Nonsense_Mutation_p.R323*|AGL_uc001dsl.1_Nonsense_Mutation_p.R323*|AGL_uc001dsm.1_Nonsense_Mutation_p.R307*|AGL_uc001dsn.1_Nonsense_Mutation_p.R306*	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	323	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)														---	---	---	---
CCDC76	54482	broad.mit.edu	37	1	100606013	100606013	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100606013C>T	uc001dsv.2	+	6	463	c.444C>T	c.(442-444)CAC>CAT	p.H148H	CCDC76_uc010ouf.1_RNA|CCDC76_uc009wea.2_Silent_p.H148H	NM_019083	NP_061956	Q9NUP7	TRM13_HUMAN	coiled-coil domain containing 76	148					tRNA processing		metal ion binding|methyltransferase activity			ovary(1)	1		all_epithelial(167;0.000542)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0814)|all cancers(265;0.133)|COAD - Colon adenocarcinoma(174;0.146)|Lung(183;0.194)														---	---	---	---
RTCD1	8634	broad.mit.edu	37	1	100740462	100740462	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100740462C>T	uc001dtc.2	+	6	774	c.556C>T	c.(556-558)CGT>TGT	p.R186C	RTCD1_uc001dtd.2_Missense_Mutation_p.R199C	NM_003729	NP_003720	O00442	RTC1_HUMAN	RNA terminal phosphate cyclase domain 1 isoform	186					RNA processing	mitochondrion|nucleoplasm	ATP binding|protein binding|RNA binding|RNA-3'-phosphate cyclase activity				0		all_epithelial(167;0.000686)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0513)|all cancers(265;0.0902)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)														---	---	---	---
VCAM1	7412	broad.mit.edu	37	1	101194751	101194751	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:101194751C>A	uc001dti.2	+	5	1137	c.1017C>A	c.(1015-1017)GGC>GGA	p.G339G	VCAM1_uc001dtj.2_Intron|VCAM1_uc010ouj.1_Silent_p.G277G	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	339	Ig-like C2-type 4.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)													---	---	---	---
VCAM1	7412	broad.mit.edu	37	1	101197021	101197021	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:101197021A>G	uc001dti.2	+	6	1592	c.1472A>G	c.(1471-1473)GAC>GGC	p.D491G	VCAM1_uc001dtj.2_Missense_Mutation_p.D399G|VCAM1_uc010ouj.1_Missense_Mutation_p.D429G	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	491	Ig-like C2-type 5.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)													---	---	---	---
AMY1A	276	broad.mit.edu	37	1	104297247	104297247	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:104297247G>A	uc001duy.2	+						AMY1A_uc001duz.2_Intron	NM_001008221	NP_001008222			salivary amylase alpha 1A precursor						carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding|protein binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0654)|all cancers(265;0.0808)|Epithelial(280;0.0921)|Lung(183;0.111)														---	---	---	---
NTNG1	22854	broad.mit.edu	37	1	107867347	107867347	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:107867347G>A	uc001dvh.3	+	3	1408	c.690G>A	c.(688-690)GCG>GCA	p.A230A	NTNG1_uc001dvf.3_Silent_p.A230A|NTNG1_uc010out.1_Silent_p.A230A|NTNG1_uc001dvc.3_Silent_p.A230A|NTNG1_uc001dvd.1_Silent_p.A230A	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	230	Laminin N-terminal.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)														---	---	---	---
FAM102B	284611	broad.mit.edu	37	1	109154858	109154858	+	Missense_Mutation	SNP	G	A	A	rs141529277	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:109154858G>A	uc010ouy.1	+	4	427	c.347G>A	c.(346-348)CGC>CAC	p.R116H		NM_001010883	NP_001010883	Q5T8I3	F102B_HUMAN	hypothetical protein LOC284611	116										large_intestine(1)	1		all_epithelial(167;5.52e-05)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0217)|Lung(183;0.109)|COAD - Colon adenocarcinoma(174;0.141)|Epithelial(280;0.182)														---	---	---	---
GPSM2	29899	broad.mit.edu	37	1	109461284	109461284	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:109461284C>T	uc010ovc.1	+	12	1809	c.1313C>T	c.(1312-1314)GCC>GTC	p.A438V	AKNAD1_uc010ovb.1_Intron|GPSM2_uc010ovd.1_Missense_Mutation_p.A438V|GPSM2_uc010ove.1_Missense_Mutation_p.A438V	NM_013296	NP_037428	P81274	GPSM2_HUMAN	LGN protein	438					G-protein coupled receptor protein signaling pathway	cell cortex|nucleus	GTPase activator activity|identical protein binding			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0353)|Lung(183;0.0984)|COAD - Colon adenocarcinoma(174;0.129)|Epithelial(280;0.175)|all cancers(265;0.209)														---	---	---	---
CELSR2	1952	broad.mit.edu	37	1	109811556	109811556	+	Missense_Mutation	SNP	G	A	A	rs141644848		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:109811556G>A	uc001dxa.3	+	19	6618	c.6557G>A	c.(6556-6558)CGC>CAC	p.R2186H		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2186	Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)														---	---	---	---
MYBPHL	343263	broad.mit.edu	37	1	109840068	109840068	+	Missense_Mutation	SNP	C	T	T	rs34962971		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:109840068C>T	uc001dxk.1	-	3	456	c.406G>A	c.(406-408)GCC>ACC	p.A136T	MYBPHL_uc010ovh.1_Intron|MYBPHL_uc001dxl.2_Intron	NM_001010985	NP_001010985	A2RUH7	MBPHL_HUMAN	myosin binding protein H-like	136	Ig-like C2-type 1.									ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(203;0.00519)|all_epithelial(167;0.00575)|Lung NSC(277;0.00822)		Colorectal(144;0.0306)|Lung(183;0.0681)|COAD - Colon adenocarcinoma(174;0.117)|Epithelial(280;0.197)|all cancers(265;0.225)														---	---	---	---
AMPD2	271	broad.mit.edu	37	1	110172028	110172028	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110172028C>T	uc009wfh.1	+	15	2482	c.1940C>T	c.(1939-1941)GCG>GTG	p.A647V	AMPD2_uc009wfg.1_RNA|AMPD2_uc001dyb.1_Missense_Mutation_p.A566V|AMPD2_uc001dyc.1_Missense_Mutation_p.A647V|AMPD2_uc010ovr.1_Missense_Mutation_p.A572V|AMPD2_uc001dyd.1_Missense_Mutation_p.A528V|AMPD2_uc001dye.1_5'UTR	NM_004037	NP_004028	Q01433	AMPD2_HUMAN	adenosine monophosphate deaminase 2 (isoform L)	647					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|breast(1)	3		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0425)|all cancers(265;0.0884)|Colorectal(144;0.109)|Epithelial(280;0.111)|LUSC - Lung squamous cell carcinoma(189;0.228)														---	---	---	---
ALX3	257	broad.mit.edu	37	1	110603359	110603359	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)														---	---	---	---
SLC6A17	388662	broad.mit.edu	37	1	110737374	110737374	+	Silent	SNP	G	A	A	rs143840691		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110737374G>A	uc009wfq.2	+	9	1934	c.1473G>A	c.(1471-1473)GTG>GTA	p.V491V	SLC6A17_uc001dze.1_Silent_p.V89V	NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	491	Helical; Name=9; (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)														---	---	---	---
RBM15	64783	broad.mit.edu	37	1	110884009	110884009	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110884009G>A	uc001dzl.1	+	1	2065	c.1982G>A	c.(1981-1983)CGC>CAC	p.R661H	RBM15_uc001dzm.1_Missense_Mutation_p.R661H|uc001dzj.2_5'Flank	NM_022768	NP_073605	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	661	Arg-rich.				interspecies interaction between organisms	nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)				T	MKL1	acute megakaryocytic leukemia								---	---	---	---
KCNA3	3738	broad.mit.edu	37	1	111216253	111216253	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111216253C>T	uc001dzv.1	-	1	1403	c.1179G>A	c.(1177-1179)GCG>GCA	p.A393A		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	393						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)														---	---	---	---
C1orf103	55791	broad.mit.edu	37	1	111495126	111495126	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111495126T>A	uc001eaa.2	-	2	636	c.380A>T	c.(379-381)AAT>ATT	p.N127I	C1orf103_uc001dzz.2_Intron|C1orf103_uc001eab.2_Intron|C1orf103_uc001eac.1_Intron	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	127					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)														---	---	---	---
OVGP1	5016	broad.mit.edu	37	1	111969183	111969183	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111969183G>A	uc001eba.2	-	3	192	c.136C>T	c.(136-138)CTG>TTG	p.L46L	OVGP1_uc001eaz.2_5'UTR|OVGP1_uc010owb.1_5'UTR|OVGP1_uc010owc.1_Silent_p.L36L	NM_002557	NP_002548	Q12889	OVGP1_HUMAN	oviductal glycoprotein 1 precursor	46					chitin catabolic process|female pregnancy|single fertilization	transport vesicle	cation binding|chitinase activity			ovary(4)|large_intestine(1)	5		all_cancers(81;8.18e-06)|all_epithelial(167;5.64e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000302)		Lung(183;0.0253)|Colorectal(144;0.033)|all cancers(265;0.0552)|Epithelial(280;0.0802)|COAD - Colon adenocarcinoma(174;0.123)|LUSC - Lung squamous cell carcinoma(189;0.14)														---	---	---	---
KCND3	3752	broad.mit.edu	37	1	112524688	112524688	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:112524688G>A	uc001ebu.1	-	2	1141	c.661C>T	c.(661-663)CGC>TGC	p.R221C	KCND3_uc001ebv.1_Missense_Mutation_p.R221C	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	221						sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)														---	---	---	---
WNT2B	7482	broad.mit.edu	37	1	113059858	113059858	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:113059858G>T	uc001ecb.2	+	4	1312	c.797G>T	c.(796-798)CGG>CTG	p.R266L	WNT2B_uc001eca.2_Missense_Mutation_p.R247L|WNT2B_uc009wgg.2_Missense_Mutation_p.R174L	NM_024494	NP_078613	Q93097	WNT2B_HUMAN	wingless-type MMTV integration site family,	266					chondrocyte differentiation|cornea development in camera-type eye|dorsal/ventral axis specification|forebrain regionalization|hemopoietic stem cell proliferation|iris morphogenesis|lens development in camera-type eye|lung induction|male gonad development|neuron differentiation|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding|signal transducer activity			ovary(2)|breast(2)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-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)														---	---	---	---
CAPZA1	829	broad.mit.edu	37	1	113189836	113189836	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:113189836G>A	uc001ecj.1	+	2	436	c.44G>A	c.(43-45)CGC>CAC	p.R15H		NM_006135	NP_006126	P52907	CAZA1_HUMAN	F-actin capping protein alpha-1 subunit	15					actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement|innate immune response|protein complex assembly	cytosol|extracellular region|F-actin capping protein complex|WASH complex	actin 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)														---	---	---	---
HIPK1	204851	broad.mit.edu	37	1	114499899	114499899	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:114499899G>A	uc001eem.2	+	7	1907	c.1746G>A	c.(1744-1746)GTG>GTA	p.V582V	HIPK1_uc001eel.2_Silent_p.V582V|HIPK1_uc001een.2_Silent_p.V582V|HIPK1_uc001eeo.2_Silent_p.V208V|HIPK1_uc001eep.2_Silent_p.V188V	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	582					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(4)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-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)														---	---	---	---
TRIM33	51592	broad.mit.edu	37	1	114967378	114967378	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:114967378C>T	uc001eew.2	-	10	1780	c.1696_splice	c.e10-1	p.P566_splice	TRIM33_uc010owr.1_Splice_Site_p.P156_splice|TRIM33_uc010ows.1_Splice_Site_p.P174_splice|TRIM33_uc001eex.2_Splice_Site_p.P566_splice	NM_015906	NP_056990			tripartite motif-containing 33 protein isoform						negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|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)				T	RET	papillary thyroid								---	---	---	---
NGF	4803	broad.mit.edu	37	1	115828756	115828756	+	Missense_Mutation	SNP	G	A	A	rs11466112		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:115828756G>A	uc001efu.1	-	3	830	c.661C>T	c.(661-663)CGG>TGG	p.R221W		NM_002506	NP_002497	P01138	NGF_HUMAN	nerve growth factor, beta polypeptide precursor	221					activation of MAPKK activity|activation of phospholipase C activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of cell cycle|nerve growth factor processing|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|Golgi lumen	growth factor activity|nerve growth factor receptor binding			upper_aerodigestive_tract(2)	2	Lung SC(450;0.211)	all_cancers(81;1.07e-06)|all_epithelial(167;4.43e-06)|all_lung(203;2.86e-05)|Lung NSC(69;4.99e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|all cancers(265;0.159)|Epithelial(280;0.179)	Clenbuterol(DB01407)													---	---	---	---
IGSF3	3321	broad.mit.edu	37	1	117150721	117150721	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:117150721G>A	uc001egr.1	-	5	1770	c.1065C>T	c.(1063-1065)AGC>AGT	p.S355S	IGSF3_uc001egq.1_Silent_p.S355S|IGSF3_uc001egs.1_Silent_p.S28S	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	355	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)														---	---	---	---
IGSF3	3321	broad.mit.edu	37	1	117156493	117156493	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:117156493G>A	uc001egr.1	-	4	1431	c.726C>T	c.(724-726)GGC>GGT	p.G242G	IGSF3_uc001egq.1_Silent_p.G242G	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	242	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)														---	---	---	---
IGSF3	3321	broad.mit.edu	37	1	117156666	117156666	+	Silent	SNP	G	T	T	rs144111921		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:117156666G>T	uc001egr.1	-	4	1258	c.553C>A	c.(553-555)CGG>AGG	p.R185R	IGSF3_uc001egq.1_Silent_p.R185R	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	185	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)														---	---	---	---
CD101	9398	broad.mit.edu	37	1	117556343	117556343	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:117556343G>A	uc010oxb.1	+	4	1215	c.1157G>A	c.(1156-1158)CGC>CAC	p.R386H	CD101_uc009whd.2_Missense_Mutation_p.R386H|CD101_uc010oxc.1_Missense_Mutation_p.R386H|CD101_uc010oxd.1_Missense_Mutation_p.R324H	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	386	Ig-like C2-type 3.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4																		---	---	---	---
SPAG17	200162	broad.mit.edu	37	1	118634571	118634571	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:118634571G>A	uc001ehk.2	-	9	1296	c.1228C>T	c.(1228-1230)CCG>TCG	p.P410S		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	410						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)														---	---	---	---
HSD3B2	3284	broad.mit.edu	37	1	119965056	119965056	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:119965056A>G	uc001ehs.2	+	3	1705	c.932A>G	c.(931-933)CAA>CGA	p.Q311R	HSD3B2_uc001eht.2_Missense_Mutation_p.Q311R|HSD3B2_uc001ehu.2_Intron	NM_000198	NP_000189	P26439	3BHS2_HUMAN	3 beta-hydroxysteroid dehydrogenase 2	311					androgen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.015)|LUSC - Lung squamous cell carcinoma(189;0.0836)	NADH(DB00157)|Trilostane(DB01108)													---	---	---	---
NOTCH2	4853	broad.mit.edu	37	1	120462077	120462077	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120462077G>A	uc001eik.2	-	31	5895	c.5639C>T	c.(5638-5640)GCC>GTC	p.A1880V		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1880	Cytoplasmic (Potential).|ANK 2.				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)				N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				---	---	---	---
NOTCH2	4853	broad.mit.edu	37	1	120483245	120483245	+	Missense_Mutation	SNP	G	A	A	rs61755044	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120483245G>A	uc001eik.2	-	19	3372	c.3116C>T	c.(3115-3117)ACG>ATG	p.T1039M	NOTCH2_uc001eil.2_Missense_Mutation_p.T1039M	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1039	Extracellular (Potential).|EGF-like 27; calcium-binding (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)				N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				---	---	---	---
PDE4DIP	9659	broad.mit.edu	37	1	144880730	144880730	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:144880730C>T	uc001elw.3	-						NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Intron|PDE4DIP_uc001elv.3_Intron	NM_014644	NP_055459			phosphodiesterase 4D interacting protein isoform						cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)				T	PDGFRB	MPD								---	---	---	---
PDE4DIP	9659	broad.mit.edu	37	1	144916600	144916600	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:144916600C>T	uc001elw.3	-	13	2046	c.1755G>A	c.(1753-1755)ACG>ACA	p.T585T	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Silent_p.T651T|PDE4DIP_uc001emc.1_Silent_p.T585T|PDE4DIP_uc001emd.1_Silent_p.T585T|PDE4DIP_uc001emb.1_Silent_p.T748T|PDE4DIP_uc001eme.1_Silent_p.T114T|PDE4DIP_uc001emf.1_Silent_p.T372T	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	585	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)				T	PDGFRB	MPD								---	---	---	---
PDE4DIP	9659	broad.mit.edu	37	1	144917533	144917533	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:144917533C>T	uc001elw.3	-	12	1862	c.1571G>A	c.(1570-1572)CGC>CAC	p.R524H	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.R590H|PDE4DIP_uc001emc.1_Missense_Mutation_p.R524H|PDE4DIP_uc001emd.1_Missense_Mutation_p.R524H|PDE4DIP_uc001emb.1_Missense_Mutation_p.R687H|PDE4DIP_uc001eme.1_Missense_Mutation_p.R53H|PDE4DIP_uc001emf.1_Missense_Mutation_p.R311H	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	524	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)				T	PDGFRB	MPD								---	---	---	---
TXNIP	10628	broad.mit.edu	37	1	145440095	145440095	+	Missense_Mutation	SNP	C	T	T	rs143973146	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145440095C>T	uc001enn.3	+	4	870	c.529C>T	c.(529-531)CGG>TGG	p.R177W	NBPF10_uc001emp.3_Intron|TXNIP_uc001enm.1_Intron|TXNIP_uc010oys.1_Missense_Mutation_p.R122W	NM_006472	NP_006463	Q9H3M7	TXNIP_HUMAN	thioredoxin interacting protein	177					cell cycle|keratinocyte differentiation|transcription, DNA-dependent		ubiquitin protein ligase binding			ovary(2)	2	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)																	---	---	---	---
PDZK1	5174	broad.mit.edu	37	1	145748554	145748554	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145748554G>T	uc001eon.1	+	4	524	c.427G>T	c.(427-429)GGC>TGC	p.G143C	NBPF10_uc001emp.3_Intron|PDZK1_uc001eoo.1_Missense_Mutation_p.G143C|PDZK1_uc010oza.1_Missense_Mutation_p.G143C	NM_002614	NP_002605	Q5T2W1	NHRF3_HUMAN	PDZ domain containing 1	143	PDZ 2.				carnitine transport|cell proliferation|drug transport|positive regulation of ion transmembrane transport	brush border membrane|cytoplasm	PDZ domain binding|transporter activity				0	all_hematologic(18;0.00473)|Acute lymphoblastic leukemia(18;0.0786)		KIRC - Kidney renal clear cell carcinoma(6;0.0764)|Kidney(552;0.118)|Colorectal(543;0.229)															---	---	---	---
CHD1L	9557	broad.mit.edu	37	1	146756152	146756152	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146756152T>C	uc001epm.3	+	16	1897	c.1834T>C	c.(1834-1836)TCA>CCA	p.S612P	uc001epp.2_Intron|CHD1L_uc001epn.3_Missense_Mutation_p.S499P|CHD1L_uc010ozo.1_RNA|CHD1L_uc009wjg.2_RNA|CHD1L_uc009wjh.2_Missense_Mutation_p.S518P|CHD1L_uc010ozp.1_Missense_Mutation_p.S331P|CHD1L_uc001epo.3_Missense_Mutation_p.S408P|CHD1L_uc010ozq.1_Missense_Mutation_p.S185P|CHD1L_uc009wji.2_Missense_Mutation_p.S331P	NM_004284	NP_004275	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein	612					chromatin remodeling|DNA repair	cytoplasm|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(3)|lung(2)|upper_aerodigestive_tract(1)	6	all_hematologic(923;0.0487)																	---	---	---	---
SV2A	9900	broad.mit.edu	37	1	149879659	149879659	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149879659C>T	uc001etg.2	-	9	1970	c.1479G>A	c.(1477-1479)GAG>GAA	p.E493E	SV2A_uc009wlk.2_5'Flank|SV2A_uc001eth.2_Silent_p.E493E	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	493	Extracellular (Potential).			E -> G (in Ref. 4; CAD97824).	neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)													---	---	---	---
SF3B4	10262	broad.mit.edu	37	1	149898418	149898418	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149898418G>A	uc001etj.1	-	3	607	c.556C>T	c.(556-558)CGC>TGC	p.R186C	SF3B4_uc001eti.1_5'Flank|SF3B4_uc001etk.1_Missense_Mutation_p.R186C|SF3B4_uc009wll.1_Missense_Mutation_p.R186C	NM_005850	NP_005841	Q15427	SF3B4_HUMAN	splicing factor 3b, subunit 4	186						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)															---	---	---	---
PRPF3	9129	broad.mit.edu	37	1	150305209	150305209	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150305209C>A	uc001eum.3	+	5	640	c.478C>A	c.(478-480)CTG>ATG	p.L160M	PRPF3_uc009wlp.2_RNA|PRPF3_uc010pca.1_Missense_Mutation_p.L119M|PRPF3_uc010pcb.1_Missense_Mutation_p.L111M|PRPF3_uc009wlq.1_5'Flank	NM_004698	NP_004689	O43395	PRPF3_HUMAN	PRP3 pre-mRNA processing factor 3 homolog	160					nuclear mRNA splicing, via spliceosome	Cajal body|cytoplasm|nuclear speck|spliceosomal complex	protein binding			ovary(1)	1	Lung NSC(24;5.57e-29)|Breast(34;0.000844)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)	Colorectal(1306;0.0149)														---	---	---	---
HORMAD1	84072	broad.mit.edu	37	1	150680815	150680815	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150680815C>T	uc001evk.1	-	9	570	c.464G>A	c.(463-465)CGC>CAC	p.R155H	HORMAD1_uc001evl.1_Missense_Mutation_p.R148H|HORMAD1_uc001evm.1_Missense_Mutation_p.R75H	NM_032132	NP_115508	Q86X24	HORM1_HUMAN	HORMA domain containing 1	155	HORMA.				blastocyst development|cell differentiation|meiotic DNA double-strand break formation|meiotic recombination checkpoint|meiotic sister chromatid cohesion|mitosis|oogenesis|regulation of homologous chromosome segregation|spermatogenesis|synaptonemal complex assembly	chromosome|nucleus				ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|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;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)															---	---	---	---
HORMAD1	84072	broad.mit.edu	37	1	150680846	150680846	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150680846C>T	uc001evk.1	-	9	539	c.433G>A	c.(433-435)GAC>AAC	p.D145N	HORMAD1_uc001evl.1_Missense_Mutation_p.D138N|HORMAD1_uc001evm.1_Missense_Mutation_p.D65N	NM_032132	NP_115508	Q86X24	HORM1_HUMAN	HORMA domain containing 1	145	HORMA.				blastocyst development|cell differentiation|meiotic DNA double-strand break formation|meiotic recombination checkpoint|meiotic sister chromatid cohesion|mitosis|oogenesis|regulation of homologous chromosome segregation|spermatogenesis|synaptonemal complex assembly	chromosome|nucleus				ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|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;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)															---	---	---	---
PRUNE	58497	broad.mit.edu	37	1	150998092	150998092	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150998092C>A	uc001ewh.1	+	5	758	c.622C>A	c.(622-624)CTA>ATA	p.L208I	PRUNE_uc001ewi.1_Missense_Mutation_p.L26I|PRUNE_uc010pco.1_Intron|PRUNE_uc001ewj.1_Intron|PRUNE_uc001ewk.1_Missense_Mutation_p.L26I	NM_021222	NP_067045	Q86TP1	PRUNE_HUMAN	prune	208						cytoplasm|focal adhesion|nucleus	inorganic diphosphatase activity|manganese ion binding|protein binding			ovary(1)	1	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)															---	---	---	---
GABPB2	126626	broad.mit.edu	37	1	151076045	151076045	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151076045C>T	uc001ewr.2	+	6	961	c.630C>T	c.(628-630)CCC>CCT	p.P210P	GABPB2_uc010pcp.1_Silent_p.P226P|GABPB2_uc001ews.2_Silent_p.P170P|GABPB2_uc001ewt.2_Intron	NM_144618	NP_653219	Q8TAK5	GABP2_HUMAN	GA repeat binding protein, beta 2	210					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	protein heterodimerization activity|transcription regulatory region DNA binding				0				all cancers(107;7.17e-05)|GBM - Glioblastoma multiforme(94;0.000662)														---	---	---	---
TMOD4	29765	broad.mit.edu	37	1	151147221	151147221	+	Intron	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151147221G>T	uc001exc.3	-						TMOD4_uc001exb.2_5'Flank|TMOD4_uc001exd.2_Intron|TMOD4_uc010pct.1_Intron	NM_013353	NP_037485			tropomodulin 4 (muscle)						muscle contraction	cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(1)	1	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)															---	---	---	---
PI4KB	5298	broad.mit.edu	37	1	151276023	151276023	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151276023T>C	uc001ext.2	-	6	1929	c.1514A>G	c.(1513-1515)GAC>GGC	p.D505G	PI4KB_uc001exr.2_Missense_Mutation_p.D517G|PI4KB_uc001exs.2_Missense_Mutation_p.D490G|PI4KB_uc001exu.2_Missense_Mutation_p.D490G|PI4KB_uc010pcw.1_Missense_Mutation_p.D173G	NM_002651	NP_002642	Q9UBF8	PI4KB_HUMAN	catalytic phosphatidylinositol 4-kinase beta	505					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|receptor-mediated endocytosis	endosome|Golgi apparatus|mitochondrial outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum membrane	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			ovary(2)|skin(2)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)															---	---	---	---
CGN	57530	broad.mit.edu	37	1	151496719	151496719	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151496719G>A	uc009wmw.2	+	7	1430	c.1286G>A	c.(1285-1287)CGC>CAC	p.R429H		NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	423	Glu-rich.|Potential.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)															---	---	---	---
CELF3	11189	broad.mit.edu	37	1	151680282	151680282	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151680282C>T	uc001eys.1	-	6	1410	c.616G>A	c.(616-618)GCC>ACC	p.A206T	CELF3_uc010pdh.1_Missense_Mutation_p.A14T|CELF3_uc001eyr.2_Missense_Mutation_p.A205T|CELF3_uc009wmy.2_Missense_Mutation_p.A206T|CELF3_uc009wmx.1_Missense_Mutation_p.A206T|CELF3_uc001eyt.2_Missense_Mutation_p.A129T|C1orf230_uc001eyu.2_5'Flank	NM_007185	NP_009116	Q5SZQ8	CELF3_HUMAN	trinucleotide repeat containing 4	206					nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	mRNA binding|nucleotide binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
TDRKH	11022	broad.mit.edu	37	1	151747603	151747603	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151747603C>T	uc009wnb.1	-	11	1656	c.1474G>A	c.(1474-1476)GCA>ACA	p.A492T	TDRKH_uc001eyy.2_Missense_Mutation_p.A268T|TDRKH_uc001ezb.3_Missense_Mutation_p.A488T|TDRKH_uc001ezc.3_Missense_Mutation_p.A447T|TDRKH_uc001eza.3_Missense_Mutation_p.A492T|TDRKH_uc001ezd.3_Missense_Mutation_p.A492T|TDRKH_uc010pdn.1_Missense_Mutation_p.A268T	NM_006862	NP_006853	Q9Y2W6	TDRKH_HUMAN	tudor and KH domain containing isoform a	492							RNA binding			ovary(1)|pancreas(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)															---	---	---	---
TCHH	7062	broad.mit.edu	37	1	152082230	152082230	+	Silent	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152082230T>G	uc001ezp.2	-	2	3463	c.3463A>C	c.(3463-3465)AGA>CGA	p.R1155R	TCHH_uc009wne.1_Silent_p.R1155R	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1155	4-9.|10 X 30 AA 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)															---	---	---	---
TCHH	7062	broad.mit.edu	37	1	152085491	152085491	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152085491G>A	uc001ezp.2	-	2	202	c.202C>T	c.(202-204)CGT>TGT	p.R68C	TCHH_uc009wne.1_Missense_Mutation_p.R68C	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	68	2; high affinity (Potential).|EF-hand 2.|S-100-like.				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)															---	---	---	---
FLG2	388698	broad.mit.edu	37	1	152325581	152325581	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152325581T>C	uc001ezw.3	-	3	4754	c.4681A>G	c.(4681-4683)ACC>GCC	p.T1561A	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1561							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)															---	---	---	---
FLG2	388698	broad.mit.edu	37	1	152327382	152327382	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152327382G>A	uc001ezw.3	-	3	2953	c.2880C>T	c.(2878-2880)GGC>GGT	p.G960G	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	960	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)															---	---	---	---
KPRP	448834	broad.mit.edu	37	1	152733226	152733226	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152733226C>A	uc001fal.1	+	2	1220	c.1162C>A	c.(1162-1164)CTT>ATT	p.L388I		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	388	Pro-rich.					cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)															---	---	---	---
LCE1F	353137	broad.mit.edu	37	1	152748933	152748933	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152748933G>A	uc010pdv.1	+	1	86	c.86G>A	c.(85-87)TGC>TAC	p.C29Y		NM_178354	NP_848131	Q5T754	LCE1F_HUMAN	late cornified envelope 1F	29	Pro-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)															---	---	---	---
SPRR4	163778	broad.mit.edu	37	1	152944506	152944506	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152944506C>A	uc001fav.1	+	2	203	c.140C>A	c.(139-141)GCT>GAT	p.A47D		NM_173080	NP_775103	Q96PI1	SPRR4_HUMAN	small proline-rich protein 4	47	Gln-rich.				keratinization|peptide cross-linking	cell cortex					0	Lung NSC(65;1.46e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)															---	---	---	---
INTS3	65123	broad.mit.edu	37	1	153737219	153737219	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:153737219G>A	uc009wom.2	+						INTS3_uc001fct.2_Intron|INTS3_uc001fcu.2_Intron|INTS3_uc001fcv.2_Intron|INTS3_uc010peb.1_Intron|INTS3_uc001fcw.2_Intron|INTS3_uc010pec.1_Intron|INTS3_uc001fcy.2_5'Flank|INTS3_uc001fcx.2_5'Flank	NM_023015	NP_075391			integrator complex subunit 3						DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)															---	---	---	---
NUP210L	91181	broad.mit.edu	37	1	154125256	154125256	+	Missense_Mutation	SNP	G	A	A	rs150389273	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154125256G>A	uc001fdw.2	-	2	368	c.296C>T	c.(295-297)ACG>ATG	p.T99M	NUP210L_uc010peh.1_Missense_Mutation_p.T99M	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	99						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)															---	---	---	---
TPM3	7170	broad.mit.edu	37	1	154145414	154145414	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154145414C>T	uc001fec.1	-	5	651	c.536G>A	c.(535-537)CGC>CAC	p.R179H	TPM3_uc001fdx.1_5'Flank|TPM3_uc010pei.1_Missense_Mutation_p.R52H|TPM3_uc001fdy.1_Missense_Mutation_p.R142H|TPM3_uc001fdz.1_Missense_Mutation_p.R142H|TPM3_uc001fea.1_Missense_Mutation_p.R142H|TPM3_uc001feb.1_Missense_Mutation_p.R142H|TPM3_uc010pej.1_Missense_Mutation_p.R75H|TPM3_uc009wor.2_Intron|TPM3_uc001fed.1_Missense_Mutation_p.R142H	NM_152263	NP_689476	P06753	TPM3_HUMAN	tropomyosin 3 isoform 1	178	By similarity.				cellular component movement|muscle filament sliding|regulation of muscle contraction	cytosol|muscle thin filament tropomyosin|stress fiber	actin binding		TPM3/ALK(33)	haematopoietic_and_lymphoid_tissue(22)|soft_tissue(11)|skin(1)	34	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)							T	NTRK1|ALK	papillary thyroid|ALCL								---	---	---	---
ATP8B2	57198	broad.mit.edu	37	1	154317952	154317952	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154317952C>A	uc001fex.2	+	23	2724	c.2724C>A	c.(2722-2724)TTC>TTA	p.F908L		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	894	Helical; (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)													OREG0013835	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
TDRD10	126668	broad.mit.edu	37	1	154493838	154493838	+	Silent	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154493838A>C	uc009wow.2	+	6	1090	c.252A>C	c.(250-252)ACA>ACC	p.T84T	TDRD10_uc001ffd.2_Silent_p.T84T|TDRD10_uc001ffe.2_Silent_p.T5T	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	84	RRM.						nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)															---	---	---	---
UBE2Q1	55585	broad.mit.edu	37	1	154523896	154523896	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154523896G>A	uc001fff.1	-	11	1238	c.1147C>T	c.(1147-1149)CGA>TGA	p.R383*		NM_017582	NP_060052	Q7Z7E8	UB2Q1_HUMAN	ubiquitin-conjugating enzyme E2Q	383							ATP binding|protein binding|ubiquitin-protein ligase activity				0	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)															---	---	---	---
CHRNB2	1141	broad.mit.edu	37	1	154542310	154542310	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154542310C>A	uc001ffg.2	+	3	517	c.253C>A	c.(253-255)CAG>AAG	p.Q85K		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	85	Extracellular (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)													---	---	---	---
ADAR	103	broad.mit.edu	37	1	154569592	154569592	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154569592G>A	uc001ffh.2	-						ADAR_uc001ffj.2_Intron|ADAR_uc001ffi.2_Intron|ADAR_uc001ffk.2_Intron	NM_001111	NP_001102			adenosine deaminase, RNA-specific isoform a						adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)														---	---	---	---
ADAR	103	broad.mit.edu	37	1	154574691	154574691	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154574691T>A	uc001ffh.2	-	2	627	c.427A>T	c.(427-429)ATC>TTC	p.I143F	ADAR_uc001ffj.2_Missense_Mutation_p.I143F|ADAR_uc001ffi.2_Missense_Mutation_p.I143F|ADAR_uc001ffk.2_5'UTR|ADAR_uc001ffl.1_5'UTR|ADAR_uc001ffm.1_RNA|ADAR_uc001ffn.1_3'UTR	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	143	DRADA 1.				adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)														---	---	---	---
KCNN3	3782	broad.mit.edu	37	1	154698441	154698441	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154698441G>A	uc001ffp.2	-	5	1966	c.1652C>T	c.(1651-1653)GCG>GTG	p.A551V	KCNN3_uc001ffo.2_Missense_Mutation_p.A246V	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium	556						integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)															---	---	---	---
PBXIP1	57326	broad.mit.edu	37	1	154919108	154919108	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154919108C>T	uc001ffr.2	-	10	1101	c.1042G>A	c.(1042-1044)GGC>AGC	p.G348S	PBXIP1_uc001ffs.2_Missense_Mutation_p.G319S|PBXIP1_uc010pep.1_Missense_Mutation_p.G193S	NM_020524	NP_065385	Q96AQ6	PBIP1_HUMAN	pre-B-cell leukemia homeobox interacting protein	348	Potential.				cell differentiation|multicellular organismal development|negative regulation of transcription, DNA-dependent	cytosol|microtubule|nucleus	protein binding|transcription corepressor activity			large_intestine(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)															---	---	---	---
SHC1	6464	broad.mit.edu	37	1	154938054	154938054	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154938054G>A	uc001ffv.2	-	11	1809	c.1588C>T	c.(1588-1590)CCT>TCT	p.P530S	SHC1_uc001ffu.2_Intron|SHC1_uc001ffz.1_Missense_Mutation_p.P301S|SHC1_uc001ffw.2_Missense_Mutation_p.P531S|SHC1_uc001ffx.2_Missense_Mutation_p.P421S|SHC1_uc001ffy.2_Missense_Mutation_p.P420S	NM_183001	NP_892113	P29353	SHC1_HUMAN	SHC-transforming protein 1 isoform 1	530	SH2.				activation of MAPK activity|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|positive regulation of DNA replication|Ras protein signal transduction|regulation of epidermal growth factor receptor activity|regulation of growth	cytosol|mitochondrial matrix|Shc-EGFR complex	epidermal growth factor receptor binding|insulin receptor binding|insulin-like growth factor receptor binding|phospholipid binding|protein binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(1)|skin(1)	2	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)															---	---	---	---
DCST2	127579	broad.mit.edu	37	1	154999075	154999075	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154999075G>A	uc001fgm.2	-	9	1539	c.1459C>T	c.(1459-1461)CGT>TGT	p.R487C	DCST2_uc009wpb.2_RNA	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	487	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)															---	---	---	---
DCST1	149095	broad.mit.edu	37	1	155014205	155014205	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155014205C>T	uc001fgn.1	+	8	860	c.764C>T	c.(763-765)GCC>GTC	p.A255V	DCST1_uc010per.1_Missense_Mutation_p.A280V|DCST1_uc010pes.1_Missense_Mutation_p.A230V	NM_152494	NP_689707	Q5T197	DCST1_HUMAN	DC-STAMP domain containing 1 isoform 1	255	Extracellular (Potential).					integral to membrane	zinc ion binding			ovary(1)|skin(1)	2	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)															---	---	---	---
ASH1L	55870	broad.mit.edu	37	1	155317653	155317653	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155317653G>A	uc009wqq.2	-	20	8092	c.7612C>T	c.(7612-7614)CGT>TGT	p.R2538C	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.R2533C|MIR555_hsa-mir-555|MI0003561_5'Flank	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2538					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)															---	---	---	---
LMNA	4000	broad.mit.edu	37	1	156105054	156105054	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156105054G>A	uc001fni.2	+	5	1136	c.887G>A	c.(886-888)CGC>CAC	p.R296H	LMNA_uc001fnf.1_Missense_Mutation_p.R296H|LMNA_uc001fng.2_Missense_Mutation_p.R296H|LMNA_uc001fnh.2_Missense_Mutation_p.R296H|LMNA_uc009wro.1_Missense_Mutation_p.R296H|LMNA_uc010pgz.1_Missense_Mutation_p.R184H|LMNA_uc001fnj.2_Missense_Mutation_p.R215H|LMNA_uc001fnk.2_Missense_Mutation_p.R197H|LMNA_uc009wrp.2_Missense_Mutation_p.A24T|LMNA_uc010pha.1_5'Flank	NM_170707	NP_733821	P02545	LMNA_HUMAN	lamin A/C isoform 1 precursor	296	Coil 2.|Rod.				cellular component disassembly involved in apoptosis|cellular response to hypoxia|establishment or maintenance of microtubule cytoskeleton polarity|muscle organ development|positive regulation of cell aging|regulation of apoptosis|regulation of cell migration	cytoplasm|lamin filament|nuclear envelope|nuclear envelope|perinuclear region of cytoplasm	protein binding|structural molecule activity|structural molecule activity			ovary(2)	2	Hepatocellular(266;0.158)													Werner_syndrome|Hutchinson-Gilford_Progeria_Syndrome				---	---	---	---
LMNA	4000	broad.mit.edu	37	1	156106043	156106043	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156106043G>A	uc001fni.2	+	7	1445	c.1196G>A	c.(1195-1197)CGT>CAT	p.R399H	LMNA_uc001fnf.1_Missense_Mutation_p.R399H|LMNA_uc001fng.2_Missense_Mutation_p.R399H|LMNA_uc001fnh.2_Missense_Mutation_p.R399H|LMNA_uc009wro.1_Missense_Mutation_p.R399H|LMNA_uc010pgz.1_Missense_Mutation_p.R287H|LMNA_uc001fnj.2_Missense_Mutation_p.R318H|LMNA_uc001fnk.2_Missense_Mutation_p.R300H|LMNA_uc009wrp.2_Missense_Mutation_p.V127M|LMNA_uc010pha.1_Missense_Mutation_p.R55H	NM_170707	NP_733821	P02545	LMNA_HUMAN	lamin A/C isoform 1 precursor	399	Tail.		R -> C (in FPLD2).		cellular component disassembly involved in apoptosis|cellular response to hypoxia|establishment or maintenance of microtubule cytoskeleton polarity|muscle organ development|positive regulation of cell aging|regulation of apoptosis|regulation of cell migration	cytoplasm|lamin filament|nuclear envelope|nuclear envelope|perinuclear region of cytoplasm	protein binding|structural molecule activity|structural molecule activity			ovary(2)	2	Hepatocellular(266;0.158)													Werner_syndrome|Hutchinson-Gilford_Progeria_Syndrome				---	---	---	---
TMEM79	84283	broad.mit.edu	37	1	156255748	156255748	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156255748T>C	uc010phi.1	+	2	927	c.731T>C	c.(730-732)GTC>GCC	p.V244A	TMEM79_uc001fod.2_Missense_Mutation_p.V85A|TMEM79_uc009wrw.2_Missense_Mutation_p.V244A	NM_032323	NP_115699	Q9BSE2	TMM79_HUMAN	transmembrane protein 79	244	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1	Hepatocellular(266;0.158)																	---	---	---	---
CCT3	7203	broad.mit.edu	37	1	156304577	156304577	+	Intron	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156304577A>T	uc001fol.1	-						CCT3_uc001fom.1_Intron|CCT3_uc001fon.1_Intron|CCT3_uc010phj.1_Intron|CCT3_uc010phk.1_Intron|CCT3_uc010phl.1_Intron|C1orf182_uc001foo.2_5'Flank	NM_005998	NP_005989			chaperonin containing TCP1, subunit 3 isoform a						'de novo' posttranslational protein folding	cytoskeleton|cytosol|plasma membrane	ATP binding|unfolded protein binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)																	---	---	---	---
MEF2D	4209	broad.mit.edu	37	1	156452240	156452240	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156452240C>T	uc001fpc.2	-	3	637	c.247G>A	c.(247-249)GAC>AAC	p.D83N	MEF2D_uc001fpb.2_Missense_Mutation_p.D83N|MEF2D_uc001fpd.2_Missense_Mutation_p.D83N|MEF2D_uc001fpe.1_Missense_Mutation_p.D83N|MEF2D_uc009wsa.2_RNA	NM_005920	NP_005911	Q14814	MEF2D_HUMAN	myocyte enhancer factor 2D	83	Mef2-type (Potential).				apoptosis|muscle organ development|nervous system development|positive regulation of transcription from RNA polymerase II promoter	nucleus	activating transcription factor binding|histone deacetylase binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)																	---	---	---	---
INSRR	3645	broad.mit.edu	37	1	156812271	156812271	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156812271G>A	uc010pht.1	-	18	3410	c.3156C>T	c.(3154-3156)GGC>GGT	p.G1052G	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	1052	Cytoplasmic (Potential).|Protein kinase.				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)																	---	---	---	---
CD1D	912	broad.mit.edu	37	1	158151348	158151348	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158151348G>A	uc001frr.2	+	3	664	c.165G>A	c.(163-165)ACG>ACA	p.T55T	CD1D_uc009wsr.1_Silent_p.T55T|CD1D_uc009wss.2_Silent_p.T55T|CD1D_uc009wst.1_5'UTR	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	55	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)																	---	---	---	---
CD1B	910	broad.mit.edu	37	1	158298045	158298045	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158298045G>A	uc001frx.2	-	6	1091	c.983C>T	c.(982-984)TCA>TTA	p.S328L	CD1B_uc001frw.2_Missense_Mutation_p.S166L	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	328	Cytoplasmic (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)																	---	---	---	---
CD1B	910	broad.mit.edu	37	1	158298046	158298046	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158298046A>T	uc001frx.2	-	6	1090	c.982T>A	c.(982-984)TCA>ACA	p.S328T	CD1B_uc001frw.2_Missense_Mutation_p.S166T	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	328	Cytoplasmic (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)																	---	---	---	---
OR6Y1	391112	broad.mit.edu	37	1	158517902	158517902	+	5'Flank	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158517902C>T	uc010pil.1	-							NM_001005189	NP_001005189			olfactory receptor, family 6, subfamily Y,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)																	---	---	---	---
OR6K2	81448	broad.mit.edu	37	1	158669993	158669993	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158669993A>G	uc001fsu.1	-	1	450	c.450T>C	c.(448-450)TGT>TGC	p.C150C		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)																	---	---	---	---
OR6K6	128371	broad.mit.edu	37	1	158724726	158724726	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158724726C>A	uc001fsw.1	+	1	121	c.121C>A	c.(121-123)CTC>ATC	p.L41I		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	41	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)																	---	---	---	---
OR6K6	128371	broad.mit.edu	37	1	158725144	158725144	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158725144G>A	uc001fsw.1	+	1	539	c.539G>A	c.(538-540)GGC>GAC	p.G180D		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	180	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)																	---	---	---	---
OR6K6	128371	broad.mit.edu	37	1	158725344	158725344	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158725344C>T	uc001fsw.1	+	1	739	c.739C>T	c.(739-741)CGG>TGG	p.R247W		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	247	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)																	---	---	---	---
OR6N1	128372	broad.mit.edu	37	1	158735692	158735692	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158735692G>A	uc010piq.1	-	1	781	c.781C>T	c.(781-783)CAG>TAG	p.Q261*		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)																	---	---	---	---
MNDA	4332	broad.mit.edu	37	1	158813117	158813117	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158813117A>G	uc001fsz.1	+	3	514	c.314A>G	c.(313-315)AAC>AGC	p.N105S		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	105					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)																	---	---	---	---
OR10J1	26476	broad.mit.edu	37	1	159409955	159409955	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159409955C>T	uc010piv.1	+	1	407	c.407C>T	c.(406-408)GCC>GTC	p.A136V	uc001fts.3_Intron	NM_012351	NP_036483	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J,	136	Cytoplasmic (Potential).				sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0429)																	---	---	---	---
CCDC19	25790	broad.mit.edu	37	1	159850438	159850438	+	Missense_Mutation	SNP	C	T	T	rs138411937		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159850438C>T	uc001fui.2	-	8	968	c.950G>A	c.(949-951)CGC>CAC	p.R317H	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Missense_Mutation_p.R232H|CCDC19_uc001ful.2_Missense_Mutation_p.R232H|CCDC19_uc009wtc.1_Missense_Mutation_p.R303H	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	317	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)															---	---	---	---
IGSF9	57549	broad.mit.edu	37	1	159907504	159907504	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159907504G>A	uc001fur.2	-	4	570	c.372C>T	c.(370-372)AAC>AAT	p.N124N	IGSF9_uc001fuq.2_Silent_p.N124N	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	124	Ig-like 1.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)															---	---	---	---
KCNJ10	3766	broad.mit.edu	37	1	160011659	160011659	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160011659G>T	uc001fuw.1	-	2	814	c.664C>A	c.(664-666)CAA>AAA	p.Q222K		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	222	Cytoplasmic (By similarity).					integral to plasma membrane	ATP binding|ATP-activated inward rectifier potassium channel activity			ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)															---	---	---	---
IGSF8	93185	broad.mit.edu	37	1	160062178	160062178	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160062178G>A	uc001fva.2	-	5	1665	c.1620C>T	c.(1618-1620)GGC>GGT	p.G540G	IGSF8_uc001fuz.2_Silent_p.G540G|IGSF8_uc009wtf.2_Silent_p.G540G	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	540	Ig-like C2-type 4.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)															---	---	---	---
ATP1A4	480	broad.mit.edu	37	1	160151577	160151577	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160151577G>A	uc001fve.3	+	19	3319	c.2840G>A	c.(2839-2841)CGC>CAC	p.R947H	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_Missense_Mutation_p.R450H|ATP1A4_uc001fvh.2_Missense_Mutation_p.R83H	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	947	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)															---	---	---	---
COPA	1314	broad.mit.edu	37	1	160261166	160261166	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160261166G>A	uc009wti.2	-	31	3773	c.3379C>T	c.(3379-3381)CGC>TGC	p.R1127C	COPA_uc001fvv.3_Missense_Mutation_p.R1136C	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	1127					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)													OREG0013929	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
SLAMF7	57823	broad.mit.edu	37	1	160720220	160720220	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160720220C>T	uc001fwq.2	+						SLAMF7_uc010pjn.1_Intron|SLAMF7_uc001fws.2_Intron|SLAMF7_uc001fwr.2_Intron|SLAMF7_uc010pjo.1_Intron|SLAMF7_uc010pjp.1_Intron|SLAMF7_uc010pjq.1_Intron|SLAMF7_uc010pjr.1_Intron	NM_021181	NP_067004			SLAM family member 7						cell adhesion|natural killer cell activation|natural killer cell mediated cytotoxicity	integral to membrane	receptor activity			skin(2)|ovary(1)	3	all_cancers(52;2.63e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)															---	---	---	---
ARHGAP30	257106	broad.mit.edu	37	1	161022260	161022260	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161022260G>A	uc001fxl.2	-	8	1256	c.910C>T	c.(910-912)CGT>TGT	p.R304C	ARHGAP30_uc001fxk.2_Missense_Mutation_p.R304C|ARHGAP30_uc001fxm.2_Missense_Mutation_p.R150C|ARHGAP30_uc009wtx.2_5'UTR|ARHGAP30_uc001fxn.1_Missense_Mutation_p.R150C	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	304					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)															---	---	---	---
ARHGAP30	257106	broad.mit.edu	37	1	161039355	161039355	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161039355G>A	uc001fxl.2	-	1	406	c.60C>T	c.(58-60)TGC>TGT	p.C20C	ARHGAP30_uc001fxk.2_Silent_p.C20C|ARHGAP30_uc001fxm.2_5'UTR|ARHGAP30_uc009wtx.2_5'UTR|ARHGAP30_uc001fxn.1_5'UTR	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	20	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)															---	---	---	---
DEDD	9191	broad.mit.edu	37	1	161094125	161094125	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161094125C>T	uc001fxz.2	-	3	301	c.128G>A	c.(127-129)CGC>CAC	p.R43H	NIT1_uc001fxw.2_3'UTR|DEDD_uc009wty.2_Missense_Mutation_p.R43H|DEDD_uc001fya.2_Missense_Mutation_p.R43H|DEDD_uc001fyb.2_Missense_Mutation_p.R43H|DEDD_uc010pkb.1_Intron|DEDD_uc001fyc.2_Intron	NM_001039712	NP_001034801	O75618	DEDD_HUMAN	death effector domain-containing protein	43	DED.				apoptosis|induction of apoptosis via death domain receptors|negative regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding				0	all_cancers(52;3.39e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)															---	---	---	---
USP21	27005	broad.mit.edu	37	1	161130563	161130563	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161130563C>T	uc010pke.1	+	3	510	c.133C>T	c.(133-135)CCA>TCA	p.P45S	USP21_uc010pkc.1_Missense_Mutation_p.P45S|USP21_uc010pkd.1_Missense_Mutation_p.P45S|USP21_uc010pkf.1_Missense_Mutation_p.P45S	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21	45					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding|NEDD8-specific protease activity|protein binding|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)|prostate(1)|breast(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)															---	---	---	---
NDUFS2	4720	broad.mit.edu	37	1	161180180	161180180	+	Splice_Site	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161180180G>T	uc001fyv.2	+	9	1314	c.866_splice	c.e9+1	p.S289_splice	NDUFS2_uc010pki.1_Splice_Site_p.S191_splice|NDUFS2_uc001fyw.2_Splice_Site_p.S289_splice|NDUFS2_uc010pkj.1_Splice_Site_p.S238_splice|NDUFS2_uc001fyx.2_Splice_Site_p.S263_splice	NM_004550	NP_004541			NADH dehydrogenase (ubiquinone) Fe-S protein 2						mitochondrial electron transport, NADH to ubiquinone|response to oxidative stress|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity|protein binding|quinone binding			skin(1)	1	all_cancers(52;1.16e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		NADH(DB00157)											OREG0013941	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
MPZ	4359	broad.mit.edu	37	1	161277190	161277190	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161277190A>G	uc001gaf.3	-	2	159	c.122T>C	c.(121-123)GTG>GCG	p.V41A	MPZ_uc010pko.1_RNA	NM_000530	NP_000521	P25189	MYP0_HUMAN	myelin protein zero	31	Ig-like V-type.|Extracellular (Potential).				synaptic transmission	integral to plasma membrane	structural molecule activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4	all_cancers(52;6.96e-17)|all_hematologic(112;0.093)	Breast(1374;0.181)	BRCA - Breast invasive adenocarcinoma(70;0.00376)															---	---	---	---
HSPA6	3310	broad.mit.edu	37	1	161495324	161495324	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161495324C>T	uc001gap.2	+	2	1536	c.876C>T	c.(874-876)GGC>GGT	p.G292G	HSPA6_uc001gaq.2_Silent_p.G292G	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	292					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)															---	---	---	---
FCGR3A	2214	broad.mit.edu	37	1	161514508	161514508	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161514508T>C	uc001gat.3	-	5	697	c.560A>G	c.(559-561)AAC>AGC	p.N187S	FCGR3A_uc001gar.2_Missense_Mutation_p.N223S|FCGR3A_uc001gas.2_Missense_Mutation_p.N222S|FCGR3A_uc009wuh.2_Missense_Mutation_p.N186S|FCGR3A_uc009wui.2_Missense_Mutation_p.N187S	NM_001127595	NP_001121067	P08637	FCG3A_HUMAN	Fc fragment of IgG, low affinity IIIa, receptor	187	Extracellular (Potential).|Ig-like C2-type 2.				immune response|regulation of immune response	extracellular region|integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		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)													---	---	---	---
FCGR3B	2215	broad.mit.edu	37	1	161599810	161599810	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161599810G>A	uc009wul.2	-	3	351	c.77C>T	c.(76-78)GCT>GTT	p.A26V		NM_000570	NP_000561	O75015	FCG3B_HUMAN	low affinity immunoglobulin gamma Fc region	26					immune response	anchored to membrane|extracellular region|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		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)													---	---	---	---
OLFML2B	25903	broad.mit.edu	37	1	161967927	161967927	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161967927G>A	uc001gbu.2	-	6	1586	c.1162C>T	c.(1162-1164)CAT>TAT	p.H388Y	OLFML2B_uc010pkq.1_Missense_Mutation_p.H389Y	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	388										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)															---	---	---	---
UHMK1	127933	broad.mit.edu	37	1	162473601	162473601	+	Missense_Mutation	SNP	G	A	A	rs150990527		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162473601G>A	uc001gcc.1	+	4	947	c.811G>A	c.(811-813)GCA>ACA	p.A271T	UHMK1_uc001gcb.1_Missense_Mutation_p.A197T|UHMK1_uc009wuu.1_Missense_Mutation_p.A271T	NM_175866	NP_787062	Q8TAS1	UHMK1_HUMAN	kinase interacting stathmin	271	Protein kinase.				cell cycle arrest|neuron projection development|peptidyl-serine phosphorylation|positive regulation of translational initiation|protein autophosphorylation|regulation of protein export from nucleus	axon|dendrite cytoplasm|neuronal RNA granule|nucleus	protein binding|protein serine/threonine kinase activity|ribonucleoprotein binding|RNA binding				0	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)															---	---	---	---
PBX1	5087	broad.mit.edu	37	1	164769123	164769123	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:164769123C>T	uc001gct.2	+	4	956	c.698C>T	c.(697-699)GCG>GTG	p.A233V	PBX1_uc010pku.1_Missense_Mutation_p.A233V|PBX1_uc010pkv.1_Missense_Mutation_p.A150V|PBX1_uc001gcs.2_Missense_Mutation_p.A233V|PBX1_uc010pkw.1_Missense_Mutation_p.A123V	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	233	Homeobox; TALE-type.				negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5								T	TCF3|EWSR1	pre B-ALL|myoepithelioma								---	---	---	---
LMX1A	4009	broad.mit.edu	37	1	165322399	165322399	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:165322399G>A	uc001gcy.1	-	2	398	c.177C>T	c.(175-177)TGC>TGT	p.C59C	LMX1A_uc001gcz.1_Silent_p.C59C	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	59	LIM zinc-binding 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)																	---	---	---	---
DUSP27	92235	broad.mit.edu	37	1	167096298	167096298	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:167096298G>A	uc001geb.1	+	5	1930	c.1930G>A	c.(1930-1932)GCA>ACA	p.A644T		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	644					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3																		---	---	---	---
CD247	919	broad.mit.edu	37	1	167400950	167400950	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:167400950C>T	uc001gei.3	-	8	608	c.463G>A	c.(463-465)GCC>ACC	p.A155T	CD247_uc001gej.3_Missense_Mutation_p.A154T	NM_198053	NP_932170	P20963	CD3Z_HUMAN	T-cell receptor zeta chain isoform 1 precursor	155	ITAM 3.|Cytoplasmic (Potential).				interspecies interaction between organisms|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytoplasm|integral to membrane	protein homodimerization activity|transmembrane receptor activity				0			LUSC - Lung squamous cell carcinoma(543;0.236)															---	---	---	---
GPR161	23432	broad.mit.edu	37	1	168065850	168065850	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:168065850C>T	uc001gfc.2	-	5	1309	c.995G>A	c.(994-996)CGC>CAC	p.R332H	GPR161_uc001gfb.2_Missense_Mutation_p.R200H|GPR161_uc010pll.1_Missense_Mutation_p.R242H|GPR161_uc010plm.1_Missense_Mutation_p.R218H|GPR161_uc009wvo.2_Missense_Mutation_p.R349H|GPR161_uc001gfd.2_Missense_Mutation_p.R332H|GPR161_uc010pln.1_Missense_Mutation_p.R352H|GPR161_uc001gfe.1_Missense_Mutation_p.R332H	NM_153832	NP_722561	Q8N6U8	GP161_HUMAN	G protein-coupled receptor 161 isoform 2	332	Cytoplasmic (Potential).				multicellular organismal development	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_hematologic(923;0.215)																	---	---	---	---
SELL	6402	broad.mit.edu	37	1	169672454	169672454	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169672454C>A	uc001ggk.2	-	6	1092	c.894G>T	c.(892-894)AAG>AAT	p.K298N	C1orf112_uc001ggj.2_Intron|SELL_uc010pls.1_Missense_Mutation_p.K251N|SELL_uc001ggl.1_Missense_Mutation_p.K311N	NM_000655	NP_000646	P14151	LYAM1_HUMAN	selectin L precursor	298	Extracellular (Potential).|Sushi 2.				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	integral to plasma membrane	glycosphingolipid binding|heparin binding|protease binding|sugar binding				0	all_hematologic(923;0.208)																	---	---	---	---
SELE	6401	broad.mit.edu	37	1	169697058	169697058	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169697058G>A	uc001ggm.3	-	9	1447	c.1290C>T	c.(1288-1290)TGC>TGT	p.C430C	C1orf112_uc001ggj.2_Intron	NM_000450	NP_000441	P16581	LYAM2_HUMAN	selectin E precursor	430	Extracellular (Potential).|Sushi 5.				actin filament-based process|activation of phospholipase C activity|calcium-mediated signaling|heterophilic cell-cell adhesion|leukocyte migration involved in inflammatory response|leukocyte tethering or rolling|positive regulation of receptor internalization|regulation of inflammatory response|response to interleukin-1|response to lipopolysaccharide|response to tumor necrosis factor	caveola|coated pit|cortical cytoskeleton|extracellular space|integral to membrane|perinuclear region of cytoplasm	oligosaccharide binding|phospholipase binding|sialic acid binding|transmembrane receptor activity			ovary(3)|skin(2)	5	all_hematologic(923;0.208)																	---	---	---	---
SCYL3	57147	broad.mit.edu	37	1	169823904	169823904	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169823904T>C	uc001ggs.2	-	13	1874	c.1676A>G	c.(1675-1677)CAG>CGG	p.Q559R	SCYL3_uc010plw.1_Missense_Mutation_p.Q151R|SCYL3_uc001ggt.2_Missense_Mutation_p.Q505R|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	559	Interaction with EZR.				cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)																	---	---	---	---
FMO2	2327	broad.mit.edu	37	1	171178010	171178010	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:171178010C>T	uc001ghk.1	+	9	1451	c.1334C>T	c.(1333-1335)GCG>GTG	p.A445V	FMO2_uc010pmd.1_Missense_Mutation_p.A225V	NM_001460	NP_001451	Q99518	FMO2_HUMAN	flavin containing monooxygenase 2	445					drug metabolic process|NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|host cell microsome|integral to membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)																	---	---	---	---
FMO1	2326	broad.mit.edu	37	1	171252297	171252297	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:171252297C>T	uc009wvz.2	+	8	1334	c.1198C>T	c.(1198-1200)CCA>TCA	p.P400S	FMO1_uc010pme.1_Missense_Mutation_p.P337S|FMO1_uc001ghl.2_Missense_Mutation_p.P400S|FMO1_uc001ghm.2_Missense_Mutation_p.P400S|FMO1_uc001ghn.2_Intron	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1	400					NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)																	---	---	---	---
BAT2L2	23215	broad.mit.edu	37	1	171509407	171509407	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:171509407G>A	uc010pmg.1	+	16	3062	c.2796G>A	c.(2794-2796)ACG>ACA	p.T932T	BAT2L2_uc010pmh.1_5'UTR	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	932							protein C-terminus binding				0																		---	---	---	---
TNFSF18	8995	broad.mit.edu	37	1	173019955	173019955	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173019955G>A	uc001giu.2	-	1	149	c.148C>T	c.(148-150)CTC>TTC	p.L50F		NM_005092	NP_005083	Q9UNG2	TNF18_HUMAN	tumor necrosis factor (ligand) superfamily,	50	Cytoplasmic (Potential).				anti-apoptosis|cell-cell signaling|immune response|signal transduction	extracellular space|integral to membrane	cytokine activity|tumor necrosis factor receptor binding			central_nervous_system(1)	1																		---	---	---	---
SLC9A11	284525	broad.mit.edu	37	1	173526586	173526586	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173526586G>A	uc001giz.2	-	10	1531	c.1108C>T	c.(1108-1110)CGA>TGA	p.R370*	SLC9A11_uc009wwe.2_5'UTR|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	370					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2																		---	---	---	---
GPR52	9293	broad.mit.edu	37	1	174417499	174417499	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:174417499G>A	uc001gka.1	+	1	288	c.250G>A	c.(250-252)GCA>ACA	p.A84T	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	84	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1																		---	---	---	---
GPR52	9293	broad.mit.edu	37	1	174417942	174417942	+	Silent	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:174417942T>A	uc001gka.1	+	1	731	c.693T>A	c.(691-693)CGT>CGA	p.R231R	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron|uc010pmu.1_RNA	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	231	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1																		---	---	---	---
MRPS14	63931	broad.mit.edu	37	1	174987651	174987651	+	Missense_Mutation	SNP	C	T	T	rs147012061		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:174987651C>T	uc001gkk.2	-	2	124	c.107G>A	c.(106-108)CGC>CAC	p.R36H	MRPS14_uc009wwr.2_Missense_Mutation_p.R21H	NM_022100	NP_071383	O60783	RT14_HUMAN	mitochondrial ribosomal protein S14	36					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0																		---	---	---	---
TNN	63923	broad.mit.edu	37	1	175046767	175046767	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:175046767G>A	uc001gkl.1	+	2	326	c.213G>A	c.(211-213)TCG>TCA	p.S71S	TNN_uc010pmx.1_Silent_p.S71S	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	71					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)														---	---	---	---
ASTN1	460	broad.mit.edu	37	1	176833575	176833575	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176833575G>A	uc001glc.2	-	23	3942	c.3730C>T	c.(3730-3732)CGG>TGG	p.R1244W	ASTN1_uc001glb.1_Intron	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	1252					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15																		---	---	---	---
ASTN1	460	broad.mit.edu	37	1	176903280	176903280	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176903280C>T	uc001glc.2	-						ASTN1_uc001glb.1_Intron|ASTN1_uc001gld.1_Intron	NM_004319	NP_004310			astrotactin isoform 1						cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15																		---	---	---	---
RALGPS2	55103	broad.mit.edu	37	1	178855202	178855202	+	Missense_Mutation	SNP	C	T	T	rs149978883		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:178855202C>T	uc001glz.2	+	13	1477	c.1139C>T	c.(1138-1140)GCG>GTG	p.A380V	RALGPS2_uc010pnb.1_Missense_Mutation_p.A380V	NM_152663	NP_689876	Q86X27	RGPS2_HUMAN	Ral GEF with PH domain and SH3 binding motif 2	380					small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity|protein binding				0																		---	---	---	---
ABL2	27	broad.mit.edu	37	1	179077318	179077318	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179077318G>A	uc001gmj.3	-	12	3371	c.3084C>T	c.(3082-3084)GGC>GGT	p.G1028G	ABL2_uc010pnf.1_Silent_p.G925G|ABL2_uc010png.1_Silent_p.G904G|ABL2_uc010pnh.1_Silent_p.G1007G|ABL2_uc001gmg.3_Silent_p.G910G|ABL2_uc001gmi.3_Silent_p.G1013G|ABL2_uc001gmh.3_Silent_p.G992G|ABL2_uc010pne.1_Silent_p.G889G	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	1028	Pro-rich.|F-actin-binding (By similarity).				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								---	---	---	---
ABL2	27	broad.mit.edu	37	1	179078138	179078138	+	Missense_Mutation	SNP	C	T	T	rs147435995		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179078138C>T	uc001gmj.3	-	12	2551	c.2264G>A	c.(2263-2265)CGC>CAC	p.R755H	ABL2_uc010pnf.1_Intron|ABL2_uc010png.1_Intron|ABL2_uc010pnh.1_Missense_Mutation_p.R734H|ABL2_uc001gmg.3_Intron|ABL2_uc001gmi.3_Missense_Mutation_p.R740H|ABL2_uc001gmh.3_Missense_Mutation_p.R719H|ABL2_uc010pne.1_Intron	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	755	F-actin-binding (By similarity).				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								---	---	---	---
ABL2	27	broad.mit.edu	37	1	179112110	179112110	+	Intron	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179112110G>T	uc001gmj.3	-						ABL2_uc010pnf.1_Intron|ABL2_uc010png.1_Intron|ABL2_uc010pnh.1_Intron|ABL2_uc009wxe.2_Intron|ABL2_uc001gmg.3_Missense_Mutation_p.L24M|ABL2_uc001gmi.3_Missense_Mutation_p.L24M|ABL2_uc001gmh.3_Missense_Mutation_p.L24M|ABL2_uc010pne.1_Missense_Mutation_p.L24M|ABL2_uc009wxf.1_Missense_Mutation_p.L24M|ABL2_uc001gmk.2_Missense_Mutation_p.L24M	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								---	---	---	---
C1orf125	126859	broad.mit.edu	37	1	179414261	179414261	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179414261C>T	uc001gmo.2	+	16	1847	c.1720C>T	c.(1720-1722)CGA>TGA	p.R574*	C1orf125_uc009wxg.2_Intron|C1orf125_uc001gmn.1_Nonsense_Mutation_p.R362*|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Nonsense_Mutation_p.R574*	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	574	Potential.										0																		---	---	---	---
TDRD5	163589	broad.mit.edu	37	1	179620046	179620046	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179620046C>T	uc001gnf.1	+	12	2095	c.1845C>T	c.(1843-1845)TGC>TGT	p.C615C	TDRD5_uc010pnp.1_Silent_p.C615C|TDRD5_uc001gnh.1_Silent_p.C170C	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	615					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5																		---	---	---	---
CEP350	9857	broad.mit.edu	37	1	180010286	180010286	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:180010286G>A	uc001gnt.2	+	18	4507	c.4124G>A	c.(4123-4125)CGC>CAC	p.R1375H	CEP350_uc009wxl.2_Missense_Mutation_p.R1374H	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1375	Potential.					centrosome|nucleus|spindle				ovary(4)	4																		---	---	---	---
XPR1	9213	broad.mit.edu	37	1	180780557	180780557	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:180780557G>T	uc001goi.2	+	7	888	c.696G>T	c.(694-696)TGG>TGT	p.W232C	XPR1_uc009wxm.2_Missense_Mutation_p.W232C|XPR1_uc009wxn.2_Missense_Mutation_p.W232C	NM_004736	NP_004727	Q9UBH6	XPR1_HUMAN	xenotropic and polytropic retrovirus receptor	232	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0																		---	---	---	---
XPR1	9213	broad.mit.edu	37	1	180849411	180849411	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:180849411C>T	uc001goi.2	+	14	2200	c.2008C>T	c.(2008-2010)CGC>TGC	p.R670C	XPR1_uc009wxn.2_Missense_Mutation_p.R605C	NM_004736	NP_004727	Q9UBH6	XPR1_HUMAN	xenotropic and polytropic retrovirus receptor	670	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0																		---	---	---	---
STX6	10228	broad.mit.edu	37	1	180974435	180974435	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:180974435G>A	uc010pnq.1	-	2	437	c.200C>T	c.(199-201)ACC>ATC	p.T67I	STX6_uc001goo.2_Missense_Mutation_p.T67I|STX6_uc010pnr.1_Intron	NM_005819	NP_005810	O43752	STX6_HUMAN	syntaxin 6	67	Potential.|Cytoplasmic (Potential).				Golgi vesicle transport|intracellular protein transport|vesicle fusion	clathrin-coated vesicle|early endosome|integral to membrane|perinuclear region of cytoplasm|plasma membrane|trans-Golgi network membrane	SNAP receptor activity			ovary(1)	1																		---	---	---	---
CACNA1E	777	broad.mit.edu	37	1	181706782	181706782	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:181706782C>T	uc001gow.2	+	23	3709	c.3544C>T	c.(3544-3546)CGC>TGC	p.R1182C	CACNA1E_uc009wxs.2_Missense_Mutation_p.R1070C|CACNA1E_uc001gox.1_Missense_Mutation_p.R408C|CACNA1E_uc009wxt.2_Missense_Mutation_p.R408C	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1182	Extracellular (Potential).|III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6																		---	---	---	---
CACNA1E	777	broad.mit.edu	37	1	181732597	181732597	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:181732597G>A	uc001gow.2	+	34	4910	c.4745G>A	c.(4744-4746)CGC>CAC	p.R1582H	CACNA1E_uc009wxs.2_Missense_Mutation_p.R1470H|CACNA1E_uc001gox.1_Missense_Mutation_p.R808H|CACNA1E_uc009wxt.2_Missense_Mutation_p.R808H	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1582	Helical; Name=S4 of repeat IV.|IV.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6																		---	---	---	---
RNASEL	6041	broad.mit.edu	37	1	182550411	182550411	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182550411C>T	uc001gpj.1	-	4	2021	c.1854G>A	c.(1852-1854)CTG>CTA	p.L618L	RNASEL_uc009wxz.1_Silent_p.L618L|RNASEL_uc001gpk.2_Silent_p.L618L	NM_021133	NP_066956	Q05823	RN5A_HUMAN	ribonuclease L	618	KEN.				mRNA processing|response to virus|type I interferon-mediated signaling pathway	mitochondrion	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|metal ion binding|protein kinase activity|RNA binding			ovary(4)|stomach(1)	5														Hereditary_Prostate_Cancer				---	---	---	---
C1orf14	81626	broad.mit.edu	37	1	182872293	182872293	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182872293C>T	uc001gpu.2	-	9	1876	c.1591G>A	c.(1591-1593)GCT>ACT	p.A531T	C1orf14_uc001gpv.2_Missense_Mutation_p.A412T|C1orf14_uc010pnz.1_Missense_Mutation_p.A389T|C1orf14_uc001gpw.2_Missense_Mutation_p.A251T	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	603	PbH1 2.										0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)														---	---	---	---
C1orf14	81626	broad.mit.edu	37	1	182873320	182873320	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182873320C>T	uc001gpu.2	-	8	1867	c.1582G>A	c.(1582-1584)GCC>ACC	p.A528T	C1orf14_uc001gpv.2_Missense_Mutation_p.A409T|C1orf14_uc010pnz.1_Missense_Mutation_p.A386T|C1orf14_uc001gpw.2_Missense_Mutation_p.A248T	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	600	PbH1 2.										0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)														---	---	---	---
LAMC1	3915	broad.mit.edu	37	1	183105532	183105532	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:183105532C>T	uc001gpy.3	+	25	4383	c.4126C>T	c.(4126-4128)CGT>TGT	p.R1376C		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	1376	Potential.|Domain II and I.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
LAMC2	3918	broad.mit.edu	37	1	183201857	183201857	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:183201857G>T	uc001gqa.2	+	14	2399	c.2085G>T	c.(2083-2085)CTG>CTT	p.L695L	LAMC2_uc001gpz.3_Silent_p.L695L|LAMC2_uc010poa.1_Silent_p.L395L	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	695	Potential.|Domain II and I.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3																		---	---	---	---
EDEM3	80267	broad.mit.edu	37	1	184671996	184671996	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:184671996G>A	uc010pok.1	-	19	2599	c.2338C>T	c.(2338-2340)CGG>TGG	p.R780W	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Missense_Mutation_p.R780W	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	780					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1																		---	---	---	---
EDEM3	80267	broad.mit.edu	37	1	184692925	184692925	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:184692925G>A	uc010pok.1	-	8	1074	c.813C>T	c.(811-813)GGC>GGT	p.G271G	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Silent_p.G271G|EDEM3_uc001gqy.2_Silent_p.G194G	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	271					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1																		---	---	---	---
FAM129A	116496	broad.mit.edu	37	1	184764913	184764913	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:184764913T>C	uc001gra.2	-	14	2179	c.1985A>G	c.(1984-1986)GAC>GGC	p.D662G	FAM129A_uc001grb.1_Intron	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	662					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4																		---	---	---	---
FAM129A	116496	broad.mit.edu	37	1	184777283	184777283	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:184777283C>T	uc001gra.2	-	10	1454	c.1260G>A	c.(1258-1260)CTG>CTA	p.L420L	FAM129A_uc001grb.1_Silent_p.L183L|FAM129A_uc009wyh.1_Silent_p.L248L|FAM129A_uc009wyi.1_Silent_p.L218L	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	420					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4																		---	---	---	---
C1orf25	81627	broad.mit.edu	37	1	185112528	185112528	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:185112528G>A	uc001grf.3	-	7	1092	c.820C>T	c.(820-822)CGA>TGA	p.R274*	C1orf25_uc010pon.1_Nonsense_Mutation_p.R118*	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	274						intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0																		---	---	---	---
C1orf25	81627	broad.mit.edu	37	1	185113083	185113083	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:185113083G>T	uc001grf.3	-	6	1006	c.734C>A	c.(733-735)CCT>CAT	p.P245H	C1orf25_uc010pon.1_Missense_Mutation_p.P89H	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	245						intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0																		---	---	---	---
HMCN1	83872	broad.mit.edu	37	1	185985117	185985117	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:185985117C>T	uc001grq.1	+	32	5166	c.4937C>T	c.(4936-4938)GCC>GTC	p.A1646V		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1646	Ig-like C2-type 14.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23																		---	---	---	---
HMCN1	83872	broad.mit.edu	37	1	186092202	186092202	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186092202C>T	uc001grq.1	+	81	12578	c.12349C>T	c.(12349-12351)CGT>TGT	p.R4117C		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4117	Ig-like C2-type 40.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23																		---	---	---	---
HMCN1	83872	broad.mit.edu	37	1	186147696	186147696	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186147696C>T	uc001grq.1	+	104	16321	c.16092C>T	c.(16090-16092)GGC>GGT	p.G5364G	HMCN1_uc001grs.1_Intron	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5364					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23																		---	---	---	---
HMCN1	83872	broad.mit.edu	37	1	186147722	186147722	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186147722C>T	uc001grq.1	+	104	16347	c.16118C>T	c.(16117-16119)GCA>GTA	p.A5373V	HMCN1_uc001grs.1_Intron	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5373					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23																		---	---	---	---
HMCN1	83872	broad.mit.edu	37	1	186158685	186158685	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186158685C>T	uc001grq.1	+	107	16812	c.16583C>T	c.(16582-16584)GCC>GTC	p.A5528V	HMCN1_uc001grs.1_Missense_Mutation_p.A980V	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5528					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23																		---	---	---	---
HMCN1	83872	broad.mit.edu	37	1	186158913	186158913	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186158913G>A	uc001grq.1	+	107	17040	c.16811G>A	c.(16810-16812)CGC>CAC	p.R5604H	HMCN1_uc001grs.1_Missense_Mutation_p.R1056H	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5604					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23																		---	---	---	---
PRG4	10216	broad.mit.edu	37	1	186276100	186276100	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186276100A>C	uc001gru.3	+	7	1300	c.1249A>C	c.(1249-1251)ACC>CCC	p.T417P	PRG4_uc001grt.3_Missense_Mutation_p.T376P|PRG4_uc009wyl.2_Missense_Mutation_p.T324P|PRG4_uc009wym.2_Missense_Mutation_p.T283P|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	417	9.|59 X 8 AA repeats of K-X-P-X-P-T-T-X.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1																		---	---	---	---
TPR	7175	broad.mit.edu	37	1	186312540	186312540	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186312540C>T	uc001grv.2	-	27	3965	c.3668G>A	c.(3667-3669)CGT>CAT	p.R1223H		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1223	Potential.				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								---	---	---	---
TPR	7175	broad.mit.edu	37	1	186313197	186313197	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186313197C>T	uc001grv.2	-	26	3740	c.3443G>A	c.(3442-3444)CGC>CAC	p.R1148H		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1148	Potential.				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								---	---	---	---
PTGS2	5743	broad.mit.edu	37	1	186647441	186647441	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186647441C>A	uc001gsb.2	-	4	546	c.409G>T	c.(409-411)GCC>TCC	p.A137S	PTGS2_uc009wyo.2_Missense_Mutation_p.E20D	NM_000963	NP_000954	P35354	PGH2_HUMAN	prostaglandin-endoperoxide synthase 2 precursor	137					cellular component movement|cyclooxygenase pathway|hormone biosynthetic process|positive regulation of brown fat cell differentiation|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of fever generation|positive regulation of fibroblast growth factor production|positive regulation of nitric oxide biosynthetic process|positive regulation of platelet-derived growth factor production|positive regulation of prostaglandin biosynthetic process|positive regulation of transforming growth factor-beta production|positive regulation vascular endothelial growth factor production|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|microsome|neuron projection|nucleus	enzyme binding|heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|central_nervous_system(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Carprofen(DB00821)|Celecoxib(DB00482)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Epoprostenol(DB01240)|Etodolac(DB00749)|Etoricoxib(DB01628)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ginseng(DB01404)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lenalidomide(DB00480)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mesalazine(DB00244)|Nabumetone(DB00461)|Naproxen(DB00788)|Oxaprozin(DB00991)|Phenylbutazone(DB00812)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Thalidomide(DB01041)|Tiaprofenic acid(DB01600)|Tolmetin(DB00500)|Valdecoxib(DB00580)													---	---	---	---
FAM5C	339479	broad.mit.edu	37	1	190067862	190067862	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:190067862C>T	uc001gse.1	-	8	1819	c.1587G>A	c.(1585-1587)TGG>TGA	p.W529*	FAM5C_uc010pot.1_Nonsense_Mutation_p.W427*	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	529						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)																	---	---	---	---
B3GALT2	8707	broad.mit.edu	37	1	193149774	193149774	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:193149774G>A	uc001gtc.3	-	2	1634	c.919C>T	c.(919-921)CGT>TGT	p.R307C	CDC73_uc001gtb.2_Intron	NM_003783	NP_003774	O43825	B3GT2_HUMAN	UDP-Gal:betaGlcNAc beta	307	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1																		---	---	---	---
CFHR1	3078	broad.mit.edu	37	1	196801062	196801062	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:196801062G>A	uc001gtn.2	+	6	1040	c.926G>A	c.(925-927)CGT>CAT	p.R309H	CFHR1_uc001gtm.2_Missense_Mutation_p.R213H	NM_002113	NP_002104	Q03591	FHR1_HUMAN	complement factor H-related 1 precursor	309	Sushi 5.				complement activation	extracellular space					0																		---	---	---	---
CRB1	23418	broad.mit.edu	37	1	197390881	197390881	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197390881C>A	uc001gtz.2	+	6	2058	c.1923C>A	c.(1921-1923)GGC>GGA	p.G641G	CRB1_uc010poz.1_Silent_p.G572G|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Silent_p.G529G|CRB1_uc010ppb.1_Silent_p.G641G|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_Silent_p.G122G|CRB1_uc001gub.1_Silent_p.G290G	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	641	Extracellular (Potential).|Laminin G-like 1.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9																		---	---	---	---
LHX9	56956	broad.mit.edu	37	1	197889133	197889133	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197889133C>T	uc001guk.1	+	2	643	c.206C>T	c.(205-207)GCC>GTC	p.A69V	LHX9_uc001gui.1_Missense_Mutation_p.A60V|LHX9_uc001guj.1_Missense_Mutation_p.A75V	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	69	LIM zinc-binding 1.				motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1																		---	---	---	---
PTPRC	5788	broad.mit.edu	37	1	198685904	198685904	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:198685904A>C	uc001gur.1	+	13	1559	c.1379A>C	c.(1378-1380)TAC>TCC	p.Y460S	PTPRC_uc001gus.1_Missense_Mutation_p.Y412S|PTPRC_uc001gut.1_Missense_Mutation_p.Y299S|PTPRC_uc009wzf.1_Missense_Mutation_p.Y348S|PTPRC_uc010ppg.1_Missense_Mutation_p.Y396S	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	460	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12																		---	---	---	---
PTPRC	5788	broad.mit.edu	37	1	198687371	198687371	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:198687371G>A	uc001gur.1	+	14	1773	c.1593G>A	c.(1591-1593)TCG>TCA	p.S531S	PTPRC_uc001gus.1_Silent_p.S483S|PTPRC_uc001gut.1_Silent_p.S370S|PTPRC_uc009wzf.1_Silent_p.S419S|PTPRC_uc010ppg.1_Silent_p.S467S	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	531	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12																		---	---	---	---
PTPRC	5788	broad.mit.edu	37	1	198703517	198703517	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:198703517T>C	uc001gur.1	+	22	2414	c.2234T>C	c.(2233-2235)GTT>GCT	p.V745A	PTPRC_uc001gus.1_Missense_Mutation_p.V697A|PTPRC_uc001gut.1_Missense_Mutation_p.V584A|PTPRC_uc010ppg.1_Missense_Mutation_p.V681A	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	745	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12																		---	---	---	---
ZNF281	23528	broad.mit.edu	37	1	200377556	200377556	+	Silent	SNP	C	T	T	rs17855043		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200377556C>T	uc001gve.2	-	2	1385	c.1278G>A	c.(1276-1278)TCG>TCA	p.S426S	ZNF281_uc001gvf.1_Silent_p.S426S|ZNF281_uc001gvg.1_Silent_p.S390S	NM_012482	NP_036614	Q9Y2X9	ZN281_HUMAN	zinc finger protein 281	426					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)	2																		---	---	---	---
KIF21B	23046	broad.mit.edu	37	1	200944027	200944027	+	Silent	SNP	C	T	T	rs140999969		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200944027C>T	uc001gvs.1	-	34	4946	c.4629G>A	c.(4627-4629)GCG>GCA	p.A1543A	KIF21B_uc001gvr.1_Silent_p.A1530A|KIF21B_uc009wzl.1_Silent_p.A1543A|KIF21B_uc010ppn.1_Silent_p.A1530A	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	1543	WD 6.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6																		---	---	---	---
CACNA1S	779	broad.mit.edu	37	1	201022696	201022696	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201022696C>T	uc001gvv.2	-	30	3913	c.3686G>A	c.(3685-3687)CGC>CAC	p.R1229H		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1229	IV.|Extracellular (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)													---	---	---	---
PKP1	5317	broad.mit.edu	37	1	201252935	201252935	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201252935G>A	uc001gwd.2	+	1	356	c.105G>A	c.(103-105)ACG>ACA	p.T35T	PKP1_uc001gwe.2_Silent_p.T35T|PKP1_uc009wzm.2_5'UTR	NM_000299	NP_000290	Q13835	PKP1_HUMAN	plakophilin 1 isoform 1b	35					cell adhesion|cellular component disassembly involved in apoptosis|multicellular organismal development	desmosome|intermediate filament|nucleus	intermediate filament binding|signal transducer activity|structural constituent of epidermis			ovary(2)	2																		---	---	---	---
CSRP1	1465	broad.mit.edu	37	1	201454427	201454427	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201454427G>A	uc001gws.2	-	5	680	c.489C>T	c.(487-489)GGC>GGT	p.G163G	CSRP1_uc001gwr.1_RNA|CSRP1_uc010ppr.1_Silent_p.G157G	NM_004078	NP_004069	P21291	CSRP1_HUMAN	cysteine and glycine-rich protein 1 isoform 1	163	LIM zinc-binding 2.					nucleus	zinc ion binding			ovary(1)	1																		---	---	---	---
NAV1	89796	broad.mit.edu	37	1	201751650	201751650	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201751650C>T	uc001gwu.2	+	6	2357	c.2010C>T	c.(2008-2010)TAC>TAT	p.Y670Y	NAV1_uc001gwv.1_Silent_p.Y178Y|NAV1_uc001gww.1_Silent_p.Y279Y|NAV1_uc001gwx.2_Silent_p.Y279Y|NAV1_uc001gwy.1_Silent_p.Y51Y	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	670					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4																		---	---	---	---
NAV1	89796	broad.mit.edu	37	1	201763655	201763655	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201763655C>T	uc001gwu.2	+	15	3814	c.3467C>T	c.(3466-3468)GCC>GTC	p.A1156V	NAV1_uc001gwv.1_Missense_Mutation_p.A681V|NAV1_uc001gww.1_Missense_Mutation_p.A757V|NAV1_uc001gwx.2_Missense_Mutation_p.A765V|NAV1_uc001gwy.1_Missense_Mutation_p.A529V	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	1156	Potential.				cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4																		---	---	---	---
LGR6	59352	broad.mit.edu	37	1	202270002	202270002	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202270002G>A	uc001gxu.2	+	8	811	c.811G>A	c.(811-813)GCC>ACC	p.A271T	LGR6_uc001gxv.2_Missense_Mutation_p.A219T|LGR6_uc009xab.2_RNA|LGR6_uc001gxw.2_Missense_Mutation_p.A132T|LGR6_uc009xac.1_RNA	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	271	LRR 8.|Extracellular (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10																		---	---	---	---
PPP1R12B	4660	broad.mit.edu	37	1	202418206	202418206	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202418206G>A	uc001gya.1	+	13	1901	c.1757G>A	c.(1756-1758)CGC>CAC	p.R586H	PPP1R12B_uc001gxz.1_Missense_Mutation_p.R586H	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	586					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)															---	---	---	---
SYT2	127833	broad.mit.edu	37	1	202573729	202573729	+	Missense_Mutation	SNP	C	T	T	rs147177966		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202573729C>T	uc001gye.2	-	3	392	c.199G>A	c.(199-201)GCC>ACC	p.A67T	SYT2_uc010pqb.1_Missense_Mutation_p.A67T|SYT2_uc009xaf.2_Intron	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II	67	Helical; (Potential).				neurotransmitter secretion	cell junction|chromaffin granule membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	protein binding|transporter activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)													---	---	---	---
KDM5B	10765	broad.mit.edu	37	1	202704712	202704712	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202704712G>A	uc001gyf.2	-	22	3384	c.3268C>T	c.(3268-3270)CTG>TTG	p.L1090L	KDM5B_uc009xag.2_Silent_p.L1126L|KDM5B_uc001gyg.1_Silent_p.L932L	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	1090					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5																		---	---	---	---
KDM5B	10765	broad.mit.edu	37	1	202746175	202746175	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202746175C>T	uc001gyf.2	-	2	368	c.252G>A	c.(250-252)ACG>ACA	p.T84T	KDM5B_uc009xag.2_Silent_p.T84T|KDM5B_uc001gyg.1_5'UTR	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	84					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5																		---	---	---	---
KLHL12	59349	broad.mit.edu	37	1	202863757	202863757	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202863757G>A	uc001gyo.1	-	9	1456	c.1256C>T	c.(1255-1257)GCC>GTC	p.A419V	KLHL12_uc001gym.1_Missense_Mutation_p.A152V|KLHL12_uc001gyn.1_Missense_Mutation_p.A269V|KLHL12_uc010pqc.1_Missense_Mutation_p.A457V|KLHL12_uc009xah.1_Missense_Mutation_p.A318V	NM_021633	NP_067646	Q53G59	KLH12_HUMAN	kelch-like 12	419	Kelch 3.|Interaction with DVL3.				Wnt receptor signaling pathway		protein binding				0			BRCA - Breast invasive adenocarcinoma(75;0.166)															---	---	---	---
ADIPOR1	51094	broad.mit.edu	37	1	202920110	202920110	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202920110A>G	uc001gyq.3	-	2	356	c.89T>C	c.(88-90)CTG>CCG	p.L30P	ADIPOR1_uc010pqd.1_5'Flank|ADIPOR1_uc001gyr.3_5'UTR|ADIPOR1_uc001gys.3_Missense_Mutation_p.L30P	NM_015999	NP_057083	Q96A54	ADR1_HUMAN	adiponectin receptor 1	30	Cytoplasmic (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)															---	---	---	---
ADORA1	134	broad.mit.edu	37	1	203134421	203134421	+	Missense_Mutation	SNP	C	T	T	rs79599913		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:203134421C>T	uc001gze.1	+	4	807	c.374C>T	c.(373-375)GCG>GTG	p.A125V	FMOD_uc010pqi.1_Intron|ADORA1_uc001gzf.1_Missense_Mutation_p.A125V|ADORA1_uc010pqg.1_Missense_Mutation_p.A57V|ADORA1_uc009xak.1_Silent_p.G50G|ADORA1_uc010pqh.1_Missense_Mutation_p.A158V	NM_000674	NP_000665	P30542	AA1R_HUMAN	adenosine A1 receptor	125	Helical; Name=4; (Potential).				induction of apoptosis by extracellular signals|inflammatory response|nervous system development|phagocytosis	integral to plasma membrane				large_intestine(1)	1					Aminophylline(DB01223)|Caffeine(DB00201)|Defibrotide(DB04932)|Gabapentin(DB00996)|Imipramine(DB00458)|Pegademase bovine(DB00061)|Theophylline(DB00277)													---	---	---	---
ZC3H11A	9877	broad.mit.edu	37	1	203798733	203798733	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:203798733G>A	uc001hac.2	+	8	1069	c.453G>A	c.(451-453)ACG>ACA	p.T151T	ZC3H11A_uc001had.2_Silent_p.T151T|ZC3H11A_uc001hae.2_Silent_p.T151T|ZC3H11A_uc001haf.2_Silent_p.T151T|ZC3H11A_uc010pqm.1_Silent_p.T97T|ZC3H11A_uc001hag.1_Silent_p.T151T	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	151							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)															---	---	---	---
C1orf157	284573	broad.mit.edu	37	1	204006616	204006616	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:204006616G>A	uc001haj.2	-	3		c.404C>T			C1orf157_uc001hak.2_RNA|C1orf157_uc010pqo.1_RNA	NR_027902				Homo sapiens cDNA FLJ40343 fis, clone TESTI2032774.												0	all_cancers(21;0.083)|Breast(84;0.193)|all_epithelial(62;0.21)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0754)|Kidney(21;0.0934)|Epithelial(59;0.233)															---	---	---	---
PLEKHA6	22874	broad.mit.edu	37	1	204226501	204226501	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:204226501G>A	uc001hau.2	-	9	1821	c.1504C>T	c.(1504-1506)CGA>TGA	p.R502*	PLEKHA6_uc009xaw.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xax.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xay.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xaz.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xba.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xbb.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xbc.1_Nonsense_Mutation_p.R126*	NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	502										ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)															---	---	---	---
SLC45A3	85414	broad.mit.edu	37	1	205632060	205632060	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205632060T>C	uc001hda.1	-	3	1198	c.859A>G	c.(859-861)ACC>GCC	p.T287A	SLC45A3_uc010prn.1_5'Flank|SLC45A3_uc010pro.1_Missense_Mutation_p.T121A|SLC45A3_uc010prp.1_Intron|ELK4_uc010prq.1_Intron	NM_033102	NP_149093	Q96JT2	S45A3_HUMAN	prostein	287	Helical; Name=7; (Potential).				transmembrane transport	integral to membrane			SLC45A3/BRAF(2)	ovary(2)|prostate(2)	4	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0194)					T	ETV1|ETV5|ELK4|ERG	prostate 								---	---	---	---
PM20D1	148811	broad.mit.edu	37	1	205814498	205814498	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205814498G>A	uc001hdj.2	-	3	489	c.444C>T	c.(442-444)GGC>GGT	p.G148G	PM20D1_uc009xbr.2_RNA	NM_152491	NP_689704	Q6GTS8	P20D1_HUMAN	peptidase M20 domain containing 1 precursor	148						extracellular region	metal ion binding|peptidase activity			skin(1)	1	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0252)															---	---	---	---
SRGAP2	23380	broad.mit.edu	37	1	206626563	206626563	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:206626563G>A	uc001hdy.2	+	17	2269	c.1936G>A	c.(1936-1938)GCC>ACC	p.A646T	SRGAP2_uc010prt.1_Missense_Mutation_p.A569T|SRGAP2_uc001hdx.2_Missense_Mutation_p.A646T|SRGAP2_uc010pru.1_Missense_Mutation_p.A569T|SRGAP2_uc010prv.1_Missense_Mutation_p.A570T	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	733	SH3.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)																	---	---	---	---
CD34	947	broad.mit.edu	37	1	208061099	208061099	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:208061099G>A	uc001hgw.1	-	8	1400	c.1142C>T	c.(1141-1143)GCT>GTT	p.A381V	CD34_uc001hgv.1_Missense_Mutation_p.A223V|CD34_uc001hgx.1_3'UTR|CD34_uc010psj.1_Missense_Mutation_p.A246V	NM_001025109	NP_001020280	P28906	CD34_HUMAN	CD34 antigen isoform a	381	Cytoplasmic (Potential).				cell-cell adhesion|leukocyte migration|regulation of immune response	integral to membrane	carbohydrate binding			ovary(1)	1																		---	---	---	---
PLXNA2	5362	broad.mit.edu	37	1	208212226	208212226	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:208212226G>A	uc001hgz.2	-	25	5362	c.4604C>T	c.(4603-4605)GCC>GTC	p.A1535V		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1535	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)														---	---	---	---
PLXNA2	5362	broad.mit.edu	37	1	208391279	208391279	+	5'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:208391279C>T	uc001hgz.2	-	2					PLXNA2_uc001hha.3_Missense_Mutation_p.A51T	NM_025179	NP_079455			plexin A2 precursor						axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)														---	---	---	---
HHAT	55733	broad.mit.edu	37	1	210591562	210591562	+	Missense_Mutation	SNP	G	A	A	rs148639278	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:210591562G>A	uc009xcx.2	+	7	915	c.749G>A	c.(748-750)CGC>CAC	p.R250H	HHAT_uc010psq.1_Missense_Mutation_p.R113H|HHAT_uc001hhz.3_Missense_Mutation_p.R250H|HHAT_uc010psr.1_Missense_Mutation_p.R251H|HHAT_uc010pss.1_Missense_Mutation_p.R205H|HHAT_uc009xcy.2_Missense_Mutation_p.R185H|HHAT_uc010pst.1_Missense_Mutation_p.R187H|HHAT_uc010psu.1_Missense_Mutation_p.R185H	NM_001122834	NP_001116306	Q5VTY9	HHAT_HUMAN	hedgehog acyltransferase	250					multicellular organismal development	endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0136)|all cancers(67;0.161)|KIRC - Kidney renal clear cell carcinoma(1967;0.215)														---	---	---	---
KCNH1	3756	broad.mit.edu	37	1	210971031	210971031	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:210971031C>A	uc001hib.2	-	9	1904	c.1734G>T	c.(1732-1734)GAG>GAT	p.E578D	KCNH1_uc001hic.2_Missense_Mutation_p.E551D	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	578	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)														---	---	---	---
RCOR3	55758	broad.mit.edu	37	1	211451507	211451507	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211451507A>G	uc001hig.2	+	5	560	c.391A>G	c.(391-393)AAA>GAA	p.K131E	RCOR3_uc010psv.1_RNA|RCOR3_uc001hie.2_Missense_Mutation_p.K189E|RCOR3_uc010psw.1_Missense_Mutation_p.K189E|RCOR3_uc001hif.2_Missense_Mutation_p.K189E	NM_018254	NP_060724	Q9P2K3	RCOR3_HUMAN	REST corepressor 3 isoform d	131	SANT 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)														---	---	---	---
NEK2	4751	broad.mit.edu	37	1	211842455	211842455	+	Nonsense_Mutation	SNP	G	A	A	rs140995957		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211842455G>A	uc001hir.1	-	6	1131	c.985C>T	c.(985-987)CAG>TAG	p.Q329*	NEK2_uc001hiq.1_Nonsense_Mutation_p.Q329*|NEK2_uc001his.3_Nonsense_Mutation_p.Q329*|NEK2_uc001hit.1_RNA	NM_002497	NP_002488	P51955	NEK2_HUMAN	NIMA-related kinase 2	329	Leucine-zipper.|Necessary for interaction with MAD1L1.|Potential.|Interaction with PCNT.				cell division|centrosome separation|G2/M transition of mitotic cell cycle|meiosis|protein autophosphorylation|regulation of mitosis	centrosome|condensed chromosome kinetochore|cytosol|nucleolus	ATP binding|metal ion binding|protein binding|protein phosphatase binding|protein serine/threonine kinase activity			breast(2)|stomach(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.00203)|all cancers(67;0.0339)|Epithelial(68;0.0546)														---	---	---	---
DTL	51514	broad.mit.edu	37	1	212273912	212273912	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:212273912C>T	uc009xdc.2	+	14	1894	c.1580C>T	c.(1579-1581)CCG>CTG	p.P527L	DTL_uc010ptb.1_Missense_Mutation_p.P485L|DTL_uc001hiz.3_Missense_Mutation_p.P256L	NM_016448	NP_057532	Q9NZJ0	DTL_HUMAN	denticleless homolog	527					DNA replication|G2/M transition DNA damage checkpoint|protein monoubiquitination|protein polyubiquitination|response to UV|translesion synthesis|ubiquitin-dependent protein catabolic process	centrosome|Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|nuclear membrane	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00796)|all cancers(67;0.0385)|Epithelial(68;0.102)														---	---	---	---
RPS6KC1	26750	broad.mit.edu	37	1	213414415	213414415	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:213414415G>T	uc010ptr.1	+	11	1755	c.1596G>T	c.(1594-1596)GAG>GAT	p.E532D	RPS6KC1_uc001hkd.2_Missense_Mutation_p.E520D|RPS6KC1_uc010pts.1_Missense_Mutation_p.E320D|RPS6KC1_uc010ptt.1_Missense_Mutation_p.E320D|RPS6KC1_uc010ptu.1_Missense_Mutation_p.E351D|RPS6KC1_uc010ptv.1_Missense_Mutation_p.E67D|RPS6KC1_uc001hke.2_Missense_Mutation_p.E351D	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	532					cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)														---	---	---	---
PROX1	5629	broad.mit.edu	37	1	214171100	214171100	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:214171100C>T	uc001hkh.2	+	2	1494	c.1222C>T	c.(1222-1224)CGC>TGC	p.R408C	PROX1_uc001hkg.1_Missense_Mutation_p.R408C	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	408					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)														---	---	---	---
PROX1	5629	broad.mit.edu	37	1	214171117	214171117	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:214171117C>T	uc001hkh.2	+	2	1511	c.1239C>T	c.(1237-1239)GGC>GGT	p.G413G	PROX1_uc001hkg.1_Silent_p.G413G	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	413					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)														---	---	---	---
KCTD3	51133	broad.mit.edu	37	1	215793881	215793881	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215793881C>T	uc001hks.2	+	18	2663	c.2369C>T	c.(2368-2370)GCG>GTG	p.A790V	KCTD3_uc001hkt.2_Missense_Mutation_p.A788V|KCTD3_uc010pub.1_Missense_Mutation_p.A688V|KCTD3_uc009xdn.2_Missense_Mutation_p.A514V	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	790						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)														---	---	---	---
USH2A	7399	broad.mit.edu	37	1	216040396	216040396	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216040396G>A	uc001hku.1	-	44	9185	c.8798C>T	c.(8797-8799)GCG>GTG	p.A2933V		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2933	Fibronectin type-III 16.|Extracellular (Potential).				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)			---	---	---	---
USH2A	7399	broad.mit.edu	37	1	216538432	216538432	+	Intron	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216538432A>T	uc001hku.1	-						USH2A_uc001hkv.2_Intron	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)			---	---	---	---
USH2A	7399	broad.mit.edu	37	1	216595645	216595645	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216595645A>C	uc001hku.1	-	2	421	c.34T>G	c.(34-36)TTC>GTC	p.F12V	USH2A_uc001hkv.2_Missense_Mutation_p.F12V	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	12					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)			---	---	---	---
TGFB2	7042	broad.mit.edu	37	1	218607501	218607501	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:218607501C>T	uc001hlm.2	+	3	1241	c.588C>T	c.(586-588)GGC>GGT	p.G196G	TGFB2_uc001hln.2_Silent_p.G224G|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	196					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)														---	---	---	---
RAB3GAP2	25782	broad.mit.edu	37	1	220345285	220345285	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:220345285C>T	uc010puk.1	-	23	2687	c.2523G>A	c.(2521-2523)GCG>GCA	p.A841A	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Silent_p.A421A	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	841					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)														---	---	---	---
MOSC1	64757	broad.mit.edu	37	1	220970031	220970031	+	Missense_Mutation	SNP	G	A	A	rs140778482	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:220970031G>A	uc001hms.2	+	3	744	c.496G>A	c.(496-498)GCC>ACC	p.A166T	MOSC1_uc001hmt.2_Missense_Mutation_p.A166T	NM_022746	NP_073583	Q5VT66	MOSC1_HUMAN	MOCO sulphurase C-terminal domain containing 1	166							molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.0358)														---	---	---	---
DUSP10	11221	broad.mit.edu	37	1	221912575	221912575	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:221912575C>T	uc001hmy.1	-	2	694	c.512G>A	c.(511-513)GGC>GAC	p.G171D	DUSP10_uc001hmx.1_5'Flank|DUSP10_uc001hmz.1_Intron	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	171	Rhodanese.				inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)														---	---	---	---
HHIPL2	79802	broad.mit.edu	37	1	222696094	222696094	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:222696094C>T	uc001hnh.1	-	9	2082	c.2024G>A	c.(2023-2025)AGC>AAC	p.S675N		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	675					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)														---	---	---	---
HHIPL2	79802	broad.mit.edu	37	1	222717211	222717211	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:222717211G>A	uc001hnh.1	-	2	700	c.642C>T	c.(640-642)AAC>AAT	p.N214N		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	214					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)														---	---	---	---
MIA3	375056	broad.mit.edu	37	1	222803003	222803003	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:222803003G>A	uc001hnl.2	+	4	2450	c.2441G>A	c.(2440-2442)CGC>CAC	p.R814H	MIA3_uc009xea.1_Missense_Mutation_p.R650H	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	814	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)														---	---	---	---
C1orf58	148362	broad.mit.edu	37	1	222898866	222898866	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:222898866C>T	uc001hnq.1	+	7	944	c.549C>T	c.(547-549)TAC>TAT	p.Y183Y	C1orf58_uc010put.1_Silent_p.Y151Y|C1orf58_uc010puu.1_Silent_p.Y183Y|C1orf58_uc010puv.1_Silent_p.Y151Y	NM_144695	NP_653296	Q5VW32	BROX_HUMAN	Bro1-domain-containing protein	183	BRO1.					membrane					0				GBM - Glioblastoma multiforme(131;0.0667)														---	---	---	---
DISP1	84976	broad.mit.edu	37	1	223177973	223177973	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:223177973C>T	uc001hnu.1	+	8	3381	c.3234C>T	c.(3232-3234)CGC>CGT	p.R1078R		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1078					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)														---	---	---	---
DISP1	84976	broad.mit.edu	37	1	223178672	223178672	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:223178672C>T	uc001hnu.1	+	8	4080	c.3933C>T	c.(3931-3933)GGC>GGT	p.G1311G		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1311					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)														---	---	---	---
CAPN2	824	broad.mit.edu	37	1	223905544	223905544	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:223905544G>A	uc001hob.3	+						CAPN2_uc010puy.1_Intron	NM_001748	NP_001739			calpain 2 isoform 1						proteolysis	cytoplasm|plasma membrane				lung(3)|breast(1)|skin(1)	5				GBM - Glioblastoma multiforme(131;0.109)														---	---	---	---
CAPN2	824	broad.mit.edu	37	1	223933116	223933116	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:223933116G>A	uc001hob.3	+	4	759	c.535G>A	c.(535-537)GCC>ACC	p.A179T	CAPN2_uc010puy.1_Missense_Mutation_p.A101T	NM_001748	NP_001739	P17655	CAN2_HUMAN	calpain 2 isoform 1	179	Calpain catalytic.				proteolysis	cytoplasm|plasma membrane				lung(3)|breast(1)|skin(1)	5				GBM - Glioblastoma multiforme(131;0.109)														---	---	---	---
EPHX1	2052	broad.mit.edu	37	1	226016576	226016576	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226016576G>A	uc001hpk.2	+	2	226	c.146G>A	c.(145-147)CGC>CAC	p.R49H	EPHX1_uc001hpl.2_Missense_Mutation_p.R49H	NM_001136018	NP_001129490	P07099	HYEP_HUMAN	epoxide hydrolase 1	49					aromatic compound catabolic process|response to toxin	endoplasmic reticulum membrane|integral to membrane|microsome	cis-stilbene-oxide hydrolase activity|epoxide hydrolase activity			ovary(3)|lung(1)	4	Breast(184;0.197)																	---	---	---	---
LEFTY1	10637	broad.mit.edu	37	1	226109900	226109900	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226109900G>A	uc010pvj.1	-						PYCR2_uc001hpp.2_Intron|PYCR2_uc001hpq.2_Intron|PYCR2_uc001hpr.2_Intron|PYCR2_uc001hps.1_Intron					SubName: Full=cDNA FLJ54750, moderately similar to Pyrroline-5-carboxylate reductase 2 (EC 1.5.1.2);						cell growth|multicellular organismal development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity|transforming growth factor beta receptor binding				0	Breast(184;0.197)																	---	---	---	---
H3F3A	3020	broad.mit.edu	37	1	226253372	226253372	+	Silent	SNP	G	A	A	rs143861201		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226253372G>A	uc001hpw.2	+	3	259	c.144G>A	c.(142-144)GCG>GCA	p.A48A	H3F3A_uc010pvl.1_Silent_p.A48A	NM_005324	NP_005315	P84243	H33_HUMAN	H3 histone, family 3B	48					blood coagulation|nucleosome assembly	nucleoplasm|nucleosome	DNA binding				0	Breast(184;0.179)			GBM - Glioblastoma multiforme(131;0.203)														---	---	---	---
PARP1	142	broad.mit.edu	37	1	226576444	226576444	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226576444G>A	uc001hqd.3	-	5	801	c.630C>T	c.(628-630)GGC>GGT	p.G210G		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	210					cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)									Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					---	---	---	---
ITPKB	3707	broad.mit.edu	37	1	226923286	226923286	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226923286C>T	uc010pvo.1	-	2	2214	c.1874G>A	c.(1873-1875)CGC>CAC	p.R625H	ITPKB_uc001hqh.2_Missense_Mutation_p.R625H	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	625							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)																---	---	---	---
OBSCN	84033	broad.mit.edu	37	1	228459736	228459736	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228459736G>A	uc009xez.1	+						OBSCN_uc001hsn.2_Intron	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)																---	---	---	---
OBSCN	84033	broad.mit.edu	37	1	228461716	228461716	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228461716G>A	uc009xez.1	+	18	5427	c.5383G>A	c.(5383-5385)GCA>ACA	p.A1795T	OBSCN_uc001hsn.2_Missense_Mutation_p.A1795T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1795	Fibronectin type-III 2.				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)																---	---	---	---
OBSCN	84033	broad.mit.edu	37	1	228467553	228467553	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228467553G>A	uc009xez.1	+	28	7472	c.7428G>A	c.(7426-7428)GAG>GAA	p.E2476E	OBSCN_uc001hsn.2_Silent_p.E2476E|OBSCN_uc001hsp.1_Silent_p.E175E|OBSCN_uc001hsq.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2476	Ig-like 24.				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)																---	---	---	---
OBSCN	84033	broad.mit.edu	37	1	228471480	228471480	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228471480C>T	uc009xez.1	+						OBSCN_uc001hsn.2_Intron|OBSCN_uc001hsp.1_Missense_Mutation_p.A704V|OBSCN_uc001hsq.1_Intron	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)																---	---	---	---
OBSCN	84033	broad.mit.edu	37	1	228506834	228506834	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228506834G>A	uc009xez.1	+	54	14425	c.14381G>A	c.(14380-14382)CGC>CAC	p.R4794H	OBSCN_uc001hsn.2_Missense_Mutation_p.R4794H	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4794					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)																---	---	---	---
HIST3H2A	92815	broad.mit.edu	37	1	228645350	228645350	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228645350C>T	uc001hsy.2	-	1	211	c.169G>A	c.(169-171)GAG>AAG	p.E57K	HIST3H2BB_uc001hsz.2_5'Flank	NM_033445	NP_254280	Q7L7L0	H2A3_HUMAN	histone cluster 3, H2a	57					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)	1		Prostate(94;0.183)																---	---	---	---
C1orf96	126731	broad.mit.edu	37	1	229462504	229462504	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229462504G>A	uc001htl.3	-	3	695	c.617C>T	c.(616-618)GCG>GTG	p.A206V	C1orf96_uc009xfc.2_RNA	NM_145257	NP_660300	Q6IQ19	CA096_HUMAN	hypothetical protein LOC126731	206						centrosome					0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.178)																---	---	---	---
ACTA1	58	broad.mit.edu	37	1	229568586	229568586	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229568586G>A	uc001htm.2	-	3	276	c.171C>T	c.(169-171)GGC>GGT	p.G57G		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	57					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)													---	---	---	---
ABCB10	23456	broad.mit.edu	37	1	229676376	229676376	+	Missense_Mutation	SNP	C	T	T	rs143346649		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229676376C>T	uc001htp.3	-	5	1223	c.1180G>A	c.(1180-1182)GCC>ACC	p.A394T		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	394	Mitochondrial intermembrane (Potential).|Mitochondrial matrix (Potential).|ABC transmembrane type-1.					integral to mitochondrial membrane|mitochondrial inner membrane	ATP binding|oligopeptide-transporting ATPase activity			breast(2)	2	Breast(184;0.143)|Ovarian(103;0.249)	Prostate(94;0.167)																---	---	---	---
TAF5L	27097	broad.mit.edu	37	1	229730363	229730363	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229730363G>A	uc001htq.2	-	5	1617	c.1451C>T	c.(1450-1452)GCG>GTG	p.A484V		NM_014409	NP_055224	O75529	TAF5L_HUMAN	PCAF associated factor 65 beta isoform a	484	WD 5.				histone H3 acetylation|transcription from RNA polymerase II promoter	STAGA complex|transcription factor TFTC complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	Breast(184;0.193)|Ovarian(103;0.249)	Prostate(94;0.167)																---	---	---	---
URB2	9816	broad.mit.edu	37	1	229771702	229771702	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229771702G>A	uc001hts.1	+	4	1478	c.1342G>A	c.(1342-1344)GCC>ACC	p.A448T	URB2_uc009xfd.1_Missense_Mutation_p.A448T	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	448						nucleolus				central_nervous_system(2)|ovary(1)	3																		---	---	---	---
URB2	9816	broad.mit.edu	37	1	229783427	229783427	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229783427G>T	uc001hts.1	+	7	4213	c.4077G>T	c.(4075-4077)AAG>AAT	p.K1359N	URB2_uc009xfd.1_Missense_Mutation_p.K1359N	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	1359						nucleolus				central_nervous_system(2)|ovary(1)	3																		---	---	---	---
PGBD5	79605	broad.mit.edu	37	1	230459161	230459161	+	3'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:230459161G>A	uc010pwb.1	-	7					PGBD5_uc001htv.2_3'UTR	NM_024554	NP_078830			piggyBac transposable element derived 5							integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(184;0.0397)	Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;0.201)														---	---	---	---
PGBD5	79605	broad.mit.edu	37	1	230492910	230492910	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:230492910C>T	uc010pwb.1	-	2	282	c.282G>A	c.(280-282)ACG>ACA	p.T94T	PGBD5_uc001htv.2_Silent_p.T193T	NM_024554	NP_078830	Q8N414	PGBD5_HUMAN	piggyBac transposable element derived 5	94						integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(184;0.0397)	Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;0.201)														---	---	---	---
CAPN9	10753	broad.mit.edu	37	1	230910313	230910313	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:230910313C>T	uc001htz.1	+	8	1002	c.889C>T	c.(889-891)CGT>TGT	p.R297C	CAPN9_uc009xfg.1_Missense_Mutation_p.R234C|CAPN9_uc001hua.1_Intron	NM_006615	NP_006606	O14815	CAN9_HUMAN	calpain 9 isoform 1	297	Calpain catalytic.				digestion|proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)																---	---	---	---
TTC13	79573	broad.mit.edu	37	1	231090101	231090101	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:231090101C>T	uc001huf.3	-	4	522	c.491G>A	c.(490-492)CGG>CAG	p.R164Q	TTC13_uc009xfi.2_Missense_Mutation_p.R164Q|TTC13_uc009xfj.2_RNA|TTC13_uc001hug.3_Missense_Mutation_p.R164Q|TTC13_uc009xfk.1_Missense_Mutation_p.R107Q	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a	164	TPR 1.						binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)														---	---	---	---
EXOC8	149371	broad.mit.edu	37	1	231471819	231471819	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:231471819T>C	uc001huq.2	-	1	1760	c.1673A>G	c.(1672-1674)TAC>TGC	p.Y558C		NM_175876	NP_787072	Q8IYI6	EXOC8_HUMAN	exocyst complex 84-kDa subunit	558					exocytosis|protein transport	growth cone|nucleus	protein binding			skin(1)	1	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)																---	---	---	---
TSNAX-DISC1	100303453	broad.mit.edu	37	1	231673082	231673082	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:231673082G>A	uc010pwg.1	+						TSNAX-DISC1_uc010pwe.1_Intron|TSNAX-DISC1_uc010pwf.1_Intron|TSNAX-DISC1_uc010pwh.1_Intron|TSNAX-DISC1_uc010pwi.1_Intron|TSNAX-DISC1_uc010pwj.1_Intron|TSNAX-DISC1_uc010pwk.1_Intron|TSNAX-DISC1_uc010pwl.1_Intron|TSNAX_uc001huw.2_Intron	NM_001012959	NP_001012977			disrupted in schizophrenia 1 isoform S												0																		---	---	---	---
TARBP1	6894	broad.mit.edu	37	1	234541641	234541641	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:234541641C>T	uc001hwd.2	-							NM_005646	NP_005637			TAR RNA binding protein 1						regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)															---	---	---	---
NID1	4811	broad.mit.edu	37	1	236228195	236228195	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236228195G>A	uc001hxo.2	-	1	287	c.185C>T	c.(184-186)GCG>GTG	p.A62V	NID1_uc009xgd.2_Missense_Mutation_p.A62V|uc001hxp.1_Silent_p.A112A	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	62					cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)													---	---	---	---
HEATR1	55127	broad.mit.edu	37	1	236721600	236721600	+	Missense_Mutation	SNP	G	A	A	rs143495736	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236721600G>A	uc001hyd.1	-	36	5266	c.5141C>T	c.(5140-5142)GCG>GTG	p.A1714V	HEATR1_uc009xgh.1_Missense_Mutation_p.A876V	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1714					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)															---	---	---	---
ACTN2	88	broad.mit.edu	37	1	236889326	236889326	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236889326C>T	uc001hyf.2	+						ACTN2_uc001hyg.2_Intron|ACTN2_uc009xgi.1_Intron	NM_001103	NP_001094			actinin, alpha 2						focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)															---	---	---	---
MTR	4548	broad.mit.edu	37	1	237054573	237054573	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237054573G>A	uc001hyi.3	+	29	3571	c.3148G>A	c.(3148-3150)GCT>ACT	p.A1050T	MTR_uc010pxw.1_Missense_Mutation_p.A643T|MTR_uc010pxx.1_Missense_Mutation_p.A999T|MTR_uc010pxy.1_Missense_Mutation_p.A904T	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	1050	AdoMet activation.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)													---	---	---	---
RYR2	6262	broad.mit.edu	37	1	237664107	237664107	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237664107C>T	uc001hyl.1	+	21	2420	c.2300C>T	c.(2299-2301)TCG>TTG	p.S767L		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	767	Cytoplasmic (By similarity).|B30.2/SPRY 1.				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)															---	---	---	---
RYR2	6262	broad.mit.edu	37	1	237753955	237753955	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237753955G>A	uc001hyl.1	+	31	3943	c.3823G>A	c.(3823-3825)GGC>AGC	p.G1275S		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1275	Cytoplasmic (By similarity).|4 X approximate repeats.				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)															---	---	---	---
RYR2	6262	broad.mit.edu	37	1	237774245	237774245	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237774245G>A	uc001hyl.1	+	36	4987	c.4867G>A	c.(4867-4869)GAT>AAT	p.D1623N		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1623	Cytoplasmic (By similarity).|4 X approximate repeats.				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)															---	---	---	---
RYR2	6262	broad.mit.edu	37	1	237780631	237780631	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237780631C>G	uc001hyl.1	+	38	5881	c.5761C>G	c.(5761-5763)CGG>GGG	p.R1921G		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1921	Cytoplasmic (By similarity).|4 X approximate repeats.				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)															---	---	---	---
FMN2	56776	broad.mit.edu	37	1	240255063	240255063	+	5'Flank	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:240255063G>A	uc010pyd.1	+						FMN2_uc010pye.1_5'Flank	NM_020066	NP_064450			formin 2						actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)															---	---	---	---
KMO	8564	broad.mit.edu	37	1	241695795	241695795	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241695795C>A	uc009xgp.2	+	1	116	c.51C>A	c.(49-51)GGC>GGA	p.G17G	KMO_uc001hyy.2_Silent_p.G17G|KMO_uc009xgo.1_Silent_p.G17G	NM_003679	NP_003670	O15229	KMO_HUMAN	kynurenine 3-monooxygenase	17					pyridine nucleotide biosynthetic process|response to salt stress	cytosol|integral to membrane|mitochondrial outer membrane	electron carrier activity|flavin adenine dinucleotide binding|kynurenine 3-monooxygenase activity|NAD(P)H oxidase activity			ovary(2)	2	Ovarian(103;0.103)|all_lung(81;0.23)		OV - Ovarian serous cystadenocarcinoma(106;0.0176)															---	---	---	---
ZNF238	10472	broad.mit.edu	37	1	244217659	244217659	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:244217659C>T	uc001iae.2	+	1	1078	c.556C>T	c.(556-558)CGA>TGA	p.R186*	ZNF238_uc001iad.3_Nonsense_Mutation_p.R195*|ZNF238_uc001iaf.1_Nonsense_Mutation_p.R186*	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	186				KLNILPSKRDLAAEPGNMWMRLPSDSAGIPQAGGEAEPHAT AAGKTVASPCSSTESLSQRSVTSVRDSADVDCVLDLSVKSS LSGVENLNSSYFSSQ -> IEHPAQQKGLGGRAWEHVDAIA LRLSRHPPGWRRGRATRHSSWKNSSQPLQLNRVFVPE (in Ref. 1; AAA81368).	negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)															---	---	---	---
PPPDE1	51029	broad.mit.edu	37	1	244869074	244869074	+	Missense_Mutation	SNP	C	T	T	rs141603902		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:244869074C>T	uc001iao.2	+	5	832	c.568C>T	c.(568-570)CGC>TGC	p.R190C	PPPDE1_uc001iap.2_Missense_Mutation_p.R157C|PPPDE1_uc001iaq.1_RNA	NM_016076	NP_057160	Q9BSY9	PPDE1_HUMAN	PPPDE peptidase domain containing 1	190										breast(3)	3																		---	---	---	---
ZNF124	7678	broad.mit.edu	37	1	247320104	247320104	+	Missense_Mutation	SNP	C	T	T	rs139164874	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247320104C>T	uc001ick.2	-	4	959	c.820G>A	c.(820-822)GCC>ACC	p.A274T	ZNF124_uc001ici.2_Intron|ZNF124_uc001icj.1_Missense_Mutation_p.A212T	NM_003431	NP_003422	Q15973	ZN124_HUMAN	zinc finger protein 124	274	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	all_cancers(71;5.07e-05)|all_epithelial(71;8.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00739)															---	---	---	---
ZNF496	84838	broad.mit.edu	37	1	247492570	247492570	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247492570G>A	uc001ico.2	-	3	776	c.311C>T	c.(310-312)GCG>GTG	p.A104V	ZNF496_uc009xgv.2_Missense_Mutation_p.A104V|ZNF496_uc001icp.2_Missense_Mutation_p.A104V|ZNF496_uc010pyv.1_Missense_Mutation_p.A104V	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	104	SCAN box.				positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)															---	---	---	---
ZNF496	84838	broad.mit.edu	37	1	247492680	247492680	+	Silent	SNP	G	A	A	rs140768491		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247492680G>A	uc001ico.2	-	3	666	c.201C>T	c.(199-201)TGC>TGT	p.C67C	ZNF496_uc009xgv.2_Silent_p.C67C|ZNF496_uc001icp.2_Silent_p.C67C|ZNF496_uc010pyv.1_Silent_p.C67C	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	67	SCAN box.				positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)															---	---	---	---
OR2W5	441932	broad.mit.edu	37	1	247654661	247654661	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247654661G>A	uc001icz.1	+	1	232	c.232G>A	c.(232-234)GCC>ACC	p.A78T		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	78	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-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)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)															---	---	---	---
OR2G2	81470	broad.mit.edu	37	1	247752569	247752569	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247752569C>T	uc010pyy.1	+	1	908	c.908C>T	c.(907-909)GCA>GTA	p.A303V		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	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)															---	---	---	---
OR2M3	127062	broad.mit.edu	37	1	248366705	248366705	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248366705C>T	uc010pzg.1	+	1	336	c.336C>T	c.(334-336)TGC>TGT	p.C112C		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)															---	---	---	---
OR2T4	127074	broad.mit.edu	37	1	248525590	248525590	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248525590C>T	uc001ieh.1	+	1	708	c.708C>T	c.(706-708)GTC>GTT	p.V236V		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	236	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	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)															---	---	---	---
SH3BP5L	80851	broad.mit.edu	37	1	249108714	249108714	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:249108714G>A	uc001iew.1	-	5	1023	c.471C>T	c.(469-471)GGC>GGT	p.G157G	SH3BP5L_uc010pzp.1_Silent_p.G50G|SH3BP5L_uc010pzq.1_Silent_p.G125G|SH3BP5L_uc001iev.1_Silent_p.G38G	NM_030645	NP_085148	Q7L8J4	3BP5L_HUMAN	SH3-binding domain protein 5-like	157											0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)															---	---	---	---
ACP1	52	broad.mit.edu	37	2	272055	272055	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:272055G>A	uc002qwg.2	+						ACP1_uc002qwd.2_Missense_Mutation_p.A46T|ACP1_uc002qwe.3_RNA|ACP1_uc002qwh.2_RNA|ACP1_uc002qwf.2_Missense_Mutation_p.A46T	NM_007099	NP_009030			acid phosphatase 1, soluble isoform b							cytoplasm|internal side of plasma membrane|nucleus|soluble fraction	acid phosphatase activity|identical protein binding|non-membrane spanning protein tyrosine phosphatase activity			skin(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.00175)|Lung NSC(108;0.216)|all_epithelial(98;0.236)		all cancers(51;0.000391)|Epithelial(75;0.00281)|OV - Ovarian serous cystadenocarcinoma(76;0.00542)|GBM - Glioblastoma multiforme(21;0.127)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	905427	905427	+	RNA	SNP	C	T	T	rs113411033	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:905427C>T	uc010ewg.2	-	1		c.156G>A			uc010ewh.1_Silent_p.T173T					Homo sapiens cDNA FLJ46162 fis, clone TESTI4002520.																														---	---	---	---
TPO	7173	broad.mit.edu	37	2	1497645	1497645	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1497645G>A	uc002qww.2	+	11	1931	c.1840G>A	c.(1840-1842)GCC>ACC	p.A614T	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.A557T|TPO_uc002qwr.2_Missense_Mutation_p.A614T|TPO_uc002qwx.2_Missense_Mutation_p.A557T|TPO_uc010yio.1_Missense_Mutation_p.A441T|TPO_uc010yip.1_Missense_Mutation_p.A614T|TPO_uc002qwy.1_5'UTR|TPO_uc002qwz.2_RNA	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	614	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)													---	---	---	---
TPO	7173	broad.mit.edu	37	2	1507808	1507808	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1507808C>T	uc002qww.2	+	14	2566	c.2475C>T	c.(2473-2475)TGC>TGT	p.C825C	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Silent_p.C768C|TPO_uc002qwr.2_Silent_p.C825C|TPO_uc002qwx.2_Silent_p.C768C|TPO_uc010yio.1_Silent_p.C652C|TPO_uc010yip.1_Intron|TPO_uc002qwy.1_Intron|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	825	Extracellular (Potential).|EGF-like; calcium-binding (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)													---	---	---	---
PXDN	7837	broad.mit.edu	37	2	1652167	1652167	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1652167G>A	uc002qxa.2	-	17	3449	c.3385C>T	c.(3385-3387)CGT>TGT	p.R1129C		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1129					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)														---	---	---	---
MYT1L	23040	broad.mit.edu	37	2	1855433	1855433	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1855433G>A	uc002qxe.2	-	19	3581	c.2754C>T	c.(2752-2754)GGC>GGT	p.G918G	MYT1L_uc002qxd.2_Silent_p.G916G	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	918	C2HC-type 4.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)														---	---	---	---
TSSC1	7260	broad.mit.edu	37	2	3197897	3197897	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:3197897G>A	uc002qxj.2	-	7	887	c.694C>T	c.(694-696)CGG>TGG	p.R232W	TSSC1_uc002qxi.2_RNA	NM_003310	NP_003301	Q53HC9	TSSC1_HUMAN	tumor suppressing subtransferable candidate 1	232	WD 3.						protein binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.212)		OV - Ovarian serous cystadenocarcinoma(76;0.00877)|Epithelial(75;0.0283)|all cancers(51;0.0464)														---	---	---	---
TTC15	51112	broad.mit.edu	37	2	3469366	3469366	+	Splice_Site	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:3469366A>C	uc002qxm.1	+	9	1884	c.1678_splice	c.e9-2	p.D560_splice	TTC15_uc002qxn.1_Splice_Site_p.D560_splice|TTC15_uc010ewm.1_Splice_Site_p.D566_splice	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)														---	---	---	---
TTC15	51112	broad.mit.edu	37	2	3482617	3482617	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:3482617C>T	uc002qxm.1	+	11	2084	c.1878C>T	c.(1876-1878)AGC>AGT	p.S626S	TTC15_uc002qxn.1_Silent_p.S626S|TTC15_uc010ewm.1_Silent_p.S632S	NM_016030	NP_057114	Q8WVT3	TTC15_HUMAN	tetratricopeptide repeat domain 15	626	TPR 3.						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)														---	---	---	---
RNF144A	9781	broad.mit.edu	37	2	7179899	7179899	+	3'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:7179899G>A	uc002qys.2	+	9					RNF144A_uc002qyt.2_3'UTR	NM_014746	NP_055561			ring finger protein 144							Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)														---	---	---	---
KIDINS220	57498	broad.mit.edu	37	2	8871355	8871355	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:8871355G>A	uc002qzc.2	-	30	4993	c.4811C>T	c.(4810-4812)GCG>GTG	p.A1604V	KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_Missense_Mutation_p.A1505V|KIDINS220_uc002qzb.2_Missense_Mutation_p.A458V	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1604	Cytoplasmic (Potential).				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)																	---	---	---	---
KIDINS220	57498	broad.mit.edu	37	2	8890383	8890383	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:8890383C>T	uc002qzc.2	-	24	3455	c.3273G>A	c.(3271-3273)GCG>GCA	p.A1091A	KIDINS220_uc010yiv.1_Silent_p.A857A|KIDINS220_uc002qzd.2_Silent_p.A1049A|KIDINS220_uc010yiw.1_Silent_p.A1092A|KIDINS220_uc002qzb.2_5'UTR|KIDINS220_uc002qze.2_Silent_p.A96A	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1091	Mediates interaction with CRKL (By similarity).|Cytoplasmic (Potential).				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)																	---	---	---	---
ASAP2	8853	broad.mit.edu	37	2	9437489	9437489	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9437489T>C	uc002qzh.2	+	3	600	c.260T>C	c.(259-261)GTA>GCA	p.V87A	ASAP2_uc002qzi.2_Missense_Mutation_p.V87A	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	87					regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0																		---	---	---	---
ITGB1BP1	9270	broad.mit.edu	37	2	9548269	9548269	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9548269G>A	uc002qzj.2	-	5	531	c.354C>T	c.(352-354)GGC>GGT	p.G118G	ITGB1BP1_uc002qzk.2_Silent_p.G118G|ITGB1BP1_uc002qzl.2_RNA|ITGB1BP1_uc002qzm.2_RNA|ITGB1BP1_uc010yiy.1_Silent_p.G74G|ITGB1BP1_uc002qzn.1_Silent_p.G118G	NM_004763	NP_004754	O14713	ITBP1_HUMAN	integrin cytoplasmic domain-associated protein 1	118	PID.				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)														---	---	---	---
CPSF3	51692	broad.mit.edu	37	2	9572738	9572738	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9572738C>T	uc002qzo.1	+	5	475	c.440C>T	c.(439-441)GCG>GTG	p.A147V	CPSF3_uc010ewx.1_Missense_Mutation_p.A147V|CPSF3_uc002qzp.1_Missense_Mutation_p.A110V	NM_016207	NP_057291	Q9UKF6	CPSF3_HUMAN	cleavage and polyadenylation specific factor 3,	147					histone mRNA 3'-end processing|mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex|ribonucleoprotein complex	5'-3' exonuclease activity|endoribonuclease activity|metal ion binding|protein binding|RNA binding			breast(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;2.39e-25)|all_epithelial(98;8.75e-19)|Lung NSC(108;2.38e-06)|Ovarian(717;0.0308)		all cancers(51;2.2e-40)|Epithelial(75;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(76;4.35e-21)|STAD - Stomach adenocarcinoma(1183;0.00644)														---	---	---	---
IAH1	285148	broad.mit.edu	37	2	9624576	9624576	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9624576G>A	uc002qzr.2	+	5	487	c.461G>A	c.(460-462)CGC>CAC	p.R154H	IAH1_uc002qzs.2_Missense_Mutation_p.R41H|IAH1_uc002qzt.2_Missense_Mutation_p.R41H|IAH1_uc010yiz.1_RNA	NM_001039613	NP_001034702	Q2TAA2	IAH1_HUMAN	isoamyl acetate-hydrolyzing esterase 1 homolog	154					lipid catabolic process		hydrolase activity, acting on ester bonds				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
ADAM17	6868	broad.mit.edu	37	2	9634763	9634763	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9634763C>T	uc002qzu.2	-						IAH1_uc010yiz.1_Intron|ADAM17_uc010ewy.2_Intron|ADAM17_uc010ewz.2_Intron	NM_003183	NP_003174			a disintegrin and metalloprotease domain 17						B cell differentiation|cell adhesion mediated by integrin|epidermal growth factor receptor signaling pathway|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|germinal center formation|membrane protein intracellular domain proteolysis|negative regulation of interleukin-8 production|nerve growth factor receptor signaling pathway|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of chemokine production|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of protein phosphorylation|positive regulation of T cell chemotaxis|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of mast cell apoptosis|response to drug|response to high density lipoprotein particle stimulus|response to hypoxia|response to lipopolysaccharide|spleen development|T cell differentiation in thymus|wound healing, spreading of epidermal cells	actin cytoskeleton|apical plasma membrane|cell surface|cytoplasm|integral to plasma membrane|membrane raft	integrin binding|interleukin-6 receptor binding|metalloendopeptidase activity|PDZ domain binding|SH3 domain binding|zinc ion binding			lung(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.225)														---	---	---	---
ADAM17	6868	broad.mit.edu	37	2	9634874	9634874	+	Silent	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9634874C>G	uc002qzu.2	-	15	1989	c.1806G>C	c.(1804-1806)GTG>GTC	p.V602V	IAH1_uc010yiz.1_RNA|ADAM17_uc010ewy.2_Silent_p.V602V|ADAM17_uc010ewz.2_Intron	NM_003183	NP_003174	P78536	ADA17_HUMAN	a disintegrin and metalloprotease domain 17	602	Extracellular (Potential).|Cys-rich.				B cell differentiation|cell adhesion mediated by integrin|epidermal growth factor receptor signaling pathway|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|germinal center formation|membrane protein intracellular domain proteolysis|negative regulation of interleukin-8 production|nerve growth factor receptor signaling pathway|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of chemokine production|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of protein phosphorylation|positive regulation of T cell chemotaxis|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of mast cell apoptosis|response to drug|response to high density lipoprotein particle stimulus|response to hypoxia|response to lipopolysaccharide|spleen development|T cell differentiation in thymus|wound healing, spreading of epidermal cells	actin cytoskeleton|apical plasma membrane|cell surface|cytoplasm|integral to plasma membrane|membrane raft	integrin binding|interleukin-6 receptor binding|metalloendopeptidase activity|PDZ domain binding|SH3 domain binding|zinc ion binding			lung(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.225)														---	---	---	---
YWHAQ	10971	broad.mit.edu	37	2	9728312	9728312	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9728312G>A	uc002qzw.2	-	3	728	c.564C>T	c.(562-564)GCC>GCT	p.A188A	YWHAQ_uc002qzx.2_Silent_p.A188A	NM_006826	NP_006817	P27348	1433T_HUMAN	tyrosine 3/tryptophan 5 -monooxygenase	188					negative regulation of transcription, DNA-dependent	centrosome|nucleus	protein N-terminus binding			breast(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.241)														---	---	---	---
TAF1B	9014	broad.mit.edu	37	2	10050891	10050891	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:10050891G>A	uc002qzz.2	+	10	1082	c.982G>A	c.(982-984)GTG>ATG	p.V328M	TAF1B_uc010exc.2_Missense_Mutation_p.V328M|TAF1B_uc002qzy.3_Missense_Mutation_p.V328M|TAF1B_uc010yja.1_Missense_Mutation_p.V73M|TAF1B_uc010exd.2_Missense_Mutation_p.V73M	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	328					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)																	---	---	---	---
ODC1	4953	broad.mit.edu	37	2	10581770	10581770	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:10581770C>T	uc010exg.1	-	11	1540	c.1106G>A	c.(1105-1107)CGC>CAC	p.R369H	ODC1_uc002ran.1_Missense_Mutation_p.R55H|ODC1_uc002rao.1_Missense_Mutation_p.R369H|ODC1_uc010yjd.1_Missense_Mutation_p.R239H	NM_002539	NP_002530	P11926	DCOR_HUMAN	ornithine decarboxylase 1	369					polyamine biosynthetic process|regulation of cellular amino acid metabolic process|response to virus	cytosol	ornithine decarboxylase activity|protein binding			ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.161)	Pyridoxal Phosphate(DB00114)|Spermine(DB00127)													---	---	---	---
KCNF1	3754	broad.mit.edu	37	2	11053250	11053250	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:11053250T>C	uc002rax.2	+	1	1188	c.698T>C	c.(697-699)TTC>TCC	p.F233S		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	233	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)														---	---	---	---
KCNF1	3754	broad.mit.edu	37	2	11053818	11053818	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:11053818G>A	uc002rax.2	+	1	1756	c.1266G>A	c.(1264-1266)GCG>GCA	p.A422A		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	422	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)														---	---	---	---
LPIN1	23175	broad.mit.edu	37	2	11924028	11924028	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:11924028G>A	uc010yjn.1	+	9	1504	c.1230G>A	c.(1228-1230)GCG>GCA	p.A410A	LPIN1_uc010yjm.1_Silent_p.A495A|LPIN1_uc002rbt.2_Silent_p.A410A|LPIN1_uc002rbs.2_Silent_p.A446A	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	410					fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)														---	---	---	---
NBAS	51594	broad.mit.edu	37	2	15696925	15696925	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:15696925C>T	uc002rcc.1	-	3	217	c.191G>A	c.(190-192)CGC>CAC	p.R64H	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	64										ovary(2)|liver(1)|skin(1)	4																		---	---	---	---
NT5C1B	93034	broad.mit.edu	37	2	18764161	18764161	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:18764161G>A	uc002rcz.2	-	7	1278	c.1174C>T	c.(1174-1176)CGG>TGG	p.R392W	NT5C1B_uc002rcy.2_Missense_Mutation_p.R392W|NT5C1B_uc010exr.2_Missense_Mutation_p.R334W|NT5C1B_uc010yju.1_Missense_Mutation_p.R332W|NT5C1B_uc002rda.2_Missense_Mutation_p.R332W|NT5C1B_uc010yjv.1_Missense_Mutation_p.R409W|NT5C1B_uc010yjw.1_Missense_Mutation_p.R375W|NT5C1B_uc010exs.2_Missense_Mutation_p.R394W	NM_001002006	NP_001002006	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 1	392					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)																---	---	---	---
OSR1	130497	broad.mit.edu	37	2	19552979	19552979	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:19552979C>T	uc002rdc.2	-	2	891	c.588G>A	c.(586-588)ACG>ACA	p.T196T		NM_145260	NP_660303	Q8TAX0	OSR1_HUMAN	odd-skipped related 1	196	C2H2-type 1.				chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|heart development|mesangial cell development|mesonephric duct morphogenesis|metanephric cap mesenchymal cell proliferation involved in metanephros development|metanephric glomerulus vasculature development|metanephric interstitial cell development|metanephric mesenchymal cell differentiation|metanephric nephron tubule development|metanephric smooth muscle tissue development|middle ear morphogenesis|negative regulation of apoptosis|negative regulation of nephron tubule epithelial cell differentiation|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|pattern specification involved in metanephros development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of gastrulation|positive regulation of transcription from RNA polymerase II promoter|pronephros development|renal vesicle progenitor cell differentiation|specification of anterior mesonephric tubule identity|specification of posterior mesonephric tubule identity|stem cell differentiation|transcription, DNA-dependent|ureter urothelium development|ureteric bud development	nucleolus	nucleic acid binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	Acute lymphoblastic leukemia(84;0.221)																---	---	---	---
WDR35	57539	broad.mit.edu	37	2	20113444	20113444	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20113444C>T	uc002rdi.2	-	28	3529	c.3421G>A	c.(3421-3423)GTT>ATT	p.V1141I	WDR35_uc002rdj.2_Missense_Mutation_p.V1130I|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_Silent_p.A533A	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	1141										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
WDR35	57539	broad.mit.edu	37	2	20136078	20136078	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20136078T>C	uc002rdi.2	-	21	2457	c.2349A>G	c.(2347-2349)GTA>GTG	p.V783V	WDR35_uc002rdj.2_Silent_p.V772V|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_Silent_p.V348V|WDR35_uc002rdk.3_Silent_p.V348V	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	783										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
ATAD2B	54454	broad.mit.edu	37	2	24033274	24033274	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:24033274T>C	uc002rek.3	-	18	2660	c.2366A>G	c.(2365-2367)CAC>CGC	p.H789R	ATAD2B_uc010yki.1_RNA|ATAD2B_uc002rei.3_Missense_Mutation_p.H34R|ATAD2B_uc002rej.3_5'UTR	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	789							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
ATAD2B	54454	broad.mit.edu	37	2	24033337	24033337	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:24033337C>T	uc002rek.3	-	18	2597	c.2303G>A	c.(2302-2304)CGC>CAC	p.R768H	ATAD2B_uc010yki.1_RNA|ATAD2B_uc002rei.3_Missense_Mutation_p.R13H|ATAD2B_uc002rej.3_5'UTR	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	768							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
ITSN2	50618	broad.mit.edu	37	2	24484596	24484596	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:24484596C>T	uc002rfe.2	-	21	2629	c.2371G>A	c.(2371-2373)GTA>ATA	p.V791I	ITSN2_uc002rff.2_Missense_Mutation_p.V764I|ITSN2_uc002rfg.2_Missense_Mutation_p.V791I	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	791	SH3 1.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
POMC	5443	broad.mit.edu	37	2	25383970	25383970	+	Missense_Mutation	SNP	C	T	T	rs145696771		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:25383970C>T	uc002rfy.1	-	4	1047	c.784G>A	c.(784-786)GCC>ACC	p.A262T	POMC_uc002rfz.1_Missense_Mutation_p.A262T|POMC_uc002rga.1_Missense_Mutation_p.A262T	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	262					cell-cell signaling|cellular nitrogen compound metabolic process|cellular pigmentation|generation of precursor metabolites and energy|hormone biosynthetic process|negative regulation of tumor necrosis factor production|neuropeptide signaling pathway|peptide hormone processing|positive regulation of transcription from RNA polymerase II promoter|regulation of appetite|regulation of blood pressure	extracellular space|stored secretory granule	hormone activity|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Hydrocortisone(DB00741)|Loperamide(DB00836)|Trilostane(DB01108)													---	---	---	---
POMC	5443	broad.mit.edu	37	2	25384011	25384011	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:25384011G>A	uc002rfy.1	-	4	1006	c.743C>T	c.(742-744)ACG>ATG	p.T248M	POMC_uc002rfz.1_Missense_Mutation_p.T248M|POMC_uc002rga.1_Missense_Mutation_p.T248M	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	248					cell-cell signaling|cellular nitrogen compound metabolic process|cellular pigmentation|generation of precursor metabolites and energy|hormone biosynthetic process|negative regulation of tumor necrosis factor production|neuropeptide signaling pathway|peptide hormone processing|positive regulation of transcription from RNA polymerase II promoter|regulation of appetite|regulation of blood pressure	extracellular space|stored secretory granule	hormone activity|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Hydrocortisone(DB00741)|Loperamide(DB00836)|Trilostane(DB01108)													---	---	---	---
HADHA	3030	broad.mit.edu	37	2	26414236	26414236	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26414236G>A	uc002rgy.2	-	20	2305	c.2175C>T	c.(2173-2175)GGC>GGT	p.G725G	HADHA_uc010yks.1_Silent_p.G638G	NM_000182	NP_000173	P40939	ECHA_HUMAN	mitochondrial trifunctional protein, alpha	725					fatty acid beta-oxidation	fatty acid beta-oxidation multienzyme complex|mitochondrial nucleoid|nucleolus	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acetyltransferase activity|coenzyme binding|enoyl-CoA hydratase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				NADH(DB00157)													---	---	---	---
HADHA	3030	broad.mit.edu	37	2	26437359	26437359	+	Nonsense_Mutation	SNP	G	A	A	rs137852775		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26437359G>A	uc002rgy.2	-	9	1001	c.871C>T	c.(871-873)CGA>TGA	p.R291*	HADHA_uc010yks.1_Nonsense_Mutation_p.R204*|HADHA_uc010ykt.1_Nonsense_Mutation_p.R204*	NM_000182	NP_000173	P40939	ECHA_HUMAN	mitochondrial trifunctional protein, alpha	291					fatty acid beta-oxidation	fatty acid beta-oxidation multienzyme complex|mitochondrial nucleoid|nucleolus	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acetyltransferase activity|coenzyme binding|enoyl-CoA hydratase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				NADH(DB00157)													---	---	---	---
OTOF	9381	broad.mit.edu	37	2	26781400	26781400	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26781400G>A	uc002rhk.2	-	1	167	c.40C>T	c.(40-42)CGG>TGG	p.R14W		NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	14	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
DPYSL5	56896	broad.mit.edu	37	2	27121505	27121505	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27121505C>T	uc002rhu.3	+	2	296	c.138C>T	c.(136-138)GGC>GGT	p.G46G	DPYSL5_uc002rhv.3_Silent_p.G46G	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	46					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
PREB	10113	broad.mit.edu	37	2	27354540	27354540	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27354540G>A	uc002rix.1	-	8	1412	c.1159C>T	c.(1159-1161)CGG>TGG	p.R387W	PREB_uc002riy.1_Missense_Mutation_p.R315W|PREB_uc002riz.1_RNA|PREB_uc002rja.1_Missense_Mutation_p.R329W	NM_013388	NP_037520	Q9HCU5	PREB_HUMAN	prolactin regulatory element binding protein	387	Cytoplasmic (Potential).				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|nucleus	DNA binding|guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
SLC5A6	8884	broad.mit.edu	37	2	27428236	27428236	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27428236C>T	uc002rjd.2	-	7	1107	c.716G>A	c.(715-717)GGC>GAC	p.G239D	SLC5A6_uc010eyv.1_Missense_Mutation_p.G239D	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	239					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)													---	---	---	---
EIF2B4	8890	broad.mit.edu	37	2	27590383	27590383	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27590383C>T	uc002rkb.2	-	9	969	c.826G>A	c.(826-828)GCC>ACC	p.A276T	EIF2B4_uc002rjz.2_Missense_Mutation_p.A296T|EIF2B4_uc002rka.2_Missense_Mutation_p.A261T|EIF2B4_uc002rkc.2_Missense_Mutation_p.A275T|EIF2B4_uc002rkd.2_Missense_Mutation_p.A70T|EIF2B4_uc002rke.2_Missense_Mutation_p.A245T|EIF2B4_uc002rkf.1_3'UTR|SNX17_uc010ylj.1_5'Flank	NM_001034116	NP_001029288	Q9UI10	EI2BD_HUMAN	eukaryotic translation initiation factor 2B,	276					myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	translation initiation factor activity|translation initiation factor binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
IFT172	26160	broad.mit.edu	37	2	27684350	27684350	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27684350T>C	uc002rku.2	-	22	2279	c.2228A>G	c.(2227-2229)TAC>TGC	p.Y743C		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	743					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
PLB1	151056	broad.mit.edu	37	2	28865720	28865720	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:28865720A>G	uc002rmb.1	+						PLB1_uc010ezj.1_Intron|PLB1_uc002rme.1_Intron|PLB1_uc002rmf.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)																	---	---	---	---
PPP1CB	5500	broad.mit.edu	37	2	29016803	29016803	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:29016803C>T	uc002rmg.2	+	8	979	c.819C>T	c.(817-819)GGC>GGT	p.G273G	PPP1CB_uc010ymj.1_Silent_p.G245G|PPP1CB_uc010yml.1_Silent_p.G245G|PPP1CB_uc002rmh.2_Silent_p.G273G|SPDYA_uc002rmi.2_5'UTR	NM_206876	NP_996759	P62140	PP1B_HUMAN	protein phosphatase 1, catalytic subunit, beta	273					cell cycle|cell division|glycogen metabolic process|triglyceride catabolic process	MLL5-L complex|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|myosin phosphatase activity|myosin-light-chain-phosphatase activity|protein binding			skin(1)	1	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
FAM179A	165186	broad.mit.edu	37	2	29222106	29222106	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:29222106C>T	uc010ezl.2	+	4	550	c.199C>T	c.(199-201)CGT>TGT	p.R67C	FAM179A_uc010ymm.1_Missense_Mutation_p.R67C	NM_199280	NP_954974	Q6ZUX3	F179A_HUMAN	hypothetical protein LOC165186	67							binding			ovary(3)|skin(1)	4																		---	---	---	---
CLIP4	79745	broad.mit.edu	37	2	29404573	29404573	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:29404573C>T	uc002rmv.2	+	16	2171	c.1932C>T	c.(1930-1932)GGC>GGT	p.G644G	CLIP4_uc002rmw.2_RNA	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	644	CAP-Gly 3.									ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
XDH	7498	broad.mit.edu	37	2	31567583	31567583	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:31567583T>C	uc002rnv.1	-	31	3450	c.3371A>G	c.(3370-3372)GAC>GGC	p.D1124G		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	1124					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)													---	---	---	---
XDH	7498	broad.mit.edu	37	2	31610722	31610722	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:31610722C>T	uc002rnv.1	-	8	685	c.606G>A	c.(604-606)ACG>ACA	p.T202T		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	202					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)													---	---	---	---
BIRC6	57448	broad.mit.edu	37	2	32678971	32678971	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:32678971T>C	uc010ezu.2	+	23	4848	c.4714T>C	c.(4714-4716)TCA>CCA	p.S1572P		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	1572					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)																	---	---	---	---
BIRC6	57448	broad.mit.edu	37	2	32750576	32750576	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:32750576G>A	uc010ezu.2	+	59	11935	c.11801G>A	c.(11800-11802)CGC>CAC	p.R3934H		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3934					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)																	---	---	---	---
BIRC6	57448	broad.mit.edu	37	2	32756560	32756560	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:32756560G>A	uc010ezu.2	+	61	12367	c.12233G>A	c.(12232-12234)GGT>GAT	p.G4078D	MIR558_hsa-mir-558|MI0003564_5'Flank	NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4078					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)																	---	---	---	---
TTC27	55622	broad.mit.edu	37	2	32958941	32958941	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:32958941G>A	uc002rom.2	+	11	1511	c.1280G>A	c.(1279-1281)CGC>CAC	p.R427H	TTC27_uc010ymx.1_Missense_Mutation_p.R377H|TTC27_uc002ron.2_RNA	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	427							protein binding			central_nervous_system(1)	1																		---	---	---	---
LTBP1	4052	broad.mit.edu	37	2	33540323	33540323	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:33540323C>T	uc002ros.2	+	24	3720	c.3720C>T	c.(3718-3720)GGC>GGT	p.G1240G	LTBP1_uc002rot.2_Silent_p.G914G|LTBP1_uc002rou.2_Silent_p.G913G|LTBP1_uc002rov.2_Silent_p.G860G|LTBP1_uc010ymz.1_Silent_p.G913G|LTBP1_uc010yna.1_Silent_p.G860G|LTBP1_uc010ynb.1_Silent_p.G179G	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1239	EGF-like 12; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)																---	---	---	---
CRIM1	51232	broad.mit.edu	37	2	36704131	36704131	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:36704131C>T	uc002rpd.2	+	6	1130	c.1091C>T	c.(1090-1092)GCC>GTC	p.A364V		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	364	VWFC 1.|Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)																---	---	---	---
CRIM1	51232	broad.mit.edu	37	2	36739513	36739513	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:36739513G>A	uc002rpd.2	+	10	1795	c.1756G>A	c.(1756-1758)GGC>AGC	p.G586S		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	586	Antistasin-like 4.|Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)																---	---	---	---
HEATR5B	54497	broad.mit.edu	37	2	37267509	37267509	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37267509C>A	uc002rpp.1	-	20	3105	c.3009G>T	c.(3007-3009)TTG>TTT	p.L1003F		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1003							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)																---	---	---	---
EIF2AK2	5610	broad.mit.edu	37	2	37334542	37334542	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37334542C>T	uc010ynh.1	-						EIF2AK2_uc010fab.1_Intron|EIF2AK2_uc010yng.1_Intron|EIF2AK2_uc010fac.2_Intron	NM_002759	NP_002750			eukaryotic translation initiation factor 2-alpha						evasion by virus of host immune response|modulation by virus of host cellular process|negative regulation of osteoblast proliferation|protein autophosphorylation|response to virus|viral infectious cycle	cytosol	ATP binding|double-stranded RNA binding|eukaryotic translation initiation factor 2alpha kinase activity|protein binding|protein phosphatase type 2A regulator activity			ovary(2)|lung(2)|pancreas(1)	5		all_hematologic(82;0.248)																---	---	---	---
QPCT	25797	broad.mit.edu	37	2	37594392	37594392	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37594392G>A	uc002rqg.2	+	4	686	c.564G>A	c.(562-564)AAG>AAA	p.K188K	QPCT_uc002rqh.2_Silent_p.K139K	NM_012413	NP_036545	Q16769	QPCT_HUMAN	glutaminyl-peptide cyclotransferase precursor	188					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	extracellular region	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|zinc ion binding			central_nervous_system(1)	1		Ovarian(717;0.051)|all_hematologic(82;0.21)																---	---	---	---
SOS1	6654	broad.mit.edu	37	2	39240708	39240708	+	Intron	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:39240708T>A	uc002rrk.3	-						SOS1_uc002rrj.3_Intron	NM_005633	NP_005624			son of sevenless homolog 1						apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)												Noonan_syndrome				---	---	---	---
ABCG8	64241	broad.mit.edu	37	2	44101061	44101061	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:44101061C>T	uc002rtq.2	+	9	1437	c.1347C>T	c.(1345-1347)GCC>GCT	p.A449A	ABCG8_uc010yoa.1_Silent_p.A448A	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	449	Helical; Name=2; (Potential).|ABC transmembrane type-2.				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)																---	---	---	---
LRPPRC	10128	broad.mit.edu	37	2	44200831	44200831	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:44200831C>T	uc002rtr.2	-	11	1342	c.1284G>A	c.(1282-1284)AAG>AAA	p.K428K	LRPPRC_uc010yob.1_Silent_p.K328K	NM_133259	NP_573566	P42704	LPPRC_HUMAN	leucine-rich PPR motif-containing protein	428	PPR 7.				mitochondrion transport along microtubule|mRNA transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed nuclear chromosome|cytoskeleton|mitochondrial nucleoid|nuclear inner membrane|nuclear outer membrane|nucleoplasm|perinuclear region of cytoplasm	beta-tubulin binding|microtubule binding|RNA binding			ovary(2)|skin(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)																---	---	---	---
PPM1B	5495	broad.mit.edu	37	2	44428873	44428873	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:44428873C>T	uc002rtt.2	+	2	963	c.535C>T	c.(535-537)CGA>TGA	p.R179*	PPM1B_uc002rts.2_Nonsense_Mutation_p.R179*|PPM1B_uc002rtu.2_Nonsense_Mutation_p.R179*|PPM1B_uc002rtv.2_Intron|PPM1B_uc002rtw.2_Nonsense_Mutation_p.R179*|PPM1B_uc002rtx.2_Nonsense_Mutation_p.R179*	NM_002706	NP_002697	O75688	PPM1B_HUMAN	protein phosphatase 1B isoform 1	179					protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)																---	---	---	---
STON1-GTF2A1L	286749	broad.mit.edu	37	2	48809431	48809431	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48809431G>A	uc010yol.1	+	1	1706	c.1659G>A	c.(1657-1659)GCG>GCA	p.A553A	STON1_uc002rwo.3_Silent_p.A553A|STON1_uc010fbm.2_Silent_p.A553A|STON1-GTF2A1L_uc002rwp.1_Silent_p.A553A|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Silent_p.A553A	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	553					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)															---	---	---	---
STON1-GTF2A1L	286749	broad.mit.edu	37	2	48873848	48873848	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48873848T>C	uc010yol.1	+	5	2663	c.2616T>C	c.(2614-2616)AGT>AGC	p.S872S	STON1-GTF2A1L_uc002rwp.1_Silent_p.S919S|GTF2A1L_uc002rws.1_Silent_p.S215S|GTF2A1L_uc010yom.1_Silent_p.S181S|GTF2A1L_uc002rwt.2_Silent_p.S215S	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	872					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)															---	---	---	---
FSHR	2492	broad.mit.edu	37	2	49189950	49189950	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:49189950G>A	uc002rww.2	-	10	2084	c.2010C>T	c.(2008-2010)GGC>GGT	p.G670G	FSHR_uc002rwx.2_Silent_p.G608G|FSHR_uc010fbn.2_Silent_p.G644G	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	670	Cytoplasmic (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)									Gonadal_Dysgenesis_46_XX				---	---	---	---
NRXN1	9378	broad.mit.edu	37	2	50463984	50463984	+	Silent	SNP	G	A	A	rs147580960		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:50463984G>A	uc010fbp.2	-	2	1191	c.384C>T	c.(382-384)GCC>GCT	p.A128A	NRXN1_uc002rxb.3_Silent_p.A835A|NRXN1_uc010fbq.2_Silent_p.A1203A|NRXN1_uc002rxe.3_Silent_p.A1163A|NRXN1_uc002rxc.1_RNA	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	128	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)															---	---	---	---
NRXN1	9378	broad.mit.edu	37	2	50724782	50724782	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:50724782C>T	uc010fbq.2	-	14	4165	c.2688G>A	c.(2686-2688)CGG>CGA	p.R896R	NRXN1_uc002rxb.3_Silent_p.R528R|NRXN1_uc002rxe.3_Silent_p.R856R|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)															---	---	---	---
NRXN1	9378	broad.mit.edu	37	2	50779924	50779924	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:50779924G>A	uc010fbq.2	-	9	3157	c.1680C>T	c.(1678-1680)AGC>AGT	p.S560S	NRXN1_uc002rxb.3_Silent_p.S192S|NRXN1_uc002rxe.3_Silent_p.S520S|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)															---	---	---	---
NRXN1	9378	broad.mit.edu	37	2	50850570	50850570	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:50850570G>T	uc010fbq.2	-	6	2592	c.1115C>A	c.(1114-1116)GCT>GAT	p.A372D	NRXN1_uc002rxb.3_Missense_Mutation_p.A19D|NRXN1_uc002rxe.3_Missense_Mutation_p.A339D|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)															---	---	---	---
NRXN1	9378	broad.mit.edu	37	2	51254674	51254674	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:51254674C>T	uc010fbq.2	-	2	2215	c.738G>A	c.(736-738)TCG>TCA	p.S246S	NRXN1_uc002rxe.3_Silent_p.S246S|NRXN1_uc002rxd.1_Silent_p.S246S	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)															---	---	---	---
NRXN1	9378	broad.mit.edu	37	2	51255287	51255287	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:51255287C>T	uc010fbq.2	-	2	1602	c.125G>A	c.(124-126)CGC>CAC	p.R42H	NRXN1_uc002rxe.3_Missense_Mutation_p.R42H|NRXN1_uc002rxd.1_Missense_Mutation_p.R42H	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)															---	---	---	---
MTIF2	4528	broad.mit.edu	37	2	55490845	55490845	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:55490845G>T	uc002ryn.2	-	5	887	c.150C>A	c.(148-150)GCC>GCA	p.A50A	MTIF2_uc010yox.1_Translation_Start_Site|MTIF2_uc002ryo.2_Silent_p.A50A|MTIF2_uc002ryp.1_RNA	NM_001005369	NP_001005369	P46199	IF2M_HUMAN	mitochondrial translational initiation factor 2	50					regulation of translational initiation	mitochondrion	GTP binding|GTPase activity|ribosomal small subunit binding|translation initiation factor activity			ovary(1)	1																		---	---	---	---
EFEMP1	2202	broad.mit.edu	37	2	56098194	56098194	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:56098194G>A	uc002rzh.2	-	9	1395	c.1065C>T	c.(1063-1065)GGC>GGT	p.G355G	EFEMP1_uc002rzi.2_Silent_p.G355G|EFEMP1_uc002rzj.2_Silent_p.G355G|EFEMP1_uc010ypc.1_Silent_p.G217G	NM_004105	NP_004096	Q12805	FBLN3_HUMAN	EGF-containing fibulin-like extracellular matrix	355	Mediates interaction with TIMP3.|EGF-like 6; calcium-binding (Potential).				negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity			ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)															---	---	---	---
FANCL	55120	broad.mit.edu	37	2	58459193	58459193	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:58459193C>T	uc002rzw.3	-	2	218	c.151G>A	c.(151-153)GCA>ACA	p.A51T	FANCL_uc002rzx.3_Missense_Mutation_p.A51T|FANCL_uc010fce.2_Missense_Mutation_p.A51T|FANCL_uc010fcf.1_Intron	NM_018062	NP_060532	Q9NW38	FANCL_HUMAN	Fanconi anemia, complementation group L isoform	51					DNA repair	cytoplasm|nucleoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2													Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				---	---	---	---
PAPOLG	64895	broad.mit.edu	37	2	60997606	60997606	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:60997606C>T	uc002sai.2	+	6	683	c.452C>T	c.(451-453)GCC>GTC	p.A151V	PAPOLG_uc002saj.2_5'UTR|PAPOLG_uc002sak.2_5'UTR	NM_022894	NP_075045	Q9BWT3	PAPOG_HUMAN	poly(A) polymerase gamma	151					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(2;0.0797)		LUSC - Lung squamous cell carcinoma(5;1.19e-07)|Lung(5;2.86e-06)|Epithelial(17;0.0768)															---	---	---	---
PUS10	150962	broad.mit.edu	37	2	61192233	61192233	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61192233G>A	uc010fci.2	-	8	743	c.683C>T	c.(682-684)GCG>GTG	p.A228V	PUS10_uc002sao.2_Missense_Mutation_p.A228V|PUS10_uc010ypk.1_Missense_Mutation_p.A5V	NM_144709	NP_653310	Q3MIT2	PUS10_HUMAN	pseudouridylate synthase 10	228					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(2)|large_intestine(1)|kidney(1)	4			LUSC - Lung squamous cell carcinoma(5;1.56e-06)|Lung(5;2.48e-05)|Epithelial(17;0.113)															---	---	---	---
USP34	9736	broad.mit.edu	37	2	61415812	61415812	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61415812G>A	uc002sbe.2	-	80	10088	c.10066C>T	c.(10066-10068)CGT>TGT	p.R3356C	USP34_uc002sbd.2_Missense_Mutation_p.R158C	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	3356					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	p.R3356P(1)		ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)															---	---	---	---
USP34	9736	broad.mit.edu	37	2	61447484	61447484	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61447484G>A	uc002sbe.2	-	67	8030	c.8008C>T	c.(8008-8010)CGG>TGG	p.R2670W		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2670					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	61575222	61575222	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61575222G>A	uc002sbe.2	-	15	2090	c.2068C>T	c.(2068-2070)CGA>TGA	p.R690*		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	690					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	61597500	61597500	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61597500G>A	uc002sbe.2	-	10	1229	c.1207C>T	c.(1207-1209)CGA>TGA	p.R403*		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	403					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)															---	---	---	---
VPS54	51542	broad.mit.edu	37	2	64144047	64144047	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:64144047A>G	uc002scq.2	-	16	2378	c.2215T>C	c.(2215-2217)TAT>CAT	p.Y739H	VPS54_uc002scp.2_Missense_Mutation_p.Y727H|VPS54_uc002scn.2_5'UTR|VPS54_uc002sco.2_Missense_Mutation_p.Y224H|VPS54_uc010fct.2_Missense_Mutation_p.Y586H	NM_016516	NP_057600	Q9P1Q0	VPS54_HUMAN	vacuolar protein sorting 54 isoform 1	739					protein transport|retrograde transport, endosome to Golgi						0																		---	---	---	---
SPRED2	200734	broad.mit.edu	37	2	65540766	65540766	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:65540766G>T	uc002sdr.3	-	6	1661	c.1126C>A	c.(1126-1128)CTC>ATC	p.L376I	SPRED2_uc010fcw.2_Missense_Mutation_p.L373I	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	376	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																		---	---	---	---
PNO1	56902	broad.mit.edu	37	2	68389461	68389461	+	Intron	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:68389461A>T	uc002seh.2	+							NM_020143	NP_064528			partner of NOB1							nucleolus	RNA binding				0																		---	---	---	---
PROKR1	10887	broad.mit.edu	37	2	68882118	68882118	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:68882118G>A	uc010yqj.1	+	2	592	c.592G>A	c.(592-594)GCC>ACC	p.A198T	PROKR1_uc002ses.2_RNA	NM_138964	NP_620414	Q8TCW9	PKR1_HUMAN	G protein-coupled receptor 73	198	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(1)	1																		---	---	---	---
AAK1	22848	broad.mit.edu	37	2	69870045	69870045	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:69870045C>T	uc002sfp.2	-	2	633	c.128G>A	c.(127-129)CGA>CAA	p.R43Q	AAK1_uc010fdk.2_Missense_Mutation_p.R43Q|AAK1_uc010yqm.1_Missense_Mutation_p.R43Q|AAK1_uc010fdm.1_Missense_Mutation_p.R43Q	NM_014911	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1	43						coated pit|mitochondrion|plasma membrane	ATP binding|protein serine/threonine kinase activity				0																		---	---	---	---
TGFA	7039	broad.mit.edu	37	2	70692857	70692857	+	Missense_Mutation	SNP	C	T	T	rs147786817	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:70692857C>T	uc002sgs.3	-	3	312	c.106G>A	c.(106-108)GTG>ATG	p.V36M	TGFA_uc010fdq.2_Missense_Mutation_p.V42M|TGFA_uc010fdr.2_Missense_Mutation_p.V41M|TGFA_uc002sgt.3_Missense_Mutation_p.V35M|TGFA_uc002sgu.2_Missense_Mutation_p.V35M|TGFA_uc002sgv.2_Missense_Mutation_p.V36M|TGFA_uc002sgw.2_Missense_Mutation_p.V35M	NM_003236	NP_003227	P01135	TGFA_HUMAN	transforming growth factor, alpha isoform 1	36	Extracellular (Potential).				activation of MAPK activity|cell proliferation|positive regulation of cell division|positive regulation of epidermal growth factor receptor activity|positive regulation of epithelial cell proliferation|positive regulation of mitosis	cell surface|extracellular space|integral to membrane|plasma membrane	epidermal growth factor receptor binding|growth factor activity|MAP kinase kinase activity|signal transducer activity			prostate(1)	1																		---	---	---	---
ADD2	119	broad.mit.edu	37	2	70933382	70933382	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:70933382G>A	uc002sgz.2	-	3	624	c.159C>T	c.(157-159)CGC>CGT	p.R53R	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_Silent_p.R53R|ADD2_uc002sha.2_Silent_p.R53R|ADD2_uc002sgx.2_Silent_p.R53R|ADD2_uc010fdt.1_Silent_p.R53R|ADD2_uc002shc.1_Silent_p.R53R|ADD2_uc002shd.1_Silent_p.R53R|ADD2_uc010fdu.1_Silent_p.R69R	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	53					actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3																		---	---	---	---
CLEC4F	165530	broad.mit.edu	37	2	71036887	71036887	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71036887C>T	uc002shf.2	-	6	1719	c.1642G>A	c.(1642-1644)GCC>ACC	p.A548T	CLEC4F_uc010yqv.1_Missense_Mutation_p.A548T	NM_173535	NP_775806	Q8N1N0	CLC4F_HUMAN	C-type lectin, superfamily member 13	548	Extracellular (Potential).|C-type lectin.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(5)	5																		---	---	---	---
ATP6V1B1	525	broad.mit.edu	37	2	71192002	71192002	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71192002C>T	uc002shj.2	+						ATP6V1B1_uc010fdv.2_Intron|ATP6V1B1_uc010fdw.2_Intron|ATP6V1B1_uc010fdx.2_Intron	NM_001692	NP_001683			ATPase, H+ transporting, lysosomal 56/58kDa, V1						ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1																OREG0014686	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
NAGK	55577	broad.mit.edu	37	2	71298926	71298926	+	Silent	SNP	C	T	T	rs11539622	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71298926C>T	uc002shp.3	+	4	730	c.324C>T	c.(322-324)GCC>GCT	p.A108A	NAGK_uc010fea.2_RNA|NAGK_uc002shq.3_5'UTR|NAGK_uc002shr.2_Silent_p.A57A	NM_017567	NP_060037	Q9UJ70	NAGK_HUMAN	N-Acetylglucosamine kinase	108					N-acetylglucosamine metabolic process|N-acetylmannosamine metabolic process		ATP binding|N-acetylglucosamine kinase activity|protein binding				0					N-Acetyl-D-glucosamine(DB00141)													---	---	---	---
MPHOSPH10	10199	broad.mit.edu	37	2	71368366	71368366	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71368366G>T	uc002sht.1	+	7	1665	c.1313G>T	c.(1312-1314)TGG>TTG	p.W438L		NM_005791	NP_005782	O00566	MPP10_HUMAN	M-phase phosphoprotein 10	438					RNA splicing, via transesterification reactions|rRNA processing	chromosome|nucleolus|small nucleolar ribonucleoprotein complex	protein binding			skin(2)|ovary(1)	3																		---	---	---	---
ZNF638	27332	broad.mit.edu	37	2	71627611	71627611	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71627611C>T	uc002shx.2	+	15	2979	c.2660C>T	c.(2659-2661)GCT>GTT	p.A887V	ZNF638_uc010yqw.1_Missense_Mutation_p.A466V|ZNF638_uc002shy.2_Missense_Mutation_p.A887V|ZNF638_uc002shz.2_Missense_Mutation_p.A887V|ZNF638_uc002sia.2_Missense_Mutation_p.A887V|ZNF638_uc002sib.1_Missense_Mutation_p.A887V|ZNF638_uc010fed.2_RNA|ZNF638_uc002sic.2_5'UTR	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	887					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4																		---	---	---	---
CCT7	10574	broad.mit.edu	37	2	73478490	73478490	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73478490G>A	uc002siz.2	+	11	1442	c.1340G>A	c.(1339-1341)CGC>CAC	p.R447H	CCT7_uc002sja.2_Missense_Mutation_p.R243H|CCT7_uc010yrf.1_Missense_Mutation_p.R403H|CCT7_uc010feu.2_Missense_Mutation_p.R405H|CCT7_uc010yrg.1_Missense_Mutation_p.R347H|CCT7_uc010yrh.1_Missense_Mutation_p.R319H|CCT7_uc010yri.1_Missense_Mutation_p.R360H	NM_006429	NP_006420	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 isoform a	447					'de novo' posttranslational protein folding		ATP binding|unfolded protein binding				0																		---	---	---	---
EGR4	1961	broad.mit.edu	37	2	73518781	73518781	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73518781C>A	uc010yrj.1	-	2	1649	c.1574G>T	c.(1573-1575)AGC>ATC	p.S525I	EGR4_uc010yrk.1_Missense_Mutation_p.S524I	NM_001965	NP_001956	Q05215	EGR4_HUMAN	early growth response 4	421						intracellular	nucleic acid binding|zinc ion binding				0																		---	---	---	---
EGR4	1961	broad.mit.edu	37	2	73519457	73519457	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73519457C>T	uc010yrj.1	-	2	973	c.898G>A	c.(898-900)GCT>ACT	p.A300T	EGR4_uc010yrk.1_Missense_Mutation_p.A299T	NM_001965	NP_001956	Q05215	EGR4_HUMAN	early growth response 4	196						intracellular	nucleic acid binding|zinc ion binding				0																		---	---	---	---
ALMS1	7840	broad.mit.edu	37	2	73717261	73717261	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73717261C>T	uc002sje.1	+	12	8289	c.8178C>T	c.(8176-8178)TGC>TGT	p.C2726C	ALMS1_uc002sjf.1_Silent_p.C2682C|ALMS1_uc002sjg.2_Silent_p.C2112C|ALMS1_uc002sjh.1_Silent_p.C2112C	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2724					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9																		---	---	---	---
ACTG2	72	broad.mit.edu	37	2	74136221	74136221	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74136221G>A	uc002sjw.2	+	5	528	c.406G>A	c.(406-408)GCC>ACC	p.A136T	ACTG2_uc010fey.2_Missense_Mutation_p.A136T|ACTG2_uc010yrn.1_Missense_Mutation_p.A93T	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	136					muscle contraction	cytoskeleton|cytosol	ATP binding				0																		---	---	---	---
TET3	200424	broad.mit.edu	37	2	74317033	74317033	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74317033C>T	uc002skb.3	+	5	2493	c.2493C>T	c.(2491-2493)TGC>TGT	p.C831C		NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	831							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0																		---	---	---	---
DCTN1	1639	broad.mit.edu	37	2	74593750	74593750	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74593750G>A	uc002skx.2	-						DCTN1_uc002skt.1_5'Flank|DCTN1_uc002skv.2_Intron|DCTN1_uc002sku.2_Intron|DCTN1_uc002skw.1_Intron|DCTN1_uc010ffd.2_Intron|DCTN1_uc002sky.2_Intron	NM_004082	NP_004073			dynactin 1 isoform 1						cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5																		---	---	---	---
MOGS	7841	broad.mit.edu	37	2	74688835	74688835	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74688835A>G	uc010ffj.2	-	4	2244	c.2081T>C	c.(2080-2082)CTT>CCT	p.L694P	MOGS_uc010ffh.2_Missense_Mutation_p.L419P|MOGS_uc010yrt.1_Missense_Mutation_p.L575P|MOGS_uc010ffi.2_Missense_Mutation_p.L588P	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	694	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0																		---	---	---	---
HK2	3099	broad.mit.edu	37	2	75116443	75116443	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:75116443G>A	uc002snd.2	+	17	4373	c.2447G>A	c.(2446-2448)AGC>AAC	p.S816N		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	816	Catalytic.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2																		---	---	---	---
LRRTM1	347730	broad.mit.edu	37	2	80530493	80530493	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80530493G>A	uc002sok.1	-	2	722	c.452C>T	c.(451-453)GCG>GTG	p.A151V	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	151	LRR 3.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5															HNSCC(69;0.2)			---	---	---	---
KCMF1	56888	broad.mit.edu	37	2	85276640	85276640	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:85276640A>G	uc002sox.3	+	6	1097	c.753A>G	c.(751-753)GCA>GCG	p.A251A		NM_020122	NP_064507	Q9P0J7	KCMF1_HUMAN	potassium channel modulatory factor 1	251	Potential.					intracellular	ligase activity|zinc ion binding			ovary(2)	2																		---	---	---	---
RETSAT	54884	broad.mit.edu	37	2	85578103	85578103	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:85578103G>A	uc002spd.2	-	3	588	c.397C>T	c.(397-399)CGT>TGT	p.R133C	RETSAT_uc010fge.2_RNA|RETSAT_uc010ysm.1_Missense_Mutation_p.R72C|RETSAT_uc010fgf.2_Intron	NM_017750	NP_060220	Q6NUM9	RETST_HUMAN	all-trans-13,14-dihydroretinol saturase	133					retinol metabolic process	endoplasmic reticulum membrane|nuclear outer membrane	all-trans-retinol 13,14-reductase activity|electron carrier activity			ovary(2)	2					Vitamin A(DB00162)													---	---	---	---
KDM3A	55818	broad.mit.edu	37	2	86677062	86677062	+	Nonsense_Mutation	SNP	C	T	T	rs150111816		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:86677062C>T	uc002sri.3	+	3	646	c.319C>T	c.(319-321)CGA>TGA	p.R107*	KDM3A_uc010ytj.1_Nonsense_Mutation_p.R107*|KDM3A_uc010ytk.1_Intron	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	107					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5																		---	---	---	---
KDM3A	55818	broad.mit.edu	37	2	86705832	86705832	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:86705832C>T	uc002sri.3	+	15	2617	c.2290C>T	c.(2290-2292)CCA>TCA	p.P764S	KDM3A_uc010ytj.1_Missense_Mutation_p.P764S|KDM3A_uc010ytk.1_Missense_Mutation_p.P712S	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	764					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5																		---	---	---	---
THNSL2	55258	broad.mit.edu	37	2	88474827	88474827	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:88474827G>A	uc002ssz.3	+	4	631	c.478G>A	c.(478-480)GAC>AAC	p.D160N	THNSL2_uc002ssv.2_RNA|THNSL2_uc002ssw.3_Missense_Mutation_p.D160N|THNSL2_uc002ssx.3_Missense_Mutation_p.D128N|THNSL2_uc002sta.3_Missense_Mutation_p.D2N|THNSL2_uc002ssy.3_Missense_Mutation_p.D160N|THNSL2_uc010fhe.2_Missense_Mutation_p.D2N	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	160					threonine biosynthetic process		threonine synthase activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	90212138	90212138	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:90212138G>A	uc010fhm.2	+	26		c.3562G>A								Parts of antibodies, mostly variable regions.																														---	---	---	---
Unknown	0	broad.mit.edu	37	2	90248918	90248918	+	Intron	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:90248918G>T	uc010fhm.2	+											Parts of antibodies, mostly variable regions.																														---	---	---	---
ZNF2	7549	broad.mit.edu	37	2	95843364	95843364	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:95843364G>A	uc002suf.2	+						ZNF2_uc002sug.2_Intron|ZNF2_uc010yue.1_Intron|ZNF2_uc010fhs.2_Intron	NM_021088	NP_066574			zinc finger protein 2 isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(717;0.00768)		READ - Rectum adenocarcinoma(193;0.0222)														---	---	---	---
FAHD2A	51011	broad.mit.edu	37	2	96072853	96072853	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96072853C>T	uc002sur.2	+	3	589	c.410C>T	c.(409-411)GCC>GTC	p.A137V	FAHD2A_uc002sus.2_Missense_Mutation_p.A137V	NM_016044	NP_057128	Q96GK7	FAH2A_HUMAN	fumarylacetoacetate hydrolase domain containing	137							hydrolase activity|metal ion binding			ovary(1)	1																		---	---	---	---
STARD7	56910	broad.mit.edu	37	2	96858204	96858204	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96858204G>A	uc002svm.3	-	6	1147	c.746C>T	c.(745-747)GCT>GTT	p.A249V	STARD7_uc002svl.2_Missense_Mutation_p.A27V	NM_020151	NP_064536	Q9NQZ5	STAR7_HUMAN	START domain containing 7 precursor	249	START.					mitochondrion					0																		---	---	---	---
ITPRIPL1	150771	broad.mit.edu	37	2	96992605	96992605	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96992605A>G	uc002svx.2	+	3	571	c.236A>G	c.(235-237)GAC>GGC	p.D79G	ITPRIPL1_uc010yuk.1_Missense_Mutation_p.D71G|ITPRIPL1_uc002svy.2_Missense_Mutation_p.D87G|ITPRIPL1_uc010yul.1_Missense_Mutation_p.D71G	NM_001008949	NP_001008949	Q6GPH6	IPIL1_HUMAN	inositol 1,4,5-triphosphate receptor interacting	79	Extracellular (Potential).					integral to membrane				central_nervous_system(2)|ovary(1)	3																		---	---	---	---
NCAPH	23397	broad.mit.edu	37	2	97024926	97024926	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97024926G>A	uc002svz.1	+	10	1436	c.1352G>A	c.(1351-1353)CGC>CAC	p.R451H	NCAPH_uc010fhu.1_Missense_Mutation_p.R427H|NCAPH_uc010fhv.1_Missense_Mutation_p.R440H|NCAPH_uc010yum.1_Missense_Mutation_p.R427H|NCAPH_uc010fhw.1_Missense_Mutation_p.R440H|NCAPH_uc010yun.1_Missense_Mutation_p.R315H|NCAPH_uc002swa.1_Missense_Mutation_p.R46H	NM_015341	NP_056156	Q15003	CND2_HUMAN	non-SMC condensin I complex, subunit H	451					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|microtubule cytoskeleton|nucleus				urinary_tract(1)|skin(1)	2		Ovarian(717;0.0221)																---	---	---	---
FER1L5	90342	broad.mit.edu	37	2	97364841	97364841	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97364841C>T	uc010fia.2	+	41	4659	c.4659C>T	c.(4657-4659)TAC>TAT	p.Y1553Y	FER1L5_uc002sws.3_Silent_p.Y271Y|FER1L5_uc010fib.1_RNA|FER1L5_uc002swt.3_Silent_p.Y271Y|FER1L5_uc010yus.1_Silent_p.Y270Y	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1553	C2 5.					integral to membrane				ovary(1)	1																		---	---	---	---
FER1L5	90342	broad.mit.edu	37	2	97369074	97369074	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97369074G>A	uc010fia.2	+	49	5790	c.5790G>A	c.(5788-5790)TGG>TGA	p.W1930*	FER1L5_uc002sws.3_Nonsense_Mutation_p.W639*|FER1L5_uc002swt.3_Nonsense_Mutation_p.W639*|FER1L5_uc010yus.1_Nonsense_Mutation_p.W638*	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1930						integral to membrane				ovary(1)	1																		---	---	---	---
ANKRD36	375248	broad.mit.edu	37	2	97784178	97784178	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97784178A>G	uc010yva.1	+	3	654	c.410A>G	c.(409-411)TAC>TGC	p.Y137C	ANKRD36_uc002sxn.2_Missense_Mutation_p.Y137C|ANKRD36_uc010yuz.1_RNA|ANKRD36_uc010fic.2_5'UTR|ANKRD36_uc002sxo.2_Missense_Mutation_p.Y137C|ANKRD36_uc002sxp.3_RNA	NM_001164315	NP_001157787	A6QL64	AN36A_HUMAN	ankyrin repeat domain 36	137	ANK 4.										0																		---	---	---	---
TMEM131	23505	broad.mit.edu	37	2	98409946	98409946	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98409946G>A	uc002syh.3	-	30	3686	c.3457C>T	c.(3457-3459)CGG>TGG	p.R1153W		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1153						integral to membrane				ovary(4)|central_nervous_system(2)	6																		---	---	---	---
LIPT1	51601	broad.mit.edu	37	2	99778541	99778541	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99778541G>A	uc002szm.3	+	4	461	c.121G>A	c.(121-123)GTC>ATC	p.V41I	MRPL30_uc002szl.1_Intron|LIPT1_uc002szn.3_Missense_Mutation_p.V41I|LIPT1_uc002szo.3_Missense_Mutation_p.V41I|LIPT1_uc002szp.3_Missense_Mutation_p.V41I|LIPT1_uc002szq.3_Missense_Mutation_p.V41I|MRPL30_uc002szr.2_Intron	NM_145198	NP_660199	Q9Y234	LIPT_HUMAN	lipoyltransferase 1 precursor	41					lipid metabolic process|protein lipoylation	mitochondrion	acyltransferase activity				0					Lipoic Acid(DB00166)													---	---	---	---
EIF5B	9669	broad.mit.edu	37	2	99976770	99976770	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99976770A>T	uc002tab.2	+	2	291	c.107A>T	c.(106-108)GAG>GTG	p.E36V		NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	36					regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3																		---	---	---	---
EIF5B	9669	broad.mit.edu	37	2	99978220	99978220	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99978220A>T	uc002tab.2	+	4	1040	c.856A>T	c.(856-858)ACT>TCT	p.T286S		NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	286					regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3																		---	---	---	---
AFF3	3899	broad.mit.edu	37	2	100170767	100170767	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:100170767G>A	uc002tag.2	-						AFF3_uc002taf.2_Intron	NM_002285	NP_002276			AF4/FMR2 family, member 3 isoform 1						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6																		---	---	---	---
IL1RL1	9173	broad.mit.edu	37	2	102965663	102965663	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:102965663C>A	uc002tbu.1	+	10	1513	c.1242C>A	c.(1240-1242)GGC>GGA	p.G414G	IL18R1_uc002tbw.3_Intron	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1	414	TIR.|Cytoplasmic (Potential).				innate immune response	integral to membrane	interleukin-1 receptor activity|receptor signaling protein activity			skin(2)|ovary(1)|central_nervous_system(1)	4																		---	---	---	---
MFSD9	84804	broad.mit.edu	37	2	103334879	103334879	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:103334879C>T	uc002tcb.2	-	6	1493	c.1425G>A	c.(1423-1425)TAG>TAA	p.*475*	MFSD9_uc010fja.2_RNA	NM_032718	NP_116107	Q8NBP5	MFSD9_HUMAN	major facilitator superfamily domain containing	475					transmembrane transport	integral to membrane|plasma membrane	transporter activity			ovary(2)|breast(2)	4																		---	---	---	---
MRPS9	64965	broad.mit.edu	37	2	105713663	105713663	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:105713663A>G	uc002tcn.3	+	10	1048	c.980A>G	c.(979-981)GAC>GGC	p.D327G		NM_182640	NP_872578	P82933	RT09_HUMAN	mitochondrial ribosomal protein S9 precursor	327					DNA damage response, detection of DNA damage|translation	mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome				0																		---	---	---	---
GPR45	11250	broad.mit.edu	37	2	105858977	105858977	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:105858977C>T	uc002tco.1	+	1	778	c.662C>T	c.(661-663)ACG>ATG	p.T221M		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	221	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3																		---	---	---	---
ST6GAL2	84620	broad.mit.edu	37	2	107460198	107460198	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:107460198G>A	uc002tdq.2	-	2	355	c.236C>T	c.(235-237)GCG>GTG	p.A79V	ST6GAL2_uc002tdr.2_Missense_Mutation_p.A79V|ST6GAL2_uc002tds.3_Missense_Mutation_p.A79V	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	79	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity	p.A79V(1)		pancreas(6)|ovary(4)|skin(1)	11																		---	---	---	---
SLC5A7	60482	broad.mit.edu	37	2	108618435	108618435	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:108618435C>T	uc002tdv.2	+	6	956	c.680C>T	c.(679-681)CCG>CTG	p.P227L	SLC5A7_uc010ywm.1_5'UTR|SLC5A7_uc010fjj.2_Missense_Mutation_p.P227L|SLC5A7_uc010ywn.1_Missense_Mutation_p.P114L	NM_021815	NP_068587	Q9GZV3	SC5A7_HUMAN	solute carrier family 5 (choline transporter),	227	Cytoplasmic (Potential).				acetylcholine biosynthetic process|neurotransmitter secretion	integral to membrane|plasma membrane	choline:sodium symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4					Choline(DB00122)													---	---	---	---
SULT1C3	442038	broad.mit.edu	37	2	108868906	108868906	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:108868906A>G	uc010ywo.1	+	2	258	c.258A>G	c.(256-258)AGA>AGG	p.R86R		NM_001008743	NP_001008743	Q6IMI6	ST1C3_HUMAN	sulfotransferase family, cytosolic, 1C, member	86						cytoplasm	alcohol sulfotransferase activity			skin(1)	1																		---	---	---	---
RANBP2	5903	broad.mit.edu	37	2	109371498	109371498	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109371498G>A	uc002tem.3	+	16	2466	c.2340G>A	c.(2338-2340)CCG>CCA	p.P780P		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	780					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18																		---	---	---	---
RANBP2	5903	broad.mit.edu	37	2	109382686	109382686	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109382686A>G	uc002tem.3	+	20	5817	c.5691A>G	c.(5689-5691)GGA>GGG	p.G1897G		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1897					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18																		---	---	---	---
NPHP1	4867	broad.mit.edu	37	2	110927445	110927445	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:110927445C>T	uc002tfn.3	-	5	554	c.460G>A	c.(460-462)GGT>AGT	p.G154S	NPHP1_uc002tfm.3_Missense_Mutation_p.G154S|NPHP1_uc002tfl.3_Missense_Mutation_p.G154S|NPHP1_uc002tfo.3_Missense_Mutation_p.G92S|NPHP1_uc010ywx.1_Missense_Mutation_p.G154S|NPHP1_uc010fjv.1_Missense_Mutation_p.G154S	NM_207181	NP_997064	O15259	NPHP1_HUMAN	nephrocystin 1 isoform 2	154	SH3.				actin cytoskeleton organization|cell projection organization|cell-cell adhesion|excretion|retina development in camera-type eye|signal transduction|spermatid differentiation|visual behavior	adherens junction|cell-cell junction|cilium axoneme|cytoplasm|cytoskeleton|motile cilium|photoreceptor connecting cilium	protein binding|structural molecule activity			ovary(2)	2																		---	---	---	---
ANAPC1	64682	broad.mit.edu	37	2	112614259	112614259	+	Intron	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:112614259A>T	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																		---	---	---	---
ANAPC1	64682	broad.mit.edu	37	2	112614266	112614266	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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																		---	---	---	---
TTL	150465	broad.mit.edu	37	2	113243554	113243554	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113243554G>A	uc002thu.2	+	2	397	c.218G>A	c.(217-219)CGC>CAC	p.R73H		NM_153712	NP_714923	Q8NG68	TTL_HUMAN	tubulin tyrosine ligase	73	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity				0		Ovarian(717;0.024)		BRCA - Breast invasive adenocarcinoma(221;6.17e-07)|STAD - Stomach adenocarcinoma(1183;0.00644)				T	ETV6	ALL								---	---	---	---
POLR1B	84172	broad.mit.edu	37	2	113331267	113331267	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113331267C>T	uc002thw.2	+	14	2980	c.2400C>T	c.(2398-2400)GAC>GAT	p.D800D	POLR1B_uc010fkn.2_Silent_p.D744D|POLR1B_uc002thx.2_Silent_p.D661D|POLR1B_uc010fko.2_Silent_p.D617D|POLR1B_uc010fkp.2_Silent_p.D239D|POLR1B_uc010yxn.1_Silent_p.D838D|POLR1B_uc002thy.2_Silent_p.D661D|POLR1B_uc010yxo.1_Silent_p.D577D	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	800				D -> G (in Ref. 1; BAC87247).	termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(1)	1																		---	---	---	---
SLC20A1	6574	broad.mit.edu	37	2	113414818	113414818	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113414818C>T	uc002tib.2	+	6	1224	c.778C>T	c.(778-780)CGA>TGA	p.R260*	SLC20A1_uc002tic.1_Nonsense_Mutation_p.R72*	NM_005415	NP_005406	Q8WUM9	S20A1_HUMAN	solute carrier family 20 (phosphate	260	Cytoplasmic (Potential).				phosphate metabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to plasma membrane	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity			ovary(2)	2																		---	---	---	---
CKAP2L	150468	broad.mit.edu	37	2	113510001	113510001	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113510001G>T	uc002tie.2	-	5	1524	c.1445C>A	c.(1444-1446)CCT>CAT	p.P482H	CKAP2L_uc002tif.2_Missense_Mutation_p.P71H|CKAP2L_uc010yxp.1_Missense_Mutation_p.P317H|CKAP2L_uc010yxq.1_Missense_Mutation_p.P317H	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	482						centrosome					0																		---	---	---	---
CKAP2L	150468	broad.mit.edu	37	2	113514730	113514730	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113514730G>T	uc002tie.2	-	4	297	c.218C>A	c.(217-219)TCC>TAC	p.S73Y	CKAP2L_uc002tif.2_5'UTR|CKAP2L_uc010yxp.1_5'UTR|CKAP2L_uc010yxq.1_5'UTR	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	73						centrosome					0																		---	---	---	---
CKAP2L	150468	broad.mit.edu	37	2	113520091	113520091	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113520091G>A	uc002tie.2	-	2	172	c.93C>T	c.(91-93)AGC>AGT	p.S31S	CKAP2L_uc002tif.2_5'UTR|CKAP2L_uc010yxp.1_5'UTR|CKAP2L_uc010yxq.1_Intron	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	31						centrosome					0																		---	---	---	---
DPP10	57628	broad.mit.edu	37	2	116572398	116572398	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:116572398C>T	uc002tla.1	+	20	2187	c.1730C>T	c.(1729-1731)ACA>ATA	p.T577I	DPP10_uc002tlb.1_Missense_Mutation_p.T527I|DPP10_uc002tlc.1_Missense_Mutation_p.T573I|DPP10_uc002tle.2_Missense_Mutation_p.T581I|DPP10_uc002tlf.1_Missense_Mutation_p.T570I	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	577	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10																		---	---	---	---
DPP10	57628	broad.mit.edu	37	2	116572575	116572575	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:116572575C>T	uc002tla.1	+						DPP10_uc002tlb.1_Intron|DPP10_uc002tlc.1_Intron|DPP10_uc002tle.2_Intron|DPP10_uc002tlf.1_Intron	NM_020868	NP_065919			dipeptidyl peptidase 10 isoform long						proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10																		---	---	---	---
DDX18	8886	broad.mit.edu	37	2	118577236	118577236	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:118577236G>A	uc002tlh.1	+	3	481	c.382G>A	c.(382-384)GCA>ACA	p.A128T		NM_006773	NP_006764	Q9NVP1	DDX18_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18	128							ATP binding|ATP-dependent RNA helicase activity|RNA binding			breast(2)|ovary(1)|lung(1)	4																OREG0003814	type=REGULATORY REGION|Gene=DDX18|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	---	---	---	---
CCDC93	54520	broad.mit.edu	37	2	118732839	118732839	+	Silent	SNP	C	T	T	rs140835483		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:118732839C>T	uc002tlj.2	-	9	801	c.675G>A	c.(673-675)ACG>ACA	p.T225T	CCDC93_uc010fld.1_Silent_p.T225T	NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	225										large_intestine(1)|ovary(1)	2																		---	---	---	---
MARCO	8685	broad.mit.edu	37	2	119752090	119752090	+	Silent	SNP	C	T	T	rs150890503	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:119752090C>T	uc002tln.1	+	17	1689	c.1557C>T	c.(1555-1557)AGC>AGT	p.S519S	MARCO_uc010yyf.1_Silent_p.S441S	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	519	SRCR.|Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6																		---	---	---	---
STEAP3	55240	broad.mit.edu	37	2	120005382	120005382	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:120005382G>A	uc002tlp.2	+	4	777	c.620G>A	c.(619-621)CGC>CAC	p.R207H	STEAP3_uc002tlq.2_Missense_Mutation_p.R217H|STEAP3_uc002tlr.2_Missense_Mutation_p.R207H|STEAP3_uc010fle.2_Missense_Mutation_p.R207H	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	207	Cytoplasmic (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3																		---	---	---	---
STEAP3	55240	broad.mit.edu	37	2	120005645	120005645	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:120005645C>T	uc002tlp.2	+	4	1040	c.883C>T	c.(883-885)CTG>TTG	p.L295L	STEAP3_uc002tlq.2_Silent_p.L305L|STEAP3_uc002tlr.2_Silent_p.L295L|STEAP3_uc010fle.2_Silent_p.L295L	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	295	Ferric oxidoreductase.|Cytoplasmic (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3																		---	---	---	---
TMEM177	80775	broad.mit.edu	37	2	120438707	120438707	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:120438707C>T	uc010flg.1	+	2	751	c.278C>T	c.(277-279)GCA>GTA	p.A93V	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Missense_Mutation_p.A93V|TMEM177_uc002tmd.2_Missense_Mutation_p.A93V|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	93						integral to membrane				ovary(1)	1	Colorectal(110;0.196)																	---	---	---	---
TMEM177	80775	broad.mit.edu	37	2	120438980	120438980	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:120438980G>A	uc010flg.1	+	2	1024	c.551G>A	c.(550-552)GGC>GAC	p.G184D	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Missense_Mutation_p.G184D|TMEM177_uc002tmd.2_Missense_Mutation_p.G184D|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	184	Helical; (Potential).					integral to membrane				ovary(1)	1	Colorectal(110;0.196)																	---	---	---	---
TMEM177	80775	broad.mit.edu	37	2	120439194	120439194	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:120439194G>A	uc010flg.1	+	2	1238	c.765G>A	c.(763-765)TCG>TCA	p.S255S	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Silent_p.S255S|TMEM177_uc002tmd.2_Silent_p.S255S|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	255						integral to membrane				ovary(1)	1	Colorectal(110;0.196)																	---	---	---	---
CLASP1	23332	broad.mit.edu	37	2	122160221	122160221	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:122160221C>A	uc002tnc.2	-						CLASP1_uc010yyv.1_Intron|CLASP1_uc002tmz.2_Intron|CLASP1_uc002tna.2_Intron|CLASP1_uc010yyw.1_Intron|CLASP1_uc002tnb.2_RNA|CLASP1_uc010yyx.1_RNA|CLASP1_uc010yyy.1_Intron|CLASP1_uc010yyz.1_Intron|CLASP1_uc010yza.1_Intron|CLASP1_uc010yzb.1_Intron|CLASP1_uc010yzc.1_Intron|CLASP1_uc002tng.1_Intron	NM_015282	NP_056097			CLIP-associating protein 1 isoform 1						axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)																	---	---	---	---
MKI67IP	84365	broad.mit.edu	37	2	122485487	122485487	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:122485487C>T	uc002tnk.2	-	7	772	c.695G>A	c.(694-696)GGC>GAC	p.G232D	uc002tnj.1_RNA	NM_032390	NP_115766	Q9BYG3	MK67I_HUMAN	MKI67 interacting nucleolar phosphoprotein	232	Interaction with MKI67.				protein complex assembly|rRNA metabolic process|rRNA transcription	condensed nuclear chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|protein binding|RNA binding				0																		---	---	---	---
MYO7B	4648	broad.mit.edu	37	2	128339927	128339927	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128339927G>A	uc002top.2	+	12	1302	c.1249G>A	c.(1249-1251)GCC>ACC	p.A417T		NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	417	Myosin head-like.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)														---	---	---	---
MYO7B	4648	broad.mit.edu	37	2	128394476	128394476	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128394476C>T	uc002top.2	+	46	6290	c.6237C>T	c.(6235-6237)TGC>TGT	p.C2079C	MYO7B_uc002tos.1_Silent_p.C189C|MYO7B_uc002tot.2_Silent_p.C189C	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	2079	FERM 2.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)														---	---	---	---
GPR17	2840	broad.mit.edu	37	2	128408489	128408489	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128408489C>T	uc010yzn.1	+	4	875	c.264C>T	c.(262-264)CAC>CAT	p.H88H	LIMS2_uc002tow.2_5'Flank|LIMS2_uc002tox.2_Intron|LIMS2_uc010fmb.2_Intron|LIMS2_uc002toy.2_Intron|LIMS2_uc010yzm.1_Intron|LIMS2_uc002tpa.2_Intron|LIMS2_uc002toz.2_Intron|LIMS2_uc002tpb.2_Intron|GPR17_uc002tpc.2_Silent_p.H88H|GPR17_uc010yzo.1_Silent_p.H60H|GPR17_uc002tpd.2_Silent_p.H60H	NM_001161415	NP_001154887	Q13304	GPR17_HUMAN	G protein-coupled receptor 17 isoform a	88	Cytoplasmic (Potential).					integral to plasma membrane	chemokine receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	Colorectal(110;0.1)	Ovarian(717;0.15)		BRCA - Breast invasive adenocarcinoma(221;0.0677)														---	---	---	---
WDR33	55339	broad.mit.edu	37	2	128471545	128471545	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128471545G>A	uc002tpg.1	-	18	3103	c.2920C>T	c.(2920-2922)CGG>TGG	p.R974W		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	974					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)														---	---	---	---
TUBA3E	112714	broad.mit.edu	37	2	130949603	130949603	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:130949603G>A	uc002tqv.2	-	5	1255	c.1154C>T	c.(1153-1155)GCG>GTG	p.A385V		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	385					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)																	---	---	---	---
POTEE	445582	broad.mit.edu	37	2	131976329	131976329	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:131976329C>T	uc002tsn.2	+	1	406	c.354C>T	c.(352-354)GGC>GGT	p.G118G	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_5'UTR	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	118							ATP binding				0																		---	---	---	---
POTEE	445582	broad.mit.edu	37	2	131976349	131976349	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:131976349A>G	uc002tsn.2	+	1	426	c.374A>G	c.(373-375)GAC>GGC	p.D125G	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_5'UTR	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	125							ATP binding				0																		---	---	---	---
NCKAP5	344148	broad.mit.edu	37	2	133547759	133547759	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133547759T>C	uc002ttp.2	-	13	1303	c.929A>G	c.(928-930)AAA>AGA	p.K310R	NCKAP5_uc002ttq.2_Missense_Mutation_p.K310R	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	310							protein binding				0																		---	---	---	---
NCKAP5	344148	broad.mit.edu	37	2	133887575	133887575	+	Missense_Mutation	SNP	G	A	A	rs142446996	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133887575G>A	uc002ttp.2	-	6	690	c.316C>T	c.(316-318)CGT>TGT	p.R106C	NCKAP5_uc002ttq.2_Missense_Mutation_p.R106C|NCKAP5_uc002ttt.1_Missense_Mutation_p.R106C|NCKAP5_uc002tts.1_Missense_Mutation_p.R81C	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	106	Potential.						protein binding				0																		---	---	---	---
NCKAP5	344148	broad.mit.edu	37	2	134060653	134060653	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:134060653C>A	uc002ttp.2	-	4	473	c.99G>T	c.(97-99)GAG>GAT	p.E33D	NCKAP5_uc002ttq.2_Missense_Mutation_p.E33D|NCKAP5_uc002ttt.1_Missense_Mutation_p.E33D|NCKAP5_uc002tts.1_Missense_Mutation_p.E8D	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	33							protein binding				0																		---	---	---	---
MGAT5	4249	broad.mit.edu	37	2	135185968	135185968	+	Silent	SNP	C	T	T	rs146926321	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135185968C>T	uc002ttv.1	+	14	1972	c.1827C>T	c.(1825-1827)TGC>TGT	p.C609C		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	609	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)														---	---	---	---
ACMSD	130013	broad.mit.edu	37	2	135630090	135630090	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135630090G>A	uc002ttz.2	+	8	795	c.728G>A	c.(727-729)CGC>CAC	p.R243H	ACMSD_uc002tua.2_Missense_Mutation_p.R185H|uc010zbe.1_Intron	NM_138326	NP_612199	Q8TDX5	ACMSD_HUMAN	aminocarboxymuconate semialdehyde decarboxylase	243					quinolinate metabolic process|tryptophan catabolic process	cytosol	aminocarboxymuconate-semialdehyde decarboxylase activity|metal ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.115)														---	---	---	---
R3HDM1	23518	broad.mit.edu	37	2	136473231	136473231	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136473231C>T	uc002tuo.2	+	23	3113	c.2743C>T	c.(2743-2745)CCC>TCC	p.P915S	R3HDM1_uc010fni.2_Missense_Mutation_p.P914S|R3HDM1_uc002tup.2_Missense_Mutation_p.P860S|R3HDM1_uc010zbh.1_Missense_Mutation_p.P663S	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	915							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)														---	---	---	---
UBXN4	23190	broad.mit.edu	37	2	136513161	136513161	+	Silent	SNP	G	A	A	rs149655604	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136513161G>A	uc002tur.2	+	5	719	c.408G>A	c.(406-408)GCG>GCA	p.A136A	UBXN4_uc002tus.2_5'UTR	NM_014607	NP_055422	Q92575	UBXN4_HUMAN	UBX domain containing 2	136	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|nuclear envelope	protein binding			skin(2)	2																		---	---	---	---
LCT	3938	broad.mit.edu	37	2	136555712	136555712	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136555712C>T	uc002tuu.1	-							NM_002299	NP_002290			lactase-phlorizin hydrolase preproprotein						carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)												OREG0014998	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
LCT	3938	broad.mit.edu	37	2	136558281	136558281	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136558281C>T	uc002tuu.1	-	12	4773	c.4762G>A	c.(4762-4764)GCC>ACC	p.A1588T		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1588	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)														---	---	---	---
LCT	3938	broad.mit.edu	37	2	136567187	136567187	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136567187G>A	uc002tuu.1	-	8	2741	c.2730C>T	c.(2728-2730)GGC>GGT	p.G910G		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	910	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity	p.G910V(1)		ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)														---	---	---	---
THSD7B	80731	broad.mit.edu	37	2	137928508	137928508	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:137928508G>A	uc002tva.1	+	6	1630	c.1630G>A	c.(1630-1632)GGA>AGA	p.G544R	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.G434R	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)														---	---	---	---
HNMT	3176	broad.mit.edu	37	2	138762705	138762705	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:138762705C>T	uc002tvc.2	+	6	581	c.433C>T	c.(433-435)CTG>TTG	p.L145L	HNMT_uc002tvf.2_Silent_p.L145L	NM_006895	NP_008826	P50135	HNMT_HUMAN	histamine N-methyltransferase isoform 1	145					respiratory gaseous exchange	cytoplasm	histamine N-methyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.125)	Amodiaquine(DB00613)|Histamine Phosphate(DB00667)|Quinacrine(DB01103)													---	---	---	---
LRP1B	53353	broad.mit.edu	37	2	141259398	141259398	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141259398C>T	uc002tvj.1	-	55	9680	c.8708G>A	c.(8707-8709)TGC>TAC	p.C2903Y		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2903	Extracellular (Potential).|LDL-receptor class A 20.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)											TSP Lung(27;0.18)			---	---	---	---
LRP1B	53353	broad.mit.edu	37	2	141294197	141294197	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141294197C>T	uc002tvj.1	-	46	8567	c.7595G>A	c.(7594-7596)GGC>GAC	p.G2532D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2532	Extracellular (Potential).|LDL-receptor class A 11.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)											TSP Lung(27;0.18)			---	---	---	---
KYNU	8942	broad.mit.edu	37	2	143790898	143790898	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:143790898A>G	uc002tvl.2	+						KYNU_uc010fnm.2_Intron	NM_003937	NP_003928			kynureninase (L-kynurenine hydrolase) isoform a						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)													---	---	---	---
GTDC1	79712	broad.mit.edu	37	2	144765058	144765058	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:144765058C>T	uc002tvp.2	-	7	845	c.566G>A	c.(565-567)GGC>GAC	p.G189D	GTDC1_uc002tvo.2_Missense_Mutation_p.G189D|GTDC1_uc002tvq.2_Intron|GTDC1_uc002tvr.2_Missense_Mutation_p.G189D|GTDC1_uc010fnn.2_Missense_Mutation_p.G189D|GTDC1_uc002tvs.2_Missense_Mutation_p.G157D|GTDC1_uc010fno.2_Missense_Mutation_p.G60D|GTDC1_uc002tvt.1_Missense_Mutation_p.G189D	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	189					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)														---	---	---	---
KIF5C	3800	broad.mit.edu	37	2	149853828	149853828	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:149853828C>T	uc010zbu.1	+	18	2442	c.2074C>T	c.(2074-2076)CGG>TGG	p.R692W	KIF5C_uc002tws.1_RNA|KIF5C_uc002twt.2_Missense_Mutation_p.R244W|KIF5C_uc002twu.1_5'Flank	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	692					microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)														---	---	---	---
RND3	390	broad.mit.edu	37	2	151326517	151326517	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:151326517C>A	uc002txe.2	-	5	963	c.719G>T	c.(718-720)AGC>ATC	p.S240I	RND3_uc002txf.2_Missense_Mutation_p.S239I|RND3_uc002txg.2_Missense_Mutation_p.S240I|RND3_uc010zbv.1_Missense_Mutation_p.A123S|RND3_uc010zbw.1_Missense_Mutation_p.S103I	NM_005168	NP_005159	P61587	RND3_HUMAN	ras homolog gene family, member E precursor	240					actin cytoskeleton organization|cell adhesion|small GTPase mediated signal transduction	Golgi membrane	GTP binding|GTPase activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.106)														---	---	---	---
NEB	4703	broad.mit.edu	37	2	152500390	152500390	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152500390C>T	uc010fnx.2	-	57	8089	c.7898G>A	c.(7897-7899)TGC>TAC	p.C2633Y		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2633	Nebulin 71.				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)														---	---	---	---
NEB	4703	broad.mit.edu	37	2	152536281	152536281	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152536281G>A	uc010fnx.2	-	32	3400	c.3209C>T	c.(3208-3210)GCG>GTG	p.A1070V		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1070	Nebulin 26.				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)														---	---	---	---
NEB	4703	broad.mit.edu	37	2	152580820	152580820	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152580820G>A	uc010fnx.2	-	8	757	c.566C>T	c.(565-567)GCC>GTC	p.A189V		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	189	Nebulin 4.				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)														---	---	---	---
ARL5A	26225	broad.mit.edu	37	2	152663340	152663340	+	Silent	SNP	G	A	A	rs150433799		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152663340G>A	uc002txx.1	-	5	805	c.486C>T	c.(484-486)GGC>GGT	p.G162G	ARL5A_uc010zcc.1_RNA|ARL5A_uc002txv.1_Silent_p.G125G|ARL5A_uc002txw.1_Silent_p.G125G	NM_012097	NP_036229	Q9Y689	ARL5A_HUMAN	ADP-ribosylation factor-like 5A isoform 1	162					small GTPase mediated signal transduction	intracellular	GTP binding				0				BRCA - Breast invasive adenocarcinoma(221;0.153)														---	---	---	---
KCNJ3	3760	broad.mit.edu	37	2	155555843	155555843	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:155555843C>A	uc002tyv.1	+	1	751	c.556C>A	c.(556-558)CAG>AAG	p.Q186K	KCNJ3_uc010zce.1_Missense_Mutation_p.Q186K	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	186	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)													---	---	---	---
ACVR1	90	broad.mit.edu	37	2	158626897	158626897	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:158626897C>A	uc002tzm.3	-	8	1112	c.773G>T	c.(772-774)AGG>ATG	p.R258M	ACVR1_uc002tzn.3_Missense_Mutation_p.R258M|ACVR1_uc010fog.2_Missense_Mutation_p.R258M	NM_001111067	NP_001104537	Q04771	ACVR1_HUMAN	activin A receptor, type I precursor	258	Cytoplasmic (Potential).|Protein kinase.				BMP signaling pathway|G1/S transition of mitotic cell cycle|negative regulation of activin receptor signaling pathway|negative regulation of apoptosis|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	activin receptor complex	activin binding|ATP binding|follistatin binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta binding			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.104)	Adenosine triphosphate(DB00171)													---	---	---	---
PKP4	8502	broad.mit.edu	37	2	159477502	159477502	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:159477502A>G	uc002tzv.2	+	5	541	c.281A>G	c.(280-282)GAC>GGC	p.D94G	PKP4_uc002tzt.1_5'UTR|PKP4_uc002tzu.2_Missense_Mutation_p.D94G|PKP4_uc002tzw.2_Missense_Mutation_p.D94G|PKP4_uc002tzx.2_5'UTR|PKP4_uc002tzy.1_5'UTR|PKP4_uc002tzz.1_Missense_Mutation_p.D94G|PKP4_uc002uaa.2_5'UTR	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	94					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7															HNSCC(62;0.18)			---	---	---	---
PKP4	8502	broad.mit.edu	37	2	159526422	159526422	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:159526422C>T	uc002tzv.2	+	17	3179	c.2919C>T	c.(2917-2919)GGC>GGT	p.G973G	PKP4_uc002tzw.2_Silent_p.G973G|PKP4_uc002tzx.2_Silent_p.G630G|PKP4_uc002uaa.2_Silent_p.G825G|uc002uab.1_Intron|PKP4_uc002uac.2_Silent_p.G154G|PKP4_uc002uad.2_RNA|PKP4_uc002uae.1_Silent_p.G60G	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	973	ARM 9.				cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7															HNSCC(62;0.18)			---	---	---	---
TANC1	85461	broad.mit.edu	37	2	160050772	160050772	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160050772G>A	uc002uag.2	+	17	3021	c.2747G>A	c.(2746-2748)AGC>AAC	p.S916N	TANC1_uc010zcm.1_Missense_Mutation_p.S908N|TANC1_uc010fom.1_Missense_Mutation_p.S722N	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	916	ANK 1.					cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
BAZ2B	29994	broad.mit.edu	37	2	160304907	160304907	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160304907C>T	uc002uao.2	-	5	700	c.348G>A	c.(346-348)TGG>TGA	p.W116*	BAZ2B_uc002uap.2_Nonsense_Mutation_p.W114*|BAZ2B_uc002uas.1_Nonsense_Mutation_p.W53*|BAZ2B_uc002uau.1_Nonsense_Mutation_p.W114*|BAZ2B_uc002uaq.1_Nonsense_Mutation_p.W44*|BAZ2B_uc002uat.3_Nonsense_Mutation_p.W53*|BAZ2B_uc010fop.1_Nonsense_Mutation_p.W114*	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	116					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4																		---	---	---	---
MARCH7	64844	broad.mit.edu	37	2	160605008	160605008	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160605008C>T	uc002uax.2	+	5	1329	c.1207C>T	c.(1207-1209)CGA>TGA	p.R403*	MARCH7_uc010foq.2_Nonsense_Mutation_p.R403*|MARCH7_uc010zcn.1_Nonsense_Mutation_p.R347*|MARCH7_uc010for.2_Nonsense_Mutation_p.R365*|MARCH7_uc002uay.2_RNA	NM_022826	NP_073737	Q9H992	MARH7_HUMAN	axotrophin	403	Ser-rich.						ligase activity|zinc ion binding				0																		---	---	---	---
PLA2R1	22925	broad.mit.edu	37	2	160832609	160832609	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160832609C>T	uc002ube.1	-	17	2772	c.2565G>A	c.(2563-2565)GAG>GAA	p.E855E	PLA2R1_uc010zcp.1_Silent_p.E855E|PLA2R1_uc002ubf.2_Silent_p.E855E	NM_007366	NP_031392	Q13018	PLA2R_HUMAN	phospholipase A2 receptor 1 isoform 1 precursor	855	Extracellular (Potential).|C-type lectin 5.				endocytosis	extracellular space|integral to plasma membrane	receptor activity|sugar binding			skin(2)|ovary(1)	3																		---	---	---	---
RBMS1	5937	broad.mit.edu	37	2	161349809	161349809	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:161349809C>T	uc002ubo.2	-	1	510	c.66G>A	c.(64-66)CTG>CTA	p.L22L	RBMS1_uc002ubn.2_Silent_p.L22L|RBMS1_uc002ubi.3_Silent_p.L22L|RBMS1_uc002ubm.2_5'UTR|RBMS1_uc002ubp.2_Silent_p.L22L|RBMS1_uc010fox.2_Silent_p.L22L	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	22					DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0																		---	---	---	---
TANK	10010	broad.mit.edu	37	2	162081195	162081195	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:162081195G>A	uc002ubr.1	+	6	616	c.458G>A	c.(457-459)TGC>TAC	p.C153Y	TANK_uc002ubs.2_Missense_Mutation_p.C153Y	NM_004180	NP_004171	Q92844	TANK_HUMAN	TRAF interacting protein TANK isoform a	153						cytosol	metal ion binding|protein binding			ovary(1)	1																		---	---	---	---
DPP4	1803	broad.mit.edu	37	2	162873673	162873673	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:162873673C>T	uc002ubz.2	-						DPP4_uc010fpb.2_Intron	NM_001935	NP_001926			dipeptidylpeptidase IV						cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)													---	---	---	---
DPP4	1803	broad.mit.edu	37	2	162891760	162891760	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:162891760C>T	uc002ubz.2	-	9	1249	c.688G>A	c.(688-690)GAC>AAC	p.D230N	DPP4_uc010fpb.2_5'UTR	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	230	Extracellular (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)													---	---	---	---
GCA	25801	broad.mit.edu	37	2	163204223	163204223	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:163204223T>A	uc002ucg.2	+	2	339	c.163T>A	c.(163-165)TAT>AAT	p.Y55N	GCA_uc010zcu.1_Missense_Mutation_p.Y36N	NM_012198	NP_036330	P28676	GRAN_HUMAN	grancalcin, EF-hand calcium binding protein	55	EF-hand 1.				cellular membrane fusion	cytoplasm|plasma membrane	calcium ion binding|protein homodimerization activity				0																		---	---	---	---
GRB14	2888	broad.mit.edu	37	2	165353759	165353759	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165353759C>A	uc002ucl.2	-	11	1797	c.1256G>T	c.(1255-1257)AGC>ATC	p.S419I	GRB14_uc010zcv.1_Missense_Mutation_p.S332I|GRB14_uc002ucm.2_RNA	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14	419					blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7																		---	---	---	---
COBLL1	22837	broad.mit.edu	37	2	165548787	165548787	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165548787G>A	uc010zcw.1	-	16	3683	c.3559C>T	c.(3559-3561)CGA>TGA	p.R1187*	COBLL1_uc002ucp.2_Nonsense_Mutation_p.R1120*|COBLL1_uc002ucq.2_Nonsense_Mutation_p.R1082*|COBLL1_uc010zcx.1_Nonsense_Mutation_p.R1128*|COBLL1_uc002ucn.2_Nonsense_Mutation_p.R548*|COBLL1_uc002uco.2_Nonsense_Mutation_p.R851*	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	1158	WH2.									ovary(2)|pancreas(1)	3																		---	---	---	---
COBLL1	22837	broad.mit.edu	37	2	165550894	165550894	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165550894C>T	uc010zcw.1	-	15	3447	c.3323G>A	c.(3322-3324)CGC>CAC	p.R1108H	COBLL1_uc002ucp.2_Missense_Mutation_p.R1041H|COBLL1_uc002ucq.2_Missense_Mutation_p.R1003H|COBLL1_uc010zcx.1_Missense_Mutation_p.R1049H|COBLL1_uc002ucn.2_Missense_Mutation_p.R469H|COBLL1_uc002uco.2_Missense_Mutation_p.R772H	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	1079										ovary(2)|pancreas(1)	3																		---	---	---	---
SCN3A	6328	broad.mit.edu	37	2	165946823	165946823	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165946823T>C	uc002ucx.2	-	28	6332	c.5840A>G	c.(5839-5841)GAC>GGC	p.D1947G	SCN3A_uc010zcy.1_Missense_Mutation_p.D430G|SCN3A_uc002ucy.2_Missense_Mutation_p.D1898G|SCN3A_uc002ucz.2_Missense_Mutation_p.D1898G	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1947						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)													---	---	---	---
SCN3A	6328	broad.mit.edu	37	2	165997321	165997321	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165997321C>T	uc002ucx.2	-	13	2351	c.1859G>A	c.(1858-1860)CGA>CAA	p.R620Q	SCN3A_uc002ucy.2_Missense_Mutation_p.R620Q|SCN3A_uc002ucz.2_Missense_Mutation_p.R620Q|SCN3A_uc002uda.1_Missense_Mutation_p.R489Q|SCN3A_uc002udb.1_Missense_Mutation_p.R489Q	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	620						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)													---	---	---	---
SCN2A	6326	broad.mit.edu	37	2	166152416	166152416	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166152416G>A	uc002udc.2	+	2	373	c.83G>A	c.(82-84)CGC>CAC	p.R28H	SCN2A_uc002udd.2_Missense_Mutation_p.R28H|SCN2A_uc002ude.2_Missense_Mutation_p.R28H	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	28					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)													---	---	---	---
SCN2A	6326	broad.mit.edu	37	2	166245260	166245260	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166245260G>A	uc002udc.2	+	27	5234	c.4944G>A	c.(4942-4944)ACG>ACA	p.T1648T	SCN2A_uc002udd.2_Silent_p.T1648T|SCN2A_uc002ude.2_Silent_p.T1648T	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1648	IV.				myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)													---	---	---	---
SCN2A	6326	broad.mit.edu	37	2	166246006	166246006	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166246006C>T	uc002udc.2	+	27	5980	c.5690C>T	c.(5689-5691)ACG>ATG	p.T1897M	SCN2A_uc002udd.2_Missense_Mutation_p.T1897M|SCN2A_uc002ude.2_Missense_Mutation_p.T1897M	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1897					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)													---	---	---	---
CSRNP3	80034	broad.mit.edu	37	2	166514297	166514297	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166514297C>T	uc002udf.2	+	5	551	c.175C>T	c.(175-177)CGA>TGA	p.R59*	CSRNP3_uc002udg.2_Nonsense_Mutation_p.R59*	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	59					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5																		---	---	---	---
TTC21B	79809	broad.mit.edu	37	2	166797676	166797676	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166797676G>A	uc002udk.2	-	6	704	c.571C>T	c.(571-573)CGC>TGC	p.R191C	TTC21B_uc002udl.2_Missense_Mutation_p.R191C|uc002udm.1_Intron	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	191	TPR 3.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5																		---	---	---	---
SCN1A	6323	broad.mit.edu	37	2	166900484	166900484	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166900484G>A	uc010zcz.1	-	11	1756	c.1738C>T	c.(1738-1740)CGA>TGA	p.R580*	SCN1A_uc002udo.3_Nonsense_Mutation_p.R449*|SCN1A_uc010fpk.2_Nonsense_Mutation_p.R449*	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	580						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)													---	---	---	---
SCN9A	6335	broad.mit.edu	37	2	167133677	167133677	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167133677C>T	uc010fpl.2	-	16	2998	c.2657G>A	c.(2656-2658)TGC>TAC	p.C886Y	uc002udp.2_RNA	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	897	II.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)													---	---	---	---
SCN9A	6335	broad.mit.edu	37	2	167133746	167133746	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167133746G>A	uc010fpl.2	-	16	2929	c.2588C>T	c.(2587-2589)GCC>GTC	p.A863V	uc002udp.2_RNA	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	874	II.|Helical; Name=S5 of repeat II; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)													---	---	---	---
SCN7A	6332	broad.mit.edu	37	2	167298020	167298020	+	Silent	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167298020C>G	uc002udu.1	-	14	2170	c.2043G>C	c.(2041-2043)GTG>GTC	p.V681V	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	681					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1																		---	---	---	---
XIRP2	129446	broad.mit.edu	37	2	168099163	168099163	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168099163A>G	uc002udx.2	+	8	1279	c.1261A>G	c.(1261-1263)AAG>GAG	p.K421E	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.K246E|XIRP2_uc010fpq.2_Missense_Mutation_p.K199E|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	246					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14																		---	---	---	---
XIRP2	129446	broad.mit.edu	37	2	168107993	168107993	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168107993T>C	uc002udx.2	+	8	10109	c.10091T>C	c.(10090-10092)ATA>ACA	p.I3364T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.I3189T|XIRP2_uc010fpq.2_Missense_Mutation_p.I3142T|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3189					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14																		---	---	---	---
LASS6	253782	broad.mit.edu	37	2	169404125	169404125	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:169404125G>A	uc002ueb.1	+	2	314	c.190G>A	c.(190-192)GCC>ACC	p.A64T	LASS6_uc002uec.1_Missense_Mutation_p.A64T	NM_203463	NP_982288	Q6ZMG9	CERS6_HUMAN	longevity assurance homolog 6	64	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			skin(1)	1																		---	---	---	---
LRP2	4036	broad.mit.edu	37	2	170026232	170026232	+	Missense_Mutation	SNP	G	A	A	rs142613924		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170026232G>A	uc002ues.2	-	60	11690	c.11477C>T	c.(11476-11478)GCG>GTG	p.A3826V		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3826	Extracellular (Potential).|LDL-receptor class A 33.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)													---	---	---	---
LRP2	4036	broad.mit.edu	37	2	170032999	170032999	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170032999C>T	uc002ues.2	-	54	10706	c.10493G>A	c.(10492-10494)CGC>CAC	p.R3498H		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3498	Extracellular (Potential).|EGF-like 13.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)													---	---	---	---
LRP2	4036	broad.mit.edu	37	2	170037982	170037982	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170037982G>A	uc002ues.2	-	52	10358	c.10145C>T	c.(10144-10146)GCA>GTA	p.A3382V		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3382	LDL-receptor class B 33.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)													---	---	---	---
LRP2	4036	broad.mit.edu	37	2	170048452	170048452	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170048452G>A	uc002ues.2	-	48	9135	c.8922C>T	c.(8920-8922)GGC>GGT	p.G2974G		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2974	LDL-receptor class A 22.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)													---	---	---	---
LRP2	4036	broad.mit.edu	37	2	170058336	170058336	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170058336G>A	uc002ues.2	-	44	8467	c.8254C>T	c.(8254-8256)CGA>TGA	p.R2752*		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2752	Extracellular (Potential).|LDL-receptor class A 17.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)													---	---	---	---
LRP2	4036	broad.mit.edu	37	2	170129448	170129448	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170129448C>T	uc002ues.2	-	15	2318	c.2105G>A	c.(2104-2106)CGC>CAC	p.R702H	LRP2_uc010zdf.1_Missense_Mutation_p.R633H	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	702	EGF-like 3.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)													---	---	---	---
KBTBD10	10324	broad.mit.edu	37	2	170344508	170344508	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170344508C>T	uc010zdh.1	+	5	328	c.270C>T	c.(268-270)GGC>GGT	p.G90G	BBS5_uc002uet.2_Silent_p.G90G|BBS5_uc010fpw.2_Silent_p.G90G	NM_152384	NP_689597	O60662	KBTBA_HUMAN	Bardet-Biedl syndrome 5	Error:Variant_position_missing_in_O60662_after_alignment					striated muscle contraction	centrosome|nucleolus|plasma membrane|pseudopodium|ruffle					0																		---	---	---	---
MYO3B	140469	broad.mit.edu	37	2	171056801	171056801	+	Intron	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171056801G>T	uc002ufy.2	+						MYO3B_uc002ufv.2_Intron|MYO3B_uc010fqb.1_Intron|MYO3B_uc002ufz.2_Intron|MYO3B_uc002ufw.2_Intron|MYO3B_uc002ufx.2_Intron|MYO3B_uc002uga.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																		---	---	---	---
MYO3B	140469	broad.mit.edu	37	2	171264268	171264268	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171264268C>A	uc002ufy.2	+	22	2707	c.2564C>A	c.(2563-2565)ACT>AAT	p.T855N	MYO3B_uc002ufv.2_Missense_Mutation_p.T842N|MYO3B_uc010fqb.1_Missense_Mutation_p.T842N|MYO3B_uc002ufz.2_Missense_Mutation_p.T855N|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	855	Myosin head-like.				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																		---	---	---	---
SP5	389058	broad.mit.edu	37	2	171573002	171573002	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171573002G>A	uc002uge.2	+	2	451	c.285G>A	c.(283-285)ACG>ACA	p.T95T	LOC440925_uc002ugd.2_5'Flank	NM_001003845	NP_001003845	Q6BEB4	SP5_HUMAN	Sp5 transcription factor	95					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
SLC25A12	8604	broad.mit.edu	37	2	172641950	172641950	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:172641950C>T	uc002uhh.2	-	18	1960	c.1871G>A	c.(1870-1872)CGC>CAC	p.R624H	SLC25A12_uc010fqh.2_Missense_Mutation_p.R517H	NM_003705	NP_003696	O75746	CMC1_HUMAN	solute carrier family 25, member 12	624					gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)		L-Aspartic Acid(DB00128)													---	---	---	---
DLX2	1746	broad.mit.edu	37	2	172966308	172966308	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:172966308C>T	uc002uhn.2	-	2	679	c.467G>A	c.(466-468)CGC>CAC	p.R156H	DLX2_uc010zdx.1_Missense_Mutation_p.R156H	NM_004405	NP_004396	Q07687	DLX2_HUMAN	distal-less homeobox 2	156	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.216)															---	---	---	---
PDK1	5163	broad.mit.edu	37	2	173429383	173429383	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:173429383G>A	uc002uhr.2	+	4	663	c.563G>A	c.(562-564)CGC>CAC	p.R188H	PDK1_uc010zdz.1_Missense_Mutation_p.R33H|PDK1_uc010zea.1_RNA|PDK1_uc002uhq.1_Missense_Mutation_p.R208H|PDK1_uc002uhs.2_Missense_Mutation_p.R188H|PDK1_uc010zeb.1_Missense_Mutation_p.R208H	NM_002610	NP_002601	Q15118	PDK1_HUMAN	pyruvate dehydrogenase kinase 1 precursor	188	Histidine kinase.				glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|small GTPase mediated signal transduction	mitochondrial matrix	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(3)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.12)											Autosomal_Dominant_Polycystic_Kidney_Disease				---	---	---	---
SP3	6670	broad.mit.edu	37	2	174774752	174774752	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:174774752C>T	uc002uig.2	-	7	2427	c.2263G>A	c.(2263-2265)GCC>ACC	p.A755T	SP3_uc002uie.2_Missense_Mutation_p.A687T|SP3_uc002uif.2_Missense_Mutation_p.A702T|SP3_uc010zel.1_Missense_Mutation_p.A752T	NM_003111	NP_003102	Q02447	SP3_HUMAN	Sp3 transcription factor isoform 1	755					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	protein binding|zinc ion binding		EWSR1/SP3(3)	soft_tissue(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.185)															---	---	---	---
GPR155	151556	broad.mit.edu	37	2	175346233	175346233	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:175346233T>C	uc002uit.2	-	3	843	c.452A>G	c.(451-453)TAC>TGC	p.Y151C	GPR155_uc002uiu.2_Missense_Mutation_p.Y151C|GPR155_uc002uiv.2_Missense_Mutation_p.Y151C|GPR155_uc010fqs.2_Missense_Mutation_p.Y151C	NM_001033045	NP_001028217	Q7Z3F1	GP155_HUMAN	G protein-coupled receptor 155 isoform 9	151	Helical; (Potential).				intracellular signal transduction|transmembrane transport	integral to membrane				ovary(1)	1																		---	---	---	---
KIAA1715	80856	broad.mit.edu	37	2	176794704	176794704	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:176794704C>T	uc002ukc.1	-	13	1471	c.1278G>A	c.(1276-1278)ACG>ACA	p.T426T	KIAA1715_uc010zer.1_Silent_p.T457T|KIAA1715_uc010fqw.1_Silent_p.T492T|KIAA1715_uc010zes.1_Silent_p.T428T|KIAA1715_uc002ukd.1_Silent_p.T303T|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	426	Cytoplasmic (Potential).					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)															---	---	---	---
HOXD13	3239	broad.mit.edu	37	2	176958345	176958345	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:176958345T>C	uc002ukf.1	+	1	814	c.727T>C	c.(727-729)TAC>CAC	p.Y243H		NM_000523	NP_000514	P35453	HXD13_HUMAN	homeobox D13	243					skeletal system development|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0526)|READ - Rectum adenocarcinoma(9;0.0678)				T	NUP98	AML*								---	---	---	---
HOXD10	3236	broad.mit.edu	37	2	176982113	176982113	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:176982113C>T	uc002ukj.2	+	1	622	c.552C>T	c.(550-552)GGC>GGT	p.G184G		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	184						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)														---	---	---	---
HOXD8	3234	broad.mit.edu	37	2	176996161	176996161	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:176996161C>A	uc002uko.2	+	2	1312	c.694C>A	c.(694-696)CAC>AAC	p.H232N	uc002ukl.1_5'Flank|uc002ukm.1_5'Flank|HOXD8_uc002ukn.2_Missense_Mutation_p.H48N|HOXD8_uc002ukp.2_Missense_Mutation_p.H231N	NM_019558	NP_062458	P13378	HXD8_HUMAN	homeobox D8	232	Homeobox.				anterior/posterior axis specification, embryo	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.195)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)														---	---	---	---
HOXD3	3232	broad.mit.edu	37	2	177036882	177036882	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:177036882G>A	uc002ukt.1	+	3	1355	c.1179G>A	c.(1177-1179)GCG>GCA	p.A393A		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	393					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)														---	---	---	---
AGPS	8540	broad.mit.edu	37	2	178346926	178346926	+	Intron	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:178346926A>T	uc002ull.2	+						AGPS_uc010zfb.1_Intron	NM_003659	NP_003650			alkyldihydroxyacetone phosphate synthase						ether lipid biosynthetic process	peroxisomal matrix|peroxisomal membrane|plasma membrane	alkylglycerone-phosphate synthase activity|flavin adenine dinucleotide binding|oxidoreductase activity			ovary(2)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0018)|Epithelial(96;0.00919)|all cancers(119;0.0358)															---	---	---	---
PDE11A	50940	broad.mit.edu	37	2	178879125	178879125	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:178879125G>A	uc002ulq.2	-	2	1293	c.975C>T	c.(973-975)TGC>TGT	p.C325C	PDE11A_uc002ulr.2_Silent_p.C75C|PDE11A_uc002ult.1_Silent_p.C75C	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	325	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)											Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				---	---	---	---
PDE11A	50940	broad.mit.edu	37	2	178936644	178936644	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:178936644G>A	uc002ulq.2	-	1	839	c.521C>T	c.(520-522)GCG>GTG	p.A174V	PDE11A_uc002ulr.2_Intron|PDE11A_uc002ult.1_Intron	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	174					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)											Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				---	---	---	---
OSBPL6	114880	broad.mit.edu	37	2	179214085	179214085	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179214085G>A	uc002ulx.2	+	12	1500	c.1122G>A	c.(1120-1122)CTG>CTA	p.L374L	OSBPL6_uc002ulw.2_Silent_p.L343L|OSBPL6_uc002uly.2_Silent_p.L399L|OSBPL6_uc010zfe.1_Silent_p.L343L|OSBPL6_uc002ulz.2_Silent_p.L374L|OSBPL6_uc002uma.2_Silent_p.L378L	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	374					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)															---	---	---	---
PRKRA	8575	broad.mit.edu	37	2	179312289	179312289	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179312289G>A	uc002umf.2	-	3	461	c.260C>T	c.(259-261)GCG>GTG	p.A87V	PRKRA_uc002umd.2_Missense_Mutation_p.A62V|PRKRA_uc002ume.2_Missense_Mutation_p.A76V|PRKRA_uc002umg.2_5'UTR	NM_003690	NP_003681	O75569	PRKRA_HUMAN	protein kinase, interferon-inducible double	87	Sufficient for self-association and interaction with TARBP2.|DRBM 1.				immune response|negative regulation of cell proliferation|production of siRNA involved in RNA interference|response to virus	perinuclear region of cytoplasm	double-stranded RNA binding|enzyme activator activity|protein homodimerization activity			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.00634)|all cancers(119;0.0265)															---	---	---	---
DFNB59	494513	broad.mit.edu	37	2	179325727	179325727	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179325727T>C	uc002umi.3	+	7	1141	c.785T>C	c.(784-786)GTC>GCC	p.V262A	DFNB59_uc002umj.3_Missense_Mutation_p.V262A	NM_001042702	NP_001036167	Q0ZLH3	PJVK_HUMAN	deafness, autosomal recessive 59	262					sensory perception of sound						0			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.0159)|all cancers(119;0.0564)															---	---	---	---
TTN	7273	broad.mit.edu	37	2	179393094	179393094	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179393094G>A	uc010zfg.1	-	310	99804	c.99580C>T	c.(99580-99582)CGA>TGA	p.R33194*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.R26889*|TTN_uc010zfi.1_Nonsense_Mutation_p.R26822*|TTN_uc010zfj.1_Nonsense_Mutation_p.R26697*|TTN_uc002umq.2_Nonsense_Mutation_p.R211*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	34121							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	179404438	179404438	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179404438G>A	uc010zfg.1	-	301	90874	c.90650C>T	c.(90649-90651)GCT>GTT	p.A30217V	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A23912V|TTN_uc010zfi.1_Missense_Mutation_p.A23845V|TTN_uc010zfj.1_Missense_Mutation_p.A23720V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31144							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	179412259	179412259	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179412259C>T	uc010zfg.1	-	288	86614	c.86390G>A	c.(86389-86391)CGC>CAC	p.R28797H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R22492H|TTN_uc010zfi.1_Missense_Mutation_p.R22425H|TTN_uc010zfj.1_Missense_Mutation_p.R22300H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29724							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	179417232	179417232	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179417232T>C	uc010zfg.1	-	284	82915	c.82691A>G	c.(82690-82692)GAC>GGC	p.D27564G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D21259G|TTN_uc010zfi.1_Missense_Mutation_p.D21192G|TTN_uc010zfj.1_Missense_Mutation_p.D21067G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28491							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	179417976	179417976	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179417976G>A	uc010zfg.1	-	284	82171	c.81947C>T	c.(81946-81948)GCC>GTC	p.A27316V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A21011V|TTN_uc010zfi.1_Missense_Mutation_p.A20944V|TTN_uc010zfj.1_Missense_Mutation_p.A20819V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28243							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	179422671	179422671	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179422671C>A	uc010zfg.1	-	277	79930	c.79706G>T	c.(79705-79707)AGG>ATG	p.R26569M	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R20264M|TTN_uc010zfi.1_Missense_Mutation_p.R20197M|TTN_uc010zfj.1_Missense_Mutation_p.R20072M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27496							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	179444834	179444834	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179444834G>A	uc010zfg.1	-	267	59700	c.59476C>T	c.(59476-59478)CGT>TGT	p.R19826C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R13521C|TTN_uc010zfi.1_Missense_Mutation_p.R13454C|TTN_uc010zfj.1_Missense_Mutation_p.R13329C|uc002umv.1_3'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20753							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	179498195	179498195	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179498195G>A	uc010zfg.1	-	181	35411	c.35187C>T	c.(35185-35187)GGC>GGT	p.G11729G	TTN_uc010zfh.1_Silent_p.G5424G|TTN_uc010zfi.1_Silent_p.G5357G|TTN_uc010zfj.1_Silent_p.G5232G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12656							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	179530112	179530112	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179530112C>T	uc010zfk.1	-	10	1021	c.473G>A	c.(472-474)CGT>CAT	p.R158H	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron			Q8WZ42	TITIN_HUMAN	SubName: Full=Titin; Flags: Fragment;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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	179549074	179549074	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179549074G>A	uc010zfg.1	-	129	29197	c.28973C>T	c.(28972-28974)GCG>GTG	p.A9658V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.A6319V|TTN_uc010fre.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10585							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	179575896	179575896	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179575896G>A	uc010zfg.1	-	94	24559	c.24335C>T	c.(24334-24336)GCC>GTC	p.A8112V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.A4773V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9039							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	179582535	179582535	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179582535G>A	uc010zfg.1	-	84	21558	c.21334C>T	c.(21334-21336)CGC>TGC	p.R7112C	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.R3773C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8039							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	179597674	179597674	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179597674C>T	uc010zfg.1	-	52	12721	c.12497G>A	c.(12496-12498)GGC>GAC	p.G4166D	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.G827D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5093							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	179604723	179604723	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179604723C>A	uc010zfh.1	-	46	12948	c.12724G>T	c.(12724-12726)GGT>TGT	p.G4242C	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.G4175C|TTN_uc010zfj.1_Missense_Mutation_p.G4050C|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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	179633400	179633400	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179633400C>A	uc010zfg.1	-	38	9387	c.9163G>T	c.(9163-9165)GCT>TCT	p.A3055S	TTN_uc010zfh.1_Missense_Mutation_p.A3009S|TTN_uc010zfi.1_Missense_Mutation_p.A3009S|TTN_uc010zfj.1_Missense_Mutation_p.A3009S|TTN_uc002unb.2_Missense_Mutation_p.A3055S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	3055							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	179640598	179640598	+	Missense_Mutation	SNP	C	T	T	rs144135510	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179640598C>T	uc010zfg.1	-	28	6217	c.5993G>A	c.(5992-5994)CGC>CAC	p.R1998H	TTN_uc010zfh.1_Missense_Mutation_p.R1952H|TTN_uc010zfi.1_Missense_Mutation_p.R1952H|TTN_uc010zfj.1_Missense_Mutation_p.R1952H|TTN_uc002unb.2_Missense_Mutation_p.R1998H|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1998							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	179648867	179648867	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179648867A>G	uc010zfg.1	-	16	2929	c.2705T>C	c.(2704-2706)GTA>GCA	p.V902A	TTN_uc010zfh.1_Missense_Mutation_p.V856A|TTN_uc010zfi.1_Missense_Mutation_p.V856A|TTN_uc010zfj.1_Missense_Mutation_p.V856A|TTN_uc002unb.2_Missense_Mutation_p.V902A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	902							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	179648990	179648990	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179648990G>A	uc010zfg.1	-	16	2806	c.2582C>T	c.(2581-2583)GCT>GTT	p.A861V	TTN_uc010zfh.1_Missense_Mutation_p.A815V|TTN_uc010zfi.1_Missense_Mutation_p.A815V|TTN_uc010zfj.1_Missense_Mutation_p.A815V|TTN_uc002unb.2_Missense_Mutation_p.A861V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	861							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	179665162	179665162	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179665162G>A	uc002und.2	-	4	768	c.543C>T	c.(541-543)AGC>AGT	p.S181S	TTN_uc010zfg.1_Silent_p.S181S|TTN_uc010zfh.1_Silent_p.S181S|TTN_uc010zfi.1_Silent_p.S181S|TTN_uc010zfj.1_Silent_p.S181S|TTN_uc002unb.2_Silent_p.S181S			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	181							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	179666955	179666955	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179666955C>T	uc002und.2	-	3	430	c.205G>A	c.(205-207)GCC>ACC	p.A69T	TTN_uc010zfg.1_Missense_Mutation_p.A69T|TTN_uc010zfh.1_Missense_Mutation_p.A69T|TTN_uc010zfi.1_Missense_Mutation_p.A69T|TTN_uc010zfj.1_Missense_Mutation_p.A69T|TTN_uc002unb.2_Missense_Mutation_p.A69T			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	69							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)															---	---	---	---
CCDC141	285025	broad.mit.edu	37	2	179732869	179732869	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179732869C>T	uc002unf.1	-	6	790	c.733G>A	c.(733-735)GCC>ACC	p.A245T		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	245							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)															---	---	---	---
SESTD1	91404	broad.mit.edu	37	2	179974726	179974726	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179974726T>C	uc002uni.3	-	18	2141	c.1991A>G	c.(1990-1992)GAC>GGC	p.D664G	SESTD1_uc002unh.3_Missense_Mutation_p.D167G	NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	664					regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)															---	---	---	---
SESTD1	91404	broad.mit.edu	37	2	180047900	180047900	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:180047900C>T	uc002uni.3	-	3	221	c.71G>A	c.(70-72)CGG>CAG	p.R24Q		NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	24	CRAL-TRIO.				regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)															---	---	---	---
ZNF385B	151126	broad.mit.edu	37	2	180310271	180310271	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:180310271C>T	uc002unn.3	-						ZNF385B_uc002unj.2_Intron|ZNF385B_uc002unk.2_Intron|ZNF385B_uc002unl.2_Intron|ZNF385B_uc002unm.2_Intron	NM_152520	NP_689733			zinc finger protein 385B isoform 1							nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)															---	---	---	---
CWC22	57703	broad.mit.edu	37	2	180851449	180851449	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:180851449C>T	uc010frh.1	-	4	479	c.179G>A	c.(178-180)CGT>CAT	p.R60H	CWC22_uc002unp.2_Missense_Mutation_p.R60H	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	60	Arg-rich.					catalytic step 2 spliceosome	protein binding|RNA binding				0																		---	---	---	---
ITGA4	3676	broad.mit.edu	37	2	182399534	182399534	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:182399534C>T	uc002unu.2	+						ITGA4_uc002unv.2_Intron	NM_000885	NP_000876			integrin alpha 4 precursor						blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)													---	---	---	---
NEUROD1	4760	broad.mit.edu	37	2	182542954	182542954	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:182542954C>T	uc002uof.2	-	2	870	c.634G>A	c.(634-636)GCT>ACT	p.A212T	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	212					amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)															---	---	---	---
SSFA2	6744	broad.mit.edu	37	2	182786932	182786932	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:182786932G>A	uc002uoi.2	+	16	3790	c.3468G>A	c.(3466-3468)ACG>ACA	p.T1156T	SSFA2_uc002uoh.2_Silent_p.T1156T|SSFA2_uc002uoj.2_Silent_p.T1134T|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Silent_p.T981T|SSFA2_uc002uol.2_Silent_p.T1003T|SSFA2_uc002uom.2_Silent_p.T620T	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	1156						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)															---	---	---	---
FRZB	2487	broad.mit.edu	37	2	183730941	183730941	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:183730941G>A	uc002upa.1	-	1	558	c.340C>T	c.(340-342)CGG>TGG	p.R114W		NM_001463	NP_001454	Q92765	SFRP3_HUMAN	frizzled-related protein precursor	114	FZ.				brain development|cochlea morphogenesis|gonad development|mammary gland involution|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of hepatocyte differentiation|positive regulation of apoptosis|positive regulation of fat cell differentiation|skeletal system development|vasculature development|Wnt receptor signaling pathway	cytoplasm|extracellular space|membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.109)|Epithelial(96;0.231)															---	---	---	---
ZNF804A	91752	broad.mit.edu	37	2	185800759	185800759	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:185800759C>T	uc002uph.2	+	4	1230	c.636C>T	c.(634-636)ATC>ATT	p.I212I		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	212						intracellular	zinc ion binding	p.I212I(1)		ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11																		---	---	---	---
ZSWIM2	151112	broad.mit.edu	37	2	187694444	187694444	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:187694444T>C	uc002upu.1	-							NM_182521	NP_872327			zinc finger, SWIM domain containing 2						apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)															---	---	---	---
CALCRL	10203	broad.mit.edu	37	2	188247920	188247920	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:188247920T>C	uc002upv.3	-	5	712	c.164A>G	c.(163-165)GAC>GGC	p.D55G	CALCRL_uc010frt.2_Missense_Mutation_p.D55G	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor	55	Extracellular (Potential).					integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)															---	---	---	---
COL3A1	1281	broad.mit.edu	37	2	189862417	189862417	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:189862417C>A	uc002uqj.1	+							NM_000090	NP_000081			collagen type III alpha 1 preproprotein						axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)													---	---	---	---
SLC40A1	30061	broad.mit.edu	37	2	190445148	190445148	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:190445148G>A	uc002uqp.3	-	1	390	c.39C>T	c.(37-39)TGC>TGT	p.C13C	SLC40A1_uc002uqr.1_RNA|SLC40A1_uc002uqs.1_RNA|SLC40A1_uc002uqq.2_Silent_p.C13C|SLC40A1_uc010zfx.1_RNA	NM_014585	NP_055400	Q9NP59	S40A1_HUMAN	solute carrier family 40 (iron-regulated	13	Helical; (Potential).				anatomical structure morphogenesis|cellular iron ion homeostasis	cytoplasm|integral to plasma membrane	iron ion transmembrane transporter activity|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000917)|Epithelial(96;0.014)|all cancers(119;0.0491)															---	---	---	---
ANKAR	150709	broad.mit.edu	37	2	190593148	190593148	+	Splice_Site	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:190593148T>A	uc002uqw.1	+	13	2818	c.2818_splice	c.e13+2	p.G940_splice	ANKAR_uc002uqu.2_Splice_Site|ANKAR_uc002uqx.1_Splice_Site|ANKAR_uc002uqy.1_Splice_Site_p.G107_splice	NM_144708	NP_653309			ankyrin and armadillo repeat containing							integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)															---	---	---	---
PMS1	5378	broad.mit.edu	37	2	190660570	190660570	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:190660570G>A	uc002urh.3	+	3	737	c.208G>A	c.(208-210)GCA>ACA	p.A70T	PMS1_uc010zga.1_Missense_Mutation_p.A70T|PMS1_uc010zgb.1_Intron|PMS1_uc002urk.3_Missense_Mutation_p.A70T|PMS1_uc002uri.3_Missense_Mutation_p.A70T|PMS1_uc010zgc.1_5'UTR|PMS1_uc010zgd.1_Intron|PMS1_uc002urj.2_RNA|PMS1_uc010fry.1_Missense_Mutation_p.A70T|PMS1_uc010frz.2_Missense_Mutation_p.A70T|PMS1_uc010zfz.1_Missense_Mutation_p.A70T	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	70					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)					Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					---	---	---	---
MFSD6	54842	broad.mit.edu	37	2	191301521	191301521	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:191301521A>G	uc002urz.2	+	3	1090	c.766A>G	c.(766-768)ACC>GCC	p.T256A		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	256					transmembrane transport	integral to membrane				ovary(2)	2																		---	---	---	---
MFSD6	54842	broad.mit.edu	37	2	191301738	191301738	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:191301738G>A	uc002urz.2	+	3	1307	c.983G>A	c.(982-984)CGC>CAC	p.R328H		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	328					transmembrane transport	integral to membrane				ovary(2)	2																		---	---	---	---
STAT1	6772	broad.mit.edu	37	2	191851675	191851675	+	Splice_Site	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:191851675T>G	uc002usj.2	-	14	1516	c.1128_splice	c.e14-1	p.G376_splice	STAT1_uc010fse.1_Splice_Site_p.G376_splice|STAT1_uc002usk.2_Splice_Site_p.G376_splice|STAT1_uc002usl.2_Splice_Site_p.G378_splice|STAT1_uc010fsf.1_Splice_Site_p.G188_splice	NM_007315	NP_009330			signal transducer and activator of transcription						activation of caspase activity|I-kappaB kinase/NF-kappaB cascade|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway|tyrosine phosphorylation of STAT protein	cytosol|nucleolus|nucleoplasm	calcium ion binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity|signal transducer activity			lung(3)|breast(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)		Fludarabine(DB01073)													---	---	---	---
DNAH7	56171	broad.mit.edu	37	2	196673563	196673563	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:196673563C>T	uc002utj.3	-	53	10027	c.9926G>A	c.(9925-9927)GGC>GAC	p.G3309D		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3309					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	196718175	196718175	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:196718175G>A	uc002utj.3	-	46	8774	c.8673C>T	c.(8671-8673)AGC>AGT	p.S2891S		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2891					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	196737201	196737201	+	Intron	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:196737201A>T	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	196771409	196771409	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:196771409G>A	uc002utj.3	-	27	4410	c.4309C>T	c.(4309-4311)CGA>TGA	p.R1437*		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1437	AAA 1 (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	196786925	196786925	+	Intron	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:196786925G>T	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																		---	---	---	---
STK17B	9262	broad.mit.edu	37	2	197021383	197021383	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:197021383A>G	uc002utk.2	-						STK17B_uc010fsh.2_Intron	NM_004226	NP_004217			serine/threonine kinase 17B						apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)															---	---	---	---
CCDC150	284992	broad.mit.edu	37	2	197521851	197521851	+	Silent	SNP	G	A	A	rs146046280	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:197521851G>A	uc002utp.1	+	4	702	c.567G>A	c.(565-567)TCG>TCA	p.S189S	CCDC150_uc002uto.1_Silent_p.S189S|CCDC150_uc010zgq.1_RNA|CCDC150_uc010zgr.1_Intron|CCDC150_uc010zgs.1_Intron	NM_001080539	NP_001074008	Q8NCX0	CC150_HUMAN	coiled-coil domain containing 150	189	Potential.										0																		---	---	---	---
PGAP1	80055	broad.mit.edu	37	2	197763060	197763060	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:197763060C>A	uc002utw.2	-	6	955	c.841G>T	c.(841-843)GAC>TAC	p.D281Y	PGAP1_uc002utx.2_Missense_Mutation_p.D107Y|PGAP1_uc002uty.1_Missense_Mutation_p.D281Y|PGAP1_uc010zgv.1_RNA|PGAP1_uc010fsj.2_Missense_Mutation_p.D107Y	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	281	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4																		---	---	---	---
ANKRD44	91526	broad.mit.edu	37	2	197873660	197873660	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:197873660G>A	uc002uua.1	-						ANKRD44_uc002utz.3_Intron	NM_153697	NP_710181			ankyrin repeat domain 44								protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)															---	---	---	---
ANKRD44	91526	broad.mit.edu	37	2	197987425	197987425	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:197987425G>T	uc002uuc.2	-	7	809	c.642C>A	c.(640-642)GCC>GCA	p.A214A	ANKRD44_uc002utz.3_5'UTR|ANKRD44_uc002uua.1_Silent_p.A189A|ANKRD44_uc002uub.2_Silent_p.A214A|ANKRD44_uc010zgw.1_Silent_p.A142A	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	214	ANK 7.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)															---	---	---	---
BOLL	66037	broad.mit.edu	37	2	198650700	198650700	+	5'Flank	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198650700T>C	uc002uus.2	-						BOLL_uc002uur.2_5'Flank|BOLL_uc002uut.2_Intron|BOLL_uc010zha.1_Intron|BOLL_uc002uuu.1_5'Flank	NM_033030	NP_149019			boule isoform 2						cell differentiation|meiosis|multicellular organismal development|positive regulation of translational initiation|spermatogenesis	cytoplasm	nucleotide binding|protein binding|RNA binding|translation activator activity			ovary(2)	2																		---	---	---	---
PLCL1	5334	broad.mit.edu	37	2	198950276	198950276	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198950276G>A	uc010fsp.2	+	2	2326	c.2035G>A	c.(2035-2037)GAC>AAC	p.D679N	PLCL1_uc002uuv.3_Missense_Mutation_p.D600N	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	679	PI-PLC Y-box.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)													---	---	---	---
PLCL1	5334	broad.mit.edu	37	2	199011601	199011601	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:199011601C>A	uc010fsp.2	+	6	3494	c.3203C>A	c.(3202-3204)CCC>CAC	p.P1068H	PLCL1_uc002uuv.3_Missense_Mutation_p.P989H	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	1068					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)													---	---	---	---
SATB2	23314	broad.mit.edu	37	2	200298074	200298074	+	Silent	SNP	C	T	T	rs140116634		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:200298074C>T	uc002uuy.1	-	3	1150	c.333G>A	c.(331-333)GCG>GCA	p.A111A	SATB2_uc010fsq.1_Silent_p.A111A|SATB2_uc002uuz.1_Silent_p.A111A|SATB2_uc002uva.1_Silent_p.A111A	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	111						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1																		---	---	---	---
KCTD18	130535	broad.mit.edu	37	2	201369584	201369584	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201369584C>T	uc002uvs.2	-	3	776	c.259G>A	c.(259-261)GCC>ACC	p.A87T	KCTD18_uc002uvt.2_Missense_Mutation_p.A87T|KCTD18_uc002uvu.1_Missense_Mutation_p.A87T	NM_152387	NP_689600	Q6PI47	KCD18_HUMAN	potassium channel tetramerization domain	87						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1																		---	---	---	---
SGOL2	151246	broad.mit.edu	37	2	201437568	201437568	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201437568A>G	uc002uvw.2	+	7	2612	c.2499A>G	c.(2497-2499)GTA>GTG	p.V833V	SGOL2_uc010zhd.1_Silent_p.V833V|SGOL2_uc010zhe.1_Silent_p.V833V	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	833					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4																		---	---	---	---
CLK1	1195	broad.mit.edu	37	2	201721521	201721521	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201721521C>T	uc002uwe.2	-	9	1122	c.941G>A	c.(940-942)CGC>CAC	p.R314H	CLK1_uc002uwd.2_Missense_Mutation_p.R137H|CLK1_uc010zhi.1_Missense_Mutation_p.R356H|CLK1_uc002uwf.2_Missense_Mutation_p.R88H|CLK1_uc002uwg.2_Missense_Mutation_p.R163H|CLK1_uc010fsv.2_RNA	NM_004071	NP_004062	P49759	CLK1_HUMAN	CDC-like kinase 1 isoform 1	314	Protein kinase.				cell proliferation	nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			pancreas(2)	2																		---	---	---	---
SUMO1	7341	broad.mit.edu	37	2	203079075	203079075	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:203079075C>T	uc002uyz.1	-						SUMO1_uc002uza.1_Intron	NM_001005781	NP_001005781			SMT3 suppressor of mif two 3 homolog 1 isoform a						DNA repair|interferon-gamma-mediated signaling pathway|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|palate development|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein complex assembly|protein sumoylation|regulation of interferon-gamma-mediated signaling pathway|regulation of protein localization	cytoplasm|nuclear membrane|nuclear pore|nuclear speck	ubiquitin protein ligase binding				0																		---	---	---	---
FAM117B	150864	broad.mit.edu	37	2	203622048	203622048	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:203622048A>G	uc010zhx.1	+	6	1227	c.1217A>G	c.(1216-1218)AAC>AGC	p.N406S		NM_173511	NP_775782	Q6P1L5	F117B_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	406										ovary(1)	1																		---	---	---	---
RAPH1	65059	broad.mit.edu	37	2	204354353	204354353	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:204354353C>T	uc002vad.2	-	4	911	c.686G>A	c.(685-687)CGC>CAC	p.R229H	RAPH1_uc002vae.2_Missense_Mutation_p.R229H|RAPH1_uc002vaf.2_Missense_Mutation_p.R229H	NM_213589	NP_998754	Q70E73	RAPH1_HUMAN	Ras association and pleckstrin homology domains	229					cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				ovary(3)|breast(3)|central_nervous_system(2)|lung(1)|skin(1)	10																		---	---	---	---
PARD3B	117583	broad.mit.edu	37	2	205986630	205986630	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:205986630C>A	uc002var.1	+	8	1329	c.1122C>A	c.(1120-1122)GGC>GGA	p.G374G	PARD3B_uc010fub.1_Silent_p.G374G|PARD3B_uc002vao.1_Silent_p.G374G|PARD3B_uc002vap.1_Silent_p.G374G|PARD3B_uc002vaq.1_Silent_p.G374G	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	374					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)														---	---	---	---
NRP2	8828	broad.mit.edu	37	2	206608199	206608199	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:206608199C>T	uc002vaw.2	+	9	2355	c.1564C>T	c.(1564-1566)CGC>TGC	p.R522C	NRP2_uc002vat.2_Missense_Mutation_p.R522C|NRP2_uc002vau.2_Missense_Mutation_p.R522C|NRP2_uc002vav.2_Missense_Mutation_p.R522C|NRP2_uc002vax.2_Missense_Mutation_p.R522C|NRP2_uc002vay.2_Missense_Mutation_p.R522C|NRP2_uc010fud.2_Missense_Mutation_p.R522C	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	522	Extracellular (Potential).|F5/8 type C 2.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4																		---	---	---	---
EEF1B2	1933	broad.mit.edu	37	2	207026140	207026140	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207026140G>A	uc002vbf.1	+	4	432	c.274G>A	c.(274-276)GCT>ACT	p.A92T	NDUFS1_uc010ziq.1_5'Flank|NDUFS1_uc002vbe.2_5'Flank|NDUFS1_uc010zir.1_5'Flank|NDUFS1_uc010zis.1_5'Flank|NDUFS1_uc010zit.1_5'Flank|NDUFS1_uc010ziu.1_5'Flank|EEF1B2_uc002vbg.1_Missense_Mutation_p.A92T|EEF1B2_uc002vbh.1_Missense_Mutation_p.A92T|SNORD51_uc002vbi.1_5'Flank|SNORA41_uc002vbj.2_5'Flank	NM_001037663	NP_001032752	P24534	EF1B_HUMAN	eukaryotic translation elongation factor 1 beta	92						cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0																		---	---	---	---
ZDBF2	57683	broad.mit.edu	37	2	207170556	207170556	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207170556G>A	uc002vbp.2	+	5	1554	c.1304G>A	c.(1303-1305)CGT>CAT	p.R435H		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	435							nucleic acid binding|zinc ion binding			ovary(3)	3																		---	---	---	---
ZDBF2	57683	broad.mit.edu	37	2	207175899	207175899	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207175899G>A	uc002vbp.2	+	5	6897	c.6647G>A	c.(6646-6648)CGG>CAG	p.R2216Q		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	2216							nucleic acid binding|zinc ion binding			ovary(3)	3																		---	---	---	---
ADAM23	8745	broad.mit.edu	37	2	207406814	207406814	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207406814C>T	uc002vbq.2	+	5	835	c.612C>T	c.(610-612)GGC>GGT	p.G204G	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	204					cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)														---	---	---	---
ADAM23	8745	broad.mit.edu	37	2	207437927	207437927	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207437927G>A	uc002vbq.2	+						ADAM23_uc010ziv.1_Intron	NM_003812	NP_003803			ADAM metallopeptidase domain 23 preproprotein						cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)														---	---	---	---
ADAM23	8745	broad.mit.edu	37	2	207474734	207474734	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207474734G>A	uc002vbq.2	+						ADAM23_uc010ziv.1_Intron	NM_003812	NP_003803			ADAM metallopeptidase domain 23 preproprotein						cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)														---	---	---	---
MDH1B	130752	broad.mit.edu	37	2	207619807	207619807	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207619807A>T	uc002vbs.2	-	5	891	c.836T>A	c.(835-837)ATT>AAT	p.I279N	MDH1B_uc010ziw.1_Intron|MDH1B_uc010fui.2_Missense_Mutation_p.I279N|MDH1B_uc010fuj.2_Missense_Mutation_p.I181N|MDH1B_uc002vbt.2_Intron	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)	279					carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)														---	---	---	---
CRYGA	1418	broad.mit.edu	37	2	209025726	209025726	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:209025726G>A	uc002vcq.3	-	3	344	c.327C>T	c.(325-327)TGC>TGT	p.C109C		NM_014617	NP_055432	P11844	CRGA_HUMAN	crystallin, gamma A	109	Beta/gamma crystallin 'Greek key' 3.				visual perception		structural constituent of eye lens				0				Epithelial(149;0.067)|LUSC - Lung squamous cell carcinoma(261;0.0708)|Lung(261;0.135)														---	---	---	---
PIKFYVE	200576	broad.mit.edu	37	2	209200506	209200506	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:209200506G>A	uc002vcz.2	+						PIKFYVE_uc002vcy.1_Intron	NM_015040	NP_055855			phosphatidylinositol-3-phosphate 5-kinase type						cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10																		---	---	---	---
LANCL1	10314	broad.mit.edu	37	2	211302452	211302452	+	Missense_Mutation	SNP	C	T	T	rs149749262	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:211302452C>T	uc010zjh.1	-	7	910	c.835G>A	c.(835-837)GCC>ACC	p.A279T	LANCL1_uc002ved.2_Missense_Mutation_p.A279T|LANCL1_uc010fuq.2_Missense_Mutation_p.A279T	NM_001136574	NP_001130046	O43813	LANC1_HUMAN	lanthionine synthetase C-like protein 1	279						cytoplasm|integral to plasma membrane|microtubule cytoskeleton|nucleus	catalytic activity|G-protein coupled receptor activity|glutathione binding|low-density lipoprotein particle receptor binding|SH3 domain binding|zinc ion binding				0				Epithelial(149;0.00562)|Lung(261;0.0468)|LUSC - Lung squamous cell carcinoma(261;0.0495)|all cancers(144;0.0569)														---	---	---	---
CPS1	1373	broad.mit.edu	37	2	211507258	211507258	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:211507258C>T	uc002vee.3	+	25	3142	c.3010C>T	c.(3010-3012)CGT>TGT	p.R1004C	CPS1_uc010fur.2_Missense_Mutation_p.R1010C|CPS1_uc010fus.2_Missense_Mutation_p.R553C	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1004					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)														---	---	---	---
ERBB4	2066	broad.mit.edu	37	2	212522697	212522697	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:212522697C>T	uc002veg.1	-						ERBB4_uc002veh.1_Intron|ERBB4_uc010zji.1_Missense_Mutation_p.D632N|ERBB4_uc010zjj.1_Missense_Mutation_p.D632N|ERBB4_uc010fut.1_Intron	NM_005235	NP_005226			v-erb-a erythroblastic leukemia viral oncogene						cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)											TSP Lung(8;0.080)			---	---	---	---
FN1	2335	broad.mit.edu	37	2	216269111	216269111	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:216269111C>T	uc002vfa.2	-	20	3519	c.3253_splice	c.e20+1	p.L1085_splice	FN1_uc002vfb.2_Splice_Site_p.L1085_splice|FN1_uc002vfc.2_Splice_Site_p.L1085_splice|FN1_uc002vfd.2_Splice_Site_p.L1085_splice|FN1_uc002vfe.2_Splice_Site_p.L1085_splice|FN1_uc002vff.2_Splice_Site_p.L1085_splice|FN1_uc002vfg.2_Splice_Site_p.L1085_splice|FN1_uc002vfh.2_Splice_Site_p.L1085_splice|FN1_uc002vfi.2_Splice_Site_p.L1085_splice|FN1_uc002vfj.2_Splice_Site_p.L1085_splice	NM_212482	NP_997647			fibronectin 1 isoform 1 preproprotein						acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
FN1	2335	broad.mit.edu	37	2	216298122	216298122	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:216298122G>A	uc002vfa.2	-	3	606	c.340C>T	c.(340-342)CGT>TGT	p.R114C	FN1_uc002vfb.2_Missense_Mutation_p.R114C|FN1_uc002vfc.2_Missense_Mutation_p.R114C|FN1_uc002vfd.2_Missense_Mutation_p.R114C|FN1_uc002vfe.2_Missense_Mutation_p.R114C|FN1_uc002vff.2_Missense_Mutation_p.R114C|FN1_uc002vfg.2_Missense_Mutation_p.R114C|FN1_uc002vfh.2_Missense_Mutation_p.R114C|FN1_uc002vfi.2_Missense_Mutation_p.R114C|FN1_uc002vfj.2_Missense_Mutation_p.R114C|FN1_uc002vfl.2_Missense_Mutation_p.R114C	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	114	Fibronectin type-I 2.|Fibrin- and heparin-binding 1.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
SMARCAL1	50485	broad.mit.edu	37	2	217285159	217285159	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:217285159C>T	uc002vgc.3	+	5	1330	c.1000C>T	c.(1000-1002)CGA>TGA	p.R334*	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Nonsense_Mutation_p.R334*|SMARCAL1_uc010fvg.2_Nonsense_Mutation_p.R334*	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	334					chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)										Schimke_Immuno-Osseous_Dysplasia				---	---	---	---
TNS1	7145	broad.mit.edu	37	2	218682847	218682847	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:218682847C>T	uc002vgt.2	-	24	4294	c.3896G>A	c.(3895-3897)AGC>AAC	p.S1299N	TNS1_uc002vgr.2_Missense_Mutation_p.S1286N|TNS1_uc002vgs.2_Missense_Mutation_p.S1278N|TNS1_uc010zjv.1_Missense_Mutation_p.S1278N	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1299						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)														---	---	---	---
TNS1	7145	broad.mit.edu	37	2	218712290	218712290	+	Silent	SNP	G	T	T	rs61746994	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:218712290G>T	uc002vgt.2	-	17	2973	c.2575C>A	c.(2575-2577)CGG>AGG	p.R859R	TNS1_uc002vgr.2_Silent_p.R859R|TNS1_uc002vgs.2_Silent_p.R859R|TNS1_uc010zjv.1_Silent_p.R859R|TNS1_uc010fvj.1_Silent_p.R927R|TNS1_uc010fvk.1_Silent_p.R984R|TNS1_uc010fvi.1_Silent_p.R546R	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	859						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)														---	---	---	---
TNS1	7145	broad.mit.edu	37	2	218751283	218751283	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:218751283C>T	uc002vgt.2	-	11	976	c.578G>A	c.(577-579)GGC>GAC	p.G193D	TNS1_uc002vgr.2_Missense_Mutation_p.G193D|TNS1_uc002vgs.2_Missense_Mutation_p.G193D|TNS1_uc010zjv.1_Missense_Mutation_p.G193D|TNS1_uc010fvj.1_Missense_Mutation_p.G261D|TNS1_uc010fvk.1_Missense_Mutation_p.G318D|TNS1_uc002vgu.3_Missense_Mutation_p.G224D|TNS1_uc010fvi.1_5'Flank	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	193	C2 tensin-type.					cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)												OREG0015188	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
USP37	57695	broad.mit.edu	37	2	219411739	219411739	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219411739C>A	uc002vie.2	-	7	958	c.505G>T	c.(505-507)GGA>TGA	p.G169*	USP37_uc010fvs.1_Nonsense_Mutation_p.G169*|USP37_uc010zkf.1_Nonsense_Mutation_p.G169*|USP37_uc002vif.2_Nonsense_Mutation_p.G169*|USP37_uc002vig.2_Nonsense_Mutation_p.G97*|USP37_uc010zkg.1_Nonsense_Mutation_p.G169*	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	169					ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)														---	---	---	---
ZNF142	7701	broad.mit.edu	37	2	219503385	219503385	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219503385G>A	uc002vin.2	-	10	5177	c.4741C>T	c.(4741-4743)CGC>TGC	p.R1581C	ZNF142_uc002vil.2_Missense_Mutation_p.R1542C|ZNF142_uc010fvt.2_Missense_Mutation_p.R1418C|ZNF142_uc002vim.2_Missense_Mutation_p.R1418C	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	1581	C2H2-type 29.				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)														---	---	---	---
RNF25	64320	broad.mit.edu	37	2	219528910	219528910	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219528910C>T	uc002vit.2	-	10	1238	c.1150G>A	c.(1150-1152)GAC>AAC	p.D384N	RNF25_uc010fvw.2_Missense_Mutation_p.D272N	NM_022453	NP_071898	Q96BH1	RNF25_HUMAN	ring finger protein 25	384					positive regulation of NF-kappaB transcription factor activity	cytosol|nucleus	NF-kappaB binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)														---	---	---	---
STK36	27148	broad.mit.edu	37	2	219540121	219540121	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219540121G>A	uc002viu.2	+	5	625	c.359G>A	c.(358-360)CGC>CAC	p.R120H	STK36_uc002viv.2_Missense_Mutation_p.R120H	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	120	Protein kinase.				cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding	p.R120H(1)		ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)														---	---	---	---
CCDC108	255101	broad.mit.edu	37	2	219892449	219892449	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219892449C>T	uc002vjl.1	-	13	2218	c.2134G>A	c.(2134-2136)GCC>ACC	p.A712T	CCDC108_uc010fwa.1_Missense_Mutation_p.A155T|CCDC108_uc010zkp.1_Missense_Mutation_p.A701T|CCDC108_uc010zkq.1_Missense_Mutation_p.A647T	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	712						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)														---	---	---	---
CCDC108	255101	broad.mit.edu	37	2	219895460	219895460	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219895460G>A	uc002vjl.1	-	9	1196	c.1112C>T	c.(1111-1113)GCT>GTT	p.A371V	CCDC108_uc010fwa.1_5'Flank|CCDC108_uc010zkp.1_Missense_Mutation_p.A360V|CCDC108_uc010zkq.1_Missense_Mutation_p.A306V	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	371						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)														---	---	---	---
IHH	3549	broad.mit.edu	37	2	219920499	219920499	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219920499G>A	uc002vjo.1	-	3	666	c.666C>T	c.(664-666)GCC>GCT	p.A222A		NM_002181	NP_002172	Q14623	IHH_HUMAN	Indian hedgehog homolog precursor	222					cell-cell signaling|intein-mediated protein splicing|proteolysis	extracellular space|plasma membrane	cholesterol binding|patched binding|peptidase activity			breast(1)	1		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000188)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)														---	---	---	---
DNAJB2	3300	broad.mit.edu	37	2	220145307	220145307	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220145307C>T	uc002vkx.1	+	3	310	c.73C>T	c.(73-75)CGC>TGC	p.R25C	DNAJB2_uc010zla.1_Missense_Mutation_p.R25C|DNAJB2_uc002vkw.1_Missense_Mutation_p.R25C|DNAJB2_uc002vky.2_5'Flank|DNAJB2_uc010zlb.1_5'Flank	NM_006736	NP_006727	P25686	DNJB2_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 2	25	J.				ER-associated protein catabolic process|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of inclusion body assembly|negative regulation of protein deubiquitination|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein folding|response to unfolded protein	inclusion body	heat shock protein binding|Hsp70 protein binding|polyubiquitin binding|proteasome binding|protein binding|unfolded protein binding				0		Renal(207;0.0474)		Epithelial(149;1.97e-06)|all cancers(144;0.00028)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)														---	---	---	---
OBSL1	23363	broad.mit.edu	37	2	220432875	220432875	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220432875C>T	uc010fwk.2	-	2	1241	c.1184G>A	c.(1183-1185)CGG>CAG	p.R395Q	OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Missense_Mutation_p.R395Q|OBSL1_uc002vmj.2_5'UTR	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	395	Ig-like 4.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)												OREG0003988	type=REGULATORY REGION|Gene=OBSL1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	---	---	---	---
EPHA4	2043	broad.mit.edu	37	2	222301233	222301233	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:222301233A>G	uc002vmq.2	-	13	2274	c.2232T>C	c.(2230-2232)CAT>CAC	p.H744H	EPHA4_uc002vmr.2_Silent_p.H744H|EPHA4_uc010zlm.1_Silent_p.H685H|EPHA4_uc010zln.1_Silent_p.H744H	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	744	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)														---	---	---	---
ACSL3	2181	broad.mit.edu	37	2	223795440	223795440	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:223795440G>C	uc002vni.2	+	14	2093	c.1642G>C	c.(1642-1644)GCT>CCT	p.A548P	ACSL3_uc002vnj.2_Missense_Mutation_p.A548P	NM_004457	NP_004448	O95573	ACSL3_HUMAN	acyl-CoA synthetase long-chain family member 3	548	Cytoplasmic (Potential).				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								---	---	---	---
SCG2	7857	broad.mit.edu	37	2	224463687	224463687	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:224463687A>G	uc002vnm.2	-	2	447	c.314T>C	c.(313-315)CTG>CCG	p.L105P		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	105					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			ovary(1)	1		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)														---	---	---	---
WDFY1	57590	broad.mit.edu	37	2	224758990	224758990	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:224758990G>A	uc002vnq.2	-	8	843	c.792C>T	c.(790-792)GGC>GGT	p.G264G		NM_020830	NP_065881	Q8IWB7	WDFY1_HUMAN	WD repeat and FYVE domain containing 1	264	WD 6.					cytosol|early endosome|nucleus	1-phosphatidylinositol binding|zinc ion binding			lung(1)	1		all_lung(227;0.00682)|Lung NSC(271;0.00859)|Renal(207;0.0112)|all_hematologic(139;0.189)		Epithelial(121;5.34e-10)|all cancers(144;1.67e-07)|Lung(261;0.00807)|LUSC - Lung squamous cell carcinoma(224;0.00843)														---	---	---	---
WDFY1	57590	broad.mit.edu	37	2	224765949	224765949	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:224765949C>A	uc002vnq.2	-	5	487	c.436G>T	c.(436-438)GGG>TGG	p.G146W		NM_020830	NP_065881	Q8IWB7	WDFY1_HUMAN	WD repeat and FYVE domain containing 1	146	WD 3.					cytosol|early endosome|nucleus	1-phosphatidylinositol binding|zinc ion binding			lung(1)	1		all_lung(227;0.00682)|Lung NSC(271;0.00859)|Renal(207;0.0112)|all_hematologic(139;0.189)		Epithelial(121;5.34e-10)|all cancers(144;1.67e-07)|Lung(261;0.00807)|LUSC - Lung squamous cell carcinoma(224;0.00843)														---	---	---	---
SERPINE2	5270	broad.mit.edu	37	2	224862982	224862982	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:224862982C>A	uc002vnu.2	-	3	580	c.337G>T	c.(337-339)GCC>TCC	p.A113S	SERPINE2_uc002vnt.2_Missense_Mutation_p.A113S|SERPINE2_uc010zlr.1_Missense_Mutation_p.A125S|SERPINE2_uc002vnv.2_Missense_Mutation_p.A113S	NM_006216	NP_006207	P07093	GDN_HUMAN	plasminogen activator inhibitor type 1, member 2	113					negative regulation of blood coagulation|negative regulation of plasminogen activation|negative regulation of platelet aggregation|positive regulation of astrocyte differentiation|regulation of cell migration	cytosol|extracellular matrix|extracellular space|extrinsic to external side of plasma membrane|neuromuscular junction|platelet alpha granule	heparin binding|receptor binding|serine-type endopeptidase inhibitor activity			breast(2)|ovary(1)|central_nervous_system(1)	4		Renal(207;0.025)|all_lung(227;0.0586)|Lung NSC(271;0.0682)|all_hematologic(139;0.0797)		Epithelial(121;5.68e-10)|all cancers(144;1.9e-07)|Lung(261;0.0088)|LUSC - Lung squamous cell carcinoma(224;0.00902)														---	---	---	---
SERPINE2	5270	broad.mit.edu	37	2	224866355	224866355	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:224866355G>A	uc002vnu.2	-						SERPINE2_uc002vnt.2_Intron|SERPINE2_uc010zlr.1_Intron|SERPINE2_uc002vnv.2_Intron	NM_006216	NP_006207			plasminogen activator inhibitor type 1, member 2						negative regulation of blood coagulation|negative regulation of plasminogen activation|negative regulation of platelet aggregation|positive regulation of astrocyte differentiation|regulation of cell migration	cytosol|extracellular matrix|extracellular space|extrinsic to external side of plasma membrane|neuromuscular junction|platelet alpha granule	heparin binding|receptor binding|serine-type endopeptidase inhibitor activity			breast(2)|ovary(1)|central_nervous_system(1)	4		Renal(207;0.025)|all_lung(227;0.0586)|Lung NSC(271;0.0682)|all_hematologic(139;0.0797)		Epithelial(121;5.68e-10)|all cancers(144;1.9e-07)|Lung(261;0.0088)|LUSC - Lung squamous cell carcinoma(224;0.00902)														---	---	---	---
CUL3	8452	broad.mit.edu	37	2	225379350	225379350	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225379350C>A	uc002vny.2	-	4	902	c.518G>T	c.(517-519)CGG>CTG	p.R173L	CUL3_uc010zls.1_Missense_Mutation_p.R107L|CUL3_uc010fwy.1_Missense_Mutation_p.R179L	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	173					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)														---	---	---	---
KIAA1486	57624	broad.mit.edu	37	2	226447052	226447052	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:226447052G>A	uc002voe.2	+	4	1094	c.919G>A	c.(919-921)GCC>ACC	p.A307T	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Missense_Mutation_p.A77T	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	307										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)														---	---	---	---
IRS1	3667	broad.mit.edu	37	2	227660941	227660941	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:227660941C>T	uc002voh.3	-	1	2566	c.2514G>A	c.(2512-2514)CAG>CAA	p.Q838Q		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	838					fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)														---	---	---	---
IRS1	3667	broad.mit.edu	37	2	227662528	227662528	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:227662528G>A	uc002voh.3	-	1	979	c.927C>T	c.(925-927)ACC>ACT	p.T309T		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	309	Ser-rich.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)												OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
COL4A4	1286	broad.mit.edu	37	2	227872065	227872065	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:227872065G>A	uc010zlt.1	-	47	5703	c.5049C>T	c.(5047-5049)TGC>TGT	p.C1683C		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1683	Collagen IV NC1.				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)														---	---	---	---
SLC19A3	80704	broad.mit.edu	37	2	228564079	228564079	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228564079C>T	uc002vpi.2	-	3	441	c.352G>A	c.(352-354)GCC>ACC	p.A118T	SLC19A3_uc002vpj.2_RNA|SLC19A3_uc010zlv.1_Missense_Mutation_p.A114T	NM_025243	NP_079519	Q9BZV2	S19A3_HUMAN	solute carrier family 19, member 3	118	Helical; (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|reduced folate carrier activity|thiamine uptake transmembrane transporter activity			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0335)|Lung NSC(271;0.142)|all_hematologic(139;0.21)|Esophageal squamous(248;0.236)		Epithelial(121;1.58e-10)|all cancers(144;8.55e-08)|Lung(261;0.00948)|LUSC - Lung squamous cell carcinoma(224;0.0125)	L-Cysteine(DB00151)													---	---	---	---
SPHKAP	80309	broad.mit.edu	37	2	228882781	228882781	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228882781G>A	uc002vpq.2	-	7	2836	c.2789C>T	c.(2788-2790)GCG>GTG	p.A930V	SPHKAP_uc002vpp.2_Missense_Mutation_p.A930V|SPHKAP_uc010zlx.1_Missense_Mutation_p.A930V	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	930	PKA-RII subunit binding domain (By similarity).					cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)														---	---	---	---
SPHKAP	80309	broad.mit.edu	37	2	228883827	228883827	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228883827G>A	uc002vpq.2	-	7	1790	c.1743C>T	c.(1741-1743)TGC>TGT	p.C581C	SPHKAP_uc002vpp.2_Silent_p.C581C|SPHKAP_uc010zlx.1_Silent_p.C581C	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	581						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)														---	---	---	---
SPHKAP	80309	broad.mit.edu	37	2	229046326	229046326	+	5'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:229046326G>A	uc002vpq.2	-	1					SPHKAP_uc002vpp.2_5'UTR|SPHKAP_uc010zlx.1_5'UTR	NM_001142644	NP_001136116			sphingosine kinase type 1-interacting protein							cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)														---	---	---	---
DNER	92737	broad.mit.edu	37	2	230223321	230223321	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:230223321C>T	uc002vpv.2	-	13	2296	c.2149G>A	c.(2149-2151)GCC>ACC	p.A717T		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	717	Cytoplasmic (Potential).				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)														---	---	---	---
TRIP12	9320	broad.mit.edu	37	2	230643195	230643195	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:230643195C>T	uc002vpw.1	-	35	5202	c.5093G>A	c.(5092-5094)CGC>CAC	p.R1698H	TRIP12_uc002vpx.1_Missense_Mutation_p.R1746H|TRIP12_uc002vpy.1_Missense_Mutation_p.R1428H	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1698					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)														---	---	---	---
TRIP12	9320	broad.mit.edu	37	2	230672494	230672494	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:230672494G>A	uc002vpw.1	-	16	2391	c.2282C>T	c.(2281-2283)GCG>GTG	p.A761V	TRIP12_uc002vpx.1_Missense_Mutation_p.A809V|TRIP12_uc002vpy.1_Missense_Mutation_p.A464V|TRIP12_uc010zlz.1_Intron|TRIP12_uc010fxh.1_Missense_Mutation_p.A767V	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	761	WWE.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)														---	---	---	---
SLC16A14	151473	broad.mit.edu	37	2	230910799	230910799	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:230910799T>C	uc002vqd.1	-	4	1406	c.1043A>G	c.(1042-1044)GAG>GGG	p.E348G	FBXO36_uc010fxi.1_Intron|SLC16A14_uc002vqe.2_Missense_Mutation_p.E348G|SLC16A14_uc002vqf.2_Missense_Mutation_p.E348G	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	348	Cytoplasmic (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)														---	---	---	---
SP110	3431	broad.mit.edu	37	2	231033861	231033861	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231033861G>A	uc002vqh.3	-	18	2289	c.2049C>T	c.(2047-2049)GGC>GGT	p.G683G	SP110_uc002vqg.3_Silent_p.G707G	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	683			G -> S (in a breast cancer sample; somatic mutation).		interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)														---	---	---	---
SP110	3431	broad.mit.edu	37	2	231037655	231037655	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231037655G>A	uc002vqh.3	-	15	1851	c.1611C>T	c.(1609-1611)TGC>TGT	p.C537C	SP110_uc002vqg.3_Silent_p.C537C	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	537	PHD-type.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)														---	---	---	---
ITM2C	81618	broad.mit.edu	37	2	231740379	231740379	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231740379C>T	uc002vqz.2	+	3	426	c.306C>T	c.(304-306)GAC>GAT	p.D102D	ITM2C_uc002vra.2_Silent_p.D55D|ITM2C_uc002vrb.2_Silent_p.D102D|ITM2C_uc002vrc.2_5'UTR|ITM2C_uc002vrd.2_5'UTR	NM_030926	NP_112188	Q9NQX7	ITM2C_HUMAN	integral membrane protein 2C isoform 1	102					negative regulation of neuron projection development|neuron differentiation	Golgi apparatus|integral to membrane|lysosomal membrane|perinuclear region of cytoplasm	beta-amyloid binding				0		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;8.47e-12)|all cancers(144;3.44e-09)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)														---	---	---	---
ARMC9	80210	broad.mit.edu	37	2	232146857	232146857	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232146857G>A	uc002vrq.3	+						ARMC9_uc002vrp.3_Intron|ARMC9_uc002vrr.1_Intron	NM_025139	NP_079415			armadillo repeat containing 9								binding			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0744)|all_hematologic(139;0.0749)|Acute lymphoblastic leukemia(138;0.167)|Medulloblastoma(418;0.184)|Lung NSC(271;0.205)		Epithelial(121;1.43e-10)|LUSC - Lung squamous cell carcinoma(224;0.017)|Lung(119;0.0189)														---	---	---	---
NCL	4691	broad.mit.edu	37	2	232324987	232324987	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232324987C>T	uc002vru.2	-	6	1057	c.916G>A	c.(916-918)GCT>ACT	p.A306T		NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	306					angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)														---	---	---	---
NCL	4691	broad.mit.edu	37	2	232325210	232325210	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232325210C>T	uc002vru.2	-	5	1018	c.877G>A	c.(877-879)GCC>ACC	p.A293T	SNORD82_uc010fxw.1_5'Flank	NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	293					angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)														---	---	---	---
NCL	4691	broad.mit.edu	37	2	232327993	232327993	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232327993G>T	uc002vru.2	-	2	194	c.53C>A	c.(52-54)GCT>GAT	p.A18D	SNORD82_uc010fxw.1_5'Flank	NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	18					angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)														---	---	---	---
NMUR1	10316	broad.mit.edu	37	2	232393472	232393472	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232393472C>T	uc002vry.3	-	2	370	c.260G>A	c.(259-261)CGC>CAC	p.R87H		NM_006056	NP_006047	Q9HB89	NMUR1_HUMAN	neuromedin U receptor 1	87	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|calcium ion transport|calcium-mediated signaling|chloride transport|smooth muscle contraction	integral to plasma membrane|membrane fraction	neuromedin U receptor activity			lung(3)|central_nervous_system(1)|pancreas(1)	5		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;8.37e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)														---	---	---	---
DIS3L2	129563	broad.mit.edu	37	2	233128133	233128133	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233128133G>A	uc010fxz.2	+	13	1918	c.1642G>A	c.(1642-1644)GCA>ACA	p.A548T	DIS3L2_uc002vsm.3_RNA|DIS3L2_uc002vso.2_RNA	NM_152383	NP_689596	Q8IYB7	DI3L2_HUMAN	DIS3 mitotic control homolog (S.	548							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)														---	---	---	---
ALPP	250	broad.mit.edu	37	2	233245418	233245418	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233245418C>T	uc002vsq.2	+	8	1116	c.951C>T	c.(949-951)GCC>GCT	p.A317A	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	317						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)														---	---	---	---
ALPPL2	251	broad.mit.edu	37	2	233272672	233272672	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233272672G>A	uc002vss.3	+	5	646	c.593G>A	c.(592-594)CGC>CAC	p.R198H		NM_031313	NP_112603	P10696	PPBN_HUMAN	placental-like alkaline phosphatase	198					phosphorylation	anchored to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			skin(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)|Levamisole(DB00848)													---	---	---	---
ALPPL2	251	broad.mit.edu	37	2	233274433	233274433	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233274433G>A	uc002vss.3	+	11	1503	c.1450G>A	c.(1450-1452)GCC>ACC	p.A484T		NM_031313	NP_112603	P10696	PPBN_HUMAN	placental-like alkaline phosphatase	484					phosphorylation	anchored to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			skin(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)|Levamisole(DB00848)													---	---	---	---
ALPI	248	broad.mit.edu	37	2	233322846	233322846	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233322846C>T	uc002vst.3	+						ALPI_uc002vsu.3_Intron	NM_001631	NP_001622			intestinal alkaline phosphatase precursor						phosphorylation	anchored to membrane|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding|protein binding			central_nervous_system(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.64e-16)|Kidney(3;9.71e-08)|KIRC - Kidney renal clear cell carcinoma(3;2.74e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000763)|Lung(119;0.00564)|LUSC - Lung squamous cell carcinoma(224;0.00746)														---	---	---	---
EIF4E2	9470	broad.mit.edu	37	2	233431863	233431863	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233431863C>T	uc002vta.2	+	6	682	c.604C>T	c.(604-606)CGA>TGA	p.R202*	EIF4E2_uc002vtb.1_Nonsense_Mutation_p.R202*|EIF4E2_uc010zmi.1_Nonsense_Mutation_p.R157*	NM_004846	NP_004837	O60573	IF4E2_HUMAN	eukaryotic translation initiation factor 4E	202					regulation of translation	cytoplasm|mRNA cap binding complex	RNA cap binding|translation initiation factor activity|ubiquitin protein ligase binding				0		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;2.3e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000912)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)														---	---	---	---
GIGYF2	26058	broad.mit.edu	37	2	233655446	233655446	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233655446C>T	uc002vti.3	+	12	1088	c.751C>T	c.(751-753)CGA>TGA	p.R251*	GIGYF2_uc010zmj.1_Nonsense_Mutation_p.R251*|GIGYF2_uc002vtg.2_Nonsense_Mutation_p.R245*|GIGYF2_uc002vtj.3_Nonsense_Mutation_p.R273*|GIGYF2_uc002vtk.3_Nonsense_Mutation_p.R251*|GIGYF2_uc002vth.3_Nonsense_Mutation_p.R245*|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc010zml.1_Nonsense_Mutation_p.R82*	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	251	Arg-rich.				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)														---	---	---	---
GIGYF2	26058	broad.mit.edu	37	2	233671276	233671276	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233671276C>T	uc002vti.3	+	17	2052	c.1715C>T	c.(1714-1716)GCG>GTG	p.A572V	GIGYF2_uc010zmj.1_Missense_Mutation_p.A572V|GIGYF2_uc002vtg.2_Missense_Mutation_p.A566V|GIGYF2_uc002vtj.3_Missense_Mutation_p.A593V|GIGYF2_uc002vtk.3_Missense_Mutation_p.A572V|GIGYF2_uc002vth.3_Missense_Mutation_p.A566V|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc010zml.1_Missense_Mutation_p.A403V	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	572	GYF.				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)														---	---	---	---
INPP5D	3635	broad.mit.edu	37	2	234072453	234072453	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234072453C>T	uc010zmo.1	+	11	1494	c.1341C>T	c.(1339-1341)TAC>TAT	p.Y447Y	INPP5D_uc010zmp.1_Silent_p.Y446Y	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	447					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)														---	---	---	---
INPP5D	3635	broad.mit.edu	37	2	234102498	234102498	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234102498G>A	uc010zmo.1	+	22	2640	c.2487G>A	c.(2485-2487)ACG>ACA	p.T829T	INPP5D_uc010zmp.1_Silent_p.T828T	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	829					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)														---	---	---	---
ATG16L1	55054	broad.mit.edu	37	2	234202917	234202917	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234202917C>T	uc002vty.2	+	18	2002	c.1745C>T	c.(1744-1746)GCG>GTG	p.A582V	ATG16L1_uc002vtx.1_Missense_Mutation_p.A419V|ATG16L1_uc002vua.2_Missense_Mutation_p.A563V|ATG16L1_uc002vub.2_Missense_Mutation_p.A440V|ATG16L1_uc002vtz.2_Missense_Mutation_p.A403V|ATG16L1_uc002vud.3_Missense_Mutation_p.A498V	NM_030803	NP_110430	Q676U5	A16L1_HUMAN	APG16 autophagy 16-like isoform 1	582	WD 7.				autophagic vacuole assembly|protein homooligomerization|protein transport	autophagic vacuole|pre-autophagosomal structure membrane	protein binding				0		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0539)		Epithelial(121;1.53e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000379)|LUSC - Lung squamous cell carcinoma(224;0.00619)|Lung(119;0.00732)|GBM - Glioblastoma multiforme(43;0.11)														---	---	---	---
TRPM8	79054	broad.mit.edu	37	2	234851360	234851360	+	Silent	SNP	C	A	A	rs35201441		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234851360C>A	uc002vvh.2	+	6	707	c.667C>A	c.(667-669)CGG>AGG	p.R223R	TRPM8_uc010fyj.2_5'UTR|TRPM8_uc002vvi.3_Silent_p.R173R|TRPM8_uc002vvj.3_Silent_p.R146R	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	223	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)													---	---	---	---
TRPM8	79054	broad.mit.edu	37	2	234869622	234869622	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234869622C>T	uc002vvh.2	+	12	1605	c.1565C>T	c.(1564-1566)ACG>ATG	p.T522M	TRPM8_uc010fyj.2_Missense_Mutation_p.T210M	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	522	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)													---	---	---	---
SH3BP4	23677	broad.mit.edu	37	2	235950141	235950141	+	Missense_Mutation	SNP	G	A	A	rs144140235		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:235950141G>A	uc002vvp.2	+	4	1121	c.728G>A	c.(727-729)CGC>CAC	p.R243H	SH3BP4_uc010fym.2_Missense_Mutation_p.R243H|SH3BP4_uc002vvq.2_Missense_Mutation_p.R243H	NM_014521	NP_055336	Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	243					endocytosis	clathrin-coated vesicle|coated pit|nucleus	protein binding			skin(3)|ovary(1)	4		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)														---	---	---	---
AGAP1	116987	broad.mit.edu	37	2	236653360	236653360	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:236653360G>A	uc002vvs.2	+	5	1010	c.415G>A	c.(415-417)GCT>ACT	p.A139T	AGAP1_uc002vvt.2_Missense_Mutation_p.A139T	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	139	Small GTPase-like.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3																		---	---	---	---
PRR21	643905	broad.mit.edu	37	2	240981392	240981392	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:240981392G>A	uc010zod.1	-	1	1008	c.1008C>T	c.(1006-1008)ATC>ATT	p.I336I		NM_001080835	NP_001074304	Q8WXC7	PRR21_HUMAN	proline rich 21	336										ovary(1)|skin(1)	2																		---	---	---	---
PRR21	643905	broad.mit.edu	37	2	240982100	240982100	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:240982100G>T	uc010zod.1	-	1	300	c.300C>A	c.(298-300)GCC>GCA	p.A100A		NM_001080835	NP_001074304	Q8WXC7	PRR21_HUMAN	proline rich 21	100	Pro-rich.									ovary(1)|skin(1)	2																		---	---	---	---
ANKMY1	51281	broad.mit.edu	37	2	241465867	241465867	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241465867C>T	uc002vyz.1	-						ANKMY1_uc002vza.1_Intron|ANKMY1_uc010fzd.1_Intron|ANKMY1_uc002vzb.1_Intron|ANKMY1_uc002vzc.1_Intron|ANKMY1_uc002vzd.1_Intron|ANKMY1_uc010fze.1_Intron|ANKMY1_uc002vze.2_Intron	NM_016552	NP_057636			ankyrin repeat and MYND domain containing 1								zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)														---	---	---	---
RNPEPL1	57140	broad.mit.edu	37	2	241516387	241516387	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241516387C>T	uc002vzi.2	+	10	1764	c.1171C>T	c.(1171-1173)CGG>TGG	p.R391W	RNPEPL1_uc010fzf.2_Missense_Mutation_p.R297W|RNPEPL1_uc002vzj.2_Missense_Mutation_p.R39W	NM_018226	NP_060696	Q9HAU8	RNPL1_HUMAN	arginyl aminopeptidase (aminopeptidase B)-like	391					leukotriene biosynthetic process|proteolysis		aminopeptidase activity|metallopeptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2		all_epithelial(40;1.13e-11)|Breast(86;0.000169)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.204)|Melanoma(123;0.238)		Epithelial(32;3.05e-31)|all cancers(36;8.2e-29)|OV - Ovarian serous cystadenocarcinoma(60;8.55e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.12e-06)|Lung(119;0.00168)|Colorectal(34;0.005)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.0322)														---	---	---	---
CAPN10	11132	broad.mit.edu	37	2	241537370	241537370	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241537370C>T	uc002vzk.1	+	10	1993	c.1809C>T	c.(1807-1809)TGC>TGT	p.C603C	CAPN10_uc002vzl.1_Silent_p.C448C|CAPN10_uc002vzm.1_Silent_p.C69C|CAPN10_uc002vzn.1_Silent_p.C475C|CAPN10_uc002vzo.1_RNA|CAPN10_uc010fzg.1_RNA|CAPN10_uc002vzp.1_RNA|CAPN10_uc002vzq.1_Intron	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	603	Domain III 2.				actin cytoskeleton reorganization|cellular response to insulin stimulus|positive regulation of apoptosis|positive regulation of glucose import|positive regulation of insulin secretion|positive regulation of intracellular transport|proteolysis	cytosol|plasma membrane	calcium-dependent cysteine-type endopeptidase activity|cytoskeletal protein binding|SNARE binding			ovary(3)|large_intestine(2)|lung(1)	6		all_epithelial(40;1.72e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.13e-31)|all cancers(36;3.24e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.82e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.1e-06)|Lung(119;0.00168)|Colorectal(34;0.00495)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.032)														---	---	---	---
GPR35	2859	broad.mit.edu	37	2	241569890	241569890	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241569890C>T	uc002vzs.1	+	1	1096	c.521C>T	c.(520-522)GCG>GTG	p.A174V	GPR35_uc010fzh.1_Missense_Mutation_p.A205V|GPR35_uc010fzi.1_Missense_Mutation_p.A205V	NM_005301	NP_005292	Q9HC97	GPR35_HUMAN	G protein-coupled receptor 35	174	Extracellular (Potential).			A -> R (in Ref. 1; AAC52028).		integral to plasma membrane	G-protein coupled receptor activity			skin(2)|pancreas(1)	3		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;5.29e-32)|all cancers(36;1.38e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.02e-06)|Lung(119;0.00163)|Colorectal(34;0.00463)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.031)														---	---	---	---
KIF1A	547	broad.mit.edu	37	2	241683367	241683367	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241683367G>A	uc002vzy.2	-	31	3419	c.3273C>T	c.(3271-3273)GAC>GAT	p.D1091D	KIF1A_uc010fzk.2_Silent_p.D1192D|KIF1A_uc002vzz.1_Silent_p.D1192D	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	1091					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)														---	---	---	---
PASK	23178	broad.mit.edu	37	2	242051680	242051680	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242051680C>T	uc002wao.1	-	15	3600	c.3508G>A	c.(3508-3510)GCA>ACA	p.A1170T	PASK_uc010zol.1_Missense_Mutation_p.A984T|PASK_uc010zom.1_Missense_Mutation_p.A1135T|PASK_uc010fzl.1_Missense_Mutation_p.A1177T|PASK_uc010zon.1_Missense_Mutation_p.A951T	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	1170	Protein kinase.				regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)														---	---	---	---
PASK	23178	broad.mit.edu	37	2	242075305	242075305	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242075305G>A	uc002wao.1	-	8	1379	c.1287C>T	c.(1285-1287)GAC>GAT	p.D429D	PASK_uc010zol.1_Silent_p.D243D|PASK_uc010zom.1_Silent_p.D394D|PASK_uc010fzl.1_Silent_p.D429D|PASK_uc010zon.1_Silent_p.D210D|PASK_uc002wap.2_5'Flank|PASK_uc002waq.2_Silent_p.D429D	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	429					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)														---	---	---	---
PASK	23178	broad.mit.edu	37	2	242077410	242077410	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242077410G>A	uc002wao.1	-	6	926	c.834C>T	c.(832-834)ATC>ATT	p.I278I	PASK_uc010zol.1_Silent_p.I92I|PASK_uc010zom.1_Intron|PASK_uc010fzl.1_Silent_p.I278I|PASK_uc010zon.1_Silent_p.I59I|PASK_uc002waq.2_Silent_p.I278I	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	278					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)														---	---	---	---
PASK	23178	broad.mit.edu	37	2	242078072	242078072	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242078072G>A	uc002wao.1	-	5	830	c.738C>T	c.(736-738)AGC>AGT	p.S246S	PASK_uc010zol.1_Silent_p.S60S|PASK_uc010zom.1_Silent_p.S246S|PASK_uc010fzl.1_Silent_p.S246S|PASK_uc010zon.1_Silent_p.S27S|PASK_uc002waq.2_Silent_p.S246S	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	246					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)														---	---	---	---
HDLBP	3069	broad.mit.edu	37	2	242179074	242179074	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242179074G>A	uc002waz.2	-	19	2781	c.2553C>T	c.(2551-2553)GGC>GGT	p.G851G	HDLBP_uc002wba.2_Silent_p.G851G|HDLBP_uc002wbb.2_Silent_p.G803G	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	851	KH 10.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)														---	---	---	---
SEPT2	4735	broad.mit.edu	37	2	242285659	242285659	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242285659C>T	uc002wbc.2	+	11	1342	c.921C>T	c.(919-921)GGC>GGT	p.G307G	SEPT2_uc002wbd.2_Silent_p.G307G|SEPT2_uc002wbf.2_Silent_p.G307G|SEPT2_uc002wbg.2_Silent_p.G307G|SEPT2_uc002wbh.2_Silent_p.G317G|SEPT2_uc010zop.1_Silent_p.G342G	NM_001008491	NP_001008491	Q15019	SEPT2_HUMAN	septin 2	307					cell division|mitosis	actin cytoskeleton|cleavage furrow|condensed chromosome kinetochore|midbody|nucleolus|septin complex|spindle	GTP binding			central_nervous_system(1)	1		all_cancers(19;7.62e-41)|all_epithelial(40;1.71e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.24e-34)|all cancers(36;7.15e-32)|OV - Ovarian serous cystadenocarcinoma(60;1.21e-15)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;3.16e-06)|Lung(119;7.81e-05)|LUSC - Lung squamous cell carcinoma(224;0.000742)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0889)														---	---	---	---
FARP2	9855	broad.mit.edu	37	2	242375909	242375909	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242375909A>G	uc002wbi.1	+	12	1231	c.1114A>G	c.(1114-1116)ACC>GCC	p.T372A	FARP2_uc010zoq.1_Missense_Mutation_p.T372A|FARP2_uc010zor.1_Missense_Mutation_p.T372A	NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	372					axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)														---	---	---	---
C2orf85	285093	broad.mit.edu	37	2	242814783	242814783	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242814783G>A	uc010fzu.1	+	2	1099	c.1076G>A	c.(1075-1077)GGC>GAC	p.G359D		NM_173821	NP_776182	Q14D33	CB085_HUMAN	hypothetical protein LOC285093	359						integral to membrane				ovary(1)	1																		---	---	---	---
CNTN4	152330	broad.mit.edu	37	3	3084838	3084838	+	Silent	SNP	C	A	A	rs55855953		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:3084838C>A	uc003bpc.2	+	21	2910	c.2689C>A	c.(2689-2691)CGA>AGA	p.R897R	CNTN4_uc003bpb.1_Silent_p.R568R|CNTN4_uc003bpe.2_Silent_p.R569R|CNTN4_uc003bpf.2_Silent_p.R568R|CNTN4_uc003bpg.2_Silent_p.R153R	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	897					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)														---	---	---	---
LRRN1	57633	broad.mit.edu	37	3	3888176	3888176	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:3888176C>A	uc003bpt.3	+	2	2612	c.1851C>A	c.(1849-1851)GCC>GCA	p.A617A	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	617	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)														---	---	---	---
ITPR1	3708	broad.mit.edu	37	3	4703860	4703860	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:4703860C>T	uc003bqa.2	+	15	1694	c.1346C>T	c.(1345-1347)GCC>GTC	p.A449V	ITPR1_uc010hca.1_Missense_Mutation_p.A434V|ITPR1_uc011asu.1_Intron|ITPR1_uc010hcb.1_Missense_Mutation_p.A434V	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	449	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)														---	---	---	---
ITPR1	3708	broad.mit.edu	37	3	4712614	4712614	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:4712614C>T	uc003bqa.2	+						ITPR1_uc010hca.1_Intron|ITPR1_uc011asu.1_Intron|ITPR1_uc010hcb.1_Intron	NM_001099952	NP_001093422			inositol 1,4,5-triphosphate receptor, type 1						activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)														---	---	---	---
ITPR1	3708	broad.mit.edu	37	3	4735265	4735265	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:4735265G>A	uc003bqa.2	+	33	4442	c.4094G>A	c.(4093-4095)CGG>CAG	p.R1365Q	ITPR1_uc010hca.1_Missense_Mutation_p.R1350Q|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.R296Q	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	1374	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)														---	---	---	---
ITPR1	3708	broad.mit.edu	37	3	4808340	4808340	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:4808340G>T	uc003bqa.2	+	42	5875	c.5527G>T	c.(5527-5529)GGA>TGA	p.G1843*	ITPR1_uc010hca.1_Nonsense_Mutation_p.G1828*|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Nonsense_Mutation_p.G813*	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	1891	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)														---	---	---	---
ITPR1	3708	broad.mit.edu	37	3	4825528	4825528	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:4825528G>A	uc003bqa.2	+	48	6743	c.6395G>A	c.(6394-6396)AGC>AAC	p.S2132N	ITPR1_uc010hca.1_Missense_Mutation_p.S2117N|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.S1102N	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	2180	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)														---	---	---	---
GRM7	2917	broad.mit.edu	37	3	7188283	7188283	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:7188283T>C	uc003bqm.2	+	2	938	c.664T>C	c.(664-666)TCT>CCT	p.S222P	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.S222P|GRM7_uc003bql.2_Missense_Mutation_p.S222P	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	222	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)													---	---	---	---
C3orf32	51066	broad.mit.edu	37	3	8667298	8667298	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:8667298C>T	uc003bqu.2	-	10	983	c.737G>A	c.(736-738)CGG>CAG	p.R246Q	C3orf32_uc003bqz.2_Missense_Mutation_p.R246Q|C3orf32_uc003bqt.2_Missense_Mutation_p.R195Q|C3orf32_uc011atg.1_Missense_Mutation_p.R268Q|C3orf32_uc003bqv.2_Missense_Mutation_p.R195Q|C3orf32_uc003bqw.2_RNA|C3orf32_uc003bqx.2_RNA|C3orf32_uc003bqy.2_Missense_Mutation_p.R246Q	NM_015931	NP_057015	Q9Y2M2	CC032_HUMAN	hypothetical protein LOC51066	246										skin(1)	1																		---	---	---	---
SETD5	55209	broad.mit.edu	37	3	9476021	9476021	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9476021A>G	uc003brt.2	+	5	616	c.181A>G	c.(181-183)ATC>GTC	p.I61V	SETD5_uc003brs.1_Missense_Mutation_p.I42V|SETD5_uc003bru.2_5'UTR|SETD5_uc003brv.2_5'UTR	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	61										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)														---	---	---	---
LHFPL4	375323	broad.mit.edu	37	3	9547876	9547876	+	Missense_Mutation	SNP	C	T	T	rs148006358		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9547876C>T	uc003bry.2	-	3	704	c.418G>A	c.(418-420)GTC>ATC	p.V140I		NM_198560	NP_940962	Q7Z7J7	LHPL4_HUMAN	lipoma HMGIC fusion partner-like 4	140	Helical; (Potential).					integral to membrane				ovary(2)|skin(1)	3	Medulloblastoma(99;0.227)																	---	---	---	---
LHFPL4	375323	broad.mit.edu	37	3	9594078	9594078	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9594078C>T	uc003bry.2	-	2	572	c.286G>A	c.(286-288)GCC>ACC	p.A96T		NM_198560	NP_940962	Q7Z7J7	LHPL4_HUMAN	lipoma HMGIC fusion partner-like 4	96						integral to membrane				ovary(2)|skin(1)	3	Medulloblastoma(99;0.227)																	---	---	---	---
OGG1	4968	broad.mit.edu	37	3	9792752	9792752	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9792752G>A	uc003bsi.2	+	2	604	c.261G>A	c.(259-261)AGG>AGA	p.R87R	OGG1_uc003bsh.2_Silent_p.R87R|OGG1_uc003bsj.2_Silent_p.R87R|OGG1_uc003bsk.2_Silent_p.R87R|OGG1_uc003bsl.2_Silent_p.R87R|OGG1_uc003bsm.2_Silent_p.R87R|OGG1_uc003bsn.2_Silent_p.R87R|OGG1_uc003bso.2_Silent_p.R87R|OGG1_uc003bsp.1_5'Flank|OGG1_uc010hcm.1_5'Flank|OGG1_uc003bsq.1_5'Flank|OGG1_uc003bsr.1_5'Flank	NM_002542	NP_002533	O15527	OGG1_HUMAN	8-oxoguanine DNA-glycosylase 1 isoform 1a	87					depurination|nucleotide-excision repair|regulation of protein import into nucleus, translocation|regulation of transcription, DNA-dependent|response to oxidative stress|response to radiation	mitochondrion|nuclear matrix|nuclear speck	damaged DNA binding|endonuclease activity|oxidized purine base lesion DNA N-glycosylase activity|protein binding				0	Medulloblastoma(99;0.227)												BER_DNA_glycosylases					---	---	---	---
TTLL3	26140	broad.mit.edu	37	3	9857762	9857762	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9857762G>A	uc003btg.2	+						ARPC4_uc003btc.1_Intron|TTLL3_uc003btd.3_Intron|TTLL3_uc003btf.3_5'UTR|TTLL3_uc010hco.1_5'UTR|TTLL3_uc003bth.3_Intron|TTLL3_uc011atj.1_5'UTR|TTLL3_uc003btj.3_5'Flank|TTLL3_uc003bti.3_5'Flank	NM_001025930	NP_001021100			tubulin tyrosine ligase-like family, member 3						axoneme assembly|cilium assembly|protein polyglycylation	cilium axoneme|cytoplasm|microtubule	protein-glycine ligase activity, initiating|tubulin-tyrosine ligase activity			large_intestine(2)	2	Medulloblastoma(99;0.227)																	---	---	---	---
CIDEC	63924	broad.mit.edu	37	3	9920175	9920175	+	5'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9920175G>A	uc003btq.2	-	2					CIDEC_uc003bto.2_Intron|CIDEC_uc010hcp.2_5'UTR|CIDEC_uc003btp.2_Missense_Mutation_p.T9I|CIDEC_uc003btr.2_5'UTR|CIDEC_uc003bts.2_5'UTR	NM_022094	NP_071377			cell death-inducing DFFA-like effector c						apoptosis|induction of apoptosis	cytosol|focal adhesion|nucleus				central_nervous_system(1)	1	Medulloblastoma(99;0.227)																	---	---	---	---
CRELD1	78987	broad.mit.edu	37	3	9982689	9982689	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9982689G>A	uc003bug.2	+	6	734	c.616G>A	c.(616-618)GCC>ACC	p.A206T	CIDEC_uc003bto.2_Intron|CRELD1_uc003buf.2_Missense_Mutation_p.A206T|CRELD1_uc003buh.2_Missense_Mutation_p.A206T|CRELD1_uc003bui.2_Missense_Mutation_p.A206T|CRELD1_uc003buj.2_RNA	NM_001077415	NP_001070883	Q96HD1	CREL1_HUMAN	cysteine-rich with EGF-like domains 1 isoform 3	206	Extracellular (Potential).				cardiac septum development|endocardial cushion development	integral to membrane	calcium ion binding			ovary(1)	1																		---	---	---	---
FANCD2	2177	broad.mit.edu	37	3	10084330	10084330	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10084330G>A	uc003buw.2	+	11	949	c.871G>A	c.(871-873)GCC>ACC	p.A291T	FANCD2_uc003bux.1_Missense_Mutation_p.A291T|FANCD2_uc003buy.1_Missense_Mutation_p.A291T	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	291	Interaction with FANCE.|Interaction with BRCA2.				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				---	---	---	---
SLC6A1	6529	broad.mit.edu	37	3	11067198	11067198	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:11067198A>G	uc010hdq.2	+	8	1189	c.778A>G	c.(778-780)ACG>GCG	p.T260A		NM_003042	NP_003033	P30531	SC6A1_HUMAN	solute carrier family 6 (neurotransmitter	260					neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)|skin(1)	2		Ovarian(110;0.0392)		OV - Ovarian serous cystadenocarcinoma(96;0.00099)	Cocaine(DB00907)|Tiagabine(DB00906)													---	---	---	---
ATG7	10533	broad.mit.edu	37	3	11372822	11372822	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:11372822T>C	uc003bwc.2	+	8	804	c.687T>C	c.(685-687)ATT>ATC	p.I229I	ATG7_uc003bwd.2_Silent_p.I229I|ATG7_uc011aum.1_Silent_p.I190I	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	229					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1																		---	---	---	---
VGLL4	9686	broad.mit.edu	37	3	11606426	11606426	+	Missense_Mutation	SNP	C	T	T	rs145391722		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:11606426C>T	uc003bwf.2	-	4	688	c.322G>A	c.(322-324)GCT>ACT	p.A108T	VGLL4_uc010hdx.1_Missense_Mutation_p.A114T|VGLL4_uc003bwg.2_Missense_Mutation_p.A113T|VGLL4_uc010hdv.1_Missense_Mutation_p.A24T|VGLL4_uc010hdw.1_Missense_Mutation_p.A28T|VGLL4_uc011aun.1_Missense_Mutation_p.A49T	NM_014667	NP_055482	Q14135	VGLL4_HUMAN	vestigial like 4 isoform b	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1				LUSC - Lung squamous cell carcinoma(1;0.089)|Lung(1;0.111)														---	---	---	---
VGLL4	9686	broad.mit.edu	37	3	11643341	11643341	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:11643341C>T	uc003bwf.2	-	3	586	c.220G>A	c.(220-222)GTC>ATC	p.V74I	VGLL4_uc010hdx.1_Missense_Mutation_p.V80I|VGLL4_uc003bwg.2_Missense_Mutation_p.V79I|VGLL4_uc011aun.1_Missense_Mutation_p.V15I	NM_014667	NP_055482	Q14135	VGLL4_HUMAN	vestigial like 4 isoform b	74					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1				LUSC - Lung squamous cell carcinoma(1;0.089)|Lung(1;0.111)														---	---	---	---
TSEN2	80746	broad.mit.edu	37	3	12544798	12544798	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:12544798C>T	uc003bxc.2	+	5	733	c.346C>T	c.(346-348)CGT>TGT	p.R116C	TSEN2_uc003bwy.2_Missense_Mutation_p.R116C|TSEN2_uc003bwz.2_Missense_Mutation_p.R116C|TSEN2_uc003bxa.2_Missense_Mutation_p.R116C|TSEN2_uc011auq.1_Missense_Mutation_p.R116C|TSEN2_uc003bxb.2_Missense_Mutation_p.R116C|TSEN2_uc011aur.1_Missense_Mutation_p.R25C	NM_025265	NP_079541	Q8NCE0	SEN2_HUMAN	tRNA-intron nuclease 2 isoform 1	116					mRNA processing|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|nucleolus|tRNA-intron endonuclease complex	nucleic acid binding|tRNA-intron endonuclease activity			central_nervous_system(1)	1																		---	---	---	---
TSEN2	80746	broad.mit.edu	37	3	12570415	12570415	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:12570415C>T	uc003bxc.2	+	9	1515	c.1128C>T	c.(1126-1128)TAC>TAT	p.Y376Y	TSEN2_uc003bwy.2_Silent_p.Y376Y|TSEN2_uc003bwz.2_Silent_p.Y317Y|TSEN2_uc003bxa.2_Silent_p.Y350Y|TSEN2_uc011auq.1_Silent_p.Y350Y|TSEN2_uc003bxb.2_Silent_p.Y376Y|TSEN2_uc011aur.1_Silent_p.Y285Y	NM_025265	NP_079541	Q8NCE0	SEN2_HUMAN	tRNA-intron nuclease 2 isoform 1	376					mRNA processing|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|nucleolus|tRNA-intron endonuclease complex	nucleic acid binding|tRNA-intron endonuclease activity			central_nervous_system(1)	1																		---	---	---	---
RAF1	5894	broad.mit.edu	37	3	12647737	12647737	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:12647737G>A	uc003bxf.3	-	6	1058	c.643C>T	c.(643-645)CGT>TGT	p.R215C	RAF1_uc011aut.1_Intron|RAF1_uc011auu.1_Missense_Mutation_p.R133C	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog	215					activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				---	---	---	---
NUP210	23225	broad.mit.edu	37	3	13381431	13381431	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:13381431C>T	uc003bxv.1	-	25	3477	c.3394G>A	c.(3394-3396)GCC>ACC	p.A1132T		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1132	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)																	---	---	---	---
NUP210	23225	broad.mit.edu	37	3	13415302	13415302	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:13415302G>A	uc003bxv.1	-	12	1586	c.1503C>T	c.(1501-1503)GGC>GGT	p.G501G	NUP210_uc003bxx.2_Silent_p.G173G	NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	501	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)																	---	---	---	---
HDAC11	79885	broad.mit.edu	37	3	13546068	13546068	+	Missense_Mutation	SNP	G	A	A	rs142419489		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:13546068G>A	uc003bxy.2	+	10	1062	c.929G>A	c.(928-930)CGC>CAC	p.R310H	HDAC11_uc010heb.2_3'UTR|HDAC11_uc011aux.1_Missense_Mutation_p.R118H|HDAC11_uc011auy.1_Missense_Mutation_p.R259H	NM_024827	NP_079103	Q96DB2	HDA11_HUMAN	histone deacetylase 11 isoform 1	310	Histone deacetylase.				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																		---	---	---	---
WNT7A	7476	broad.mit.edu	37	3	13896046	13896046	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:13896046T>A	uc003bye.1	-	3	858	c.553A>T	c.(553-555)AAC>TAC	p.N185Y		NM_004625	NP_004616	O00755	WNT7A_HUMAN	wingless-type MMTV integration site family,	185					activation of JUN kinase activity|anterior/posterior pattern formation|canonical Wnt receptor signaling pathway|cell proliferation in forebrain|cellular response to transforming growth factor beta stimulus|central nervous system vasculogenesis|cerebellar granule cell differentiation|dorsal/ventral pattern formation|embryonic axis specification|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic leg morphogenesis|lens fiber cell development|negative regulation of neurogenesis|palate development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of JNK cascade|positive regulation of synaptogenesis|positive regulation of transcription from RNA polymerase II promoter|regulation of axon diameter|satellite cell activation|satellite cell maintenance involved in skeletal muscle regeneration|sex differentiation|uterus development|Wnt receptor signaling pathway involved in wound healing, spreading of epidermal cells|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled binding|receptor agonist activity|signal transducer activity			ovary(2)|breast(1)	3																		---	---	---	---
SLC6A6	6533	broad.mit.edu	37	3	14485376	14485376	+	Intron	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:14485376G>T	uc010heg.2	+						SLC6A6_uc010hee.1_Missense_Mutation_p.E78D|SLC6A6_uc003byp.2_Intron|SLC6A6_uc010hef.1_Intron|SLC6A6_uc003byq.2_Intron|SLC6A6_uc003byr.2_Intron	NM_001134367	NP_001127839			solute carrier family 6 (neurotransmitter						cellular amino acid metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity|taurine:sodium symporter activity			ovary(1)	1																		---	---	---	---
C3orf20	84077	broad.mit.edu	37	3	14724291	14724291	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:14724291G>A	uc003byy.2	+	3	475	c.71G>A	c.(70-72)CGC>CAC	p.R24H	C3orf20_uc003byz.2_Intron|C3orf20_uc003bza.2_Intron|C3orf20_uc003byx.1_Missense_Mutation_p.R24H	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	24						cytoplasm|integral to membrane				ovary(3)|skin(1)	4																		---	---	---	---
NR2C2	7182	broad.mit.edu	37	3	15073949	15073949	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15073949C>A	uc003bzj.3	+	10	1391	c.1174C>A	c.(1174-1176)CGT>AGT	p.R392S	NR2C2_uc003bzi.2_Missense_Mutation_p.R411S	NM_003298	NP_003289	P49116	NR2C2_HUMAN	nuclear receptor subfamily 2, group C, member 2	392	Ligand-binding (By similarity).				cell differentiation|nervous system development|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0																		---	---	---	---
ZFYVE20	64145	broad.mit.edu	37	3	15116081	15116081	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15116081C>A	uc003bzm.1	-	14	2177	c.1563G>T	c.(1561-1563)CAG>CAT	p.Q521H	ZFYVE20_uc010hek.1_Missense_Mutation_p.Q521H	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	521	Potential.|Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2																		---	---	---	---
ZFYVE20	64145	broad.mit.edu	37	3	15123940	15123940	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15123940C>T	uc003bzm.1	-	9	1388	c.774G>A	c.(772-774)ACG>ACA	p.T258T	ZFYVE20_uc010hek.1_Silent_p.T258T|ZFYVE20_uc011avn.1_Intron	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	258	FYVE-type.|Necessary for the correct targeting to endosomes.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2																		---	---	---	---
CAPN7	23473	broad.mit.edu	37	3	15269407	15269407	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15269407C>T	uc003bzn.2	+	7	1057	c.787C>T	c.(787-789)CGA>TGA	p.R263*		NM_014296	NP_055111	Q9Y6W3	CAN7_HUMAN	calpain 7	263	Calpain catalytic.				proteolysis	nucleus	calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1																		---	---	---	---
COLQ	8292	broad.mit.edu	37	3	15493125	15493125	+	3'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15493125C>T	uc003bzx.2	-	17					COLQ_uc003bzv.2_3'UTR|COLQ_uc003bzz.2_3'UTR|COLQ_uc010heo.2_3'UTR|COLQ_uc003cac.1_RNA|COLQ_uc003cae.1_3'UTR|COLQ_uc003cad.1_RNA	NM_005677	NP_005668			acetylcholinesterase collagen-like tail subunit						acetylcholine catabolic process in synaptic cleft|asymmetric protein localization	basal lamina|cell junction|collagen|extracellular space|synaptic cleft					0																		---	---	---	---
HACL1	26061	broad.mit.edu	37	3	15609981	15609981	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15609981T>C	uc003caf.2	-	13	1368	c.1208A>G	c.(1207-1209)GAC>GGC	p.D403G	HACL1_uc011avr.1_RNA|HACL1_uc011avs.1_Missense_Mutation_p.D376G|HACL1_uc011avt.1_Missense_Mutation_p.D343G|HACL1_uc003cag.2_Missense_Mutation_p.D47G|HACL1_uc011avu.1_Missense_Mutation_p.D321G|HACL1_uc010hep.2_Missense_Mutation_p.D162G	NM_012260	NP_036392	Q9UJ83	HACL1_HUMAN	2-hydroxyphytanoyl-CoA lyase	403	Thiamine pyrophosphate binding.				fatty acid alpha-oxidation	peroxisomal matrix	carbon-carbon lyase activity|identical protein binding|magnesium ion binding|thiamine pyrophosphate binding				0																		---	---	---	---
RFTN1	23180	broad.mit.edu	37	3	16358554	16358554	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:16358554C>A	uc003cay.2	-	10	1800	c.1518G>T	c.(1516-1518)GAG>GAT	p.E506D	RFTN1_uc010hes.2_Missense_Mutation_p.E470D|OXNAD1_uc003cax.2_Intron|OXNAD1_uc011awb.1_Intron	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	506						plasma membrane				ovary(3)|central_nervous_system(1)	4																		---	---	---	---
KCNH8	131096	broad.mit.edu	37	3	19190212	19190212	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:19190212A>T	uc003cbk.1	+	1	196	c.1A>T	c.(1-3)ATG>TTG	p.M1L	KCNH8_uc011awe.1_Missense_Mutation_p.M1L|KCNH8_uc010hex.1_5'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	1	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5																		---	---	---	---
TOP2B	7155	broad.mit.edu	37	3	25668727	25668727	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:25668727C>T	uc011awn.1	-	16	2010	c.1967G>A	c.(1966-1968)CGC>CAC	p.R656H	TOP2B_uc003cdj.2_Missense_Mutation_p.R651H	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	656					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5																		---	---	---	---
LRRC3B	116135	broad.mit.edu	37	3	26751777	26751777	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:26751777C>T	uc003cdp.2	+	2	1203	c.614C>T	c.(613-615)GCC>GTC	p.A205V	LRRC3B_uc003cdq.2_Missense_Mutation_p.A205V	NM_052953	NP_443185	Q96PB8	LRC3B_HUMAN	leucine rich repeat containing 3B precursor	205	Helical; (Potential).					integral to membrane				pancreas(2)|ovary(1)|skin(1)	4																		---	---	---	---
NEK10	152110	broad.mit.edu	37	3	27244008	27244008	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:27244008C>A	uc010hfk.2	-	3	296	c.67G>T	c.(67-69)GAT>TAT	p.D23Y	NEK10_uc003cds.1_Missense_Mutation_p.D108Y|NEK10_uc010hfj.2_Missense_Mutation_p.D23Y			Q6ZWH5	NEK10_HUMAN	RecName: Full=Serine/threonine-protein kinase Nek10;          EC=2.7.11.1; AltName: Full=NimA-related protein kinase 10;	711	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13																		---	---	---	---
ZCWPW2	152098	broad.mit.edu	37	3	28476697	28476697	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:28476697C>T	uc003ceh.2	+	4	597	c.429C>T	c.(427-429)GGC>GGT	p.G143G	ZCWPW2_uc003cei.2_Silent_p.G143G|ZCWPW2_uc010hfo.2_5'UTR	NM_001040432	NP_001035522	Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2	143	PWWP.						zinc ion binding			ovary(2)	2																		---	---	---	---
STT3B	201595	broad.mit.edu	37	3	31667476	31667476	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:31667476G>T	uc011axe.1	+	13	1930	c.1930G>T	c.(1930-1932)GCA>TCA	p.A644S		NM_178862	NP_849193	Q8TCJ2	STT3B_HUMAN	source of immunodominant MHC-associated	644					protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding				0																		---	---	---	---
OSBPL10	114884	broad.mit.edu	37	3	31710298	31710298	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:31710298C>T	uc003cev.2	-	11	2313	c.1932G>A	c.(1930-1932)AAG>AAA	p.K644K	OSBPL10_uc003ceu.1_Silent_p.K401K|OSBPL10_uc011axf.1_Silent_p.K580K	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	644					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)														---	---	---	---
OSBPL10	114884	broad.mit.edu	37	3	31725328	31725328	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:31725328A>G	uc003cev.2	-	9	1905	c.1524T>C	c.(1522-1524)CCT>CCC	p.P508P	OSBPL10_uc003ceu.1_Silent_p.P265P|OSBPL10_uc011axf.1_Silent_p.P444P	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	508					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)														---	---	---	---
CMTM8	152189	broad.mit.edu	37	3	32409470	32409470	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:32409470C>T	uc003cex.2	+	3	722	c.428C>T	c.(427-429)GCG>GTG	p.A143V	CMTM8_uc010hfu.2_Missense_Mutation_p.A85V	NM_178868	NP_849199	Q8IZV2	CKLF8_HUMAN	CKLF-like MARVEL transmembrane domain containing	143	MARVEL.				chemotaxis	extracellular space|integral to membrane	cytokine activity				0																		---	---	---	---
CRTAP	10491	broad.mit.edu	37	3	33174107	33174107	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:33174107A>G	uc003cfl.3	+	5	1103	c.983A>G	c.(982-984)GAC>GGC	p.D328G	CRTAP_uc010hfz.2_Missense_Mutation_p.D285G|CRTAP_uc003cfm.2_Missense_Mutation_p.D149G|CRTAP_uc003cfn.2_Missense_Mutation_p.D149G	NM_006371	NP_006362	O75718	CRTAP_HUMAN	cartilage associated protein precursor	328						proteinaceous extracellular matrix	binding				0																		---	---	---	---
UBP1	7342	broad.mit.edu	37	3	33453092	33453092	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:33453092C>T	uc003cfq.3	-	5	1066	c.536G>A	c.(535-537)CGC>CAC	p.R179H	UBP1_uc003cfr.3_Missense_Mutation_p.R179H|UBP1_uc010hga.2_Missense_Mutation_p.R179H	NM_014517	NP_055332	Q9NZI7	UBIP1_HUMAN	upstream binding protein 1 (LBP-1a) isoform a	179					negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|viral genome replication	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			kidney(2)	2																		---	---	---	---
CLASP2	23122	broad.mit.edu	37	3	33592749	33592749	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:33592749G>A	uc003cfu.2	-	29	3502	c.3148C>T	c.(3148-3150)CGG>TGG	p.R1050W	CLASP2_uc003cfs.2_Missense_Mutation_p.R257W|CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc011axt.1_Missense_Mutation_p.R650W	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	1059										ovary(3)|central_nervous_system(1)	4																		---	---	---	---
CLASP2	23122	broad.mit.edu	37	3	33617676	33617676	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:33617676C>T	uc003cfu.2	-	24	2793	c.2439G>A	c.(2437-2439)GCG>GCA	p.A813A	CLASP2_uc003cfs.2_Silent_p.A13A|CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc011axt.1_Silent_p.A406A	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	814										ovary(3)|central_nervous_system(1)	4																		---	---	---	---
CLASP2	23122	broad.mit.edu	37	3	33729801	33729801	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:33729801G>A	uc003cfu.2	-	4	792	c.438C>T	c.(436-438)GGC>GGT	p.G146G	CLASP2_uc010hgb.2_RNA	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	146										ovary(3)|central_nervous_system(1)	4																		---	---	---	---
TRANK1	9881	broad.mit.edu	37	3	36873314	36873314	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:36873314C>T	uc003cgj.2	-	12	6280	c.5978G>A	c.(5977-5979)CGC>CAC	p.R1993H		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2543					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
TRANK1	9881	broad.mit.edu	37	3	36873381	36873381	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:36873381G>T	uc003cgj.2	-	12	6213	c.5911C>A	c.(5911-5913)CTG>ATG	p.L1971M		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2521					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
TRANK1	9881	broad.mit.edu	37	3	36897695	36897695	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:36897695C>T	uc003cgj.2	-	3	2038	c.1736G>A	c.(1735-1737)GGC>GAC	p.G579D		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1129					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
LRRFIP2	9209	broad.mit.edu	37	3	37095348	37095348	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37095348C>T	uc003cgp.2	-	29	2583	c.2160G>A	c.(2158-2160)CAG>CAA	p.Q720Q	MLH1_uc011aye.1_Intron|LRRFIP2_uc011ayf.1_Silent_p.Q502Q|LRRFIP2_uc003cgr.2_Silent_p.Q423Q|LRRFIP2_uc003cgs.3_Silent_p.Q423Q|LRRFIP2_uc003cgt.3_Silent_p.Q399Q	NM_006309	NP_006300	Q9Y608	LRRF2_HUMAN	leucine rich repeat (in FLII) interacting	720					Wnt receptor signaling pathway		LRR domain binding			ovary(1)	1																		---	---	---	---
GOLGA4	2803	broad.mit.edu	37	3	37367797	37367797	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37367797G>A	uc003cgv.2	+	14	4724	c.4420G>A	c.(4420-4422)GCT>ACT	p.A1474T	GOLGA4_uc010hgr.1_Missense_Mutation_p.A1035T|GOLGA4_uc003cgw.2_Missense_Mutation_p.A1496T|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.A1355T	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1474	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	37369065	37369065	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37369065C>A	uc003cgv.2	+	14	5992	c.5688C>A	c.(5686-5688)CCC>CCA	p.P1896P	GOLGA4_uc010hgr.1_Silent_p.P1457P|GOLGA4_uc003cgw.2_Silent_p.P1918P|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Silent_p.P1777P	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1896	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	37388776	37388776	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37388776C>T	uc003cgv.2	+	21	6869	c.6565C>T	c.(6565-6567)CGT>TGT	p.R2189C	GOLGA4_uc003cgw.2_Missense_Mutation_p.R2204C|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.R2070C	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	2189	GRIP.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4																		---	---	---	---
ITGA9	3680	broad.mit.edu	37	3	37559045	37559045	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37559045G>A	uc003chd.2	+	10	1139	c.1086G>A	c.(1084-1086)GCG>GCA	p.A362A	ITGA9_uc003chc.2_Silent_p.A362A	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	362	Extracellular (Potential).|FG-GAP 6.				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)														---	---	---	---
PLCD1	5333	broad.mit.edu	37	3	38061761	38061761	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38061761C>T	uc003chn.2	-	2	241	c.117G>A	c.(115-117)GAG>GAA	p.E39E	PLCD1_uc003chm.2_Silent_p.E60E	NM_006225	NP_006216	P51178	PLCD1_HUMAN	phospholipase C, delta 1 isoform 2	39	PH.|Substrate binding (By similarity).				intracellular signal transduction|lipid catabolic process|phospholipid metabolic process	cytoplasm	calcium ion binding|GTPase activating protein binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)														---	---	---	---
DLEC1	9940	broad.mit.edu	37	3	38136483	38136483	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38136483C>T	uc003cho.1	+	13	2054	c.2033C>T	c.(2032-2034)GCC>GTC	p.A678V	DLEC1_uc003chp.1_Missense_Mutation_p.A678V|DLEC1_uc010hgv.1_Missense_Mutation_p.A678V|DLEC1_uc003chr.1_5'UTR|DLEC1_uc010hgx.1_5'Flank|DLEC1_uc003chq.1_Intron	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	678					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)														---	---	---	---
SLC22A13	9390	broad.mit.edu	37	3	38316619	38316619	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38316619G>A	uc003chz.3	+	4	831	c.777G>A	c.(775-777)GCG>GCA	p.A259A	SLC22A13_uc011aym.1_RNA|SLC22A13_uc011ayn.1_Silent_p.A259A	NM_004256	NP_004247	Q9Y226	S22AD_HUMAN	solute carrier family 22 (organic anion	259	Helical; (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0533)|Kidney(284;0.067)														---	---	---	---
SLC22A14	9389	broad.mit.edu	37	3	38354921	38354921	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38354921G>A	uc010hhc.1	+	7	1150	c.1108G>A	c.(1108-1110)GAC>AAC	p.D370N	SLC22A14_uc003cib.2_Missense_Mutation_p.D370N|SLC22A14_uc011ayo.1_RNA	NM_004803	NP_004794	Q9Y267	S22AE_HUMAN	organic cation transporter like 4	370	Cytoplasmic (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0554)|Kidney(284;0.0696)														---	---	---	---
EXOG	9941	broad.mit.edu	37	3	38565787	38565787	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38565787T>C	uc003cih.2	+	6	1137	c.1041T>C	c.(1039-1041)TAT>TAC	p.Y347Y	EXOG_uc010hhg.2_RNA|EXOG_uc011ayq.1_Silent_p.Y297Y|EXOG_uc003cij.2_Silent_p.Y207Y|EXOG_uc010hhd.2_Silent_p.Y207Y|EXOG_uc010hhe.2_Silent_p.Y207Y|EXOG_uc003cik.2_Silent_p.Y207Y|EXOG_uc010hhf.2_Silent_p.Y207Y|EXOG_uc003cii.2_Silent_p.Y207Y	NM_005107	NP_005098	Q9Y2C4	EXOG_HUMAN	endo/exonuclease (5'-3'), endonuclease G-like	347						mitochondrial inner membrane	endonuclease activity|metal ion binding|nucleic acid binding				0																		---	---	---	---
SCN5A	6331	broad.mit.edu	37	3	38622742	38622742	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38622742G>T	uc003cio.2	-	17	3102	c.2908C>A	c.(2908-2910)CTG>ATG	p.L970M	SCN5A_uc003cin.2_Missense_Mutation_p.L970M|SCN5A_uc003cil.3_Missense_Mutation_p.L970M|SCN5A_uc010hhi.2_Missense_Mutation_p.L970M|SCN5A_uc010hhk.2_Missense_Mutation_p.L970M|SCN5A_uc011ayr.1_Missense_Mutation_p.L970M|SCN5A_uc010hhj.1_Missense_Mutation_p.L581M	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	970					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)													---	---	---	---
CSRNP1	64651	broad.mit.edu	37	3	39186606	39186606	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39186606C>T	uc003cjg.2	-	3	561	c.347G>A	c.(346-348)CGC>CAC	p.R116H	CSRNP1_uc003cjh.2_Missense_Mutation_p.R116H	NM_033027	NP_149016	Q96S65	CSRN1_HUMAN	AXIN1 up-regulated 1	116					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(4)|skin(1)	5																		---	---	---	---
SLC25A38	54977	broad.mit.edu	37	3	39437962	39437962	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39437962C>T	uc003cjo.2	+	7	1267	c.866C>T	c.(865-867)GCG>GTG	p.A289V		NM_017875	NP_060345	Q96DW6	S2538_HUMAN	solute carrier family 25, member 38	289	Solcar 3.|Helical; Name=6; (Potential).				erythrocyte differentiation|heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)														---	---	---	---
ENTPD3	956	broad.mit.edu	37	3	40456333	40456333	+	Splice_Site	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:40456333T>C	uc003ckd.3	+	6	689	c.597_splice	c.e6+2	p.E199_splice	ENTPD3_uc010hhy.2_Splice_Site_p.E199_splice|uc003cke.3_Intron	NM_001248	NP_001239			ectonucleoside triphosphate diphosphohydrolase							integral to membrane	ATP binding|hydrolase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0605)|Kidney(284;0.0758)														---	---	---	---
ZNF620	253639	broad.mit.edu	37	3	40557940	40557940	+	Silent	SNP	C	T	T	rs139782096	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:40557940C>T	uc003ckk.2	+	5	1004	c.855C>T	c.(853-855)TGC>TGT	p.C285C	ZNF620_uc003ckl.2_Silent_p.C171C	NM_175888	NP_787084	Q6ZNG0	ZN620_HUMAN	zinc finger protein 620	285	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)														---	---	---	---
TRAK1	22906	broad.mit.edu	37	3	42235319	42235319	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:42235319G>A	uc003cky.2	+	9	1120	c.904G>A	c.(904-906)GCA>ACA	p.A302T	TRAK1_uc011azh.1_Missense_Mutation_p.A302T|TRAK1_uc011azi.1_Missense_Mutation_p.A302T|TRAK1_uc003ckz.3_Missense_Mutation_p.A228T|TRAK1_uc011azj.1_Missense_Mutation_p.A228T|TRAK1_uc003cla.2_Missense_Mutation_p.A244T	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	302	Potential.|HAP1 N-terminal.				endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1																		---	---	---	---
TRAK1	22906	broad.mit.edu	37	3	42240734	42240734	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:42240734T>C	uc003cky.2	+	11	1395	c.1179T>C	c.(1177-1179)TCT>TCC	p.S393S	TRAK1_uc011azh.1_Silent_p.S393S|TRAK1_uc011azi.1_Silent_p.S393S|TRAK1_uc003ckz.3_Silent_p.S319S|TRAK1_uc011azj.1_Silent_p.S319S|TRAK1_uc003cla.2_Silent_p.S335S	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	393	Interaction with HGS.				endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1																		---	---	---	---
SNRK	54861	broad.mit.edu	37	3	43389129	43389129	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:43389129T>C	uc003cms.3	+	7	1710	c.1378T>C	c.(1378-1380)TCC>CCC	p.S460P	SNRK_uc003cmt.3_Missense_Mutation_p.S460P|SNRK_uc010hik.2_Missense_Mutation_p.S460P|SNRK_uc011azr.1_Missense_Mutation_p.S254P	NM_017719	NP_060189	Q9NRH2	SNRK_HUMAN	SNF related kinase	460					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)														---	---	---	---
C3orf23	285343	broad.mit.edu	37	3	44441970	44441970	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44441970A>G	uc010him.2	+	9	1254	c.1009A>G	c.(1009-1011)ACA>GCA	p.T337A	C3orf23_uc003cnd.3_Missense_Mutation_p.T337A|C3orf23_uc003cne.3_Missense_Mutation_p.T193A	NM_173826	NP_776187	Q8N3R3	CC023_HUMAN	hypothetical protein LOC285343 isoform 1	337						mitochondrion				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(197;0.0468)|Kidney(197;0.0585)														---	---	---	---
ZNF660	285349	broad.mit.edu	37	3	44635896	44635896	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44635896A>T	uc003cnl.1	+	3	544	c.211A>T	c.(211-213)ATC>TTC	p.I71F		NM_173658	NP_775929	Q6AZW8	ZN660_HUMAN	zinc finger protein 660	71	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(197;0.0468)|Kidney(197;0.0585)														---	---	---	---
KIF15	56992	broad.mit.edu	37	3	44846554	44846554	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44846554C>T	uc003cnx.3	+	15	1872	c.1723C>T	c.(1723-1725)CCA>TCA	p.P575S	KIF15_uc010hiq.2_Missense_Mutation_p.P478S|KIF15_uc003cny.1_Missense_Mutation_p.P210S	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	575	Potential.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)														---	---	---	---
EXOSC7	23016	broad.mit.edu	37	3	45030680	45030680	+	Missense_Mutation	SNP	G	A	A	rs146138646		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:45030680G>A	uc003coi.2	+	2	135	c.106G>A	c.(106-108)GAA>AAA	p.E36K	EXOSC7_uc003coh.1_5'UTR|EXOSC7_uc011bae.1_Missense_Mutation_p.E36K|EXOSC7_uc010his.1_Intron|EXOSC7_uc003coj.2_Missense_Mutation_p.E36K	NM_015004	NP_055819	Q15024	EXOS7_HUMAN	exosome component 7	36					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	3'-5'-exoribonuclease activity|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00911)|KIRC - Kidney renal clear cell carcinoma(197;0.0509)|Kidney(197;0.064)														---	---	---	---
FYCO1	79443	broad.mit.edu	37	3	46008705	46008705	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:46008705G>A	uc003cpb.3	-	8	2327	c.2121C>T	c.(2119-2121)GGC>GGT	p.G707G	FYCO1_uc011bal.1_Silent_p.G707G	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	707	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)														---	---	---	---
FYCO1	79443	broad.mit.edu	37	3	46009957	46009957	+	Missense_Mutation	SNP	C	T	T	rs146311777	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:46009957C>T	uc003cpb.3	-	8	1075	c.869G>A	c.(868-870)CGC>CAC	p.R290H	FYCO1_uc011bal.1_Missense_Mutation_p.R290H	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	290					transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)														---	---	---	---
CCR5	1234	broad.mit.edu	37	3	46414590	46414590	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:46414590A>G	uc003cpo.3	+	3	319	c.197A>G	c.(196-198)GAC>GGC	p.D66G	CCR5_uc010hjd.2_Missense_Mutation_p.D66G	NM_001100168	NP_001093638	P51681	CCR5_HUMAN	chemokine (C-C motif) receptor 5	66	Cytoplasmic (Potential).				cell-cell signaling|cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|immune response|inflammatory response|initiation of viral infection	endosome|external side of plasma membrane|integral to plasma membrane	actin binding|C-C chemokine receptor activity|coreceptor activity|phosphatidylinositol phospholipase C activity			lung(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.00112)|KIRC - Kidney renal clear cell carcinoma(197;0.017)|Kidney(197;0.02)	Maraviroc(DB04835)													---	---	---	---
MYL3	4634	broad.mit.edu	37	3	46904789	46904789	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:46904789C>T	uc003cql.1	-	1	185	c.92G>A	c.(91-93)CGC>CAC	p.R31H		NM_000258	NP_000249	P08590	MYL3_HUMAN	slow skeletal ventricular myosin alkali light	31					cardiac muscle contraction|muscle filament sliding|positive regulation of ATPase activity|regulation of striated muscle contraction|regulation of the force of heart contraction|ventricular cardiac muscle tissue morphogenesis	A band|cytosol|I band|muscle myosin complex	actin monomer binding|calcium ion binding|myosin II heavy chain binding|structural constituent of muscle				0				BRCA - Breast invasive adenocarcinoma(193;0.00116)|KIRC - Kidney renal clear cell carcinoma(197;0.00557)|Kidney(197;0.0063)														---	---	---	---
PTPN23	25930	broad.mit.edu	37	3	47453616	47453616	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47453616G>A	uc003crf.1	+	22	4202	c.4106G>A	c.(4105-4107)CGC>CAC	p.R1369H	PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.R1239H|uc003cri.2_5'Flank	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	1369	Tyrosine-protein phosphatase.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)														---	---	---	---
CSPG5	10675	broad.mit.edu	37	3	47604238	47604238	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47604238G>T	uc003crp.3	-	5	1729	c.1553C>A	c.(1552-1554)GCT>GAT	p.A518D	CSPG5_uc003crm.2_RNA|CSPG5_uc003crn.2_Missense_Mutation_p.A353D|CSPG5_uc003cro.3_Missense_Mutation_p.A491D|CSPG5_uc011bbb.1_Missense_Mutation_p.A380D	NM_006574	NP_006565	O95196	CSPG5_HUMAN	chondroitin sulfate proteoglycan 5 (neuroglycan	518	Cytoplasmic (Potential).				cell differentiation|intracellular transport|nervous system development|regulation of growth	endoplasmic reticulum membrane|Golgi-associated vesicle membrane|integral to plasma membrane|membrane fraction	growth factor activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000266)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)														---	---	---	---
SMARCC1	6599	broad.mit.edu	37	3	47712178	47712178	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47712178C>T	uc003crq.2	-	19	1987	c.1869G>A	c.(1867-1869)TGG>TGA	p.W623*	SMARCC1_uc011bbc.1_RNA|SMARCC1_uc011bbd.1_Nonsense_Mutation_p.W514*	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	623	SANT.				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)														---	---	---	---
DHX30	22907	broad.mit.edu	37	3	47888355	47888355	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47888355G>A	uc003cru.2	+	11	2219	c.1793G>A	c.(1792-1794)CGC>CAC	p.R598H	DHX30_uc003crt.2_Missense_Mutation_p.R559H|MIR1226_hsa-mir-1226|MI0006313_5'Flank	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	598	Helicase ATP-binding.					mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)														---	---	---	---
SPINK8	646424	broad.mit.edu	37	3	48369810	48369810	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:48369810C>T	uc003csq.1	-	1	22	c.22G>A	c.(22-24)GCC>ACC	p.A8T		NM_001080525	NP_001073994	P0C7L1	ISK8_HUMAN	serine peptidase inhibitor, Kazal type 8	8						extracellular region	serine-type endopeptidase inhibitor activity				0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)														---	---	---	---
FBXW12	285231	broad.mit.edu	37	3	48423521	48423521	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:48423521A>G	uc003csr.2	+	10	1427	c.1241A>G	c.(1240-1242)TAC>TGC	p.Y414C	FBXW12_uc010hjv.2_Missense_Mutation_p.Y395C|FBXW12_uc003css.2_Missense_Mutation_p.Y344C|FBXW12_uc010hjw.2_Missense_Mutation_p.Y313C	NM_207102	NP_996985	Q6X9E4	FBW12_HUMAN	F-box and WD repeat domain containing 12 isoform	414	WD 5.										0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)														---	---	---	---
PLXNB1	5364	broad.mit.edu	37	3	48455097	48455097	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:48455097A>G	uc003csw.2	-	23	4787	c.4517T>C	c.(4516-4518)ATC>ACC	p.I1506T	PLXNB1_uc003cst.2_5'UTR|PLXNB1_uc003csu.2_Missense_Mutation_p.I1323T|PLXNB1_uc003csx.2_Missense_Mutation_p.I1506T|PLXNB1_uc010hjx.1_RNA	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	1506	Helical; (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)														---	---	---	---
PLXNB1	5364	broad.mit.edu	37	3	48462284	48462284	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:48462284G>A	uc003csw.2	-	9	2162	c.1892C>T	c.(1891-1893)GCG>GTG	p.A631V	PLXNB1_uc003csu.2_Missense_Mutation_p.A631V|PLXNB1_uc003csx.2_Missense_Mutation_p.A631V|PLXNB1_uc010hjx.1_RNA	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	631	Extracellular (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)														---	---	---	---
CELSR3	1951	broad.mit.edu	37	3	48678953	48678953	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:48678953C>A	uc003cul.2	-	33	9110	c.8829G>T	c.(8827-8829)GTG>GTT	p.V2943V	CELSR3_uc003cuf.1_Silent_p.V3041V|CELSR3_uc010hkf.2_Silent_p.V233V|CELSR3_uc010hkg.2_Silent_p.V926V	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	2943	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)														---	---	---	---
WDR6	11180	broad.mit.edu	37	3	49049078	49049078	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49049078C>A	uc003cvj.2	+	2	339	c.201C>A	c.(199-201)CCC>CCA	p.P67P	WDR6_uc011bbx.1_Intron|WDR6_uc011bby.1_Intron|WDR6_uc010hkn.2_Silent_p.P11P|WDR6_uc011bbz.1_5'UTR	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	37					cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)														---	---	---	---
QRICH1	54870	broad.mit.edu	37	3	49095173	49095173	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49095173G>A	uc010hkq.2	-	4	756	c.460C>T	c.(460-462)CCG>TCG	p.P154S	QRICH1_uc003cvu.2_Missense_Mutation_p.P154S|QRICH1_uc003cvv.2_Missense_Mutation_p.P154S	NM_198880	NP_942581	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	154	Gln-rich.									ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)														---	---	---	---
QRICH1	54870	broad.mit.edu	37	3	49114337	49114337	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49114337C>T	uc010hkq.2	-	3	410	c.114G>A	c.(112-114)GGG>GGA	p.G38G	QRICH1_uc003cvu.2_Silent_p.G38G|QRICH1_uc003cvv.2_Silent_p.G38G	NM_198880	NP_942581	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	38	CARD.									ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)														---	---	---	---
QARS	5859	broad.mit.edu	37	3	49141288	49141288	+	Intron	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49141288A>C	uc003cvx.2	-						QARS_uc011bcd.1_Intron|QARS_uc003cvy.2_Intron|QARS_uc011bce.1_Intron|QARS_uc011bcf.1_Intron	NM_005051	NP_005042			glutaminyl-tRNA synthetase						glutaminyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|glutamine-tRNA ligase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)	L-Glutamine(DB00130)													---	---	---	---
USP19	10869	broad.mit.edu	37	3	49148537	49148537	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49148537G>A	uc003cwd.1	-	22	3243	c.3082C>T	c.(3082-3084)CGC>TGC	p.R1028C	USP19_uc003cwa.2_Missense_Mutation_p.R836C|USP19_uc003cvz.3_Missense_Mutation_p.R1131C|USP19_uc011bcg.1_Missense_Mutation_p.R1119C|USP19_uc003cwb.2_Intron|USP19_uc003cwc.1_Missense_Mutation_p.R786C|USP19_uc011bch.1_Missense_Mutation_p.R1129C	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	1028	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)														---	---	---	---
CCDC71	64925	broad.mit.edu	37	3	49200838	49200838	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49200838C>T	uc003cwg.3	-	2	942	c.804G>A	c.(802-804)CGG>CGA	p.R268R		NM_022903	NP_075054	Q8IV32	CCD71_HUMAN	coiled-coil domain containing 71	268										ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)														---	---	---	---
CCDC36	339834	broad.mit.edu	37	3	49292916	49292916	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49292916G>T	uc003cwk.2	+	9	1013	c.626G>T	c.(625-627)AGA>ATA	p.R209I	CCDC36_uc011bck.1_Missense_Mutation_p.R209I	NM_178173	NP_835467	Q8IYA8	CCD36_HUMAN	coiled-coil domain containing 36	209										ovary(1)|kidney(1)	2				BRCA - Breast invasive adenocarcinoma(193;9.11e-05)|Kidney(197;0.00248)|KIRC - Kidney renal clear cell carcinoma(197;0.00262)														---	---	---	---
USP4	7375	broad.mit.edu	37	3	49322015	49322015	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49322015G>T	uc003cwq.2	-	18	2353	c.2274C>A	c.(2272-2274)GCC>GCA	p.A758A	USP4_uc003cwo.2_Silent_p.A470A|USP4_uc003cwp.2_Silent_p.A488A|USP4_uc003cwr.2_Silent_p.A711A	NM_003363	NP_003354	Q13107	UBP4_HUMAN	ubiquitin specific protease 4 isoform a	758					negative regulation of protein ubiquitination|protein deubiquitination|protein localization at cell surface|regulation of protein stability|ubiquitin-dependent protein catabolic process	lysosome|nucleus	adenosine receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|urinary_tract(1)|lung(1)	4		Ovarian(412;0.00308)|Myeloproliferative disorder(1037;0.0255)|Hepatocellular(537;0.121)		OV - Ovarian serous cystadenocarcinoma(275;4.74e-26)|Kidney(197;2.22e-07)|KIRC - Kidney renal clear cell carcinoma(197;5.14e-06)|BRCA - Breast invasive adenocarcinoma(193;9.46e-05)														---	---	---	---
AMT	275	broad.mit.edu	37	3	49459799	49459799	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49459799C>T	uc003cww.2	-	1	214	c.85G>A	c.(85-87)GCA>ACA	p.A29T	AMT_uc011bcn.1_5'UTR|AMT_uc003cwx.2_Missense_Mutation_p.A29T|AMT_uc011bco.1_Missense_Mutation_p.A29T|AMT_uc003cwy.2_5'UTR|AMT_uc011bcp.1_5'UTR|AMT_uc011bcq.1_Missense_Mutation_p.A29T|NICN1_uc003cwz.1_3'UTR	NM_000481	NP_000472	P48728	GCST_HUMAN	aminomethyltransferase isoform 1 precursor	29					glycine catabolic process	mitochondrion	aminomethyltransferase activity|transaminase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)													---	---	---	---
BSN	8927	broad.mit.edu	37	3	49694978	49694978	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49694978C>T	uc003cxe.3	+	5	8103	c.7989C>T	c.(7987-7989)AGC>AGT	p.S2663S		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2663					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)														---	---	---	---
BSN	8927	broad.mit.edu	37	3	49699714	49699714	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49699714C>T	uc003cxe.3	+	6	10550	c.10436C>T	c.(10435-10437)GCG>GTG	p.A3479V		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	3479					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)														---	---	---	---
RNF123	63891	broad.mit.edu	37	3	49758612	49758612	+	Intron	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49758612T>A	uc003cxh.2	+						RNF123_uc003cxi.2_Intron|AMIGO3_uc003cxj.2_5'Flank	NM_022064	NP_071347			ring finger protein 123							cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)														---	---	---	---
IP6K1	9807	broad.mit.edu	37	3	49785329	49785329	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49785329T>C	uc003cxm.1	-	2	460	c.145A>G	c.(145-147)AAG>GAG	p.K49E	IP6K1_uc003cxn.1_Intron|IP6K1_uc011bcv.1_Intron|IP6K1_uc003cxo.2_Missense_Mutation_p.K49E	NM_153273	NP_695005	Q92551	IP6K1_HUMAN	inositol hexakisphosphate kinase 1 isoform 1	49					phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0																		---	---	---	---
MST1R	4486	broad.mit.edu	37	3	49935976	49935976	+	Missense_Mutation	SNP	T	A	A	rs144558604	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49935976T>A	uc003cxy.3	-	4	1958	c.1694A>T	c.(1693-1695)GAC>GTC	p.D565V	MST1R_uc011bdd.1_Missense_Mutation_p.D565V|MST1R_uc011bde.1_Missense_Mutation_p.D565V|MST1R_uc011bdf.1_Missense_Mutation_p.D459V|MST1R_uc011bdc.1_5'Flank	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	565	Extracellular (Potential).				cellular component movement|defense response|multicellular organismal development|positive regulation of cell proliferation|single fertilization|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|macrophage colony-stimulating factor receptor activity|protein binding			ovary(5)|lung(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)														---	---	---	---
RBM6	10180	broad.mit.edu	37	3	50005976	50005976	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50005976C>T	uc003cyc.2	+	3	1251	c.1118C>T	c.(1117-1119)TCT>TTT	p.S373F	RBM6_uc011bdh.1_RNA|RBM6_uc010hlc.1_Intron|RBM6_uc003cyd.2_Intron|RBM6_uc003cye.2_Intron|RBM6_uc011bdi.1_Intron|RBM6_uc010hld.1_Intron|RBM6_uc010hle.1_Intron|RBM6_uc010hlf.1_Intron	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	373					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)														---	---	---	---
GNAT1	2779	broad.mit.edu	37	3	50231062	50231062	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50231062G>A	uc003cym.2	+	4	531	c.415G>A	c.(415-417)GCC>ACC	p.A139T	GNAT1_uc003cyl.2_Missense_Mutation_p.A139T	NM_144499	NP_653082	P11488	GNAT1_HUMAN	rod-type transducin alpha subunit	139					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|negative regulation of cyclic-nucleotide phosphodiesterase activity|rhodopsin mediated phototransduction|sensory perception of umami taste	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	acyl binding|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GDP binding|GTP binding|GTPase activity|protein kinase binding|signal transducer activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)														---	---	---	---
SEMA3B	7869	broad.mit.edu	37	3	50314079	50314079	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50314079G>A	uc003cyu.2	+	19	2434	c.2192G>A	c.(2191-2193)AGG>AAG	p.R731K	SEMA3B_uc003cyt.2_Missense_Mutation_p.R730K|SEMA3B_uc003cyv.2_Missense_Mutation_p.R618K|SEMA3B_uc003cyw.2_Missense_Mutation_p.R454K|SEMA3B_uc010hli.2_Missense_Mutation_p.R623K|SEMA3B_uc003cyx.2_Missense_Mutation_p.R617K|SEMA3B_uc003cyy.2_Missense_Mutation_p.R388K|SEMA3B_uc011bdo.1_Missense_Mutation_p.R388K|C3orf45_uc003cyz.2_5'Flank	NM_004636	NP_004627	Q13214	SEM3B_HUMAN	semaphorin 3B isoform 1 precursor	731	Arg-rich (basic).				axon guidance|cell-cell signaling	endoplasmic reticulum|extracellular region|membrane	receptor activity			lung(2)|central_nervous_system(2)|kidney(1)|skin(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)														---	---	---	---
DOCK3	1795	broad.mit.edu	37	3	51418570	51418570	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51418570C>T	uc011bds.1	+	53	5696	c.5673C>T	c.(5671-5673)AGC>AGT	p.S1891S		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1891						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)														---	---	---	---
VPRBP	9730	broad.mit.edu	37	3	51475546	51475546	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51475546C>T	uc003dbe.1	-	8	1049	c.881G>A	c.(880-882)CGC>CAC	p.R294H	VPRBP_uc003dbg.1_Missense_Mutation_p.R294H	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	294					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)														---	---	---	---
RAD54L2	23132	broad.mit.edu	37	3	51673538	51673538	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51673538C>T	uc011bdt.1	+	12	2089	c.1964C>T	c.(1963-1965)GCC>GTC	p.A655V	RAD54L2_uc003dbh.2_Missense_Mutation_p.A246V|RAD54L2_uc011bdu.1_Missense_Mutation_p.A349V|RAD54L2_uc003dbj.2_5'UTR	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	655						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)														---	---	---	---
GRM2	2912	broad.mit.edu	37	3	51750038	51750038	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51750038G>A	uc010hlv.2	+	4	2488	c.2249G>A	c.(2248-2250)CGC>CAC	p.R750H	GRM2_uc003dbo.3_Missense_Mutation_p.R132H|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	750	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)													---	---	---	---
PCBP4	57060	broad.mit.edu	37	3	51993937	51993937	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51993937G>A	uc003dcd.1	-	6	886	c.490C>T	c.(490-492)CGC>TGC	p.R164C	PCBP4_uc003dcb.1_Missense_Mutation_p.R130C|PCBP4_uc003dcc.1_Missense_Mutation_p.R185C|PCBP4_uc003dce.1_Missense_Mutation_p.R164C|PCBP4_uc003dcf.1_Missense_Mutation_p.R164C|PCBP4_uc003dcg.1_Missense_Mutation_p.R130C|PCBP4_uc003dch.1_Missense_Mutation_p.R164C|PCBP4_uc003dci.1_Intron|PCBP4_uc003dcj.1_Missense_Mutation_p.R164C|PCBP4_uc003dck.1_Intron|PCBP4_uc003dcl.1_Missense_Mutation_p.R164C	NM_033010	NP_127503	P57723	PCBP4_HUMAN	poly(rC) binding protein 4 isoform c	164						cytoplasm|ribonucleoprotein complex	DNA binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)														---	---	---	---
PCBP4	57060	broad.mit.edu	37	3	51995032	51995032	+	Silent	SNP	G	A	A	rs138501114		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51995032G>A	uc003dcd.1	-	2	495	c.99C>T	c.(97-99)ATC>ATT	p.I33I	PCBP4_uc003dcb.1_5'UTR|PCBP4_uc003dcc.1_5'UTR|PCBP4_uc003dce.1_Silent_p.I33I|PCBP4_uc003dcf.1_Silent_p.I33I|PCBP4_uc003dcg.1_5'UTR|PCBP4_uc003dch.1_Silent_p.I33I|PCBP4_uc003dci.1_5'UTR|PCBP4_uc003dcj.1_Silent_p.I33I|PCBP4_uc003dck.1_Silent_p.I33I|PCBP4_uc003dcl.1_Silent_p.I33I	NM_033010	NP_127503	P57723	PCBP4_HUMAN	poly(rC) binding protein 4 isoform c	33	KH 1.					cytoplasm|ribonucleoprotein complex	DNA binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)														---	---	---	---
ABHD14A	25864	broad.mit.edu	37	3	52014637	52014637	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52014637C>T	uc003dco.2	+	4	736	c.626C>T	c.(625-627)GCT>GTT	p.A209V	ABHD14B_uc003dcn.2_Intron|ACY1_uc011bea.1_Intron|ACY1_uc011beb.1_5'Flank|ACY1_uc003dcp.2_5'Flank|ACY1_uc003dcq.2_5'Flank	NM_015407	NP_056222	Q9BUJ0	ABHEA_HUMAN	abhydrolase domain containing 14A	209						cytoplasm|integral to membrane	hydrolase activity				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)														---	---	---	---
GLYCTK	132158	broad.mit.edu	37	3	52326603	52326603	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52326603G>A	uc003ddo.2	+	5	1129	c.1033G>A	c.(1033-1035)GCC>ACC	p.A345T	GLYCTK_uc003ddq.2_3'UTR|GLYCTK_uc003ddm.2_Intron|GLYCTK_uc003ddn.2_Intron|GLYCTK_uc003ddp.1_Intron|GLYCTK_uc003ddr.2_Missense_Mutation_p.A9T	NM_145262	NP_660305	Q8IVS8	GLCTK_HUMAN	glycerate kinase isoform 1	345					protein phosphorylation	Golgi apparatus|mitochondrion	ATP binding|glycerate kinase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;3.56e-05)|Kidney(197;0.00171)|KIRC - Kidney renal clear cell carcinoma(197;0.00194)|OV - Ovarian serous cystadenocarcinoma(275;0.235)														---	---	---	---
DNAH1	25981	broad.mit.edu	37	3	52392637	52392637	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52392637T>A	uc011bef.1	+	25	4411	c.4150T>A	c.(4150-4152)TTG>ATG	p.L1384M		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	1384	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)														---	---	---	---
STAB1	23166	broad.mit.edu	37	3	52556909	52556909	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52556909G>A	uc003dej.2	+	62	6937	c.6863G>A	c.(6862-6864)CGC>CAC	p.R2288H	STAB1_uc003dek.1_Missense_Mutation_p.R303H|STAB1_uc003del.2_Missense_Mutation_p.R175H	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2288	Extracellular (Potential).|Link.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)														---	---	---	---
ITIH3	3699	broad.mit.edu	37	3	52840399	52840399	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52840399G>A	uc003dfv.2	+	18	2069	c.2033G>A	c.(2032-2034)CGC>CAC	p.R678H	ITIH3_uc011bek.1_Intron	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	678					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)														---	---	---	---
ITIH4	3700	broad.mit.edu	37	3	52860646	52860646	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52860646G>A	uc003dfz.2	-	5	577	c.541C>T	c.(541-543)CCC>TCC	p.P181S	ITIH4_uc011bel.1_5'Flank|ITIH4_uc003dfy.2_Missense_Mutation_p.P57S|ITIH4_uc011bem.1_Missense_Mutation_p.P181S|ITIH4_uc011ben.1_Missense_Mutation_p.P181S	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4	181					acute-phase response|hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)														---	---	---	---
SFMBT1	51460	broad.mit.edu	37	3	52966139	52966139	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52966139A>T	uc003dgf.2	-	7	1208	c.639T>A	c.(637-639)GAT>GAA	p.D213E	SFMBT1_uc010hmr.2_Missense_Mutation_p.D160E|SFMBT1_uc003dgg.2_Missense_Mutation_p.D213E|SFMBT1_uc003dgh.2_Missense_Mutation_p.D213E	NM_001005159	NP_001005159	Q9UHJ3	SMBT1_HUMAN	Scm-like with four mbt domains 1	213	MBT 2.				regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)														---	---	---	---
PRKCD	5580	broad.mit.edu	37	3	53222784	53222784	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53222784G>T	uc003dgl.2	+	16	1817	c.1464G>T	c.(1462-1464)AAG>AAT	p.K488N	PRKCD_uc003dgm.2_Missense_Mutation_p.K488N	NM_006254	NP_006245	Q05655	KPCD_HUMAN	protein kinase C, delta	488	Protein kinase.				activation of phospholipase C activity|cellular component disassembly involved in apoptosis|cellular senescence|interferon-gamma-mediated signaling pathway|intracellular signal transduction|mRNA metabolic process|negative regulation of insulin receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein binding|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of ceramide biosynthetic process|positive regulation of glucosylceramide catabolic process|positive regulation of protein dephosphorylation|positive regulation of sphingomyelin catabolic process|protein stabilization|regulation of receptor activity|termination of signal transduction	cytosol|endoplasmic reticulum|nucleoplasm	ATP binding|calcium-independent protein kinase C activity|enzyme activator activity|enzyme binding|insulin receptor substrate binding|metal ion binding|protein C-terminus binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9		Ovarian(412;0.0728)		OV - Ovarian serous cystadenocarcinoma(275;3.58e-08)|BRCA - Breast invasive adenocarcinoma(193;0.000142)|Kidney(197;0.00153)|KIRC - Kidney renal clear cell carcinoma(197;0.00173)														---	---	---	---
CACNA1D	776	broad.mit.edu	37	3	53778828	53778828	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53778828G>A	uc003dgv.3	+	23	3143	c.2980G>A	c.(2980-2982)GCC>ACC	p.A994T	CACNA1D_uc003dgu.3_Missense_Mutation_p.A1014T|CACNA1D_uc003dgy.3_Missense_Mutation_p.A994T|CACNA1D_uc003dgw.3_Missense_Mutation_p.A661T|CACNA1D_uc003dgx.1_Missense_Mutation_p.A142T	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	994	Helical; Name=S4 of repeat III; (Potential).|III.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)													---	---	---	---
IL17RB	55540	broad.mit.edu	37	3	53899038	53899038	+	Silent	SNP	C	T	T	rs3733078		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53899038C>T	uc003dha.2	+	11	1251	c.1212C>T	c.(1210-1212)TGC>TGT	p.C404C		NM_018725	NP_061195	Q9NRM6	I17RB_HUMAN	interleukin 17B receptor precursor	404	SEFIR.|Cytoplasmic (Potential).				defense response|regulation of cell growth	extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)														---	---	---	---
ACTR8	93973	broad.mit.edu	37	3	53905304	53905304	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53905304C>T	uc003dhd.2	-	11	1581	c.1522G>A	c.(1522-1524)GCC>ACC	p.A508T	ACTR8_uc003dhb.2_Missense_Mutation_p.A213T|ACTR8_uc003dhc.2_Missense_Mutation_p.A397T	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	508					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)														---	---	---	---
CACNA2D3	55799	broad.mit.edu	37	3	54922046	54922046	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:54922046C>T	uc003dhf.2	+	24	2165	c.2117C>T	c.(2116-2118)GCG>GTG	p.A706V	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Missense_Mutation_p.A612V|CACNA2D3_uc003dhh.1_RNA|uc003dhk.1_Intron	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	706	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)														---	---	---	---
LRTM1	57408	broad.mit.edu	37	3	54952504	54952504	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:54952504A>G	uc003dhl.2	-	3	1154	c.1020T>C	c.(1018-1020)TTT>TTC	p.F340F	CACNA2D3_uc003dhf.2_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron	NM_020678	NP_065729	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	340	Cytoplasmic (Potential).					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)														---	---	---	---
CACNA2D3	55799	broad.mit.edu	37	3	55038847	55038847	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:55038847C>T	uc003dhf.2	+	32	2796	c.2748C>T	c.(2746-2748)GGC>GGT	p.G916G	CACNA2D3_uc003dhg.1_Silent_p.G822G|CACNA2D3_uc003dhh.1_RNA	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	916	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)														---	---	---	---
ERC2	26059	broad.mit.edu	37	3	55922476	55922476	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:55922476C>T	uc003dhr.1	-	14	2761	c.2505G>A	c.(2503-2505)GCG>GCA	p.A835A	ERC2_uc003dhq.1_RNA|ERC2_uc003dht.1_Silent_p.A314A	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	835	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)														---	---	---	---
C3orf63	23272	broad.mit.edu	37	3	56675649	56675649	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:56675649G>A	uc003did.3	-	15	2448	c.2347C>T	c.(2347-2349)CGC>TGC	p.R783C	C3orf63_uc003dic.3_Missense_Mutation_p.R387C|C3orf63_uc003die.3_Missense_Mutation_p.R783C	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	783										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)														---	---	---	---
IL17RD	54756	broad.mit.edu	37	3	57136541	57136541	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:57136541C>T	uc003dil.2	-	10	1034	c.945G>A	c.(943-945)ACG>ACA	p.T315T	IL17RD_uc003dik.2_Silent_p.T291T|IL17RD_uc010hna.2_Silent_p.T171T|IL17RD_uc011bex.1_Silent_p.T171T	NM_017563	NP_060033	Q8NFM7	I17RD_HUMAN	interleukin 17 receptor D precursor	315	Helical; (Potential).					Golgi membrane|integral to membrane|plasma membrane	receptor activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0173)|Kidney(284;0.0204)														---	---	---	---
APPL1	26060	broad.mit.edu	37	3	57293966	57293966	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:57293966G>A	uc003dio.2	+	17	1724	c.1577G>A	c.(1576-1578)CGC>CAC	p.R526H	APPL1_uc010hnb.2_Missense_Mutation_p.R526H|APPL1_uc011bey.1_Missense_Mutation_p.R509H	NM_012096	NP_036228	Q9UKG1	DP13A_HUMAN	adaptor protein, phosphotyrosine interaction, PH	526	PID.				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)														---	---	---	---
SLMAP	7871	broad.mit.edu	37	3	57898261	57898261	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:57898261A>G	uc003dje.1	+	18	2007	c.1802A>G	c.(1801-1803)GAC>GGC	p.D601G	SLMAP_uc003djd.1_Missense_Mutation_p.D584G|SLMAP_uc003djf.1_Missense_Mutation_p.D563G|SLMAP_uc003djg.1_Missense_Mutation_p.D195G|SLMAP_uc011bez.1_Missense_Mutation_p.D69G|SLMAP_uc011bfa.1_Missense_Mutation_p.D135G|SLMAP_uc003djh.2_Missense_Mutation_p.D94G|SLMAP_uc003dji.1_Missense_Mutation_p.D135G|SLMAP_uc011bfb.1_Missense_Mutation_p.D135G|SLMAP_uc011bfc.1_Missense_Mutation_p.D94G	NM_007159	NP_009090	Q14BN4	SLMAP_HUMAN	sarcolemma associated protein	601	Cytoplasmic (Potential).|Potential.				muscle contraction|protein folding	integral to plasma membrane|microtubule organizing center|prefoldin complex|sarcolemma|smooth endoplasmic reticulum	unfolded protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000271)|KIRC - Kidney renal clear cell carcinoma(284;0.0602)|Kidney(284;0.0754)|OV - Ovarian serous cystadenocarcinoma(275;0.182)														---	---	---	---
FLNB	2317	broad.mit.edu	37	3	58129201	58129201	+	Silent	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:58129201A>T	uc003djj.2	+	32	5451	c.5286A>T	c.(5284-5286)GGA>GGT	p.G1762G	FLNB_uc010hne.2_Silent_p.G1793G|FLNB_uc003djk.2_Silent_p.G1751G|FLNB_uc010hnf.2_Silent_p.G1738G|FLNB_uc003djl.2_Silent_p.G1582G|FLNB_uc003djm.2_Silent_p.G1569G	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1762	Filamin 16.				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)														---	---	---	---
FEZF2	55079	broad.mit.edu	37	3	62355881	62355881	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:62355881G>A	uc003dlh.2	-	4	1464	c.1257C>T	c.(1255-1257)TGC>TGT	p.C419C	FEZF2_uc003dli.2_Silent_p.C419C	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	419	C2H2-type 6.				transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)														---	---	---	---
FEZF2	55079	broad.mit.edu	37	3	62355985	62355985	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:62355985C>A	uc003dlh.2	-	4	1360	c.1153G>T	c.(1153-1155)GGC>TGC	p.G385C	FEZF2_uc003dli.2_Missense_Mutation_p.G385C	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	385					transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)														---	---	---	---
THOC7	80145	broad.mit.edu	37	3	63825403	63825403	+	Silent	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:63825403T>G	uc003dlt.3	-	2	197	c.66A>C	c.(64-66)GGA>GGC	p.G22G	C3orf49_uc003dls.3_Intron|THOC7_uc003dlu.3_Intron	NM_025075	NP_079351	Q6I9Y2	THOC7_HUMAN	Ngg1 interacting factor 3 like 1 binding protein	22					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	cytoplasm|THO complex part of transcription export complex	protein binding|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(55;0.000439)|Kidney(15;0.00194)|KIRC - Kidney renal clear cell carcinoma(15;0.00218)														---	---	---	---
ATXN7	6314	broad.mit.edu	37	3	63965619	63965619	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:63965619G>A	uc003dlw.3	+	6	1081	c.528G>A	c.(526-528)CCG>CCA	p.P176P	ATXN7_uc003dlv.2_Silent_p.P176P|ATXN7_uc010hnv.2_Silent_p.P176P|ATXN7_uc010hnw.2_Silent_p.P31P|ATXN7_uc011bfn.1_Silent_p.P31P	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	176	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)														---	---	---	---
ATXN7	6314	broad.mit.edu	37	3	63975975	63975975	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:63975975C>T	uc003dlw.3	+	10	2038	c.1485C>T	c.(1483-1485)GGC>GGT	p.G495G	ATXN7_uc003dlv.2_Silent_p.G495G|ATXN7_uc010hnv.2_Silent_p.G495G|ATXN7_uc011bfn.1_Silent_p.G350G	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	495					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)														---	---	---	---
PRICKLE2	166336	broad.mit.edu	37	3	64084813	64084813	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:64084813C>A	uc003dmf.2	-	8	3035	c.2449G>T	c.(2449-2451)GGC>TGC	p.G817C		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	817						cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)														---	---	---	---
PRICKLE2	166336	broad.mit.edu	37	3	64084864	64084864	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:64084864G>A	uc003dmf.2	-	8	2984	c.2398C>T	c.(2398-2400)CGC>TGC	p.R800C		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	800						cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)														---	---	---	---
ADAMTS9	56999	broad.mit.edu	37	3	64641547	64641547	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:64641547G>A	uc003dmg.2	-	5	1006	c.974C>T	c.(973-975)GCC>GTC	p.A325V	ADAMTS9_uc011bfo.1_Intron|ADAMTS9_uc003dmh.1_Missense_Mutation_p.A154V|ADAMTS9_uc003dmk.1_Missense_Mutation_p.A325V	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	325	Peptidase M12B.				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)														---	---	---	---
MAGI1	9223	broad.mit.edu	37	3	65415516	65415516	+	Missense_Mutation	SNP	C	T	T	rs151058544	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:65415516C>T	uc003dmn.2	-	12	2372	c.1846G>A	c.(1846-1848)GTG>ATG	p.V616M	MAGI1_uc003dmm.2_Missense_Mutation_p.V616M|MAGI1_uc003dmo.2_Missense_Mutation_p.V616M|MAGI1_uc003dmp.2_Missense_Mutation_p.V616M|MAGI1_uc010hny.2_Missense_Mutation_p.V501M	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	616					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)														---	---	---	---
PDZRN3	23024	broad.mit.edu	37	3	73453360	73453360	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:73453360C>T	uc003dpl.1	-	4	1201	c.1105G>A	c.(1105-1107)GCC>ACC	p.A369T	PDZRN3_uc011bgh.1_Missense_Mutation_p.A26T|PDZRN3_uc010hoe.1_Missense_Mutation_p.A67T|PDZRN3_uc011bgf.1_Missense_Mutation_p.A86T|PDZRN3_uc011bgg.1_Missense_Mutation_p.A89T	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	369							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)														---	---	---	---
CNTN3	5067	broad.mit.edu	37	3	74334502	74334502	+	Silent	SNP	G	A	A	rs142860919		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:74334502G>A	uc003dpm.1	-	19	2738	c.2658C>T	c.(2656-2658)GGC>GGT	p.G886G		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	886	Fibronectin type-III 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)														---	---	---	---
ROBO2	6092	broad.mit.edu	37	3	77666778	77666778	+	Silent	SNP	C	T	T	rs143561771	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:77666778C>T	uc003dpy.3	+	22	4051	c.3408C>T	c.(3406-3408)GGC>GGT	p.G1136G	ROBO2_uc003dpz.2_Silent_p.G1140G|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Silent_p.G1140G|ROBO2_uc003dqa.2_Silent_p.G263G	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1136	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)														---	---	---	---
ROBO2	6092	broad.mit.edu	37	3	77693990	77693990	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:77693990C>T	uc003dpy.3	+	25	4713	c.4070C>T	c.(4069-4071)GCC>GTC	p.A1357V	ROBO2_uc003dpz.2_Missense_Mutation_p.A1422V|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.A1361V	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1357	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)														---	---	---	---
CGGBP1	8545	broad.mit.edu	37	3	88104713	88104713	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:88104713G>A	uc003dqs.2	-	4	926	c.414C>T	c.(412-414)GGC>GGT	p.G138G	CGGBP1_uc003dqt.2_Silent_p.G138G|CGGBP1_uc003dqu.2_Silent_p.G138G	NM_001008390	NP_001008391	Q9UFW8	CGBP1_HUMAN	CGG triplet repeat binding protein 1	138					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding				0		Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00359)|Lung(72;0.00677)														---	---	---	---
EPHA3	2042	broad.mit.edu	37	3	89259600	89259600	+	Silent	SNP	C	T	T	rs150099876	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:89259600C>T	uc003dqy.2	+	3	969	c.744C>T	c.(742-744)GGC>GGT	p.G248G	EPHA3_uc003dqx.1_Silent_p.G248G|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	248	Extracellular (Potential).|Cys-rich.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)											TSP Lung(6;0.00050)			---	---	---	---
NSUN3	63899	broad.mit.edu	37	3	93803031	93803031	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:93803031A>G	uc003drl.1	+	3	319	c.203A>G	c.(202-204)GAT>GGT	p.D68G		NM_022072	NP_071355	Q9H649	NSUN3_HUMAN	NOL1/NOP2/Sun domain family, member 3	68							methyltransferase activity			skin(1)	1																		---	---	---	---
NSUN3	63899	broad.mit.edu	37	3	93813043	93813043	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:93813043G>T	uc003drl.1	+	4	642	c.526G>T	c.(526-528)GAA>TAA	p.E176*		NM_022072	NP_071355	Q9H649	NSUN3_HUMAN	NOL1/NOP2/Sun domain family, member 3	176							methyltransferase activity			skin(1)	1																		---	---	---	---
EPHA6	285220	broad.mit.edu	37	3	96706649	96706649	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:96706649C>T	uc010how.1	+	3	969	c.926C>T	c.(925-927)GCC>GTC	p.A309V	EPHA6_uc003drp.1_Missense_Mutation_p.A309V	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	214	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16																		---	---	---	---
MINA	84864	broad.mit.edu	37	3	97666220	97666220	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97666220C>T	uc003drz.1	-	8	1640	c.1134G>A	c.(1132-1134)CCG>CCA	p.P378P	MINA_uc003dry.1_Silent_p.P49P|MINA_uc003dsa.1_Silent_p.P377P|MINA_uc003dsb.1_Silent_p.P378P|MINA_uc003dsc.1_Silent_p.P377P|MINA_uc010hpa.1_RNA	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	378					ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1																		---	---	---	---
MINA	84864	broad.mit.edu	37	3	97686148	97686148	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97686148C>T	uc003drz.1	-	2	796	c.290G>A	c.(289-291)GGA>GAA	p.G97E	MINA_uc003dsa.1_Missense_Mutation_p.G97E|MINA_uc003dsb.1_Missense_Mutation_p.G97E|MINA_uc003dsc.1_Missense_Mutation_p.G97E|MINA_uc010hpa.1_RNA|MINA_uc010hpb.1_Intron	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	97					ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1																		---	---	---	---
NIT2	56954	broad.mit.edu	37	3	100058029	100058029	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100058029G>A	uc003dtv.2	+	2	180	c.106G>A	c.(106-108)GCC>ACC	p.A36T	NIT2_uc011bha.1_Missense_Mutation_p.A36T	NM_020202	NP_064587	Q9NQR4	NIT2_HUMAN	nitrilase family, member 2	36	CN hydrolase.				nitrogen compound metabolic process		omega-amidase activity			ovary(1)	1																		---	---	---	---
ABI3BP	25890	broad.mit.edu	37	3	100489724	100489724	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100489724G>T	uc003dun.2	-	29	2556	c.2471C>A	c.(2470-2472)CCC>CAC	p.P824H	ABI3BP_uc003duj.2_Missense_Mutation_p.P404H|ABI3BP_uc003duk.2_Missense_Mutation_p.P533H|ABI3BP_uc003dul.2_Missense_Mutation_p.P654H|ABI3BP_uc011bhd.1_Missense_Mutation_p.P778H|ABI3BP_uc003dum.2_Missense_Mutation_p.P235H	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	824						extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4																		---	---	---	---
FAM55C	91775	broad.mit.edu	37	3	101520245	101520245	+	Missense_Mutation	SNP	G	A	A	rs143859535		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:101520245G>A	uc003dvn.2	+	5	897	c.260G>A	c.(259-261)CGG>CAG	p.R87Q	FAM55C_uc010hpn.2_Missense_Mutation_p.R87Q	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	87						extracellular region				ovary(1)|pancreas(1)|skin(1)	3																		---	---	---	---
ALCAM	214	broad.mit.edu	37	3	105243139	105243139	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:105243139C>T	uc003dvx.2	+	3	721	c.181C>T	c.(181-183)CCC>TCC	p.P61S	ALCAM_uc003dvv.2_Missense_Mutation_p.P61S|ALCAM_uc003dvw.1_Missense_Mutation_p.P61S|ALCAM_uc003dvy.2_Missense_Mutation_p.P61S|ALCAM_uc011bhh.1_Missense_Mutation_p.P10S	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	61	Extracellular (Potential).|Ig-like V-type 1.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3																		---	---	---	---
ALCAM	214	broad.mit.edu	37	3	105252485	105252485	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:105252485C>T	uc003dvx.2	+	5	1038	c.498C>T	c.(496-498)GGC>GGT	p.G166G	ALCAM_uc003dvw.1_Silent_p.G166G|ALCAM_uc003dvy.2_Silent_p.G166G|ALCAM_uc011bhh.1_Silent_p.G115G|ALCAM_uc010hpp.2_5'UTR	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	166	Extracellular (Potential).|Ig-like V-type 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3																		---	---	---	---
CBLB	868	broad.mit.edu	37	3	105400357	105400357	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:105400357C>T	uc003dwc.2	-	16	2716	c.2394G>A	c.(2392-2394)ACG>ACA	p.T798T	CBLB_uc003dwa.2_Intron|CBLB_uc011bhi.1_Intron|CBLB_uc003dwd.1_Silent_p.T798T|CBLB_uc003dwe.1_3'UTR	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	798	Pro-rich.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9								Mis S		AML								---	---	---	---
CBLB	868	broad.mit.edu	37	3	105404299	105404299	+	Missense_Mutation	SNP	G	T	T	rs151321164	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:105404299G>T	uc003dwc.2	-	14	2388	c.2066C>A	c.(2065-2067)CCG>CAG	p.P689Q	CBLB_uc011bhi.1_Missense_Mutation_p.P711Q|CBLB_uc003dwd.1_Missense_Mutation_p.P689Q|CBLB_uc003dwe.1_Missense_Mutation_p.P689Q	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	689	Pro-rich.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9								Mis S		AML								---	---	---	---
HHLA2	11148	broad.mit.edu	37	3	108076864	108076864	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108076864C>T	uc003dwy.3	+	6	1026	c.859C>T	c.(859-861)CGA>TGA	p.R287*	HHLA2_uc011bhl.1_Nonsense_Mutation_p.R223*|HHLA2_uc010hpu.2_Nonsense_Mutation_p.R287*|HHLA2_uc003dwz.2_Nonsense_Mutation_p.R287*	NM_007072	NP_009003	Q9UM44	HHLA2_HUMAN	HERV-H LTR-associating 2 precursor	287	Ig-like V-type 2.					integral to membrane				ovary(1)	1																		---	---	---	---
KIAA1524	57650	broad.mit.edu	37	3	108276166	108276166	+	Silent	SNP	C	T	T	rs148609942		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108276166C>T	uc003dxb.3	-	17	2378	c.2109G>A	c.(2107-2109)GCG>GCA	p.A703A		NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	703	Potential.					cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
DPPA2	151871	broad.mit.edu	37	3	109023460	109023460	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:109023460A>G	uc003dxo.2	-	7	963	c.716T>C	c.(715-717)GTA>GCA	p.V239A		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	239						nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3																		---	---	---	---
PHLDB2	90102	broad.mit.edu	37	3	111632332	111632332	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111632332G>A	uc010hqa.2	+	3	1913	c.1502G>A	c.(1501-1503)AGC>AAC	p.S501N	PHLDB2_uc003dyc.2_Missense_Mutation_p.S528N|PHLDB2_uc003dyd.2_Missense_Mutation_p.S501N|PHLDB2_uc003dyg.2_Missense_Mutation_p.S501N|PHLDB2_uc003dyh.2_Missense_Mutation_p.S501N|PHLDB2_uc003dyi.2_Missense_Mutation_p.S87N|PHLDB2_uc003dyf.3_Missense_Mutation_p.S501N	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	501						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6																		---	---	---	---
TMPRSS7	344805	broad.mit.edu	37	3	111799801	111799801	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111799801A>G	uc010hqb.2	+	16	2194	c.2024A>G	c.(2023-2025)GAT>GGT	p.D675G	TMPRSS7_uc011bhr.1_Missense_Mutation_p.D530G	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	801	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2																		---	---	---	---
C3orf52	79669	broad.mit.edu	37	3	111828413	111828413	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111828413G>A	uc003dyq.3	+	4	493	c.420G>A	c.(418-420)TCG>TCA	p.S140S	C3orf52_uc011bhs.1_Intron|C3orf52_uc011bht.1_Intron|C3orf52_uc003dyr.1_5'Flank	NM_024616	NP_078892	Q5BVD1	TTMP_HUMAN	TPA-induced transmembrane protein	140						endoplasmic reticulum membrane|integral to membrane					0																		---	---	---	---
CCDC80	151887	broad.mit.edu	37	3	112337891	112337891	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:112337891C>A	uc003dzf.2	-	4	2314	c.2096G>T	c.(2095-2097)AGC>ATC	p.S699I	CCDC80_uc011bhv.1_Missense_Mutation_p.S699I|CCDC80_uc003dzg.2_Missense_Mutation_p.S699I|CCDC80_uc003dzh.1_Missense_Mutation_p.S699I	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	699										ovary(2)	2																		---	---	---	---
BOC	91653	broad.mit.edu	37	3	113005615	113005615	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113005615C>T	uc003dzx.2	+	20	3872	c.3251C>T	c.(3250-3252)CCC>CTC	p.P1084L	BOC_uc003dzy.2_Missense_Mutation_p.P1084L|BOC_uc003dzz.2_Missense_Mutation_p.P1085L|BOC_uc003eab.2_Missense_Mutation_p.P785L|BOC_uc003eac.2_Intron	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	1084	Cytoplasmic (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)															---	---	---	---
WDR52	55779	broad.mit.edu	37	3	113146042	113146042	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113146042C>T	uc003eae.1	-	3	291	c.245G>A	c.(244-246)AGC>AAC	p.S82N		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	82										central_nervous_system(1)	1																		---	---	---	---
KIAA2018	205717	broad.mit.edu	37	3	113377816	113377816	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113377816C>T	uc003eam.2	-	7	3124	c.2713G>A	c.(2713-2715)GCC>ACC	p.A905T	KIAA2018_uc003eal.2_Missense_Mutation_p.A849T	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	905					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3																		---	---	---	---
ATP6V1A	523	broad.mit.edu	37	3	113503074	113503074	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113503074G>A	uc003eao.2	+	4	281	c.215G>A	c.(214-216)GGT>GAT	p.G72D	ATP6V1A_uc011bik.1_Missense_Mutation_p.G39D	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	72					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3																		---	---	---	---
ZDHHC23	254887	broad.mit.edu	37	3	113673204	113673204	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113673204G>A	uc003eau.2	+	3	1118	c.819G>A	c.(817-819)TGG>TGA	p.W273*	ZDHHC23_uc003eav.2_Nonsense_Mutation_p.W267*	NM_173570	NP_775841	Q8IYP9	ZDH23_HUMAN	zinc finger, DHHC domain containing 23	273	DHHC-type.					integral to membrane	acyltransferase activity|zinc ion binding			ovary(2)	2																		---	---	---	---
DRD3	1814	broad.mit.edu	37	3	113850099	113850099	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113850099G>A	uc003ebd.2	-	7	1295	c.872C>T	c.(871-873)GCG>GTG	p.A291V	DRD3_uc010hqn.1_Missense_Mutation_p.A291V|DRD3_uc003ebb.1_Intron|DRD3_uc003ebc.1_Missense_Mutation_p.A291V	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	291	Cytoplasmic.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)													---	---	---	---
ZNF80	7634	broad.mit.edu	37	3	113955754	113955754	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113955754G>A	uc010hqo.2	-	1	672	c.168C>T	c.(166-168)AGC>AGT	p.S56S	ZNF80_uc003ebf.2_RNA	NM_007136	NP_009067	P51504	ZNF80_HUMAN	zinc finger protein 80	56	C2H2-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(201;0.0233)|all_neural(597;0.0837)																---	---	---	---
B4GALT4	8702	broad.mit.edu	37	3	118937520	118937520	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:118937520G>A	uc003ecg.2	-	6	1415	c.774C>T	c.(772-774)GGC>GGT	p.G258G	B4GALT4_uc003ece.1_Silent_p.G258G|B4GALT4_uc003ecf.2_Intron|B4GALT4_uc003ech.2_Silent_p.G258G|B4GALT4_uc003eci.2_Silent_p.G258G|B4GALT4_uc011biy.1_Intron	NM_212543	NP_997708	O60513	B4GT4_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	258	Lumenal (Potential).				membrane lipid metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding|N-acetyllactosamine synthase activity				0				GBM - Glioblastoma multiforme(114;0.222)	N-Acetyl-D-glucosamine(DB00141)													---	---	---	---
ARHGAP31	57514	broad.mit.edu	37	3	119121090	119121090	+	Silent	SNP	C	T	T	rs61747387	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119121090C>T	uc003ecj.3	+	10	2023	c.1491C>T	c.(1489-1491)CGC>CGT	p.R497R		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	497					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2																		---	---	---	---
C3orf1	51300	broad.mit.edu	37	3	119217590	119217590	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119217590C>T	uc003ecn.2	+	1	223	c.10C>T	c.(10-12)CCG>TCG	p.P4S	C3orf1_uc003eco.2_RNA|C3orf1_uc003ecp.2_5'Flank	NM_016589	NP_057673	Q9NPL8	TIDC1_HUMAN	hypothetical protein LOC51300	4						integral to membrane|mitochondrial inner membrane	protein transporter activity				0				GBM - Glioblastoma multiforme(114;0.186)														---	---	---	---
POPDC2	64091	broad.mit.edu	37	3	119379244	119379244	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119379244G>A	uc003ecx.1	-	1	161	c.27C>T	c.(25-27)GGC>GGT	p.G9G	POPDC2_uc010hqw.1_Silent_p.G9G|POPDC2_uc003ecy.1_Intron	NM_022135	NP_071418	Q9HBU9	POPD2_HUMAN	popeye protein 2	9						integral to membrane				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.242)														---	---	---	---
C3orf15	89876	broad.mit.edu	37	3	119434422	119434422	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119434422A>G	uc003ede.3	+	6	591	c.514A>G	c.(514-516)ACT>GCT	p.T172A	C3orf15_uc003edc.2_Missense_Mutation_p.T172A|C3orf15_uc010hqy.1_Missense_Mutation_p.T172A|C3orf15_uc010hqz.2_Missense_Mutation_p.T110A|C3orf15_uc011bjd.1_Missense_Mutation_p.T46A|C3orf15_uc011bje.1_Missense_Mutation_p.T152A|C3orf15_uc010hra.1_5'UTR	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	172						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)														---	---	---	---
STXBP5L	9515	broad.mit.edu	37	3	120957879	120957879	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:120957879G>A	uc003eec.3	+	13	1386	c.1246G>A	c.(1246-1248)GCA>ACA	p.A416T	STXBP5L_uc011bji.1_Missense_Mutation_p.A416T	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	416	WD 8.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)														---	---	---	---
POLQ	10721	broad.mit.edu	37	3	121217312	121217312	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121217312C>A	uc003eee.3	-							NM_199420	NP_955452			DNA polymerase theta						DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)									DNA_polymerases_(catalytic_subunits)					---	---	---	---
POLQ	10721	broad.mit.edu	37	3	121228903	121228903	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121228903G>A	uc003eee.3	-	11	1928	c.1799C>T	c.(1798-1800)GCC>GTC	p.A600V		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	600					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)									DNA_polymerases_(catalytic_subunits)					---	---	---	---
GOLGB1	2804	broad.mit.edu	37	3	121414107	121414107	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121414107C>T	uc003eei.3	-	13	5374	c.5248G>A	c.(5248-5250)GAC>AAC	p.D1750N	GOLGB1_uc010hrc.2_Missense_Mutation_p.D1755N|GOLGB1_uc003eej.3_Missense_Mutation_p.D1716N|GOLGB1_uc011bjm.1_Missense_Mutation_p.D1636N|GOLGB1_uc010hrd.1_Missense_Mutation_p.D1714N	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1750	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)														---	---	---	---
GOLGB1	2804	broad.mit.edu	37	3	121417211	121417211	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121417211G>A	uc003eei.3	-	13	2270	c.2144C>T	c.(2143-2145)GCT>GTT	p.A715V	GOLGB1_uc010hrc.2_Missense_Mutation_p.A720V|GOLGB1_uc003eej.3_Missense_Mutation_p.A681V|GOLGB1_uc011bjm.1_Missense_Mutation_p.A601V|GOLGB1_uc010hrd.1_Missense_Mutation_p.A679V	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	715	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)														---	---	---	---
CASR	846	broad.mit.edu	37	3	122002869	122002869	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:122002869C>T	uc003eev.3	+	7	2440	c.2068C>T	c.(2068-2070)CTC>TTC	p.L690F	CASR_uc003eew.3_Missense_Mutation_p.L700F	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	690	Helical; Name=3; (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)													---	---	---	---
HSPBAP1	79663	broad.mit.edu	37	3	122459844	122459844	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:122459844G>A	uc003efu.1	-						HSPBAP1_uc003eft.1_Intron	NM_024610	NP_078886			Hspb associated protein 1							cytoplasm				ovary(1)|lung(1)	2				GBM - Glioblastoma multiforme(114;0.0531)														---	---	---	---
MYLK	4638	broad.mit.edu	37	3	123471267	123471267	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:123471267G>A	uc003ego.2	-	5	566	c.284C>T	c.(283-285)GCT>GTT	p.A95V	MYLK_uc011bjw.1_Missense_Mutation_p.A95V|MYLK_uc003egp.2_Missense_Mutation_p.A95V|MYLK_uc003egq.2_Missense_Mutation_p.A95V|MYLK_uc003egr.2_Missense_Mutation_p.A95V|MYLK_uc003egs.2_Intron|MYLK_uc010hrs.1_Missense_Mutation_p.A95V|MYLK_uc003egu.1_Missense_Mutation_p.A105V	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	95	Ig-like C2-type 1.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)														---	---	---	---
CCDC14	64770	broad.mit.edu	37	3	123633803	123633803	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:123633803G>A	uc011bjx.1	-	13	2776	c.2685C>T	c.(2683-2685)GGC>GGT	p.G895G	CCDC14_uc003egv.3_Silent_p.G536G|CCDC14_uc003egx.3_Silent_p.G695G|CCDC14_uc010hrt.2_Silent_p.G854G|CCDC14_uc003egy.3_Silent_p.G695G|CCDC14_uc003egz.2_3'UTR	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	895						centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)														---	---	---	---
OSBPL11	114885	broad.mit.edu	37	3	125271044	125271044	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:125271044G>A	uc003eic.2	-	9	2372	c.1635C>T	c.(1633-1635)GGC>GGT	p.G545G		NM_022776	NP_073613	Q9BXB4	OSB11_HUMAN	oxysterol binding protein-like 11	545					lipid transport		lipid binding			ovary(3)|breast(1)|kidney(1)	5																		---	---	---	---
ALDH1L1	10840	broad.mit.edu	37	3	125876180	125876180	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:125876180C>A	uc003eim.1	-						ALDH1L1_uc010hse.1_Intron|ALDH1L1_uc011bki.1_Intron|ALDH1L1_uc003eio.2_5'Flank|ALDH1L1_uc010hsf.1_Intron|ALDH1L1_uc003eip.1_Intron|ALDH1L1_uc011bkj.1_Intron	NM_012190	NP_036322			aldehyde dehydrogenase 1 family, member L1						10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)													---	---	---	---
CCDC37	348807	broad.mit.edu	37	3	126153218	126153218	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126153218G>A	uc003eiu.1	+	15	1721	c.1622G>A	c.(1621-1623)CGC>CAC	p.R541H	CCDC37_uc010hsg.1_Missense_Mutation_p.R542H	NM_182628	NP_872434	Q494V2	CCD37_HUMAN	coiled-coil domain containing 37	541	Potential.									ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.166)														---	---	---	---
PLXNA1	5361	broad.mit.edu	37	3	126708525	126708525	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126708525G>A	uc003ejg.2	+	1	1024	c.1020G>A	c.(1018-1020)AGG>AGA	p.R340R		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	363	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)														---	---	---	---
PLXNA1	5361	broad.mit.edu	37	3	126733356	126733356	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126733356G>A	uc003ejg.2	+	12	2575	c.2571G>A	c.(2569-2571)ACG>ACA	p.T857T		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	880	IPT/TIG 1.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)														---	---	---	---
PLXNA1	5361	broad.mit.edu	37	3	126733466	126733466	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126733466C>T	uc003ejg.2	+	12	2685	c.2681C>T	c.(2680-2682)GCG>GTG	p.A894V		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	917	IPT/TIG 1.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)														---	---	---	---
PLXNA1	5361	broad.mit.edu	37	3	126733645	126733645	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126733645G>A	uc003ejg.2	+	13	2783	c.2779G>A	c.(2779-2781)GCC>ACC	p.A927T		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	950	IPT/TIG 1.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)														---	---	---	---
MCM2	4171	broad.mit.edu	37	3	127323952	127323952	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127323952G>A	uc003ejp.2	+	4	683	c.626G>A	c.(625-627)AGC>AAC	p.S209N	MCM2_uc011bkm.1_Missense_Mutation_p.S79N|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.S93N	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	209	Interaction with MYST2 (By similarity).				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4																		---	---	---	---
MCM2	4171	broad.mit.edu	37	3	127340010	127340010	+	Missense_Mutation	SNP	G	A	A	rs137990158		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127340010G>A	uc003ejp.2	+	15	2600	c.2543G>A	c.(2542-2544)CGC>CAC	p.R848H	MCM2_uc011bkm.1_Missense_Mutation_p.R718H|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.R801H	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	848					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4																		---	---	---	---
ABTB1	80325	broad.mit.edu	37	3	127396374	127396374	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127396374C>T	uc003ejt.2	+	9	917	c.829C>T	c.(829-831)CGA>TGA	p.R277*	ABTB1_uc003ejr.2_Nonsense_Mutation_p.R135*|ABTB1_uc003ejs.2_Nonsense_Mutation_p.R252*|ABTB1_uc003eju.2_Nonsense_Mutation_p.R135*|ABTB1_uc010hsm.2_Intron	NM_172027	NP_742024	Q969K4	ABTB1_HUMAN	ankyrin repeat and BTB (POZ) domain containing 1	277	BTB 2.					cytoplasm|nucleolus|plasma membrane	translation elongation factor activity				0																		---	---	---	---
MGLL	11343	broad.mit.edu	37	3	127454542	127454542	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127454542A>G	uc003ejx.2	-						MGLL_uc003ejw.2_Intron|MGLL_uc011bko.1_Intron|MGLL_uc010hsp.1_Intron|MGLL_uc003ejv.2_Intron	NM_001003794	NP_001003794			monoglyceride lipase isoform 2						arachidonic acid metabolic process|fatty acid biosynthetic process|inflammatory response|platelet activation|regulation of endocannabinoid signaling pathway|regulation of inflammatory response|regulation of sensory perception of pain|triglyceride catabolic process	plasma membrane	acylglycerol lipase activity|carboxylesterase activity|lysophospholipase activity|protein homodimerization activity				0																		---	---	---	---
KBTBD12	166348	broad.mit.edu	37	3	127646815	127646815	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127646815G>A	uc010hsr.2	+	2	1282	c.1279G>A	c.(1279-1281)GCA>ACA	p.A427T	KBTBD12_uc003ejy.3_Missense_Mutation_p.A34T|KBTBD12_uc010hsq.2_Intron|KBTBD12_uc003eka.3_Intron|KBTBD12_uc003ejz.2_Missense_Mutation_p.A427T	NM_207335	NP_997218	Q3ZCT8	KBTBC_HUMAN	kelch domain containing 6	427	Kelch 1.									ovary(1)	1																		---	---	---	---
SEC61A1	29927	broad.mit.edu	37	3	127779062	127779062	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127779062T>C	uc003ekb.2	+						SEC61A1_uc003ekc.2_Intron|SEC61A1_uc003ekd.2_Intron	NM_013336	NP_037468			Sec61 alpha 1 subunit						protein targeting to ER	integral to endoplasmic reticulum membrane	P-P-bond-hydrolysis-driven protein transmembrane transporter activity|protein binding|ribosome binding			ovary(1)	1																		---	---	---	---
C3orf27	23434	broad.mit.edu	37	3	128292461	128292461	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:128292461G>T	uc003ekq.2	-	3	1079	c.112C>A	c.(112-114)CTA>ATA	p.L38I		NM_007354	NP_031380	O15544	GR6_HUMAN	putative GR6 protein	38											0				GBM - Glioblastoma multiforme(114;0.176)														---	---	---	---
KIAA1257	57501	broad.mit.edu	37	3	128707567	128707567	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:128707567G>A	uc003elj.3	-						KIAA1257_uc003elg.1_Intron|KIAA1257_uc003eli.3_Intron	NM_020741	NP_065792			hypothetical protein LOC57501												0																		---	---	---	---
COPG	22820	broad.mit.edu	37	3	128990627	128990627	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:128990627C>T	uc003els.2	+	19	1961	c.1861C>T	c.(1861-1863)CCA>TCA	p.P621S	COPG_uc010htb.2_Missense_Mutation_p.P527S	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	621	Interaction with ZNF289/ARFGAP2.				COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4																		---	---	---	---
COPG	22820	broad.mit.edu	37	3	128991723	128991723	+	Silent	SNP	C	T	T	rs146536439		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:128991723C>T	uc003els.2	+	21	2332	c.2232C>T	c.(2230-2232)GAC>GAT	p.D744D	COPG_uc010htb.2_Silent_p.D650D	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	744	Interaction with ZNF289/ARFGAP2.				COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4																		---	---	---	---
IFT122	55764	broad.mit.edu	37	3	129238561	129238561	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129238561C>A	uc003emm.2	+	29	3828	c.3622C>A	c.(3622-3624)CCC>ACC	p.P1208T	IFT122_uc003eml.2_Missense_Mutation_p.P1259T|IFT122_uc003emn.2_Missense_Mutation_p.P1149T|IFT122_uc003emo.2_Missense_Mutation_p.P1098T|IFT122_uc003emp.2_Missense_Mutation_p.P1058T|IFT122_uc010htc.2_Missense_Mutation_p.P1201T|IFT122_uc011bky.1_Missense_Mutation_p.P999T|IFT122_uc003emq.2_Missense_Mutation_p.P1048T|IFT122_uc003emr.2_Missense_Mutation_p.P961T|IFT122_uc011bla.1_Missense_Mutation_p.P982T|IFT122_uc010hte.2_Missense_Mutation_p.P534T|IFT122_uc003ems.2_Missense_Mutation_p.P590T	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	1208					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2																		---	---	---	---
ATP2C1	27032	broad.mit.edu	37	3	130716497	130716497	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130716497G>A	uc003enl.2	+	25	2513	c.2291G>A	c.(2290-2292)CGC>CAC	p.R764H	ATP2C1_uc011blg.1_Missense_Mutation_p.R798H|ATP2C1_uc011blh.1_Missense_Mutation_p.R759H|ATP2C1_uc011bli.1_Missense_Mutation_p.R798H|ATP2C1_uc003enk.2_Missense_Mutation_p.R748H|ATP2C1_uc003enm.2_Missense_Mutation_p.R764H|ATP2C1_uc003enn.2_Missense_Mutation_p.R748H|ATP2C1_uc003eno.2_Missense_Mutation_p.R764H|ATP2C1_uc003enp.2_Missense_Mutation_p.R764H|ATP2C1_uc003enq.2_Missense_Mutation_p.R764H|ATP2C1_uc003enr.2_Missense_Mutation_p.R764H|ATP2C1_uc003ens.2_Missense_Mutation_p.R764H|ATP2C1_uc003ent.2_Missense_Mutation_p.R764H|ATP2C1_uc003enu.2_Missense_Mutation_p.R442H	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	764	Cytoplasmic (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)									Hailey-Hailey_disease				---	---	---	---
DNAJC13	23317	broad.mit.edu	37	3	132207227	132207227	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:132207227G>A	uc003eor.2	+	30	3418	c.3353G>A	c.(3352-3354)CGC>CAC	p.R1118H		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1118							heat shock protein binding			ovary(1)|breast(1)	2																		---	---	---	---
NPHP3	27031	broad.mit.edu	37	3	132403466	132403466	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:132403466C>T	uc003epe.1	-	24	3579	c.3502G>A	c.(3502-3504)GCA>ACA	p.A1168T	NPHP3_uc003eoz.1_Missense_Mutation_p.A47T|NPHP3_uc003epd.1_Missense_Mutation_p.A410T	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	1168	TPR 8.				maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1																		---	---	---	---
NPHP3	27031	broad.mit.edu	37	3	132407734	132407734	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:132407734G>A	uc003epe.1	-	21	2962	c.2885C>T	c.(2884-2886)GCC>GTC	p.A962V	NPHP3_uc003epd.1_Missense_Mutation_p.A204V	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	962	TPR 4.				maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1																		---	---	---	---
TOPBP1	11073	broad.mit.edu	37	3	133347516	133347516	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:133347516G>A	uc003eps.2	-	15	2714	c.2582C>T	c.(2581-2583)ACG>ATG	p.T861M	TOPBP1_uc003ept.1_5'Flank	NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	861					DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7													Other_conserved_DNA_damage_response_genes					---	---	---	---
TOPBP1	11073	broad.mit.edu	37	3	133358892	133358892	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:133358892G>A	uc003eps.2	-	13	2276	c.2144C>T	c.(2143-2145)GCC>GTC	p.A715V		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	715	BRCT 5.				DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7													Other_conserved_DNA_damage_response_genes					---	---	---	---
TOPBP1	11073	broad.mit.edu	37	3	133375669	133375669	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:133375669G>A	uc003eps.2	-	5	528	c.396C>T	c.(394-396)GGC>GGT	p.G132G		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	132	BRCT 1.				DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7													Other_conserved_DNA_damage_response_genes					---	---	---	---
RAB6B	51560	broad.mit.edu	37	3	133557073	133557073	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:133557073G>A	uc003epy.2	-	6	813	c.432C>T	c.(430-432)CGC>CGT	p.R144R	RAB6B_uc011blu.1_Silent_p.R131R	NM_016577	NP_057661	Q9NRW1	RAB6B_HUMAN	RAB6B, member RAS oncogene family	144					protein transport|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle|Golgi membrane	GTP binding|GTPase activity|protein binding			pancreas(1)	1																		---	---	---	---
AMOTL2	51421	broad.mit.edu	37	3	134090186	134090186	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:134090186C>T	uc003eqf.2	-	2	381	c.264G>A	c.(262-264)ACG>ACA	p.T88T	AMOTL2_uc003eqg.1_Silent_p.T30T|AMOTL2_uc003eqh.1_Silent_p.T30T	NM_016201	NP_057285	Q9Y2J4	AMOL2_HUMAN	angiomotin like 2	30										large_intestine(1)	1																		---	---	---	---
STAG1	10274	broad.mit.edu	37	3	136287655	136287655	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:136287655C>T	uc003era.1	-	5	638	c.346G>A	c.(346-348)GCA>ACA	p.A116T	STAG1_uc003erb.1_Missense_Mutation_p.A116T|STAG1_uc003erc.1_5'UTR|STAG1_uc010hua.1_5'UTR|STAG1_uc003erd.2_Missense_Mutation_p.A19T|STAG1_uc003ere.2_Missense_Mutation_p.A116T	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	116					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2																		---	---	---	---
IL20RB	53833	broad.mit.edu	37	3	136677037	136677037	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:136677037C>T	uc003eri.1	+	1	331	c.82C>T	c.(82-84)CTC>TTC	p.L28F	IL20RB_uc003erj.1_RNA	NM_144717	NP_653318	Q6UXL0	I20RB_HUMAN	interleukin 20 receptor beta precursor	28						integral to membrane	receptor activity			ovary(1)	1																		---	---	---	---
CEP70	80321	broad.mit.edu	37	3	138227398	138227398	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138227398A>G	uc003esl.2	-						CEP70_uc011bmk.1_Intron|CEP70_uc011bml.1_Intron|CEP70_uc011bmm.1_Intron|CEP70_uc003esm.2_Intron	NM_024491	NP_077817			centrosomal protein 70 kDa						G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding			skin(1)	1																		---	---	---	---
MRPS22	56945	broad.mit.edu	37	3	139074577	139074577	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:139074577G>A	uc003etb.2	+	7	940	c.932G>A	c.(931-933)GGC>GAC	p.G311D	MRPS22_uc003etc.2_RNA|MRPS22_uc003etd.2_Missense_Mutation_p.G310D|MRPS22_uc003ete.2_Missense_Mutation_p.G270D	NM_020191	NP_064576	P82650	RT22_HUMAN	mitochondrial ribosomal protein S22	311						mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(2)|skin(1)	3																		---	---	---	---
COPB2	9276	broad.mit.edu	37	3	139077837	139077837	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:139077837C>T	uc003etf.3	-						COPB2_uc011bmv.1_Intron|COPB2_uc010hui.2_Intron	NM_004766	NP_004757			coatomer protein complex, subunit beta 2 (beta						COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2																		---	---	---	---
COPB2	9276	broad.mit.edu	37	3	139080062	139080062	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:139080062G>A	uc003etf.3	-	17	2201	c.2071C>T	c.(2071-2073)CAT>TAT	p.H691Y	COPB2_uc011bmv.1_Missense_Mutation_p.H662Y|COPB2_uc010hui.2_Missense_Mutation_p.H662Y	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	691					COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2																		---	---	---	---
RBP1	5947	broad.mit.edu	37	3	139257611	139257611	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:139257611G>A	uc003eti.2	-						RBP1_uc011bmx.1_Intron|RBP1_uc010huj.2_RNA|RBP1_uc011bmy.1_Intron	NM_002899	NP_002890			retinol binding protein 1, cellular isoform a							cytoplasm	retinal binding|retinol binding|transporter activity				0					Vitamin A(DB00162)													---	---	---	---
CLSTN2	64084	broad.mit.edu	37	3	140167437	140167437	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:140167437C>T	uc003etn.2	+	6	1054	c.864C>T	c.(862-864)TGC>TGT	p.C288C	CLSTN2_uc003etm.2_Silent_p.C288C	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	288	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7															HNSCC(16;0.037)			---	---	---	---
TRIM42	287015	broad.mit.edu	37	3	140401502	140401502	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:140401502C>T	uc003eto.1	+	2	731	c.540C>T	c.(538-540)ACC>ACT	p.T180T		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	180	RING-type.					intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7																		---	---	---	---
RASA2	5922	broad.mit.edu	37	3	141231095	141231095	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141231095G>A	uc003etz.1	+	2	224	c.224G>A	c.(223-225)CGT>CAT	p.R75H	RASA2_uc010huq.1_Missense_Mutation_p.R75H|RASA2_uc003eua.1_Missense_Mutation_p.R75H	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	75	C2 1.				intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity	p.R75H(1)		ovary(2)|lung(2)|breast(1)|skin(1)	6																		---	---	---	---
ATR	545	broad.mit.edu	37	3	142266699	142266699	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:142266699C>T	uc003eux.3	-	16	3347	c.3225G>A	c.(3223-3225)TTG>TTA	p.L1075L		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1075					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20													Other_conserved_DNA_damage_response_genes					---	---	---	---
SR140	23350	broad.mit.edu	37	3	142753821	142753821	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:142753821C>T	uc003evh.1	+						SR140_uc003evi.1_Intron|SR140_uc003evj.1_Intron|SR140_uc003evk.1_Intron|SR140_uc003evl.1_Intron	NM_001080415	NP_001073884			U2-associated SR140 protein						RNA processing	nucleus	nucleotide binding|RNA binding				0																		---	---	---	---
AGTR1	185	broad.mit.edu	37	3	148458931	148458931	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148458931A>G	uc003ewg.2	+	4	555	c.109A>G	c.(109-111)ATC>GTC	p.I37V	AGTR1_uc003ewh.2_Missense_Mutation_p.I37V|AGTR1_uc003ewi.2_Missense_Mutation_p.I37V|AGTR1_uc003ewj.2_Missense_Mutation_p.I37V|AGTR1_uc003ewk.2_Missense_Mutation_p.I37V	NM_031850	NP_114038	P30556	AGTR1_HUMAN	angiotensin II receptor, type 1	37	Helical; Name=1; (Potential).				calcium-mediated signaling|cell chemotaxis|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|kidney development|low-density lipoprotein particle remodeling|positive regulation of cellular protein metabolic process|positive regulation of cholesterol esterification|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of phospholipase A2 activity|positive regulation of reactive oxygen species metabolic process|regulation of cell growth|regulation of cell proliferation|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|Rho protein signal transduction		acetyltransferase activator activity|angiotensin type I receptor activity|angiotensin type II receptor activity|bradykinin receptor binding|protein heterodimerization activity				0			LUSC - Lung squamous cell carcinoma(72;0.127)|Lung(72;0.152)		Candesartan(DB00796)|Eprosartan(DB00876)|Forasartan(DB01342)|Irbesartan(DB01029)|Losartan(DB00678)|Olmesartan(DB00275)|Saprisartan(DB01347)|Spironolactone(DB00421)|Tasosartan(DB01349)|Telmisartan(DB00966)|Valsartan(DB00177)													---	---	---	---
CPB1	1360	broad.mit.edu	37	3	148558742	148558742	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148558742C>T	uc003ewl.2	+	5	477	c.454C>T	c.(454-456)CGC>TGC	p.R152C		NM_001871	NP_001862	P15086	CBPB1_HUMAN	pancreatic carboxypeptidase B1 preproprotein	152					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding	p.R152C(1)		ovary(1)|central_nervous_system(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)															---	---	---	---
GYG1	2992	broad.mit.edu	37	3	148741973	148741973	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148741973C>A	uc003ewn.2	+	6	795	c.742C>A	c.(742-744)CTG>ATG	p.L248M	GYG1_uc011bnp.1_3'UTR|GYG1_uc003ewo.2_Missense_Mutation_p.L248M|GYG1_uc003ewp.2_Intron	NM_004130	NP_004121	P46976	GLYG_HUMAN	glycogenin 1	248					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	glycogenin glucosyltransferase activity|metal ion binding|protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)															---	---	---	---
HLTF	6596	broad.mit.edu	37	3	148781227	148781227	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148781227C>T	uc003ewq.1	-	10	1369	c.1151G>A	c.(1150-1152)CGC>CAC	p.R384H	HLTF_uc003ewr.1_Missense_Mutation_p.R384H|HLTF_uc003ews.1_Missense_Mutation_p.R384H|HLTF_uc010hve.1_Missense_Mutation_p.R384H	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	384					chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)															---	---	---	---
CP	1356	broad.mit.edu	37	3	148904520	148904520	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148904520C>T	uc003ewy.3	-	11	2118	c.1865_splice	c.e11-1	p.S622_splice	CP_uc011bnr.1_Intron|CP_uc003ewx.3_Splice_Site_p.S403_splice|CP_uc003ewz.2_Splice_Site_p.S622_splice|CP_uc010hvf.1_Intron	NM_000096	NP_000087			ceruloplasmin precursor						cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)													---	---	---	---
PFN2	5217	broad.mit.edu	37	3	149684317	149684317	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:149684317C>T	uc003ext.1	-	3	480	c.382G>A	c.(382-384)GCA>ACA	p.A128T	PFN2_uc003exs.1_Intron|PFN2_uc003exu.1_Intron|PFN2_uc011bnu.1_Intron	NM_053024	NP_444252	P35080	PROF2_HUMAN	profilin 2 isoform a	128					actin cytoskeleton organization|regulation of actin polymerization or depolymerization	actin cytoskeleton|cytoplasm	actin binding|phosphatidylinositol-4,5-bisphosphate binding				0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)															---	---	---	---
SIAH2	6478	broad.mit.edu	37	3	150460413	150460413	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:150460413G>A	uc003eyi.2	-	2	1117	c.490C>T	c.(490-492)CGT>TGT	p.R164C		NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2	164	SIAH-type.|SBD.				apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)															---	---	---	---
MED12L	116931	broad.mit.edu	37	3	150877785	150877785	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:150877785G>A	uc003eyp.2	+	7	1042	c.1004G>A	c.(1003-1005)GGC>GAC	p.G335D	MED12L_uc011bnz.1_Intron|MED12L_uc003eyn.2_Missense_Mutation_p.G335D|MED12L_uc003eyo.2_Missense_Mutation_p.G335D	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	335					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)															---	---	---	---
P2RY13	53829	broad.mit.edu	37	3	151046245	151046245	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:151046245G>A	uc003eyv.2	-	2	620	c.599C>T	c.(598-600)CCT>CTT	p.P200L	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_176894	NP_795713	Q9BPV8	P2Y13_HUMAN	purinergic receptor P2Y, G-protein coupled, 13	200	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(3)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0189)|Lung(72;0.0278)															---	---	---	---
IGSF10	285313	broad.mit.edu	37	3	151176330	151176330	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:151176330C>T	uc011bod.1	-	1	168	c.168G>A	c.(166-168)CCG>CCA	p.P56P		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	56	LRRNT.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)															---	---	---	---
SGEF	26084	broad.mit.edu	37	3	153840497	153840497	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:153840497G>A	uc011bog.1	+	2	927	c.716G>A	c.(715-717)AGC>AAC	p.S239N	uc003ezu.1_5'Flank|SGEF_uc011boh.1_Missense_Mutation_p.S239N	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	239					regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)															---	---	---	---
SGEF	26084	broad.mit.edu	37	3	153935682	153935682	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:153935682G>A	uc011bog.1	+	10	2081	c.1870G>A	c.(1870-1872)GCC>ACC	p.A624T	SGEF_uc011boh.1_Missense_Mutation_p.A624T	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	624					regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)															---	---	---	---
DHX36	170506	broad.mit.edu	37	3	154022736	154022736	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:154022736C>T	uc003ezy.3	-	8	1075	c.994G>A	c.(994-996)GTA>ATA	p.V332I	DHX36_uc010hvq.2_Missense_Mutation_p.V332I|DHX36_uc003ezz.3_Missense_Mutation_p.V332I	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	332	Helicase ATP-binding.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)															---	---	---	---
GPR149	344758	broad.mit.edu	37	3	154055676	154055676	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:154055676C>T	uc003faa.2	-	4	2108	c.2008G>A	c.(2008-2010)GCC>ACC	p.A670T		NM_001038705	NP_001033794	Q86SP6	GP149_HUMAN	G protein-coupled receptor 149	670	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(6)	6			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)															---	---	---	---
PLCH1	23007	broad.mit.edu	37	3	155203197	155203197	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155203197C>T	uc011bok.1	-	22	3223	c.2946G>A	c.(2944-2946)TCG>TCA	p.S982S	PLCH1_uc011boj.1_Silent_p.S982S|PLCH1_uc011bol.1_Silent_p.S944S	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	982					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)															---	---	---	---
PLCH1	23007	broad.mit.edu	37	3	155215148	155215148	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155215148A>G	uc011bok.1	-	14	2096	c.1819T>C	c.(1819-1821)TAC>CAC	p.Y607H	PLCH1_uc011boj.1_Missense_Mutation_p.Y607H|PLCH1_uc011bol.1_Missense_Mutation_p.Y589H	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	607	PI-PLC Y-box.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)															---	---	---	---
PLCH1	23007	broad.mit.edu	37	3	155282698	155282698	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155282698A>G	uc011bok.1	-						PLCH1_uc011boj.1_Intron|PLCH1_uc011bol.1_Intron	NM_001130960	NP_001124432			phospholipase C eta 1 isoform a						lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)															---	---	---	---
GMPS	8833	broad.mit.edu	37	3	155639982	155639982	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155639982G>A	uc003faq.2	+	11	1660	c.1325G>A	c.(1324-1326)GGC>GAC	p.G442D	GMPS_uc011bom.1_Missense_Mutation_p.G343D	NM_003875	NP_003866	P49915	GUAA_HUMAN	guanine monophosphate synthetase	442					glutamine metabolic process|purine base biosynthetic process	cytosol	ATP binding|GMP synthase (glutamine-hydrolyzing) activity|GMP synthase activity			ovary(2)|lung(1)	3			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)			T	MLL	AML								---	---	---	---
SSR3	6747	broad.mit.edu	37	3	156272757	156272757	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:156272757G>A	uc003fau.2	-	1	179	c.122C>T	c.(121-123)GCC>GTC	p.A41V	SSR3_uc011bop.1_Missense_Mutation_p.A41V	NM_007107	NP_009038	Q9UNL2	SSRG_HUMAN	signal sequence receptor gamma subunit	41	Helical; (Potential).				cotranslational protein targeting to membrane	integral to endoplasmic reticulum membrane|microsome|Sec61 translocon complex	protein binding|signal sequence binding				0			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)															---	---	---	---
TIPARP	25976	broad.mit.edu	37	3	156396186	156396186	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:156396186A>C	uc003fav.2	+	2	948	c.700A>C	c.(700-702)ACT>CCT	p.T234P	LOC100287227_uc011boq.1_5'Flank|TIPARP_uc003faw.2_Missense_Mutation_p.T234P	NM_015508	NP_056323	Q7Z3E1	PARPT_HUMAN	TCDD-inducible poly(ADP-ribose) polymerase	234							NAD+ ADP-ribosyltransferase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|breast(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)															---	---	---	---
RSRC1	51319	broad.mit.edu	37	3	157920883	157920883	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:157920883C>T	uc003fbt.2	+	4	454	c.343C>T	c.(343-345)CGT>TGT	p.R115C	RSRC1_uc011bou.1_Intron|RSRC1_uc003fbu.1_Missense_Mutation_p.R115C|RSRC1_uc003fbv.2_Intron	NM_016625	NP_057709	Q96IZ7	RSRC1_HUMAN	arginine/serine-rich coiled-coil 1	115	Arg/Ser-rich.				nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)															---	---	---	---
SMC4	10051	broad.mit.edu	37	3	160138560	160138560	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:160138560C>T	uc003fdh.2	+	13	2003	c.1890C>T	c.(1888-1890)GAC>GAT	p.D630D	IFT80_uc003fda.2_Intron|SMC4_uc010hwc.1_Silent_p.D394D|SMC4_uc003fdi.2_Silent_p.D605D|SMC4_uc003fdj.2_Silent_p.D630D|SMC4_uc010hwd.2_Silent_p.D630D|SMC4_uc003fdl.2_Silent_p.D333D	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	630	Flexible hinge.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)															---	---	---	---
SI	6476	broad.mit.edu	37	3	164709998	164709998	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:164709998G>A	uc003fei.2	-	43	5012	c.4950C>T	c.(4948-4950)TAC>TAT	p.Y1650Y		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1650	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)										HNSCC(35;0.089)			---	---	---	---
ZBBX	79740	broad.mit.edu	37	3	167083767	167083767	+	Intron	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:167083767T>G	uc003fep.2	-						ZBBX_uc011bpc.1_Intron|ZBBX_uc003feq.2_Intron	NM_024687	NP_078963			zinc finger, B-box domain containing							intracellular	zinc ion binding			ovary(2)	2																		---	---	---	---
PDCD10	11235	broad.mit.edu	37	3	167414791	167414791	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:167414791C>T	uc003fex.2	-						PDCD10_uc003fez.2_Intron|PDCD10_uc003fey.2_Intron	NM_007217	NP_009148			programmed cell death 10						angiogenesis|apoptosis|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of MAP kinase activity	cytosol|Golgi membrane|plasma membrane	protein homodimerization activity|protein N-terminus binding			lung(1)|central_nervous_system(1)	2														Familial_Cerebral_Cavernous_Angioma				---	---	---	---
SLC7A14	57709	broad.mit.edu	37	3	170184883	170184883	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170184883G>A	uc003fgz.2	-	8	2592	c.2276C>T	c.(2275-2277)GCC>GTC	p.A759V	CLDN11_uc011bpt.1_Intron|uc003fha.1_5'Flank	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	759						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)															---	---	---	---
TNIK	23043	broad.mit.edu	37	3	170805172	170805172	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170805172G>A	uc003fhh.2	-	24	3190	c.2845C>T	c.(2845-2847)CGC>TGC	p.R949C	TNIK_uc003fhi.2_Missense_Mutation_p.R894C|TNIK_uc003fhj.2_Missense_Mutation_p.R920C|TNIK_uc003fhk.2_Missense_Mutation_p.R941C|TNIK_uc003fhl.2_Missense_Mutation_p.R865C|TNIK_uc003fhm.2_Missense_Mutation_p.R886C|TNIK_uc003fhn.2_Missense_Mutation_p.R912C|TNIK_uc003fho.2_Missense_Mutation_p.R857C|TNIK_uc003fhg.2_Missense_Mutation_p.R127C	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	949	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)															---	---	---	---
GHSR	2693	broad.mit.edu	37	3	172166024	172166024	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:172166024G>A	uc003fib.1	-	1	180	c.180C>T	c.(178-180)GGC>GGT	p.G60G	GHSR_uc011bpv.1_Silent_p.G60G	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	60	Helical; Name=1; (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)															---	---	---	---
ZNF639	51193	broad.mit.edu	37	3	179051265	179051265	+	Silent	SNP	G	A	A	rs17852358		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179051265G>A	uc003fjq.1	+	6	856	c.513G>A	c.(511-513)CCG>CCA	p.P171P	ZNF639_uc003fjr.1_Silent_p.P171P	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	171					initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)															---	---	---	---
ZNF639	51193	broad.mit.edu	37	3	179052028	179052028	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179052028T>G	uc003fjq.1	+	6	1619	c.1276T>G	c.(1276-1278)TTA>GTA	p.L426V	ZNF639_uc003fjr.1_Missense_Mutation_p.L426V	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	426	Interaction with CTNNA2.				initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)															---	---	---	---
USP13	8975	broad.mit.edu	37	3	179437789	179437789	+	Silent	SNP	G	A	A	rs148480598	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179437789G>A	uc003fkh.2	+	7	948	c.867G>A	c.(865-867)GCG>GCA	p.A289A	USP13_uc003fkf.2_Silent_p.A289A	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	289					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)															---	---	---	---
PEX5L	51555	broad.mit.edu	37	3	179519671	179519671	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179519671G>A	uc003fki.1	-	15	1956	c.1826C>T	c.(1825-1827)GCG>GTG	p.A609V	PEX5L_uc011bqd.1_Missense_Mutation_p.A566V|PEX5L_uc011bqe.1_Missense_Mutation_p.A417V|PEX5L_uc011bqf.1_Missense_Mutation_p.A501V|PEX5L_uc003fkj.1_Missense_Mutation_p.A574V|PEX5L_uc010hxd.1_Missense_Mutation_p.A607V|PEX5L_uc011bqg.1_Missense_Mutation_p.A585V|PEX5L_uc011bqh.1_Missense_Mutation_p.A550V	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	609					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)															---	---	---	---
CCDC39	339829	broad.mit.edu	37	3	180334111	180334111	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:180334111C>T	uc010hxe.2	-	19	2742	c.2627G>A	c.(2626-2628)CGT>CAT	p.R876H	CCDC39_uc003fkn.2_RNA|TTC14_uc003fkm.2_Intron	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	876	Ser-rich.				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)															---	---	---	---
FXR1	8087	broad.mit.edu	37	3	180688056	180688056	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:180688056C>T	uc003fkq.2	+	15	1535	c.1513C>T	c.(1513-1515)CGG>TGG	p.R505W	FXR1_uc003fkp.2_Missense_Mutation_p.R420W|FXR1_uc003fkr.2_Missense_Mutation_p.R505W|FXR1_uc011bqj.1_Missense_Mutation_p.R419W|FXR1_uc003fks.2_Missense_Mutation_p.R448W|FXR1_uc011bqk.1_Missense_Mutation_p.R456W|FXR1_uc011bql.1_Missense_Mutation_p.R492W	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	505	Poly-Arg.				apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)															---	---	---	---
MCF2L2	23101	broad.mit.edu	37	3	182941891	182941891	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:182941891A>C	uc003fli.1	-	19	2293	c.2203T>G	c.(2203-2205)TTT>GTT	p.F735V		NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	735	DH.				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)															---	---	---	---
KLHL6	89857	broad.mit.edu	37	3	183273372	183273372	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183273372G>T	uc003flr.2	-	1	128	c.70C>A	c.(70-72)CTG>ATG	p.L24M	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_Missense_Mutation_p.L22M	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	24										haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)															---	---	---	---
YEATS2	55689	broad.mit.edu	37	3	183490118	183490118	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183490118C>T	uc003fly.2	+	16	2168	c.1973C>T	c.(1972-1974)GCT>GTT	p.A658V		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	658					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)															---	---	---	---
ABCC5	10057	broad.mit.edu	37	3	183689508	183689508	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183689508C>T	uc003fmg.2	-	11	1769	c.1604G>A	c.(1603-1605)CGC>CAC	p.R535H	ABCC5_uc011bqt.1_Missense_Mutation_p.R63H|ABCC5_uc010hxl.2_Missense_Mutation_p.R535H	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	535						integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)															---	---	---	---
AP2M1	1173	broad.mit.edu	37	3	183900553	183900553	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183900553G>A	uc011bqx.1	+	11	1227	c.1070G>A	c.(1069-1071)CGC>CAC	p.R357H	AP2M1_uc003fmw.2_Missense_Mutation_p.R355H|AP2M1_uc003fmx.2_Missense_Mutation_p.R285H|AP2M1_uc003fmy.2_Missense_Mutation_p.R355H|AP2M1_uc011bqy.1_Missense_Mutation_p.R227H|AP2M1_uc011bqz.1_Missense_Mutation_p.R173H	NM_004068	NP_004059	Q96CW1	AP2M1_HUMAN	adaptor-related protein complex 2, mu 1 subunit	357	MHD.				axon guidance|cellular membrane organization|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|clathrin coat of coated pit|cytosol|endocytic vesicle membrane|peroxisomal membrane	lipid binding|protein binding|transporter activity				0	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.92e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)															---	---	---	---
ABCF3	55324	broad.mit.edu	37	3	183910955	183910955	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183910955C>T	uc003fmz.2	+	19	1949	c.1816C>T	c.(1816-1818)CGT>TGT	p.R606C	ABCF3_uc003fna.2_Missense_Mutation_p.R600C|ABCF3_uc003fnb.2_Missense_Mutation_p.R287C	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	606	ABC transporter 2.						ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)															---	---	---	---
CAMK2N2	94032	broad.mit.edu	37	3	183978984	183978984	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183978984C>T	uc003fnj.1	-	1	268	c.90G>A	c.(88-90)CTG>CTA	p.L30L	ECE2_uc003fni.3_Intron	NM_033259	NP_150284	Q96S95	CK2N2_HUMAN	CaM-KII inhibitory protein	30						cytosol|nucleus	protein kinase inhibitor activity				0	all_cancers(143;1.09e-10)|Ovarian(172;0.0339)		Epithelial(37;2.51e-33)|OV - Ovarian serous cystadenocarcinoma(80;5.69e-22)															---	---	---	---
ECE2	9718	broad.mit.edu	37	3	184002835	184002835	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184002835G>A	uc003fni.3	+	9	1482	c.1444G>A	c.(1444-1446)GTG>ATG	p.V482M	ECE2_uc011brh.1_Missense_Mutation_p.V335M|ECE2_uc003fnl.3_Missense_Mutation_p.V410M|ECE2_uc003fnm.3_Missense_Mutation_p.V364M|ECE2_uc003fnk.3_Missense_Mutation_p.V335M|ECE2_uc011bri.1_Missense_Mutation_p.V397M|ECE2_uc010hxv.2_Missense_Mutation_p.V126M	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	482	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)													OREG0015945	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
ECE2	9718	broad.mit.edu	37	3	184008830	184008830	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184008830C>T	uc003fni.3	+	17	2229	c.2191C>T	c.(2191-2193)CGC>TGC	p.R731C	ECE2_uc011brh.1_Missense_Mutation_p.R584C|ECE2_uc003fnl.3_Missense_Mutation_p.R659C|ECE2_uc003fnm.3_Missense_Mutation_p.R613C|ECE2_uc003fnk.3_Missense_Mutation_p.R584C|ECE2_uc011bri.1_Missense_Mutation_p.R646C|ECE2_uc010hxv.2_3'UTR	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	731	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)															---	---	---	---
PSMD2	5708	broad.mit.edu	37	3	184025435	184025435	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184025435G>A	uc003fnn.1	+	18	2270	c.2237G>A	c.(2236-2238)CGC>CAC	p.R746H	PSMD2_uc011brj.1_Missense_Mutation_p.R587H|PSMD2_uc011brk.1_Missense_Mutation_p.R616H	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	746	PC 7.				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|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)													---	---	---	---
EIF4G1	1981	broad.mit.edu	37	3	184039307	184039307	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184039307G>A	uc003fnp.2	+	10	1133	c.935G>A	c.(934-936)CGC>CAC	p.R312H	EIF4G1_uc003fno.1_Missense_Mutation_p.R253H|EIF4G1_uc010hxw.1_Missense_Mutation_p.R148H|EIF4G1_uc003fnt.2_Missense_Mutation_p.R23H|EIF4G1_uc003fnq.2_Missense_Mutation_p.R225H|EIF4G1_uc003fnr.2_Missense_Mutation_p.R148H|EIF4G1_uc010hxx.2_Missense_Mutation_p.R319H|EIF4G1_uc003fns.2_Missense_Mutation_p.R272H|EIF4G1_uc010hxy.2_Missense_Mutation_p.R319H|EIF4G1_uc003fnv.3_Missense_Mutation_p.R312H|EIF4G1_uc003fnu.3_Missense_Mutation_p.R312H|EIF4G1_uc003fnw.2_Missense_Mutation_p.R319H|EIF4G1_uc003fnx.2_Missense_Mutation_p.R116H|EIF4G1_uc003fny.3_Missense_Mutation_p.R116H	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	312					insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)															---	---	---	---
EPHB3	2049	broad.mit.edu	37	3	184290699	184290699	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184290699C>T	uc003foz.2	+	3	1028	c.591C>T	c.(589-591)GGC>GGT	p.G197G		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	197	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)															---	---	---	---
EPHB3	2049	broad.mit.edu	37	3	184297350	184297350	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184297350C>T	uc003foz.2	+	10	2324	c.1887C>T	c.(1885-1887)GAC>GAT	p.D629D		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	629	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)															---	---	---	---
VPS8	23355	broad.mit.edu	37	3	184714256	184714256	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184714256G>A	uc003fpb.1	+	43	3968	c.3797G>A	c.(3796-3798)CGC>CAC	p.R1266H	VPS8_uc010hyd.1_Missense_Mutation_p.R1176H|VPS8_uc010hye.1_Missense_Mutation_p.R695H	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	1268	RING-type; atypical.						zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)															---	---	---	---
SENP2	59343	broad.mit.edu	37	3	185347619	185347619	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:185347619A>C	uc003fpn.2	+	17	1928	c.1757A>C	c.(1756-1758)CAG>CCG	p.Q586P	SENP2_uc011brv.1_Missense_Mutation_p.Q576P|SENP2_uc011brw.1_Missense_Mutation_p.Q399P	NM_021627	NP_067640	Q9HC62	SENP2_HUMAN	SUMO1/sentrin/SMT3 specific protease 2	586					mRNA transport|protein desumoylation|protein transport|proteolysis|regulation of Wnt receptor signaling pathway|transmembrane transport|Wnt receptor signaling pathway	cytoplasm|nuclear membrane|nuclear pore	protein binding|SUMO-specific protease activity				0	all_cancers(143;1.28e-10)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)															---	---	---	---
TRA2B	6434	broad.mit.edu	37	3	185643269	185643269	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:185643269G>A	uc003fpv.2	-	3	592	c.316C>T	c.(316-318)CGT>TGT	p.R106C	TRA2B_uc003fpt.2_5'Flank|TRA2B_uc003fpu.2_RNA|TRA2B_uc010hym.2_Missense_Mutation_p.R6C|TRA2B_uc003fpw.2_Missense_Mutation_p.R106C	NM_004593	NP_004584	P62995	TRA2B_HUMAN	splicing factor, arginine/serine-rich 10	106	Arg/Ser-rich (RS1 domain).				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)	2																		---	---	---	---
TBCCD1	55171	broad.mit.edu	37	3	186281967	186281967	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186281967C>T	uc003fqg.2	-	2	281	c.152G>A	c.(151-153)CGC>CAC	p.R51H	TBCCD1_uc011bry.1_Missense_Mutation_p.R51H|TBCCD1_uc003fqh.2_Intron	NM_018138	NP_060608	Q9NVR7	TBCC1_HUMAN	TBCC domain containing 1	51					cell morphogenesis|maintenance of centrosome location|maintenance of Golgi location|regulation of cell migration|regulation of cell shape	spindle pole centrosome	binding			large_intestine(1)|ovary(1)	2	all_cancers(143;3.75e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.3e-21)	GBM - Glioblastoma multiforme(93;0.0474)														---	---	---	---
HRG	3273	broad.mit.edu	37	3	186395126	186395126	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186395126T>C	uc003fqq.2	+	7	1055	c.1032T>C	c.(1030-1032)AAT>AAC	p.N344N		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	344					fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)														---	---	---	---
ST6GAL1	6480	broad.mit.edu	37	3	186761061	186761061	+	Silent	SNP	G	A	A	rs141692826		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186761061G>A	uc003frb.2	+	4	1002	c.570G>A	c.(568-570)GCG>GCA	p.A190A	ST6GAL1_uc003frc.2_Intron|ST6GAL1_uc003frd.2_Silent_p.A190A	NM_173216	NP_775323	P15907	SIAT1_HUMAN	ST6 beta-galactosamide	190	Lumenal (Potential).				humoral immune response|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			central_nervous_system(1)	1	all_cancers(143;2.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;8.53e-19)	GBM - Glioblastoma multiforme(93;0.0939)														---	---	---	---
CLDN1	9076	broad.mit.edu	37	3	190030679	190030679	+	Missense_Mutation	SNP	C	T	T	rs140846629	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:190030679C>T	uc003fsh.2	-	2	590	c.370G>A	c.(370-372)GCG>ACG	p.A124T		NM_021101	NP_066924	O95832	CLD1_HUMAN	claudin 1	124	Helical; (Potential).				calcium-independent cell-cell adhesion|interspecies interaction between organisms	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity			lung(1)	1	all_cancers(143;2.95e-10)|Ovarian(172;0.0512)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.015)														---	---	---	---
CCDC50	152137	broad.mit.edu	37	3	191097951	191097951	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:191097951T>C	uc003fsw.2	+	6	1042	c.452T>C	c.(451-453)ATG>ACG	p.M151T	CCDC50_uc003fsv.2_Missense_Mutation_p.M327T	NM_174908	NP_777568	Q8IVM0	CCD50_HUMAN	Ymer protein short isoform	151						cytoplasm	protein binding				0	all_cancers(143;8.88e-09)|Ovarian(172;0.103)|Breast(254;0.221)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000136)														---	---	---	---
C3orf59	151963	broad.mit.edu	37	3	192516776	192516776	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:192516776G>A	uc011bsp.1	-	2	1196	c.875C>T	c.(874-876)GCC>GTC	p.A292V		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	292											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)														---	---	---	---
ATP13A4	84239	broad.mit.edu	37	3	193171906	193171906	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:193171906C>T	uc003ftd.2	-	17	2119	c.2011G>A	c.(2011-2013)GCT>ACT	p.A671T	ATP13A4_uc003fte.1_Missense_Mutation_p.A671T|ATP13A4_uc011bsr.1_Missense_Mutation_p.A142T|ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	671	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)														---	---	---	---
ATP13A4	84239	broad.mit.edu	37	3	193180607	193180607	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:193180607G>A	uc003ftd.2	-	13	1575	c.1467C>T	c.(1465-1467)GGC>GGT	p.G489G	ATP13A4_uc003fte.1_Silent_p.G489G|ATP13A4_uc011bsr.1_5'UTR|ATP13A4_uc010hzi.2_RNA|ATP13A4_uc003ftf.3_Silent_p.G195G	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	489	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)														---	---	---	---
OPA1	4976	broad.mit.edu	37	3	193343987	193343987	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:193343987G>A	uc003ftm.2	+						OPA1_uc003ftg.2_Missense_Mutation_p.R262H|OPA1_uc003fth.2_Missense_Mutation_p.R226H|OPA1_uc003fti.2_Missense_Mutation_p.R244H|OPA1_uc003ftj.2_Intron|OPA1_uc003ftk.2_Missense_Mutation_p.R208H|OPA1_uc003ftl.2_Intron|OPA1_uc003ftn.2_Intron	NM_015560	NP_056375			optic atrophy 1 isoform 1						apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)														---	---	---	---
LRRC15	131578	broad.mit.edu	37	3	194080553	194080553	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194080553C>T	uc003ftu.2	-	2	1306	c.1220G>A	c.(1219-1221)GGC>GAC	p.G407D	LRRC15_uc003ftt.2_Missense_Mutation_p.G413D	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b	407	LRR 15.|Extracellular (Potential).					integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)														---	---	---	---
ATP13A3	79572	broad.mit.edu	37	3	194158063	194158063	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194158063G>A	uc003fty.3	-	18	2378	c.1976C>T	c.(1975-1977)GCC>GTC	p.A659V	ATP13A3_uc003ftz.1_Missense_Mutation_p.A365V	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	659					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)														---	---	---	---
TM4SF19	116211	broad.mit.edu	37	3	196054415	196054415	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196054415C>T	uc003fwl.1	-	2	172	c.47G>A	c.(46-48)CGT>CAT	p.R16H	TM4SF19_uc003fwj.2_RNA|TM4SF19_uc010iad.1_Missense_Mutation_p.R16H|TM4SF19_uc011btv.1_Missense_Mutation_p.R16H	NM_138461	NP_612470	Q96DZ7	T4S19_HUMAN	transmembrane 4 L six family member 19	16	Cytoplasmic (Potential).					integral to membrane					0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;3.94e-24)|all cancers(36;4.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.53e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)														---	---	---	---
LRRC33	375387	broad.mit.edu	37	3	196388524	196388524	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196388524C>T	uc003fwv.2	+	3	2114	c.2010C>T	c.(2008-2010)ATC>ATT	p.I670I		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	670	Helical; (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)														---	---	---	---
PIGZ	80235	broad.mit.edu	37	3	196674848	196674848	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196674848G>A	uc003fxh.2	-	3	1067	c.920C>T	c.(919-921)GCG>GTG	p.A307V		NM_025163	NP_079439	Q86VD9	PIGZ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	307					GPI anchor biosynthetic process	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			ovary(3)	3	all_cancers(143;1.05e-08)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.29e-24)|all cancers(36;2.79e-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;0.00603)														---	---	---	---
MFI2	4241	broad.mit.edu	37	3	196736624	196736624	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196736624C>T	uc003fxk.3	-	11	1503	c.1390G>A	c.(1390-1392)GCC>ACC	p.A464T		NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	464	Transferrin-like 2.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)														---	---	---	---
KIAA0226	9711	broad.mit.edu	37	3	197402018	197402018	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197402018C>T	uc003fyc.2	-	20	2973	c.2790G>A	c.(2788-2790)CCG>CCA	p.P930P	KIAA0226_uc003fyd.3_Silent_p.P885P|MIR922_hsa-mir-922|MI0005714_5'Flank	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	930	Cys-rich.				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)														---	---	---	---
LRCH3	84859	broad.mit.edu	37	3	197559147	197559147	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197559147A>G	uc011bul.1	+	8	1066	c.1061A>G	c.(1060-1062)TAC>TGC	p.Y354C	LRCH3_uc003fyj.1_Missense_Mutation_p.Y354C|LRCH3_uc011bum.1_Missense_Mutation_p.Y354C|LRCH3_uc011bun.1_Missense_Mutation_p.Y228C|LRCH3_uc003fyk.2_5'UTR	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)	354						extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)														---	---	---	---
IQCG	84223	broad.mit.edu	37	3	197618326	197618326	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197618326G>A	uc003fyo.2	-	10	1334	c.1188C>T	c.(1186-1188)AGC>AGT	p.S396S	IQCG_uc003fyn.2_Silent_p.S298S|IQCG_uc003fyp.2_Silent_p.S396S|IQCG_uc003fym.2_Silent_p.S97S	NM_001134435	NP_001127907	Q9H095	IQCG_HUMAN	IQ motif containing G	396	IQ.										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)														---	---	---	---
IQCG	84223	broad.mit.edu	37	3	197618384	197618384	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197618384C>T	uc003fyo.2	-	10	1276	c.1130G>A	c.(1129-1131)CGT>CAT	p.R377H	IQCG_uc003fyn.2_Missense_Mutation_p.R279H|IQCG_uc003fyp.2_Missense_Mutation_p.R377H|IQCG_uc003fym.2_Missense_Mutation_p.R78H	NM_001134435	NP_001127907	Q9H095	IQCG_HUMAN	IQ motif containing G	377											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)														---	---	---	---
ZNF595	152687	broad.mit.edu	37	4	86474	86474	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:86474C>A	uc003fzv.1	+	6	1236	c.1080C>A	c.(1078-1080)AGC>AGA	p.S360R	ZNF595_uc003fzu.1_Intron|ZNF718_uc003fzt.3_Intron|ZNF595_uc011bus.1_Missense_Mutation_p.S128R|ZNF595_uc011but.1_Missense_Mutation_p.S128R	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595	360					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)														---	---	---	---
ZNF721	170960	broad.mit.edu	37	4	436305	436305	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:436305C>T	uc003gag.2	-	3	2642	c.1951G>A	c.(1951-1953)GCC>ACC	p.A651T	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.A683T|ZNF721_uc010ibe.2_Missense_Mutation_p.A639T	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	651						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1																		---	---	---	---
ZNF721	170960	broad.mit.edu	37	4	436306	436306	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:436306A>G	uc003gag.2	-	3	2641	c.1950T>C	c.(1948-1950)TTT>TTC	p.F650F	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Silent_p.F682F|ZNF721_uc010ibe.2_Silent_p.F638F	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	650						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1																		---	---	---	---
GAK	2580	broad.mit.edu	37	4	871523	871523	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:871523G>A	uc003gbm.3	-	16	1935	c.1736C>T	c.(1735-1737)GCC>GTC	p.A579V	GAK_uc003gbn.3_Missense_Mutation_p.A500V|GAK_uc010ibk.1_Missense_Mutation_p.A473V|GAK_uc003gbl.3_Missense_Mutation_p.A443V	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	579	C2 tensin-type.				cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)														---	---	---	---
CTBP1	1487	broad.mit.edu	37	4	1209971	1209971	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:1209971C>T	uc003gcv.1	-	5	735	c.570G>A	c.(568-570)GCG>GCA	p.A190A	uc003gcs.1_RNA|CTBP1_uc003gct.1_Silent_p.A171A|CTBP1_uc003gcu.1_Silent_p.A179A|CTBP1_uc003gcw.2_5'Flank	NM_001328	NP_001319	Q13363	CTBP1_HUMAN	C-terminal binding protein 1 isoform 1	190					interspecies interaction between organisms|negative regulation of cell proliferation|negative regulation of histone H4 acetylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone deacetylation|protein phosphorylation|regulation of cell cycle|regulation of transcription by chromatin organization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|viral genome replication|white fat cell differentiation	cytoplasm|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein C-terminus binding|protein domain specific binding|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00818)	Colorectal(103;0.2)														---	---	---	---
MAEA	10296	broad.mit.edu	37	4	1326598	1326598	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:1326598G>A	uc003gda.2	+	6	740	c.710G>A	c.(709-711)CGC>CAC	p.R237H	MAEA_uc003gdb.2_Missense_Mutation_p.R196H|MAEA_uc011bvb.1_Missense_Mutation_p.R169H|MAEA_uc003gdc.2_Silent_p.A170A|MAEA_uc003gdd.2_RNA|MAEA_uc011bvc.1_Missense_Mutation_p.R236H|MAEA_uc011bvd.1_Missense_Mutation_p.R189H|MAEA_uc010ibt.2_Intron|MAEA_uc010ibu.2_RNA	NM_001017405	NP_001017405	Q7L5Y9	MAEA_HUMAN	macrophage erythroblast attacher isoform 1	237					cell adhesion|cell cycle|cell division|erythrocyte maturation|negative regulation of myeloid cell apoptosis|regulation of mitotic cell cycle	actomyosin contractile ring|integral to plasma membrane|membrane fraction|nuclear matrix|spindle	actin binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(23;0.0201)															---	---	---	---
KIAA1530	57654	broad.mit.edu	37	4	1347064	1347064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:1347064C>T	uc003gde.3	+	5	1244	c.797C>T	c.(796-798)GCG>GTG	p.A266V		NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	266											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)															---	---	---	---
TNIP2	79155	broad.mit.edu	37	4	2746482	2746482	+	Missense_Mutation	SNP	G	A	A	rs150823075		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2746482G>A	uc003gfg.2	-	4	935	c.848C>T	c.(847-849)GCG>GTG	p.A283V	TNIP2_uc003gff.2_Missense_Mutation_p.A176V|TNIP2_uc003gfh.2_Intron	NM_024309	NP_077285	Q8NFZ5	TNIP2_HUMAN	A20-binding inhibitor of NF-kappaB activation 2	283	Potential.					cytosol	protein binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)														---	---	---	---
MFSD10	10227	broad.mit.edu	37	4	2933648	2933648	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2933648C>T	uc003gfw.2	-	7	1132	c.818G>A	c.(817-819)CGC>CAC	p.R273H	MFSD10_uc003gfv.2_5'Flank|MFSD10_uc003gfx.2_Missense_Mutation_p.R97H|MFSD10_uc003gfz.2_Missense_Mutation_p.R273H|MFSD10_uc003gfy.2_RNA|MFSD10_uc003gga.2_Missense_Mutation_p.R273H|MFSD10_uc003ggb.1_Missense_Mutation_p.R273H|MFSD10_uc003ggc.2_Missense_Mutation_p.R273H|C4orf10_uc003ggd.1_5'Flank|C4orf10_uc003gge.1_5'Flank	NM_001120	NP_001111	Q14728	MFS10_HUMAN	major facilitator superfamily domain containing	273					apoptosis	integral to membrane	tetracycline transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)														---	---	---	---
MFSD10	10227	broad.mit.edu	37	4	2933868	2933868	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2933868C>T	uc003gfw.2	-	6	1020	c.706G>A	c.(706-708)GCC>ACC	p.A236T	MFSD10_uc003gfv.2_5'Flank|MFSD10_uc003gfx.2_Missense_Mutation_p.A60T|MFSD10_uc003gfz.2_Missense_Mutation_p.A236T|MFSD10_uc003gfy.2_RNA|MFSD10_uc003gga.2_Missense_Mutation_p.A236T|MFSD10_uc003ggb.1_Missense_Mutation_p.A236T|MFSD10_uc003ggc.2_Missense_Mutation_p.A236T|C4orf10_uc003ggd.1_5'Flank|C4orf10_uc003gge.1_5'Flank	NM_001120	NP_001111	Q14728	MFS10_HUMAN	major facilitator superfamily domain containing	236					apoptosis	integral to membrane	tetracycline transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)														---	---	---	---
MFSD10	10227	broad.mit.edu	37	4	2934476	2934476	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2934476C>T	uc003gfw.2	-	4	696	c.382G>A	c.(382-384)GCC>ACC	p.A128T	MFSD10_uc003gfv.2_5'Flank|MFSD10_uc003gfx.2_Intron|MFSD10_uc003gfz.2_Missense_Mutation_p.A128T|MFSD10_uc003gfy.2_RNA|MFSD10_uc003gga.2_Missense_Mutation_p.A128T|MFSD10_uc003ggb.1_Missense_Mutation_p.A128T|MFSD10_uc003ggc.2_Missense_Mutation_p.A128T|C4orf10_uc003ggd.1_5'Flank|C4orf10_uc003gge.1_5'Flank|C4orf10_uc003ggg.1_5'Flank|C4orf10_uc003ggh.2_5'Flank	NM_001120	NP_001111	Q14728	MFS10_HUMAN	major facilitator superfamily domain containing	128	Helical; (Potential).				apoptosis	integral to membrane	tetracycline transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)														---	---	---	---
RGS12	6002	broad.mit.edu	37	4	3318578	3318578	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3318578C>T	uc003ggw.2	+	2	1585	c.681C>T	c.(679-681)AAC>AAT	p.N227N	RGS12_uc003ggu.2_Silent_p.N227N|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Silent_p.N227N|RGS12_uc003ggx.1_Silent_p.N227N	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	227						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)														---	---	---	---
LRPAP1	4043	broad.mit.edu	37	4	3519827	3519827	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3519827G>A	uc003ghi.2	-	5	770	c.685C>T	c.(685-687)CGC>TGC	p.R229C		NM_002337	NP_002328	P30533	AMRP_HUMAN	low density lipoprotein receptor-related protein	229	Potential.				negative regulation of protein binding|negative regulation of very-low-density lipoprotein particle clearance|protein folding|vesicle-mediated transport	cell surface|integral to membrane|plasma membrane	asialoglycoprotein receptor activity|heparin binding|low-density lipoprotein particle receptor binding|receptor antagonist activity|unfolded protein binding|very-low-density lipoprotein particle receptor binding			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.165)														---	---	---	---
D4S234E	27065	broad.mit.edu	37	4	4419079	4419079	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:4419079C>T	uc011bvz.1	+	8	1756	c.475C>T	c.(475-477)CGC>TGC	p.R159C	D4S234E_uc011bwa.1_Missense_Mutation_p.R120C|D4S234E_uc003ghz.2_Missense_Mutation_p.R159C|D4S234E_uc003gia.2_Missense_Mutation_p.R159C|D4S234E_uc003gib.2_Missense_Mutation_p.R159C	NM_014392	NP_055207	P42857	NSG1_HUMAN	brain neuron cytoplasmic protein 1	159	Lumenal (Potential).				dopamine receptor signaling pathway	Golgi membrane|integral to membrane|nucleus	dopamine receptor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.166)														---	---	---	---
STK32B	55351	broad.mit.edu	37	4	5458606	5458606	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5458606T>C	uc003gih.1	+	8	803	c.739T>C	c.(739-741)TAC>CAC	p.Y247H	STK32B_uc010ida.1_Missense_Mutation_p.Y200H	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	247	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5																		---	---	---	---
C4orf6	10141	broad.mit.edu	37	4	5527158	5527158	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5527158G>A	uc003gii.2	+	1	276	c.101G>A	c.(100-102)CGC>CAC	p.R34H		NM_005750	NP_005741	Q99440	CD006_HUMAN	chromosome 4 open reading frame 6	34					nervous system development						0																		---	---	---	---
EVC	2121	broad.mit.edu	37	4	5803721	5803721	+	Silent	SNP	C	T	T	rs138114051		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5803721C>T	uc003gil.1	+	16	2533	c.2349C>T	c.(2347-2349)AGC>AGT	p.S783S	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	783					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)																---	---	---	---
CRMP1	1400	broad.mit.edu	37	4	5838577	5838577	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5838577G>A	uc003gip.2	-	11	1126	c.1025C>T	c.(1024-1026)GCG>GTG	p.A342V	CRMP1_uc003gin.1_Missense_Mutation_p.A254V|CRMP1_uc003giq.2_Missense_Mutation_p.A342V|CRMP1_uc003gir.2_Missense_Mutation_p.A337V|CRMP1_uc003gis.2_Missense_Mutation_p.A456V	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	342					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)														---	---	---	---
PPP2R2C	5522	broad.mit.edu	37	4	6374363	6374363	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6374363C>T	uc003gjc.2	-	5	882	c.512G>A	c.(511-513)GGC>GAC	p.G171D	PPP2R2C_uc003gjb.2_Missense_Mutation_p.G154D|PPP2R2C_uc011bwd.1_Missense_Mutation_p.G164D|PPP2R2C_uc011bwe.1_Missense_Mutation_p.G164D|PPP2R2C_uc003gja.2_Missense_Mutation_p.G171D|PPP2R2C_uc003gjd.1_Missense_Mutation_p.G259D	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	171	WD 3.				signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
MAN2B2	23324	broad.mit.edu	37	4	6612965	6612965	+	Silent	SNP	G	A	A	rs138297924	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6612965G>A	uc003gjf.1	+	15	2559	c.2523G>A	c.(2521-2523)GCG>GCA	p.A841A	MAN2B2_uc003gje.1_Silent_p.A841A|MAN2B2_uc011bwf.1_Silent_p.A790A	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	841					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2																		---	---	---	---
TADA2B	93624	broad.mit.edu	37	4	7056185	7056185	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:7056185G>A	uc003gjw.3	+	2	818	c.667G>A	c.(667-669)GCC>ACC	p.A223T	TADA2B_uc010idi.2_Missense_Mutation_p.A148T	NM_152293	NP_689506	Q86TJ2	TAD2B_HUMAN	transcriptional adaptor 2 (ADA2 homolog,	223					regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0																		---	---	---	---
TADA2B	93624	broad.mit.edu	37	4	7056791	7056791	+	3'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:7056791G>A	uc003gjw.3	+	2					TADA2B_uc010idi.2_3'UTR	NM_152293	NP_689506			transcriptional adaptor 2 (ADA2 homolog,						regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0																		---	---	---	---
PSAPL1	768239	broad.mit.edu	37	4	7435640	7435640	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:7435640G>A	uc011bwj.1	-	1	1061	c.967C>T	c.(967-969)CGC>TGC	p.R323C	SORCS2_uc003gkb.3_Intron|SORCS2_uc011bwi.1_Intron	NM_001085382	NP_001078851	Q6NUJ1	SAPL1_HUMAN	prosaposin-like protein 1	323	Saposin B-type 3.				sphingolipid metabolic process	extracellular region|lysosome					0																		---	---	---	---
AFAP1	60312	broad.mit.edu	37	4	7873806	7873806	+	5'UTR	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:7873806T>C	uc003gkg.1	-	2					AFAP1_uc011bwk.1_5'UTR	NM_198595	NP_940997			actin filament associated protein 1							actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0																		---	---	---	---
ABLIM2	84448	broad.mit.edu	37	4	8010821	8010821	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:8010821G>A	uc003gko.2	-	14	1476	c.1333C>T	c.(1333-1335)CGA>TGA	p.R445*	ABLIM2_uc003gkk.2_Nonsense_Mutation_p.R108*|ABLIM2_uc003gkl.2_Nonsense_Mutation_p.R172*|ABLIM2_uc003gkj.3_Nonsense_Mutation_p.R478*|ABLIM2_uc003gkm.3_Nonsense_Mutation_p.R393*|ABLIM2_uc003gkp.2_Nonsense_Mutation_p.R404*|ABLIM2_uc003gkq.2_Nonsense_Mutation_p.R445*|ABLIM2_uc003gkr.2_Nonsense_Mutation_p.R393*|ABLIM2_uc003gks.3_Nonsense_Mutation_p.R404*	NM_001130084	NP_001123556	Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	445					axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			pancreas(3)	3																		---	---	---	---
SH3TC1	54436	broad.mit.edu	37	4	8230088	8230088	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:8230088C>T	uc003gkv.3	+	12	2768	c.2667C>T	c.(2665-2667)GCC>GCT	p.A889A	SH3TC1_uc003gkw.3_Silent_p.A813A|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	889	TPR 5.						binding			large_intestine(2)|pancreas(1)	3																		---	---	---	---
SH3TC1	54436	broad.mit.edu	37	4	8233879	8233879	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:8233879G>A	uc003gkv.3	+	13	3228	c.3127G>A	c.(3127-3129)GAG>AAG	p.E1043K	SH3TC1_uc003gkw.3_Missense_Mutation_p.E967K|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_RNA	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	1043	TPR 7.						binding			large_intestine(2)|pancreas(1)	3																		---	---	---	---
ACOX3	8310	broad.mit.edu	37	4	8368787	8368787	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:8368787G>A	uc010idk.2	-	18	2149	c.2004C>T	c.(2002-2004)GGC>GGT	p.G668G	ACOX3_uc003glc.3_Silent_p.G668G|ACOX3_uc003gld.3_3'UTR	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	668					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1																		---	---	---	---
ACOX3	8310	broad.mit.edu	37	4	8398744	8398744	+	Missense_Mutation	SNP	C	T	T	rs116281866	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:8398744C>T	uc010idk.2	-	9	1121	c.976G>A	c.(976-978)GCT>ACT	p.A326T	ACOX3_uc003glc.3_Missense_Mutation_p.A326T|ACOX3_uc003gld.3_Missense_Mutation_p.A326T|ACOX3_uc003gle.1_Missense_Mutation_p.A231T	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	326					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1																		---	---	---	---
ACOX3	8310	broad.mit.edu	37	4	8416072	8416072	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:8416072C>T	uc010idk.2	-	5	635	c.490G>A	c.(490-492)GGC>AGC	p.G164S	ACOX3_uc003glc.3_Missense_Mutation_p.G164S|ACOX3_uc003gld.3_Missense_Mutation_p.G164S|ACOX3_uc003gle.1_Missense_Mutation_p.G69S	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	164					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1																		---	---	---	---
DRD5	1816	broad.mit.edu	37	4	9784507	9784507	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:9784507G>A	uc003gmb.3	+	1	1250	c.854G>A	c.(853-855)CGC>CAC	p.R285H		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	285	Cytoplasmic (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)													---	---	---	---
HS3ST1	9957	broad.mit.edu	37	4	11401090	11401090	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:11401090G>A	uc003gmq.2	-	2	863	c.540C>T	c.(538-540)CGC>CGT	p.R180R		NM_005114	NP_005105	O14792	HS3S1_HUMAN	heparan sulfate D-glucosaminyl	180						Golgi lumen|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			skin(1)	1																		---	---	---	---
HS3ST1	9957	broad.mit.edu	37	4	11401252	11401252	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:11401252C>T	uc003gmq.2	-	2	701	c.378G>A	c.(376-378)TCG>TCA	p.S126S		NM_005114	NP_005105	O14792	HS3S1_HUMAN	heparan sulfate D-glucosaminyl	126						Golgi lumen|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			skin(1)	1																		---	---	---	---
BOD1L	259282	broad.mit.edu	37	4	13603266	13603266	+	Missense_Mutation	SNP	C	T	T	rs112328769		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:13603266C>T	uc003gmz.1	-	10	5375	c.5258G>A	c.(5257-5259)CGC>CAC	p.R1753H	BOD1L_uc010idr.1_Missense_Mutation_p.R1090H	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1753							DNA binding			ovary(5)|breast(1)	6																		---	---	---	---
BOD1L	259282	broad.mit.edu	37	4	13603592	13603592	+	Silent	SNP	G	A	A	rs144172082	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:13603592G>A	uc003gmz.1	-	10	5049	c.4932C>T	c.(4930-4932)AGC>AGT	p.S1644S	BOD1L_uc010idr.1_Silent_p.S981S	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1644							DNA binding			ovary(5)|breast(1)	6																		---	---	---	---
BOD1L	259282	broad.mit.edu	37	4	13616946	13616946	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:13616946A>G	uc003gmz.1	-	3	666	c.549T>C	c.(547-549)CTT>CTC	p.L183L	BOD1L_uc010idr.1_5'UTR|BOD1L_uc010ids.1_RNA	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	183							DNA binding			ovary(5)|breast(1)	6																		---	---	---	---
CC2D2A	57545	broad.mit.edu	37	4	15539700	15539700	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:15539700C>A	uc010idv.2	+	17	2188	c.1943C>A	c.(1942-1944)CCC>CAC	p.P648H	CC2D2A_uc003gnx.2_Missense_Mutation_p.P599H|CC2D2A_uc003gnz.1_RNA|CC2D2A_uc003goa.1_RNA	NM_001080522	NP_001073991	Q9P2K1	C2D2A_HUMAN	coiled-coil and C2 domain containing 2A isoform	648					cell projection organization	cilium|microtubule basal body				pancreas(2)|ovary(1)	3																		---	---	---	---
LAP3	51056	broad.mit.edu	37	4	17586688	17586688	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:17586688G>A	uc003gph.1	+	6	795	c.633G>A	c.(631-633)ACG>ACA	p.T211T	LAP3_uc010ieg.2_3'UTR	NM_015907	NP_056991	P28838	AMPL_HUMAN	leucine aminopeptidase 3	211					proteolysis	nucleus	aminopeptidase activity|magnesium ion binding|manganese ion binding|metalloexopeptidase activity|zinc ion binding				0																		---	---	---	---
SLIT2	9353	broad.mit.edu	37	4	20570602	20570602	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:20570602A>G	uc003gpr.1	+	29	3267	c.3063A>G	c.(3061-3063)ACA>ACG	p.T1021T	SLIT2_uc003gps.1_Silent_p.T1013T	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1021	EGF-like 3; calcium-binding (Potential).				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																		---	---	---	---
SLIT2	9353	broad.mit.edu	37	4	20597356	20597356	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:20597356C>T	uc003gpr.1	+	31	3423	c.3219C>T	c.(3217-3219)TGC>TGT	p.C1073C	SLIT2_uc003gps.1_Silent_p.C1065C	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1073	EGF-like 4.				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																		---	---	---	---
GBA3	57733	broad.mit.edu	37	4	22729506	22729506	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:22729506T>C	uc003gqp.3	+						GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Intron	NM_020973	NP_066024			cytosolic beta-glucosidase isoform a						glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0																		---	---	---	---
PI4K2B	55300	broad.mit.edu	37	4	25270822	25270822	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:25270822T>C	uc003grk.2	+	9	1402	c.1269T>C	c.(1267-1269)GGT>GGC	p.G423G	PI4K2B_uc011bxs.1_Silent_p.G327G	NM_018323	NP_060793	Q8TCG2	P4K2B_HUMAN	phosphatidylinositol 4-kinase type 2 beta	423	PI3K/PI4K.					cytoplasm|membrane	1-phosphatidylinositol 4-kinase activity|ATP binding			ovary(2)|skin(2)	4		Breast(46;0.173)																---	---	---	---
RBPJ	3516	broad.mit.edu	37	4	26407807	26407807	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:26407807C>T	uc003grx.1	+	4	345	c.109C>T	c.(109-111)CGA>TGA	p.R37*	RBPJ_uc003gry.1_Nonsense_Mutation_p.R22*|RBPJ_uc003grz.1_Nonsense_Mutation_p.R37*|RBPJ_uc011bxt.1_Nonsense_Mutation_p.R37*|RBPJ_uc003gsa.1_Nonsense_Mutation_p.R23*|RBPJ_uc003gsb.1_Nonsense_Mutation_p.R24*|RBPJ_uc003gsc.1_Nonsense_Mutation_p.R23*	NM_005349	NP_005340	Q06330	SUH_HUMAN	recombining binding protein suppressor of	37					DNA recombination|negative regulation of transcription, DNA-dependent|positive regulation of transcription of Notch receptor target	cytoplasm|nucleolus|nucleoplasm	DNA binding|protein binding|recombinase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)	3		Breast(46;0.0503)																---	---	---	---
RBPJ	3516	broad.mit.edu	37	4	26431567	26431567	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:26431567C>T	uc003grx.1	+	10	1211	c.975C>T	c.(973-975)GGC>GGT	p.G325G	RBPJ_uc003gry.1_Silent_p.G310G|RBPJ_uc003grz.1_Silent_p.G325G|RBPJ_uc011bxt.1_Silent_p.G325G|RBPJ_uc003gsa.1_Silent_p.G311G|RBPJ_uc003gsb.1_Silent_p.G312G|RBPJ_uc003gsc.1_Silent_p.G311G	NM_005349	NP_005340	Q06330	SUH_HUMAN	recombining binding protein suppressor of	325					DNA recombination|negative regulation of transcription, DNA-dependent|positive regulation of transcription of Notch receptor target	cytoplasm|nucleolus|nucleoplasm	DNA binding|protein binding|recombinase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)	3		Breast(46;0.0503)																---	---	---	---
STIM2	57620	broad.mit.edu	37	4	27019446	27019446	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:27019446G>A	uc003gsh.3	+	12	2104	c.1888G>A	c.(1888-1890)GCC>ACC	p.A630T	STIM2_uc003gsg.3_Missense_Mutation_p.A622T|STIM2_uc010iex.2_Missense_Mutation_p.A622T|STIM2_uc010iey.2_Missense_Mutation_p.A246T	NM_020860	NP_065911	Q9P246	STIM2_HUMAN	stromal interaction molecule 2	535	Cytoplasmic (Potential).|His/Pro-rich.				activation of store-operated calcium channel activity|calcium ion transport|cellular calcium ion homeostasis|negative regulation of calcium ion transport via store-operated calcium channel activity	endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel regulator activity|calcium ion binding|protein binding			central_nervous_system(1)|skin(1)	2		Breast(46;0.0503)																---	---	---	---
PCDH7	5099	broad.mit.edu	37	4	30723444	30723444	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:30723444C>T	uc003gsk.1	+	1	1408	c.400C>T	c.(400-402)CTT>TTT	p.L134F	PCDH7_uc011bxw.1_Missense_Mutation_p.L134F|PCDH7_uc011bxx.1_Missense_Mutation_p.L134F	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	134	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4																		---	---	---	---
PCDH7	5099	broad.mit.edu	37	4	30724207	30724207	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:30724207G>A	uc003gsk.1	+	1	2171	c.1163G>A	c.(1162-1164)CGC>CAC	p.R388H	PCDH7_uc011bxw.1_Missense_Mutation_p.R341H|PCDH7_uc011bxx.1_Missense_Mutation_p.R388H	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	388	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4																		---	---	---	---
PCDH7	5099	broad.mit.edu	37	4	30724342	30724342	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:30724342C>T	uc003gsk.1	+	1	2306	c.1298C>T	c.(1297-1299)GCC>GTC	p.A433V	PCDH7_uc011bxw.1_Missense_Mutation_p.A386V|PCDH7_uc011bxx.1_Missense_Mutation_p.A433V	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	433	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4																		---	---	---	---
PCDH7	5099	broad.mit.edu	37	4	30725052	30725052	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:30725052C>T	uc003gsk.1	+	1	3016	c.2008C>T	c.(2008-2010)CGG>TGG	p.R670W	PCDH7_uc011bxw.1_Missense_Mutation_p.R623W|PCDH7_uc011bxx.1_Missense_Mutation_p.R670W	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	670	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4																		---	---	---	---
PCDH7	5099	broad.mit.edu	37	4	30732378	30732378	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:30732378C>T	uc003gsk.1	+	2	4186	c.3178C>T	c.(3178-3180)CGT>TGT	p.R1060C	PCDH7_uc011bxw.1_Intron|PCDH7_uc011bxx.1_Intron	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	1060	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4																		---	---	---	---
ARAP2	116984	broad.mit.edu	37	4	36085059	36085059	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:36085059T>C	uc003gsq.1	-	29	4777	c.4439A>G	c.(4438-4440)GAC>GGC	p.D1480G		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1480	PH 5.				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																		---	---	---	---
ARAP2	116984	broad.mit.edu	37	4	36179566	36179566	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:36179566C>T	uc003gsq.1	-	9	2078	c.1740G>A	c.(1738-1740)TCG>TCA	p.S580S	ARAP2_uc003gsr.1_Silent_p.S580S	NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	580					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																		---	---	---	---
RELL1	768211	broad.mit.edu	37	4	37651073	37651073	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:37651073C>T	uc003gsz.2	-	2	228	c.138G>A	c.(136-138)TCG>TCA	p.S46S	RELL1_uc010ifc.2_Silent_p.S46S	NM_001085399	NP_001078868	Q8IUW5	RELL1_HUMAN	receptor expressed in lymphoid tissues like 1	46	Extracellular (Potential).					cytoplasm|integral to membrane|microtubule cytoskeleton|plasma membrane					0																		---	---	---	---
FAM114A1	92689	broad.mit.edu	37	4	38907188	38907188	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:38907188G>A	uc003gtn.2	+	5	658	c.482G>A	c.(481-483)CGG>CAG	p.R161Q	FAM114A1_uc011byh.1_5'UTR	NM_138389	NP_612398	Q8IWE2	NXP20_HUMAN	hypothetical protein LOC92689	161						cytoplasm				ovary(1)	1																		---	---	---	---
WDR19	57728	broad.mit.edu	37	4	39278679	39278679	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39278679A>G	uc003gtv.2	+	34	3910	c.3756A>G	c.(3754-3756)CCA>CCG	p.P1252P	WDR19_uc011byi.1_Silent_p.P1092P	NM_025132	NP_079408	Q8NEZ3	WDR19_HUMAN	WD repeat domain 19	1252					cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1																		---	---	---	---
RFC1	5981	broad.mit.edu	37	4	39290444	39290444	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39290444C>T	uc003gty.1	-	25	3518	c.3384G>A	c.(3382-3384)AAG>AAA	p.K1128K	RFC1_uc003gtx.1_Silent_p.K1127K	NM_002913	NP_002904	P35251	RFC1_HUMAN	replication factor C large subunit	1128					DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|telomere maintenance via telomerase|transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
PDS5A	23244	broad.mit.edu	37	4	39929664	39929664	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39929664G>A	uc003guv.3	-	3	799	c.259C>T	c.(259-261)CGT>TGT	p.R87C	PDS5A_uc010ifo.2_Missense_Mutation_p.R47C|PDS5A_uc003guw.3_Missense_Mutation_p.R87C	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	87					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0																		---	---	---	---
N4BP2	55728	broad.mit.edu	37	4	40104327	40104327	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40104327G>A	uc003guy.3	+	4	1200	c.862G>A	c.(862-864)GCC>ACC	p.A288T	N4BP2_uc010ifq.2_Missense_Mutation_p.A208T|N4BP2_uc010ifr.2_Missense_Mutation_p.A208T	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	288						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8																		---	---	---	---
RHOH	399	broad.mit.edu	37	4	40245073	40245073	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40245073C>T	uc003guz.2	+	3	791	c.67C>T	c.(67-69)CGC>TGC	p.R23C		NM_004310	NP_004301	Q15669	RHOH_HUMAN	ras homolog gene family, member H precursor	23					negative regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|T cell differentiation	cytosol|mitochondrion|plasma membrane	GTP binding|GTPase inhibitor activity|kinase inhibitor activity|Rho GTPase binding	p.R23H(1)		ovary(1)|lung(1)	2																		---	---	---	---
RBM47	54502	broad.mit.edu	37	4	40440533	40440533	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40440533G>A	uc003gvc.2	-	4	1088	c.378C>T	c.(376-378)CGC>CGT	p.R126R	RBM47_uc003gvd.2_Silent_p.R126R|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Silent_p.R88R|RBM47_uc003gvg.1_Silent_p.R126R	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	126	RRM 1.					nucleus	nucleotide binding|RNA binding			breast(3)	3																		---	---	---	---
UCHL1	7345	broad.mit.edu	37	4	41266152	41266152	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:41266152G>A	uc003gvo.2	+	8	655	c.559G>A	c.(559-561)GCC>ACC	p.A187T	UCHL1_uc003gvp.2_Missense_Mutation_p.A106T|UCHL1_uc003gvq.2_Missense_Mutation_p.A106T|UCHL1_uc003gvr.2_Missense_Mutation_p.A106T|UCHL1_uc003gvs.2_Missense_Mutation_p.A106T	NM_004181	NP_004172	P09936	UCHL1_HUMAN	ubiquitin carboxyl-terminal esterase L1	187					cell death|negative regulation of MAP kinase activity|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus|plasma membrane	alpha-2A adrenergic receptor binding|cysteine-type endopeptidase activity|ligase activity|omega peptidase activity|ubiquitin binding|ubiquitin thiolesterase activity			central_nervous_system(1)|skin(1)	2																		---	---	---	---
LIMCH1	22998	broad.mit.edu	37	4	41664914	41664914	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:41664914G>A	uc003gvu.3	+	15	2103	c.2049G>A	c.(2047-2049)CAG>CAA	p.Q683Q	LIMCH1_uc003gvv.3_Silent_p.Q683Q|LIMCH1_uc003gvw.3_Silent_p.Q683Q|LIMCH1_uc003gvx.3_Silent_p.Q671Q|LIMCH1_uc003gwe.3_Silent_p.Q683Q|LIMCH1_uc003gvy.3_Silent_p.Q512Q|LIMCH1_uc003gwa.3_Silent_p.Q524Q|LIMCH1_uc003gvz.3_Silent_p.Q1068Q|LIMCH1_uc011byu.1_Silent_p.Q517Q|LIMCH1_uc003gwc.3_Silent_p.Q529Q|LIMCH1_uc003gwd.3_Silent_p.Q517Q|LIMCH1_uc011byv.1_Silent_p.Q434Q|LIMCH1_uc011byw.1_5'UTR	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	683					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
LIMCH1	22998	broad.mit.edu	37	4	41668613	41668613	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:41668613G>A	uc003gvu.3	+	16	2226	c.2172G>A	c.(2170-2172)ACG>ACA	p.T724T	LIMCH1_uc003gvv.3_Silent_p.T724T|LIMCH1_uc003gvw.3_Silent_p.T724T|LIMCH1_uc003gvx.3_Silent_p.T712T|LIMCH1_uc003gwe.3_Intron|LIMCH1_uc003gvy.3_Silent_p.T553T|LIMCH1_uc003gwa.3_Silent_p.T565T|LIMCH1_uc003gvz.3_Silent_p.T1109T|LIMCH1_uc011byu.1_Silent_p.T558T|LIMCH1_uc003gwc.3_Silent_p.T570T|LIMCH1_uc003gwd.3_Silent_p.T558T|LIMCH1_uc011byv.1_Silent_p.T475T|LIMCH1_uc011byw.1_Silent_p.T24T	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	724					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
DCAF4L1	285429	broad.mit.edu	37	4	41984291	41984291	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:41984291C>T	uc003gwk.2	+	1	579	c.482C>T	c.(481-483)GCG>GTG	p.A161V		NM_001029955	NP_001025126	Q3SXM0	DC4L1_HUMAN	WD repeat domain 21B	161										skin(1)	1																		---	---	---	---
GABRA4	2557	broad.mit.edu	37	4	46967169	46967169	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:46967169C>T	uc003gxg.2	-	8	1091	c.952G>A	c.(952-954)GCC>ACC	p.A318T		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	318	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)													---	---	---	---
TEC	7006	broad.mit.edu	37	4	48230566	48230566	+	Silent	SNP	C	T	T	rs143430739	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:48230566C>T	uc003gxz.2	-	2	157	c.66G>A	c.(64-66)TCG>TCA	p.S22S		NM_003215	NP_003206	P42680	TEC_HUMAN	tec protein tyrosine kinase	22	PH.				intracellular protein kinase cascade	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)	9																		---	---	---	---
FRYL	285527	broad.mit.edu	37	4	48591779	48591779	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:48591779C>T	uc003gyh.1	-	18	2228	c.1623G>A	c.(1621-1623)GAG>GAA	p.E541E	FRYL_uc003gyk.2_Silent_p.E541E	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	541					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1																		---	---	---	---
DCUN1D4	23142	broad.mit.edu	37	4	52765528	52765528	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:52765528C>T	uc003gze.2	+	8	732	c.599C>T	c.(598-600)GCG>GTG	p.A200V	DCUN1D4_uc003gzf.2_Missense_Mutation_p.A200V|DCUN1D4_uc011bzn.1_Missense_Mutation_p.A140V|DCUN1D4_uc003gzg.2_RNA|DCUN1D4_uc003gzh.2_RNA|DCUN1D4_uc011bzo.1_Missense_Mutation_p.A244V	NM_001040402	NP_001035492	Q92564	DCNL4_HUMAN	DCN1, defective in cullin neddylation 1, domain	200	DCUN1.									ovary(2)	2			GBM - Glioblastoma multiforme(4;1.93e-11)|LUSC - Lung squamous cell carcinoma(32;0.00654)															---	---	---	---
SGCB	6443	broad.mit.edu	37	4	52895985	52895985	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:52895985G>A	uc003gzj.2	-	3	348	c.288C>T	c.(286-288)GGC>GGT	p.G96G	SGCB_uc011bzp.1_Silent_p.G26G	NM_000232	NP_000223	Q16585	SGCB_HUMAN	sarcoglycan, beta	96	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma					0			GBM - Glioblastoma multiforme(4;7.63e-12)|LUSC - Lung squamous cell carcinoma(32;0.00204)															---	---	---	---
SGCB	6443	broad.mit.edu	37	4	52895995	52895995	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:52895995C>T	uc003gzj.2	-	3	338	c.278G>A	c.(277-279)GGA>GAA	p.G93E	SGCB_uc011bzp.1_Missense_Mutation_p.G23E	NM_000232	NP_000223	Q16585	SGCB_HUMAN	sarcoglycan, beta	93	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma					0			GBM - Glioblastoma multiforme(4;7.63e-12)|LUSC - Lung squamous cell carcinoma(32;0.00204)															---	---	---	---
USP46	64854	broad.mit.edu	37	4	53494163	53494163	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:53494163G>A	uc003gzn.2	-	3	470	c.285C>T	c.(283-285)GGC>GGT	p.G95G	USP46_uc003gzm.3_Silent_p.G88G|USP46_uc011bzr.1_Silent_p.G72G|USP46_uc011bzs.1_5'UTR	NM_022832	NP_073743	P62068	UBP46_HUMAN	ubiquitin specific peptidase 46 isoform 1	95					behavior|protein deubiquitination|regulation of synaptic transmission, GABAergic|ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(32;0.0295)															---	---	---	---
SCFD2	152579	broad.mit.edu	37	4	53773693	53773693	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:53773693G>A	uc003gzu.2	-	7	1907	c.1773C>T	c.(1771-1773)TCC>TCT	p.S591S	SCFD2_uc010igm.2_Intron	NM_152540	NP_689753	Q8WU76	SCFD2_HUMAN	sec1 family domain containing 2	591					protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)															---	---	---	---
LNX1	84708	broad.mit.edu	37	4	54364904	54364904	+	Silent	SNP	G	A	A	rs138813024		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:54364904G>A	uc003hag.3	-	5	1138	c.882C>T	c.(880-882)AGC>AGT	p.S294S	PDGFRA_uc003haa.2_Intron|LNX1_uc003haf.3_Silent_p.S198S|LNX1_uc003hah.3_Intron	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	294	PDZ 1.					cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)															---	---	---	---
LNX1	84708	broad.mit.edu	37	4	54373579	54373579	+	Missense_Mutation	SNP	G	A	A	rs147992678	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:54373579G>A	uc003hag.3	-	4	936	c.680C>T	c.(679-681)GCT>GTT	p.A227V	PDGFRA_uc003haa.2_Intron|LNX1_uc003haf.3_Missense_Mutation_p.A131V|LNX1_uc003hah.3_Intron	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	227						cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)															---	---	---	---
KIAA1211	57482	broad.mit.edu	37	4	57180790	57180790	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:57180790G>A	uc003hbk.2	+	8	1513	c.1122G>A	c.(1120-1122)CAG>CAA	p.Q374Q	KIAA1211_uc010iha.2_Silent_p.Q367Q|KIAA1211_uc011bzz.1_Silent_p.Q284Q|KIAA1211_uc003hbm.1_Silent_p.Q260Q	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	374	Glu-rich.									ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)																	---	---	---	---
REST	5978	broad.mit.edu	37	4	57798266	57798266	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:57798266G>A	uc003hch.2	+	4	3589	c.3242G>A	c.(3241-3243)CGC>CAC	p.R1081H	REST_uc003hci.2_Missense_Mutation_p.R1081H|REST_uc010ihf.2_Missense_Mutation_p.R755H	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	1081	C2H2-type 9.|Interaction with RCOR1.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)																	---	---	---	---
POLR2B	5431	broad.mit.edu	37	4	57889686	57889686	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:57889686C>T	uc003hcl.1	+	19	2749	c.2706C>T	c.(2704-2706)GGC>GGT	p.G902G	POLR2B_uc011cae.1_Silent_p.G895G|POLR2B_uc011caf.1_Silent_p.G827G|POLR2B_uc003hcm.1_Silent_p.G395G	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	902					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)																	---	---	---	---
LPHN3	23284	broad.mit.edu	37	4	62598873	62598873	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:62598873G>C	uc010ihh.2	+	5	969	c.796G>C	c.(796-798)GCA>CCA	p.A266P	LPHN3_uc003hcq.3_Missense_Mutation_p.A266P|LPHN3_uc010ihg.1_Missense_Mutation_p.A334P|LPHN3_uc003hcs.1_Missense_Mutation_p.A95P	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	266	Extracellular (Potential).|Olfactomedin-like.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18																		---	---	---	---
CENPC1	1060	broad.mit.edu	37	4	68380247	68380247	+	Missense_Mutation	SNP	C	T	T	rs139483291	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:68380247C>T	uc003hdd.1	-	8	1172	c.989G>A	c.(988-990)CGC>CAC	p.R330H	CENPC1_uc010ihj.1_RNA|CENPC1_uc010ihk.1_RNA|CENPC1_uc010ihm.1_Missense_Mutation_p.R330H	NM_001812	NP_001803	Q03188	CENPC_HUMAN	centromere protein C 1	330					mitotic prometaphase	condensed chromosome kinetochore|condensed nuclear chromosome, centromeric region|cytosol	DNA binding			urinary_tract(1)|lung(1)	2																		---	---	---	---
YTHDC1	91746	broad.mit.edu	37	4	69180004	69180004	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69180004C>T	uc003hdx.2	-	17	2350	c.1997G>A	c.(1996-1998)CGC>CAC	p.R666H	YTHDC1_uc003hdy.2_Missense_Mutation_p.R648H	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	666	Arg-rich.									upper_aerodigestive_tract(1)|ovary(1)	2																		---	---	---	---
UGT2B15	7366	broad.mit.edu	37	4	69512908	69512908	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69512908C>T	uc011cal.1	-	6	1545	c.1507G>A	c.(1507-1509)GCA>ACA	p.A503T		NM_001076	NP_001067	P54855	UDB15_HUMAN	UDP glycosyltransferase 2B15 precursor	503	Helical; (Potential).				steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity				0																		---	---	---	---
UGT2B28	54490	broad.mit.edu	37	4	70146222	70146222	+	Missense_Mutation	SNP	G	T	T	rs142644303	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70146222G>T	uc003hej.2	+	1	6	c.4G>T	c.(4-6)GCT>TCT	p.A2S	UGT2B28_uc010ihr.2_Missense_Mutation_p.A2S	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	2					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)													---	---	---	---
UGT2B4	7363	broad.mit.edu	37	4	70351060	70351060	+	Silent	SNP	G	A	A	rs138447267	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70351060G>A	uc003hek.3	-	5	1223	c.1176C>T	c.(1174-1176)GGC>GGT	p.G392G	UGT2B4_uc011cap.1_Silent_p.G256G|UGT2B4_uc003hel.3_Intron	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	392					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2																		---	---	---	---
UGT2B4	7363	broad.mit.edu	37	4	70360986	70360986	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70360986C>T	uc003hek.3	-	1	641	c.594G>A	c.(592-594)ATG>ATA	p.M198I	UGT2B4_uc011cap.1_Missense_Mutation_p.M62I|UGT2B4_uc003hel.3_Missense_Mutation_p.M198I	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	198					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2																		---	---	---	---
SMR3B	10879	broad.mit.edu	37	4	71255405	71255405	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:71255405G>T	uc011cas.1	+	3	161	c.80G>T	c.(79-81)AGG>ATG	p.R27M	SMR3B_uc003hfh.2_Missense_Mutation_p.R27M	NM_006685	NP_006676	P02814	SMR3B_HUMAN	submaxillary gland androgen regulated protein 3	27	Pro-rich.					extracellular space				skin(1)	1		all_hematologic(202;0.196)																---	---	---	---
GC	2638	broad.mit.edu	37	4	72631188	72631188	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:72631188C>T	uc003hge.2	-	4	587	c.434G>A	c.(433-435)TGT>TAT	p.C145Y	GC_uc003hgd.2_Missense_Mutation_p.C23Y|GC_uc010iie.2_Missense_Mutation_p.C145Y|GC_uc010iif.2_Missense_Mutation_p.C164Y	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor	145	Albumin 1.				hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)													---	---	---	---
NPFFR2	10886	broad.mit.edu	37	4	72994441	72994441	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:72994441G>A	uc003hgg.2	+	2	537	c.439G>A	c.(439-441)GCA>ACA	p.A147T	NPFFR2_uc010iig.1_Intron|NPFFR2_uc003hgi.2_Missense_Mutation_p.A48T|NPFFR2_uc003hgh.2_Missense_Mutation_p.A45T	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	147	Extracellular (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)															---	---	---	---
ANKRD17	26057	broad.mit.edu	37	4	74017203	74017203	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74017203C>T	uc003hgp.2	-	7	1390	c.1273G>A	c.(1273-1275)GCG>ACG	p.A425T	ANKRD17_uc003hgo.2_Missense_Mutation_p.A312T|ANKRD17_uc003hgq.2_Missense_Mutation_p.A425T|ANKRD17_uc003hgr.2_Missense_Mutation_p.A425T|ANKRD17_uc011cbd.1_Missense_Mutation_p.A54T	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	425	ANK 6.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)															---	---	---	---
AFP	174	broad.mit.edu	37	4	74318231	74318231	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74318231C>T	uc003hgz.1	+	12	1589	c.1542C>T	c.(1540-1542)AGC>AGT	p.S514S	AFP_uc003hha.1_Silent_p.S514S|AFP_uc011cbg.1_Silent_p.S288S	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor	514	Albumin 3.				transport		metal ion binding			ovary(1)	1	Breast(15;0.00102)		Epithelial(6;2.42e-05)|all cancers(17;0.000268)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)											Alpha-Fetoprotein_Hereditary_Persistence_of				---	---	---	---
PF4V1	5197	broad.mit.edu	37	4	74719624	74719624	+	Silent	SNP	C	T	T	rs34446485	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74719624C>T	uc003hhg.1	+	2	292	c.225C>T	c.(223-225)CTC>CTT	p.L75L		NM_002620	NP_002611	P10720	PF4V_HUMAN	platelet factor 4 variant 1	75					immune response	extracellular region	chemokine activity|heparin binding				0	Breast(15;0.00102)		all cancers(17;0.00176)|Lung(101;0.128)|LUSC - Lung squamous cell carcinoma(112;0.187)															---	---	---	---
SHROOM3	57619	broad.mit.edu	37	4	77659960	77659960	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:77659960C>T	uc011cbx.1	+	5	1587	c.634C>T	c.(634-636)CGG>TGG	p.R212W	SHROOM3_uc011cbz.1_Missense_Mutation_p.R36W|SHROOM3_uc003hkf.1_Missense_Mutation_p.R87W|SHROOM3_uc003hkg.2_5'UTR	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	212					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)															---	---	---	---
CNOT6L	246175	broad.mit.edu	37	4	78652648	78652648	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:78652648G>A	uc011ccd.1	-	9	1048	c.917C>T	c.(916-918)GCG>GTG	p.A306V	CNOT6L_uc003hks.2_Missense_Mutation_p.A306V|CNOT6L_uc003hkt.1_Missense_Mutation_p.A149V	NM_144571	NP_653172	Q96LI5	CNO6L_HUMAN	CCR4-NOT transcription complex, subunit 6-like	306					nuclear-transcribed mRNA poly(A) tail shortening	cytosol	exonuclease activity|protein binding			large_intestine(1)	1																		---	---	---	---
FRAS1	80144	broad.mit.edu	37	4	79188442	79188442	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:79188442G>A	uc003hlb.2	+	9	1277	c.837G>A	c.(835-837)GTG>GTA	p.V279V	FRAS1_uc003hkw.2_Silent_p.V279V|FRAS1_uc003hky.1_5'UTR|FRAS1_uc003hkz.2_5'UTR	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	279	VWFC 4.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5																		---	---	---	---
FRAS1	80144	broad.mit.edu	37	4	79373515	79373515	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:79373515C>A	uc003hlb.2	+							NM_025074	NP_079350			Fraser syndrome 1						cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5																		---	---	---	---
BMP2K	55589	broad.mit.edu	37	4	79791958	79791958	+	Missense_Mutation	SNP	G	A	A	rs142887199	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:79791958G>A	uc003hlk.2	+	11	1419	c.1253G>A	c.(1252-1254)GGC>GAC	p.G418D	BMP2K_uc010ijl.1_RNA|BMP2K_uc003hlj.2_Missense_Mutation_p.G418D|BMP2K_uc003hll.2_5'Flank	NM_198892	NP_942595	Q9NSY1	BMP2K_HUMAN	BMP-2 inducible kinase isoform a	418						nucleus	ATP binding|protein serine/threonine kinase activity			lung(1)	1																		---	---	---	---
PAQR3	152559	broad.mit.edu	37	4	79841732	79841732	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:79841732T>C	uc003hlp.1	-	6	1101	c.897A>G	c.(895-897)AGA>AGG	p.R299R	PAQR3_uc003hlm.2_RNA|PAQR3_uc003hln.2_RNA|PAQR3_uc003hlq.1_Silent_p.R181R	NM_001040202	NP_001035292	Q6TCH7	PAQR3_HUMAN	progestin and adipoQ receptor family member III	299	Lumenal (Potential).|Golgi targeting.					Golgi membrane|integral to membrane	receptor activity				0																		---	---	---	---
ANTXR2	118429	broad.mit.edu	37	4	80906003	80906003	+	Silent	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:80906003A>T	uc003hlz.3	-	13	1819	c.1056T>A	c.(1054-1056)CCT>CCA	p.P352P	ANTXR2_uc003hly.3_Silent_p.P352P|ANTXR2_uc003hlx.1_RNA|ANTXR2_uc010ijn.2_Silent_p.P249P	NM_001145794	NP_001139266	P58335	ANTR2_HUMAN	anthrax toxin receptor 2 isoform 2	352	Poly-Pro.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|extracellular region|integral to membrane|plasma membrane	metal ion binding|protein binding|receptor activity			ovary(1)	1														Juvenile_Hyaline_Fibromatosis				---	---	---	---
HNRPDL	9987	broad.mit.edu	37	4	83350541	83350541	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83350541A>G	uc003hmr.2	-	1	838	c.303T>C	c.(301-303)GCT>GCC	p.A101A	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_Silent_p.A101A	NM_031372	NP_112740	O14979	HNRDL_HUMAN	heterogeneous nuclear ribonucleoprotein D-like	101					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)																---	---	---	---
ENOPH1	58478	broad.mit.edu	37	4	83381193	83381193	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83381193G>A	uc003hmv.2	+	6	963	c.706G>A	c.(706-708)GCA>ACA	p.A236T	ENOPH1_uc003hmw.2_Missense_Mutation_p.A148T|ENOPH1_uc003hmx.2_Missense_Mutation_p.A90T	NM_021204	NP_067027	Q9UHY7	ENOPH_HUMAN	enolase-phosphatase 1	236					L-methionine salvage from methylthioadenosine	cytoplasm|nucleus	2,3-diketo-5-methylthiopentyl-1-phosphate enolase activity|2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase activity|acireductone synthase activity|magnesium ion binding|phosphoglycolate phosphatase activity				0																		---	---	---	---
SCD5	79966	broad.mit.edu	37	4	83719512	83719512	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83719512G>A	uc003hna.2	-	1	499	c.179C>T	c.(178-180)GCC>GTC	p.A60V	SCD5_uc003hnb.3_Missense_Mutation_p.A60V|SCD5_uc003hnc.2_Missense_Mutation_p.A60V	NM_001037582	NP_001032671	Q86SK9	SCD5_HUMAN	stearoyl-CoA desaturase 5 isoform a	60	Helical; (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity			ovary(1)	1		Colorectal(4;0.0323)|Hepatocellular(203;0.115)																---	---	---	---
THAP9	79725	broad.mit.edu	37	4	83838899	83838899	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83838899C>T	uc003hnt.2	+	5	1653	c.1534C>T	c.(1534-1536)CGT>TGT	p.R512C	THAP9_uc003hns.1_Missense_Mutation_p.R368C|THAP9_uc003hnu.1_RNA|THAP9_uc003hnv.2_Missense_Mutation_p.R229C	NM_024672	NP_078948	Q9H5L6	THAP9_HUMAN	THAP domain containing 9	512							DNA binding|metal ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	5		Hepatocellular(203;0.114)																---	---	---	---
WDFY3	23001	broad.mit.edu	37	4	85701365	85701365	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:85701365C>T	uc003hpd.2	-	26	4669	c.4261G>A	c.(4261-4263)GCC>ACC	p.A1421T		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1421						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)														---	---	---	---
WDFY3	23001	broad.mit.edu	37	4	85715780	85715780	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:85715780G>A	uc003hpd.2	-	21	3787	c.3379C>T	c.(3379-3381)CGC>TGC	p.R1127C		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1127						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)														---	---	---	---
MAPK10	5602	broad.mit.edu	37	4	87022260	87022260	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:87022260C>T	uc003hpq.2	-	7	742	c.675G>A	c.(673-675)GTG>GTA	p.V225V	MAPK10_uc010ikg.2_Silent_p.V187V|MAPK10_uc003hpr.2_Silent_p.V187V|MAPK10_uc003hps.2_Silent_p.V225V|MAPK10_uc003hpt.2_Silent_p.V225V|MAPK10_uc003hpu.2_Silent_p.V225V|MAPK10_uc003hpv.2_Silent_p.V80V|MAPK10_uc003hpn.2_5'Flank|MAPK10_uc003hpo.2_Silent_p.V80V|MAPK10_uc011ccw.1_Silent_p.V111V|MAPK10_uc003hpp.2_Silent_p.V80V	NM_138982	NP_620448	P53779	MK10_HUMAN	mitogen-activated protein kinase 10 isoform 2	225	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)														---	---	---	---
PTPN13	5783	broad.mit.edu	37	4	87622631	87622631	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:87622631A>G	uc003hpz.2	+	7	1352	c.872A>G	c.(871-873)GAT>GGT	p.D291G	PTPN13_uc003hpy.2_Missense_Mutation_p.D291G|PTPN13_uc003hqa.2_Missense_Mutation_p.D291G|PTPN13_uc003hqb.2_Missense_Mutation_p.D291G	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	291						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)														---	---	---	---
PTPN13	5783	broad.mit.edu	37	4	87726516	87726516	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:87726516C>A	uc003hpz.2	+	44	7219	c.6739C>A	c.(6739-6741)CTT>ATT	p.L2247I	PTPN13_uc003hpy.2_Missense_Mutation_p.L2252I|PTPN13_uc003hqa.2_Missense_Mutation_p.L2228I|PTPN13_uc003hqb.2_Missense_Mutation_p.L2056I|PTPN13_uc003hqc.1_Missense_Mutation_p.L613I	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	2247	Tyrosine-protein phosphatase.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)														---	---	---	---
C4orf36	132989	broad.mit.edu	37	4	87808929	87808929	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:87808929G>A	uc003hqe.3	-	4	651	c.338C>T	c.(337-339)CCT>CTT	p.P113L		NM_144645	NP_653246	Q96KX1	CD036_HUMAN	hypothetical protein LOC132989	113											0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00141)														---	---	---	---
AFF1	4299	broad.mit.edu	37	4	88011180	88011180	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88011180G>A	uc003hqj.3	+	5	1535	c.1128G>A	c.(1126-1128)ACG>ACA	p.T376T	AFF1_uc003hqh.1_Silent_p.T382T|AFF1_uc011ccy.1_Intron|AFF1_uc011ccz.1_Silent_p.T383T|AFF1_uc003hqk.3_Silent_p.T376T|AFF1_uc011cda.1_Silent_p.T14T	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	376						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)														---	---	---	---
AFF1	4299	broad.mit.edu	37	4	88036259	88036259	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88036259G>A	uc003hqj.3	+	11	2660	c.2253G>A	c.(2251-2253)CCG>CCA	p.P751P	AFF1_uc011ccz.1_Silent_p.P758P|AFF1_uc003hqk.3_Silent_p.P751P|AFF1_uc011cda.1_Silent_p.P389P	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	751						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)														---	---	---	---
PKD2	5311	broad.mit.edu	37	4	88986920	88986920	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88986920C>T	uc003hre.2	+	12	2313	c.2247C>T	c.(2245-2247)GGC>GGT	p.G749G	PKD2_uc011cdf.1_Silent_p.G167G|PKD2_uc011cdg.1_Silent_p.G75G|PKD2_uc011cdh.1_5'UTR	NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	749	EF-hand domain.|Cytoplasmic (Potential).					basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)														---	---	---	---
ABCG2	9429	broad.mit.edu	37	4	89039273	89039273	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89039273A>C	uc003hrg.2	-	7	1322	c.829T>G	c.(829-831)TTT>GTT	p.F277V	ABCG2_uc003hrh.2_Missense_Mutation_p.F277V|ABCG2_uc003hrf.2_Missense_Mutation_p.F147V	NM_004827	NP_004818	Q9UNQ0	ABCG2_HUMAN	ATP-binding cassette, sub-family G, member 2	277	ABC transporter.|Cytoplasmic (Potential).				cellular iron ion homeostasis|urate metabolic process	integral to membrane|plasma membrane	ATP binding|heme transporter activity|protein homodimerization activity|xenobiotic-transporting ATPase activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.02e-05)	Imatinib(DB00619)|Mitoxantrone(DB01204)|Nicardipine(DB00622)|Nitrendipine(DB01054)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Topotecan(DB01030)													---	---	---	---
HERC6	55008	broad.mit.edu	37	4	89358921	89358921	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89358921A>G	uc011cdi.1	+	20	2726	c.2543A>G	c.(2542-2544)GAC>GGC	p.D848G	HERC6_uc011cdj.1_Missense_Mutation_p.D812G|HERC6_uc011cdk.1_RNA|HERC6_uc011cdl.1_RNA	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	848	HECT.				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)														---	---	---	---
FAM13A	10144	broad.mit.edu	37	4	89649680	89649680	+	3'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89649680C>T	uc003hse.1	-	24					FAM13A_uc011cdp.1_3'UTR|FAM13A_uc003hsa.1_3'UTR|FAM13A_uc003hsb.1_3'UTR|FAM13A_uc003hsd.1_3'UTR|FAM13A_uc003hsc.1_3'UTR|FAM13A_uc011cdq.1_3'UTR|FAM13A_uc003hsf.1_3'UTR|FAM13AOS_uc003hry.1_RNA|FAM13AOS_uc003hrz.1_RNA	NM_014883	NP_055698			family with sequence similarity 13, member A1						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2																		---	---	---	---
GPRIN3	285513	broad.mit.edu	37	4	90170134	90170134	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:90170134C>T	uc003hsm.1	-	2	1647	c.1128G>A	c.(1126-1128)ACG>ACA	p.T376T		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	376										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)														---	---	---	---
PDLIM5	10611	broad.mit.edu	37	4	95578591	95578591	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:95578591C>T	uc003hti.2	+	11	1629	c.1478C>T	c.(1477-1479)GCG>GTG	p.A493V	PDLIM5_uc011cdx.1_Missense_Mutation_p.A390V|PDLIM5_uc003hth.2_Missense_Mutation_p.A384V|PDLIM5_uc003htj.2_Missense_Mutation_p.A168V|PDLIM5_uc003htk.2_Missense_Mutation_p.A522V|PDLIM5_uc011cdy.1_Missense_Mutation_p.A371V|PDLIM5_uc003htl.2_Missense_Mutation_p.A168V	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	493	LIM zinc-binding 2.				regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)														---	---	---	---
RAP1GDS1	5910	broad.mit.edu	37	4	99182726	99182726	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:99182726T>C	uc003htx.3	+						RAP1GDS1_uc003htu.2_Intron|RAP1GDS1_uc003htw.3_Intron|RAP1GDS1_uc003htv.3_Intron|RAP1GDS1_uc003htz.3_Intron|RAP1GDS1_uc003hty.3_Intron|RAP1GDS1_uc003hua.3_Intron	NM_001100427	NP_001093897			RAP1, GTP-GDP dissociation stimulator 1 isoform								binding|GTPase activator activity			ovary(1)|lung(1)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;2.9e-07)|LUSC - Lung squamous cell carcinoma(1;0.0253)|Lung(1;0.0576)				T	NUP98	T-ALL								---	---	---	---
TSPAN5	10098	broad.mit.edu	37	4	99399869	99399869	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:99399869G>A	uc003hub.2	-	5	893	c.543C>T	c.(541-543)GGC>GGT	p.G181G	TSPAN5_uc011cdz.1_Silent_p.G110G	NM_005723	NP_005714	P62079	TSN5_HUMAN	transmembrane 4 superfamily member 9	181	Extracellular (Potential).					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;1.89e-07)														---	---	---	---
TSPAN5	10098	broad.mit.edu	37	4	99407956	99407956	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:99407956A>G	uc003hub.2	-	3	562	c.212T>C	c.(211-213)GTG>GCG	p.V71A	TSPAN5_uc011cdz.1_5'UTR	NM_005723	NP_005714	P62079	TSN5_HUMAN	transmembrane 4 superfamily member 9	71	Helical; (Potential).					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;1.89e-07)														---	---	---	---
METAP1	23173	broad.mit.edu	37	4	99960602	99960602	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:99960602C>T	uc003huf.3	+	5	535	c.418C>T	c.(418-420)CGA>TGA	p.R140*	METAP1_uc003hug.2_RNA	NM_015143	NP_055958	P53582	AMPM1_HUMAN	methionyl aminopeptidase 1	140					N-terminal protein amino acid modification|peptidyl-methionine modification|proteolysis|regulation of translation	cytoplasm	aminopeptidase activity|metal ion binding|metalloexopeptidase activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;3.12e-07)														---	---	---	---
ADH1C	126	broad.mit.edu	37	4	100261758	100261758	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:100261758C>T	uc003huu.2	-	9	1023	c.938G>A	c.(937-939)CGC>CAC	p.R313H		NM_000669	NP_000660	P00326	ADH1G_HUMAN	class I alcohol dehydrogenase, gamma subunit	313					ethanol oxidation|xenobiotic metabolic process	cytosol	alcohol dehydrogenase (NAD) activity|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(123;1.08e-07)	Fomepizole(DB01213)|NADH(DB00157)									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				---	---	---	---
ADH7	131	broad.mit.edu	37	4	100350683	100350683	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:100350683G>A	uc003huv.1	-							NM_000673	NP_000664			class IV alcohol dehydrogenase, mu or sigma						ethanol oxidation|fatty acid omega-oxidation|response to bacterium|response to ethanol|xenobiotic metabolic process	cytosol|soluble fraction	alcohol dehydrogenase activity, zinc-dependent|aldehyde oxidase activity|ethanol binding|receptor antagonist activity|retinol binding|retinol dehydrogenase activity			lung(2)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(123;1.75e-08)	NADH(DB00157)													---	---	---	---
MTTP	4547	broad.mit.edu	37	4	100529984	100529984	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:100529984G>A	uc003hvc.3	+	13	1875	c.1619G>A	c.(1618-1620)CGC>CAC	p.R540H	MTTP_uc011cej.1_Missense_Mutation_p.R567H	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	540	Vitellogenin.		R -> H (in ABL; loss of activity).	R->K: No change of activity.	lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)													---	---	---	---
PPP3CA	5530	broad.mit.edu	37	4	101947170	101947170	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:101947170G>T	uc011cen.1	-	14	2093	c.1418C>A	c.(1417-1419)GCC>GAC	p.A473D	PPP3CA_uc003hvu.2_Missense_Mutation_p.A463D|PPP3CA_uc010ilj.2_Missense_Mutation_p.A421D|PPP3CA_uc003hvt.2_Missense_Mutation_p.A450D|PPP3CA_uc003hvs.2_Missense_Mutation_p.A406D|PPP3CA_uc010ilk.2_Missense_Mutation_p.A241D	NM_000944	NP_000935	Q08209	PP2BA_HUMAN	protein phosphatase 3, catalytic subunit, alpha	473	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)														---	---	---	---
SLC39A8	64116	broad.mit.edu	37	4	103228683	103228683	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:103228683C>A	uc003hwb.1	-	3	991	c.462G>T	c.(460-462)AAG>AAT	p.K154N	SLC39A8_uc011ceo.1_Missense_Mutation_p.K154N|SLC39A8_uc003hwa.1_Missense_Mutation_p.K87N|SLC39A8_uc003hwc.2_Missense_Mutation_p.K154N	NM_022154	NP_071437	Q9C0K1	S39A8_HUMAN	solute carrier family 39 (zinc transporter),	154	Extracellular (Potential).					integral to membrane|organelle membrane|plasma membrane	zinc ion transmembrane transporter activity				0		Hepatocellular(203;0.217)		all cancers(1;9.78e-10)|OV - Ovarian serous cystadenocarcinoma(123;1.52e-09)|GBM - Glioblastoma multiforme(1;0.000142)														---	---	---	---
UBE2D3	7323	broad.mit.edu	37	4	103789880	103789880	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:103789880G>T	uc003hwq.2	-	1	124	c.22C>A	c.(22-24)CTT>ATT	p.L8I	CISD2_uc003hwt.3_5'Flank|UBE2D3_uc003hwr.2_5'UTR	NM_181893	NP_871622	P61077	UB2D3_HUMAN	ubiquitin-conjugating enzyme E2D 3 isoform 3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					apoptosis|BMP signaling pathway|DNA repair|negative regulation of type I interferon production|proteasomal ubiquitin-dependent protein catabolic process|protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein monoubiquitination|transforming growth factor beta receptor signaling pathway	endosome membrane|plasma membrane	ATP binding|protein binding|ubiquitin-protein ligase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.13e-08)														---	---	---	---
CENPE	1062	broad.mit.edu	37	4	104067167	104067167	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:104067167G>T	uc003hxb.1	-	30	4322	c.4232C>A	c.(4231-4233)CCC>CAC	p.P1411H	CENPE_uc003hxc.1_Missense_Mutation_p.P1386H	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	1411	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)														---	---	---	---
TACR3	6870	broad.mit.edu	37	4	104640294	104640294	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:104640294G>A	uc003hxe.1	-	1	682	c.539C>T	c.(538-540)GCG>GTG	p.A180V		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	180	Helical; Name=3; (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)														---	---	---	---
TACR3	6870	broad.mit.edu	37	4	104640738	104640738	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:104640738G>A	uc003hxe.1	-	1	238	c.95C>T	c.(94-96)GCG>GTG	p.A32V		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	32	Extracellular (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)														---	---	---	---
GSTCD	79807	broad.mit.edu	37	4	106639056	106639056	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:106639056C>T	uc003hxz.3	+	2	358	c.286C>T	c.(286-288)CGA>TGA	p.R96*	GSTCD_uc003hxx.2_Nonsense_Mutation_p.R96*|GSTCD_uc003hxy.3_Intron|GSTCD_uc011cfb.1_Intron|GSTCD_uc010ils.1_Nonsense_Mutation_p.R96*	NM_001031720	NP_001026890	Q8NEC7	GSTCD_HUMAN	glutathione S-transferase, C-terminal domain	96						cytoplasm	rRNA methyltransferase activity			breast(1)|central_nervous_system(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.15e-07)|READ - Rectum adenocarcinoma(30;0.139)														---	---	---	---
TBCK	93627	broad.mit.edu	37	4	107154146	107154146	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:107154146G>A	uc010ilv.2	-	17	1953	c.1588C>T	c.(1588-1590)CGT>TGT	p.R530C	TBCK_uc003hyb.2_Missense_Mutation_p.R273C|TBCK_uc003hye.2_Missense_Mutation_p.R491C|TBCK_uc003hyc.2_Missense_Mutation_p.R467C|TBCK_uc003hyd.2_Missense_Mutation_p.R358C|TBCK_uc003hyf.2_Missense_Mutation_p.R530C	NM_001163435	NP_001156907	Q8TEA7	TBCK_HUMAN	TBC domain-containing protein kinase-like	530	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			large_intestine(2)|upper_aerodigestive_tract(1)|stomach(1)|ovary(1)	5																		---	---	---	---
CYP2U1	113612	broad.mit.edu	37	4	108871478	108871478	+	Missense_Mutation	SNP	G	A	A	rs150818323		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:108871478G>A	uc003hyp.2	+	5	1617	c.1534G>A	c.(1534-1536)GCA>ACA	p.A512T	CYP2U1_uc011cfi.1_Missense_Mutation_p.A303T	NM_183075	NP_898898	Q7Z449	CP2U1_HUMAN	cytochrome P450, family 2, subfamily U,	512	Helical; (Potential).				xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000128)														---	---	---	---
AGXT2L1	64850	broad.mit.edu	37	4	109663750	109663750	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:109663750T>C	uc003hzc.2	-	13	1571	c.1390A>G	c.(1390-1392)ATA>GTA	p.I464V	AGXT2L1_uc010imc.2_Missense_Mutation_p.I458V|AGXT2L1_uc011cfm.1_Missense_Mutation_p.I424V|AGXT2L1_uc011cfn.1_Missense_Mutation_p.I391V|AGXT2L1_uc011cfo.1_Missense_Mutation_p.I406V	NM_031279	NP_112569	Q8TBG4	AT2L1_HUMAN	alanine-glyoxylate aminotransferase 2-like 1	464					cellular amino acid metabolic process	mitochondrion	alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000281)														---	---	---	---
AGXT2L1	64850	broad.mit.edu	37	4	109681385	109681385	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:109681385T>C	uc003hzc.2	-	2	315	c.134A>G	c.(133-135)AAC>AGC	p.N45S	AGXT2L1_uc010imc.2_Missense_Mutation_p.N45S|AGXT2L1_uc011cfm.1_Missense_Mutation_p.N5S|AGXT2L1_uc011cfn.1_Intron|AGXT2L1_uc011cfo.1_Intron	NM_031279	NP_112569	Q8TBG4	AT2L1_HUMAN	alanine-glyoxylate aminotransferase 2-like 1	45					cellular amino acid metabolic process	mitochondrion	alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000281)														---	---	---	---
COL25A1	84570	broad.mit.edu	37	4	109858963	109858963	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:109858963C>T	uc003hze.1	-	10	1239	c.708_splice	c.e10+1	p.M236_splice	COL25A1_uc003hzg.2_Splice_Site_p.M236_splice|COL25A1_uc003hzd.2_Intron|COL25A1_uc003hzf.2_Splice_Site_p.M17_splice	NM_198721	NP_942014			collagen, type XXV, alpha 1 isoform 1							collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)														---	---	---	---
SEC24B	10427	broad.mit.edu	37	4	110442692	110442692	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:110442692C>T	uc003hzk.2	+	14	2473	c.2418C>T	c.(2416-2418)GGC>GGT	p.G806G	SEC24B_uc003hzl.2_Silent_p.G771G|SEC24B_uc011cfp.1_Silent_p.G836G|SEC24B_uc011cfq.1_Silent_p.G805G|SEC24B_uc011cfr.1_Silent_p.G770G	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	806					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)														---	---	---	---
RRH	10692	broad.mit.edu	37	4	110756589	110756589	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:110756589A>G	uc003hzv.2	+	3	399	c.365A>G	c.(364-366)GAC>GGC	p.D122G		NM_006583	NP_006574	O14718	OPSX_HUMAN	peropsin	122	Cytoplasmic.				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00109)														---	---	---	---
ENPEP	2028	broad.mit.edu	37	4	111397641	111397641	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:111397641C>T	uc003iab.3	+	1	413	c.71C>T	c.(70-72)GCG>GTG	p.A24V		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	24	Helical; Signal-anchor for type II membrane protein; (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)													---	---	---	---
ENPEP	2028	broad.mit.edu	37	4	111434596	111434596	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:111434596T>C	uc003iab.3	+	7	1676	c.1334T>C	c.(1333-1335)GTA>GCA	p.V445A		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	445	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)													---	---	---	---
ENPEP	2028	broad.mit.edu	37	4	111470515	111470515	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:111470515G>A	uc003iab.3	+	15	2507	c.2165G>A	c.(2164-2166)GGT>GAT	p.G722D		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	722	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)													---	---	---	---
AP1AR	55435	broad.mit.edu	37	4	113174397	113174397	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:113174397G>A	uc003iaj.3	+	2	470	c.117G>A	c.(115-117)GAG>GAA	p.E39E	AP1AR_uc010imm.1_Silent_p.E39E|AP1AR_uc003iak.3_Silent_p.E39E	NM_018569	NP_061039	Q63HQ0	AP1AR_HUMAN	adaptor-related protein complex 1 associated	39					protein transport	early endosome|Golgi apparatus|late endosome|transport vesicle					0																		---	---	---	---
ANK2	287	broad.mit.edu	37	4	114278694	114278694	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114278694G>A	uc003ibe.3	+	38	9020	c.8920G>A	c.(8920-8922)GCA>ACA	p.A2974T	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.A276T|ANK2_uc011cgb.1_Missense_Mutation_p.A2989T	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2941					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)														---	---	---	---
ANK2	287	broad.mit.edu	37	4	114278954	114278954	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114278954A>C	uc003ibe.3	+	38	9280	c.9180A>C	c.(9178-9180)AAA>AAC	p.K3060N	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.K362N|ANK2_uc011cgb.1_Missense_Mutation_p.K3075N	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3027					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)														---	---	---	---
UGT8	7368	broad.mit.edu	37	4	115544223	115544223	+	Missense_Mutation	SNP	G	A	A	rs114818124		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:115544223G>A	uc003ibs.2	+	2	709	c.187G>A	c.(187-189)GCC>ACC	p.A63T	UGT8_uc003ibt.2_Missense_Mutation_p.A63T|UGT8_uc011cge.1_RNA	NM_001128174	NP_001121646	Q16880	CGT_HUMAN	UDP-galactose-ceramide galactosyltransferase 8	63					central nervous system development|peripheral nervous system development	integral to membrane	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity			ovary(1)|skin(1)	2		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)														---	---	---	---
NDST4	64579	broad.mit.edu	37	4	115997904	115997904	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:115997904C>T	uc003ibu.2	-	2	968	c.289G>A	c.(289-291)GCT>ACT	p.A97T	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	97	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)														---	---	---	---
PDE5A	8654	broad.mit.edu	37	4	120460112	120460112	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:120460112T>C	uc003idh.2	-						uc003ide.3_Intron|PDE5A_uc003idf.2_Intron|PDE5A_uc003idg.2_Intron|uc003idi.3_Intron	NM_001083	NP_001074			phosphodiesterase 5A isoform 1						platelet activation|signal transduction	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|zinc ion binding				0					Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Vardenafil(DB00862)													---	---	---	---
C4orf31	79625	broad.mit.edu	37	4	121958554	121958554	+	Missense_Mutation	SNP	G	A	A	rs139699205	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:121958554G>A	uc003idq.1	-	4	1099	c.572C>T	c.(571-573)ACG>ATG	p.T191M		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	191											0																		---	---	---	---
QRFPR	84109	broad.mit.edu	37	4	122257980	122257980	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122257980C>T	uc010inj.1	-	3	922	c.543G>A	c.(541-543)TGG>TGA	p.W181*	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_Nonsense_Mutation_p.W181*	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	181	Helical; Name=4; (Potential).					plasma membrane	neuropeptide Y receptor activity				0																		---	---	---	---
QRFPR	84109	broad.mit.edu	37	4	122301573	122301573	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122301573C>T	uc010inj.1	-	1	609	c.230G>A	c.(229-231)CGC>CAC	p.R77H	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_Missense_Mutation_p.R77H|QRFPR_uc010inl.1_Missense_Mutation_p.R77H	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	77	Cytoplasmic (Potential).					plasma membrane	neuropeptide Y receptor activity				0																		---	---	---	---
TRPC3	7222	broad.mit.edu	37	4	122853627	122853627	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122853627C>T	uc003ieg.2	-	2	860	c.786G>A	c.(784-786)CCG>CCA	p.P262P	TRPC3_uc010inr.2_Silent_p.P189P|TRPC3_uc003ief.2_Silent_p.P189P|TRPC3_uc011cgl.1_5'UTR	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	177	Cytoplasmic (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2																		---	---	---	---
KIAA1109	84162	broad.mit.edu	37	4	123140711	123140711	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123140711C>T	uc003ieh.2	+	19	2509	c.2464C>T	c.(2464-2466)CGT>TGT	p.R822C	KIAA1109_uc003iei.1_Missense_Mutation_p.R576C|KIAA1109_uc010ins.1_Missense_Mutation_p.R166C|KIAA1109_uc003iej.1_Missense_Mutation_p.R207C	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	822					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	123161120	123161120	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123161120A>G	uc003ieh.2	+	27	4328	c.4283A>G	c.(4282-4284)TAC>TGC	p.Y1428C	KIAA1109_uc003iei.1_Missense_Mutation_p.Y1181C|KIAA1109_uc010ins.1_Missense_Mutation_p.Y771C|KIAA1109_uc003iek.2_Missense_Mutation_p.Y47C	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1428					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	123258064	123258064	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123258064A>G	uc003ieh.2	+	69	12084	c.12039A>G	c.(12037-12039)GGA>GGG	p.G4013G	KIAA1109_uc003iem.2_Silent_p.G369G|KIAA1109_uc003ien.2_5'Flank	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4013					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12																		---	---	---	---
FAT4	79633	broad.mit.edu	37	4	126237960	126237960	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126237960G>A	uc003ifj.3	+	1	394	c.394G>A	c.(394-396)GCC>ACC	p.A132T		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	132	Cadherin 1.|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	126238572	126238572	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126238572C>T	uc003ifj.3	+	1	1006	c.1006C>T	c.(1006-1008)CGC>TGC	p.R336C		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	336	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18																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	126240523	126240523	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126240523T>C	uc003ifj.3	+	1	2957	c.2957T>C	c.(2956-2958)GTC>GCC	p.V986A		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	986	Cadherin 9.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18																		---	---	---	---
FAT4	79633	broad.mit.edu	37	4	126242112	126242112	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126242112A>G	uc003ifj.3	+	1	4546	c.4546A>G	c.(4546-4548)ACC>GCC	p.T1516A		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1516	Cadherin 14.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18																		---	---	---	---
FAT4	79633	broad.mit.edu	37	4	126242602	126242602	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126242602G>A	uc003ifj.3	+	1	5036	c.5036G>A	c.(5035-5037)CGC>CAC	p.R1679H		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1679	Cadherin 16.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18																		---	---	---	---
FAT4	79633	broad.mit.edu	37	4	126369981	126369981	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126369981G>A	uc003ifj.3	+	9	7810	c.7810G>A	c.(7810-7812)GCA>ACA	p.A2604T	FAT4_uc011cgp.1_Missense_Mutation_p.A902T|FAT4_uc003ifi.1_Missense_Mutation_p.A82T	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2604	Extracellular (Potential).|Cadherin 25.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18																		---	---	---	---
FAT4	79633	broad.mit.edu	37	4	126411605	126411605	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126411605C>A	uc003ifj.3	+	17	13628	c.13628C>A	c.(13627-13629)CCG>CAG	p.P4543Q	FAT4_uc011cgp.1_Missense_Mutation_p.P2784Q|FAT4_uc003ifi.1_Missense_Mutation_p.P2020Q	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4543	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18																		---	---	---	---
FAT4	79633	broad.mit.edu	37	4	126412402	126412402	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126412402G>T	uc003ifj.3	+	17	14425	c.14425G>T	c.(14425-14427)GAC>TAC	p.D4809Y	FAT4_uc011cgp.1_Missense_Mutation_p.D3050Y|FAT4_uc003ifi.1_Missense_Mutation_p.D2286Y	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4809	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18																		---	---	---	---
SCLT1	132320	broad.mit.edu	37	4	129880822	129880822	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:129880822T>C	uc003igp.2	-	12	1486	c.980A>G	c.(979-981)TAT>TGT	p.Y327C	SCLT1_uc003ign.2_Translation_Start_Site|SCLT1_uc003igo.2_Translation_Start_Site|SCLT1_uc003igq.2_Intron|SCLT1_uc010iob.1_Intron	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	327	Potential.					centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5																		---	---	---	---
PCDH10	57575	broad.mit.edu	37	4	134072314	134072314	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:134072314C>T	uc003iha.2	+	1	1845	c.1019C>T	c.(1018-1020)GCG>GTG	p.A340V	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.A340V	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	340	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)														---	---	---	---
PCDH10	57575	broad.mit.edu	37	4	134073044	134073044	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:134073044G>T	uc003iha.2	+	1	2575	c.1749G>T	c.(1747-1749)GGG>GGT	p.G583G	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.G583G	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	583	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)														---	---	---	---
PCDH10	57575	broad.mit.edu	37	4	134073220	134073220	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:134073220G>A	uc003iha.2	+	1	2751	c.1925G>A	c.(1924-1926)CGC>CAC	p.R642H	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.R642H	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	642	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)														---	---	---	---
PCDH10	57575	broad.mit.edu	37	4	134073864	134073864	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:134073864G>A	uc003iha.2	+	1	3395	c.2569G>A	c.(2569-2571)GTC>ATC	p.V857I	PCDH10_uc003igz.2_Missense_Mutation_p.V857I	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	857	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)														---	---	---	---
PCDH18	54510	broad.mit.edu	37	4	138452423	138452423	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:138452423C>T	uc003ihe.3	-	1	1207	c.820G>A	c.(820-822)GAT>AAT	p.D274N	PCDH18_uc003ihf.3_Missense_Mutation_p.D267N|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.D54N|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	274	Cadherin 3.|Extracellular (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)																	---	---	---	---
NAA15	80155	broad.mit.edu	37	4	140262203	140262203	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:140262203C>T	uc003ihu.1	+	4	638	c.382C>T	c.(382-384)CGA>TGA	p.R128*		NM_057175	NP_476516	Q9BXJ9	NAA15_HUMAN	NMDA receptor regulated 1	128					angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2																		---	---	---	---
NAA15	80155	broad.mit.edu	37	4	140264015	140264015	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:140264015G>A	uc003ihu.1	+	5	694	c.438G>A	c.(436-438)GCG>GCA	p.A146A		NM_057175	NP_476516	Q9BXJ9	NAA15_HUMAN	NMDA receptor regulated 1	146					angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2																		---	---	---	---
MAML3	55534	broad.mit.edu	37	4	140640939	140640939	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:140640939G>A	uc003ihz.1	-	7	3692	c.2940C>T	c.(2938-2940)GGC>GGT	p.G980G	MGST2_uc010ioi.1_Intron|MAML3_uc011chd.1_Silent_p.G448G	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	981					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)																	---	---	---	---
TBC1D9	23158	broad.mit.edu	37	4	141543342	141543342	+	3'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:141543342G>A	uc010ioj.2	-	21						NM_015130	NP_055945			TBC1 domain family, member 9 (with GRAM domain)							intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)																---	---	---	---
RNF150	57484	broad.mit.edu	37	4	141888992	141888992	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:141888992G>A	uc003iio.1	-	2	1174	c.520C>T	c.(520-522)CCA>TCA	p.P174S	RNF150_uc010iok.1_Missense_Mutation_p.P174S|RNF150_uc003iip.1_Missense_Mutation_p.P174S	NM_020724	NP_065775	Q9ULK6	RN150_HUMAN	ring finger protein 150 precursor	174	Extracellular (Potential).|PA.					integral to membrane	zinc ion binding			ovary(1)	1	all_hematologic(180;0.162)																	---	---	---	---
GAB1	2549	broad.mit.edu	37	4	144359168	144359168	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:144359168G>A	uc003ije.2	+	4	969	c.610G>A	c.(610-612)GCA>ACA	p.A204T	GAB1_uc003ijd.2_Missense_Mutation_p.A204T|GAB1_uc011chq.1_Missense_Mutation_p.A101T	NM_002039	NP_002030	Q13480	GAB1_HUMAN	GRB2-associated binding protein 1 isoform b	204				A -> G (in Ref. 1; AAC50380).	cell proliferation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			breast(2)|lung(1)|skin(1)	4	all_hematologic(180;0.158)																	---	---	---	---
HHIP	64399	broad.mit.edu	37	4	145659003	145659003	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:145659003G>A	uc003ijs.1	+	13	2652	c.1997G>A	c.(1996-1998)TGT>TAT	p.C666Y		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	666	EGF-like 2.					cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)														---	---	---	---
OTUD4	54726	broad.mit.edu	37	4	146071750	146071750	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:146071750A>G	uc003ika.3	-	13	1117	c.979T>C	c.(979-981)TTC>CTC	p.F327L	OTUD4_uc003ijz.3_Missense_Mutation_p.F326L	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	391							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)																	---	---	---	---
SMAD1	4086	broad.mit.edu	37	4	146461063	146461063	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:146461063G>A	uc003ikc.2	+	3	924	c.508G>A	c.(508-510)GCC>ACC	p.A170T	SMAD1_uc003ikd.2_Missense_Mutation_p.A170T|SMAD1_uc010iov.2_Missense_Mutation_p.A170T|SMAD1_uc011cic.1_Missense_Mutation_p.A170T|SMAD1_uc003ikf.2_RNA	NM_005900	NP_005891	Q15797	SMAD1_HUMAN	Sma- and Mad-related protein 1	170					BMP signaling pathway|embryonic pattern specification|primary miRNA processing|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|nuclear inner membrane	co-SMAD binding|I-SMAD binding|identical protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity			ovary(1)	1	all_hematologic(180;0.151)																	---	---	---	---
POU4F2	5458	broad.mit.edu	37	4	147561859	147561859	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:147561859G>A	uc003ikv.2	+	2	1377	c.1129G>A	c.(1129-1131)GCC>ACC	p.A377T		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	377	Homeobox.				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)																	---	---	---	---
NR3C2	4306	broad.mit.edu	37	4	149075716	149075716	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:149075716G>A	uc003ilj.3	-	5	2685	c.2351C>T	c.(2350-2352)GCA>GTA	p.A784V	NR3C2_uc003ilk.3_Intron|NR3C2_uc010iph.2_Intron	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	784	Important for coactivator binding.|Steroid-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)													---	---	---	---
LRBA	987	broad.mit.edu	37	4	151336636	151336636	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:151336636G>A	uc010ipj.2	-	48	7655	c.7181C>T	c.(7180-7182)CCT>CTT	p.P2394L	LRBA_uc010ipi.2_Intron|LRBA_uc003ils.3_Missense_Mutation_p.P284L|LRBA_uc003ilt.3_Missense_Mutation_p.P1042L|LRBA_uc003ilu.3_Missense_Mutation_p.P2383L	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2394	BEACH.					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)																	---	---	---	---
MAB21L2	10586	broad.mit.edu	37	4	151504900	151504900	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:151504900G>A	uc003ilw.2	+	1	1824	c.719G>A	c.(718-720)CGC>CAC	p.R240H	LRBA_uc003ils.3_5'Flank|LRBA_uc003ilt.3_Intron|LRBA_uc003ilu.3_Intron|LRBA_uc010ipj.2_Intron	NM_006439	NP_006430	Q9Y586	MB212_HUMAN	mab-21-like protein 2	240					nervous system development	nucleus				ovary(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.159)														---	---	---	---
PET112L	5188	broad.mit.edu	37	4	152679946	152679946	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:152679946G>A	uc003iml.2	-	2	317	c.305C>T	c.(304-306)GCA>GTA	p.A102V	PET112L_uc003imm.3_Missense_Mutation_p.A102V	NM_004564	NP_004555	O75879	GATB_HUMAN	PET112-like precursor	102						mitochondrion	ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor|translation factor activity, nucleic acid binding				0	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)			L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)													---	---	---	---
PET112L	5188	broad.mit.edu	37	4	152682034	152682034	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:152682034G>A	uc003iml.2	-	1	113	c.101C>T	c.(100-102)TCC>TTC	p.S34F	PET112L_uc003imm.3_Missense_Mutation_p.S34F	NM_004564	NP_004555	O75879	GATB_HUMAN	PET112-like precursor	34						mitochondrion	ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor|translation factor activity, nucleic acid binding				0	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)			L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)													---	---	---	---
FBXW7	55294	broad.mit.edu	37	4	153244151	153244151	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:153244151C>A	uc003ims.2	-	12	2155	c.2006G>T	c.(2005-2007)GGG>GTG	p.G669V	FBXW7_uc011cii.1_Missense_Mutation_p.G669V|FBXW7_uc003imt.2_Missense_Mutation_p.G669V|FBXW7_uc011cih.1_Missense_Mutation_p.G493V|FBXW7_uc003imq.2_Missense_Mutation_p.G589V|FBXW7_uc003imr.2_Missense_Mutation_p.G551V	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	669					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								---	---	---	---
TRIM2	23321	broad.mit.edu	37	4	154215584	154215584	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:154215584C>T	uc003ing.2	+	5	853	c.652C>T	c.(652-654)CGC>TGC	p.R218C	TRIM2_uc003inh.2_Missense_Mutation_p.R245C	NM_001130067	NP_001123539	Q9C040	TRIM2_HUMAN	tripartite motif-containing 2 isoform 2	218						cytoplasm	zinc ion binding			central_nervous_system(1)	1	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)														---	---	---	---
DCHS2	54798	broad.mit.edu	37	4	155225810	155225810	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155225810A>G	uc003inw.2	-							NM_017639	NP_060109			dachsous 2 isoform 1						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)														---	---	---	---
PLRG1	5356	broad.mit.edu	37	4	155460278	155460278	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155460278G>T	uc003iny.2	-	12	1193	c.1130C>A	c.(1129-1131)GCT>GAT	p.A377D	PLRG1_uc003inz.2_Missense_Mutation_p.A368D	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	377	WD 5.					catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)																---	---	---	---
LRAT	9227	broad.mit.edu	37	4	155665742	155665742	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155665742G>A	uc003iom.1	+	1	591	c.264G>A	c.(262-264)ACG>ACA	p.T88T	uc003iol.2_Intron|LRAT_uc003ion.1_Silent_p.T88T	NM_004744	NP_004735	O95237	LRAT_HUMAN	lecithin retinol acyltransferase	88	Cytoplasmic (By similarity).				response to stimulus|retinoid metabolic process|steroid metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|multivesicular body|perinuclear region of cytoplasm|rough endoplasmic reticulum	phosphatidylcholine-retinol O-acyltransferase activity			central_nervous_system(1)	1	all_hematologic(180;0.215)	Renal(120;0.0458)			Vitamin A(DB00162)													---	---	---	---
GUCY1A3	2982	broad.mit.edu	37	4	156618218	156618218	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:156618218A>C	uc003iov.2	+	4	735	c.199A>C	c.(199-201)AGC>CGC	p.S67R	GUCY1A3_uc003iou.2_Missense_Mutation_p.S67R|GUCY1A3_uc010iqc.2_Missense_Mutation_p.S67R|GUCY1A3_uc003iow.2_Missense_Mutation_p.S67R|GUCY1A3_uc010iqd.2_Missense_Mutation_p.S67R|GUCY1A3_uc003iox.2_Missense_Mutation_p.S67R|GUCY1A3_uc003ioz.2_5'UTR|GUCY1A3_uc003ioy.2_Missense_Mutation_p.S67R|GUCY1A3_uc010iqe.2_5'UTR|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Missense_Mutation_p.S67R	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	67					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)														---	---	---	---
GRIA2	2891	broad.mit.edu	37	4	158254497	158254497	+	Missense_Mutation	SNP	C	T	T	rs143357227		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:158254497C>T	uc003ipm.3	+	8	1606	c.1147C>T	c.(1147-1149)CCC>TCC	p.P383S	GRIA2_uc011cit.1_Missense_Mutation_p.P336S|GRIA2_uc003ipl.3_Missense_Mutation_p.P383S|GRIA2_uc003ipk.3_Missense_Mutation_p.P336S|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	383	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)													---	---	---	---
FNIP2	57600	broad.mit.edu	37	4	159789517	159789517	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159789517G>A	uc003iqe.3	+	13	1912	c.1729G>A	c.(1729-1731)GCT>ACT	p.A577T		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	577	Interaction with PRKAA1.				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)														---	---	---	---
FNIP2	57600	broad.mit.edu	37	4	159789546	159789546	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159789546A>G	uc003iqe.3	+	13	1941	c.1758A>G	c.(1756-1758)ACA>ACG	p.T586T		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	586	Interaction with PRKAA1.				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)														---	---	---	---
RAPGEF2	9693	broad.mit.edu	37	4	160265202	160265202	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160265202G>A	uc003iqg.3	+	17	3096	c.2786G>A	c.(2785-2787)CGG>CAG	p.R929Q		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	929	Ras-GEF.				cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity	p.R917P(1)		lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)														---	---	---	---
RAPGEF2	9693	broad.mit.edu	37	4	160275010	160275010	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160275010C>T	uc003iqg.3	+	22	4290	c.3980C>T	c.(3979-3981)GCG>GTG	p.A1327V		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1327					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)														---	---	---	---
FSTL5	56884	broad.mit.edu	37	4	163032431	163032431	+	Nonsense_Mutation	SNP	G	A	A	rs141917472	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:163032431G>A	uc003iqh.2	-	2	554	c.118C>T	c.(118-120)CGA>TGA	p.R40*	FSTL5_uc003iqi.2_Nonsense_Mutation_p.R40*|FSTL5_uc010iqv.2_Nonsense_Mutation_p.R40*	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	40						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)														---	---	---	---
TKTL2	84076	broad.mit.edu	37	4	164393491	164393491	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164393491C>T	uc003iqp.3	-	1	1557	c.1396G>A	c.(1396-1398)GCC>ACC	p.A466T		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	466						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)																---	---	---	---
TKTL2	84076	broad.mit.edu	37	4	164393888	164393888	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164393888G>A	uc003iqp.3	-	1	1160	c.999C>T	c.(997-999)GGC>GGT	p.G333G		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	333						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)																---	---	---	---
TKTL2	84076	broad.mit.edu	37	4	164394215	164394215	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164394215G>T	uc003iqp.3	-	1	833	c.672C>A	c.(670-672)GCC>GCA	p.A224A		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	224						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)																---	---	---	---
C4orf43	55319	broad.mit.edu	37	4	164435266	164435266	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164435266A>C	uc003iqq.3	+	4	476	c.195A>C	c.(193-195)CAA>CAC	p.Q65H		NM_018352	NP_060822	Q96EY4	CD043_HUMAN	hypothetical protein LOC55319	65											0																		---	---	---	---
ANP32C	23520	broad.mit.edu	37	4	165118464	165118464	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:165118464G>T	uc011cjk.1	-	1	400	c.400C>A	c.(400-402)CTT>ATT	p.L134I	MARCH1_uc003iqs.1_Intron	NM_012403	NP_036535	O43423	AN32C_HUMAN	acidic nuclear phosphoprotein 32C	134	LRR 4.										0	all_hematologic(180;0.203)	Prostate(90;0.0138)|Melanoma(52;0.18)|all_neural(102;0.223)		KIRC - Kidney renal clear cell carcinoma(143;0.242)														---	---	---	---
TRIM60	166655	broad.mit.edu	37	4	165962417	165962417	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:165962417C>T	uc003iqy.1	+	3	1363	c.1193C>T	c.(1192-1194)GCG>GTG	p.A398V	TRIM60_uc010iqx.1_Missense_Mutation_p.A398V	NM_152620	NP_689833	Q495X7	TRI60_HUMAN	ring finger protein 129	398	B30.2/SPRY.					intracellular	zinc ion binding			skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0844)														---	---	---	---
Unknown	0	broad.mit.edu	37	4	165980680	165980680	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:165980680C>T	uc011cjl.1	+	1	381	c.381C>T	c.(379-381)GGC>GGT	p.G127G		NM_001105575	NP_001099045			tripartite motif-containing 75																														---	---	---	---
DDX60	55601	broad.mit.edu	37	4	169158831	169158831	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:169158831G>A	uc003irp.2	-							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)														---	---	---	---
PALLD	23022	broad.mit.edu	37	4	169433100	169433100	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:169433100A>G	uc011cjx.1	+	2	656	c.445A>G	c.(445-447)AGC>GGC	p.S149G	PALLD_uc003iru.2_Missense_Mutation_p.S149G	NM_016081	NP_057165	Q8WX93	PALLD_HUMAN	palladin isoform 2	149					cytoskeleton organization	actin filament|focal adhesion|lamellipodium|nucleus|ruffle|sarcomere	actin binding|muscle alpha-actinin binding			ovary(1)	1		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)										Pancreatic_Cancer_Familial_Clustering_of				---	---	---	---
MFAP3L	9848	broad.mit.edu	37	4	170913308	170913308	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:170913308C>T	uc003isp.3	-	3	629	c.451G>A	c.(451-453)GTC>ATC	p.V151I	MFAP3L_uc003isn.3_Missense_Mutation_p.V48I	NM_021647	NP_067679	O75121	MFA3L_HUMAN	microfibrillar-associated protein 3-like isoform	151	Helical; (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)														---	---	---	---
MORF4	10934	broad.mit.edu	37	4	174537473	174537473	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:174537473C>T	uc011cke.1	-	1	322	c.322G>A	c.(322-324)GAC>AAC	p.D108N		NM_006792	NP_006783			mortality factor 4												0		Prostate(90;0.00201)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0765)|all_hematologic(60;0.107)		all cancers(43;1.88e-18)|Epithelial(43;1.19e-16)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-09)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)														---	---	---	---
WDR17	116966	broad.mit.edu	37	4	177041100	177041100	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177041100G>A	uc003iuj.2	+	5	618	c.462G>A	c.(460-462)TGG>TGA	p.W154*	WDR17_uc003iuk.2_Nonsense_Mutation_p.W130*|WDR17_uc003ium.3_Nonsense_Mutation_p.W130*|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	154	WD 2.									ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)														---	---	---	---
ASB5	140458	broad.mit.edu	37	4	177136833	177136833	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177136833C>T	uc003iuq.1	-	7	924	c.908G>A	c.(907-909)AGC>AAC	p.S303N	ASB5_uc003iup.1_Missense_Mutation_p.S250N	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	303	SOCS box.				intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)														---	---	---	---
NEIL3	55247	broad.mit.edu	37	4	178283618	178283618	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:178283618G>A	uc003iut.2	+	10	1928	c.1811G>A	c.(1810-1812)GGA>GAA	p.G604E		NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	604					base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)									BER_DNA_glycosylases					---	---	---	---
ODZ3	55714	broad.mit.edu	37	4	183245190	183245190	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:183245190G>A	uc003ivd.1	+	1	54	c.17G>A	c.(16-18)CGC>CAC	p.R6H	ODZ3_uc010irv.1_Missense_Mutation_p.R6H	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	6	Cytoplasmic (Potential).|Teneurin N-terminal.				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)														---	---	---	---
ODZ3	55714	broad.mit.edu	37	4	183603050	183603050	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:183603050A>G	uc003ivd.1	+	10	1955	c.1918A>G	c.(1918-1920)AAT>GAT	p.N640D	ODZ3_uc003ive.1_Missense_Mutation_p.N46D	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	640	EGF-like 4.|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)														---	---	---	---
RWDD4A	201965	broad.mit.edu	37	4	184567670	184567670	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184567670G>C	uc003ivt.1	-	6	728	c.502C>G	c.(502-504)CGA>GGA	p.R168G	RWDD4A_uc003ivu.1_RNA|RWDD4A_uc003ivv.1_Missense_Mutation_p.R105G|RWDD4A_uc011ckl.1_RNA	NM_152682	NP_689895	Q6NW29	RWDD4_HUMAN	RWD domain containing 4A	168											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;7.35e-27)|Epithelial(43;1.49e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.76e-10)|GBM - Glioblastoma multiforme(59;5.54e-06)|Colorectal(24;7.92e-06)|STAD - Stomach adenocarcinoma(60;2.35e-05)|COAD - Colon adenocarcinoma(29;6.26e-05)|LUSC - Lung squamous cell carcinoma(40;0.00935)|READ - Rectum adenocarcinoma(43;0.166)														---	---	---	---
ENPP6	133121	broad.mit.edu	37	4	185039015	185039015	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:185039015C>T	uc003iwc.2	-	4	714	c.572G>A	c.(571-573)CGC>CAC	p.R191H		NM_153343	NP_699174	Q6UWR7	ENPP6_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	191	Extracellular (Potential).				lipid catabolic process	extracellular region|integral to membrane|plasma membrane				central_nervous_system(1)	1		all_lung(41;7.99e-12)|Lung NSC(41;1.46e-11)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;4.98e-27)|Epithelial(43;3.15e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.09e-12)|Colorectal(24;3.78e-05)|STAD - Stomach adenocarcinoma(60;4.5e-05)|COAD - Colon adenocarcinoma(29;0.000154)|GBM - Glioblastoma multiforme(59;0.000167)|BRCA - Breast invasive adenocarcinoma(30;0.000378)|LUSC - Lung squamous cell carcinoma(40;0.0151)														---	---	---	---
IRF2	3660	broad.mit.edu	37	4	185339814	185339814	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:185339814G>A	uc003iwf.3	-	4	436	c.236C>T	c.(235-237)GCG>GTG	p.A79V		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	79	IRF tryptophan pentad repeat.				blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)														---	---	---	---
LRP2BP	55805	broad.mit.edu	37	4	186288347	186288347	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186288347C>T	uc003ixj.1	-	8	1843	c.1031G>A	c.(1030-1032)CGT>CAT	p.R344H	SNX25_uc003ixi.2_Intron|LRP2BP_uc003ixk.1_Missense_Mutation_p.R318H|LRP2BP_uc011ckr.1_Missense_Mutation_p.R344H	NM_018409	NP_060879	Q9P2M1	LR2BP_HUMAN	LRP2 binding protein	344						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)														---	---	---	---
PDLIM3	27295	broad.mit.edu	37	4	186446177	186446177	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186446177T>C	uc003ixw.3	-	2	366	c.242A>G	c.(241-243)GAC>GGC	p.D81G	PDLIM3_uc003ixx.3_Missense_Mutation_p.D81G|PDLIM3_uc010isi.2_RNA|PDLIM3_uc003ixy.2_Missense_Mutation_p.D81G|PDLIM3_uc003ixz.2_Missense_Mutation_p.D81G	NM_014476	NP_055291	Q53GG5	PDLI3_HUMAN	PDZ and LIM domain protein 3 isoform a	81	PDZ.					sarcomere	zinc ion binding			ovary(2)	2		all_lung(41;1.03e-13)|Lung NSC(41;2.49e-13)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.00996)|Colorectal(36;0.0161)|all_hematologic(60;0.0592)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.4e-10)|BRCA - Breast invasive adenocarcinoma(30;8.64e-05)|GBM - Glioblastoma multiforme(59;0.000167)|STAD - Stomach adenocarcinoma(60;0.000828)|LUSC - Lung squamous cell carcinoma(40;0.00984)|COAD - Colon adenocarcinoma(29;0.0115)|READ - Rectum adenocarcinoma(43;0.171)														---	---	---	---
FAM149A	25854	broad.mit.edu	37	4	187086544	187086544	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187086544C>T	uc003iyt.3	+	11	1669	c.1090C>T	c.(1090-1092)CGG>TGG	p.R364W	FAM149A_uc011cla.1_Missense_Mutation_p.R364W|FAM149A_uc003iyu.3_Missense_Mutation_p.R364W|FAM149A_uc010isl.2_Missense_Mutation_p.R364W|FAM149A_uc011clb.1_Missense_Mutation_p.R364W	NM_015398	NP_056213	A5PLN7	F149A_HUMAN	hypothetical protein LOC25854	655										breast(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.19e-10)|BRCA - Breast invasive adenocarcinoma(30;1.22e-05)|GBM - Glioblastoma multiforme(59;0.000122)|STAD - Stomach adenocarcinoma(60;0.000288)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.166)														---	---	---	---
CYP4V2	285440	broad.mit.edu	37	4	187120119	187120119	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187120119A>G	uc003iyw.3	+	6	987	c.683A>G	c.(682-684)GAG>GGG	p.E228G		NM_207352	NP_997235	Q6ZWL3	CP4V2_HUMAN	cytochrome P450, family 4, subfamily v,	228					response to stimulus|visual perception	endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.33e-10)|BRCA - Breast invasive adenocarcinoma(30;3.84e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000293)|LUSC - Lung squamous cell carcinoma(40;0.00242)|READ - Rectum adenocarcinoma(43;0.17)														---	---	---	---
KLKB1	3818	broad.mit.edu	37	4	187172953	187172953	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187172953C>T	uc003iyy.2	+	10	1153	c.1082C>T	c.(1081-1083)GCG>GTG	p.A361V	KLKB1_uc011clc.1_Missense_Mutation_p.A159V|KLKB1_uc011cld.1_Missense_Mutation_p.A323V	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	361	Apple 4.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)														---	---	---	---
FAT1	2195	broad.mit.edu	37	4	187540638	187540638	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187540638G>A	uc003izf.2	-	10	7290	c.7102C>T	c.(7102-7104)CCC>TCC	p.P2368S		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2368	Extracellular (Potential).|Cadherin 21.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12															HNSCC(5;0.00058)			---	---	---	---
FAT1	2195	broad.mit.edu	37	4	187540995	187540995	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187540995C>T	uc003izf.2	-	10	6933	c.6745G>A	c.(6745-6747)GCA>ACA	p.A2249T		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2249	Extracellular (Potential).|Cadherin 20.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12															HNSCC(5;0.00058)			---	---	---	---
FAT1	2195	broad.mit.edu	37	4	187630114	187630114	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187630114C>T	uc003izf.2	-	2	1056	c.868G>A	c.(868-870)GCA>ACA	p.A290T	FAT1_uc010iso.1_Missense_Mutation_p.A290T	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	290	Extracellular (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12															HNSCC(5;0.00058)			---	---	---	---
TUBB4Q	56604	broad.mit.edu	37	4	190903703	190903703	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190903703G>A	uc011clg.1	-	4	1280	c.1277C>T	c.(1276-1278)GCC>GTC	p.A426V		NM_020040	NP_064424	Q99867	TBB4Q_HUMAN	tubulin, beta polypeptide 4, member Q	427					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;4.1e-31)|Epithelial(3;1.44e-30)|OV - Ovarian serous cystadenocarcinoma(60;2.03e-15)|BRCA - Breast invasive adenocarcinoma(30;8.54e-06)|Lung(3;3.23e-05)|STAD - Stomach adenocarcinoma(60;8.24e-05)|LUSC - Lung squamous cell carcinoma(40;0.000184)|GBM - Glioblastoma multiforme(59;0.00839)|READ - Rectum adenocarcinoma(43;0.155)														---	---	---	---
PLEKHG4B	153478	broad.mit.edu	37	5	162053	162053	+	Silent	SNP	C	T	T	rs145013757	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:162053C>T	uc003jak.2	+	10	1625	c.1575C>T	c.(1573-1575)TGC>TGT	p.C525C		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	525					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)														---	---	---	---
LRRC14B	389257	broad.mit.edu	37	5	194842	194842	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:194842C>T	uc003jal.1	+	2	947	c.919C>T	c.(919-921)CGA>TGA	p.R307*		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	307	LRR 2.									skin(1)	1																		---	---	---	---
CCDC127	133957	broad.mit.edu	37	5	205673	205673	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:205673G>A	uc003jam.1	-	3	622	c.522C>T	c.(520-522)TGC>TGT	p.C174C		NM_145265	NP_660308	Q96BQ5	CC127_HUMAN	coiled-coil domain containing 127	174											0			all cancers(22;0.0236)|Lung(60;0.113)															---	---	---	---
SDHA	6389	broad.mit.edu	37	5	226056	226056	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:226056C>T	uc003jao.3	+	5	630	c.515C>T	c.(514-516)GCA>GTA	p.A172V	SDHA_uc003jan.2_Missense_Mutation_p.A172V|SDHA_uc011clv.1_Missense_Mutation_p.A172V|SDHA_uc011clw.1_Missense_Mutation_p.A124V|SDHA_uc003jap.3_Missense_Mutation_p.A172V|SDHA_uc003jaq.3_5'Flank	NM_004168	NP_004159	P31040	DHSA_HUMAN	succinate dehydrogenase complex, subunit A,	172					nervous system development|respiratory electron transport chain|succinate metabolic process|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	electron carrier activity|flavin adenine dinucleotide binding|protein binding|succinate dehydrogenase (ubiquinone) activity				0			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)									Familial_Paragangliomas				---	---	---	---
EXOC3	11336	broad.mit.edu	37	5	453727	453727	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:453727C>T	uc003jba.2	+	4	735	c.607C>T	c.(607-609)CGC>TGC	p.R203C		NM_007277	NP_009208	O60645	EXOC3_HUMAN	Sec6 protein	214					exocytosis|protein transport						0		Ovarian(839;0.0563)	Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)															---	---	---	---
EXOC3	11336	broad.mit.edu	37	5	453949	453949	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:453949C>T	uc003jba.2	+	4	957	c.829C>T	c.(829-831)CGC>TGC	p.R277C		NM_007277	NP_009208	O60645	EXOC3_HUMAN	Sec6 protein	288					exocytosis|protein transport						0		Ovarian(839;0.0563)	Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)															---	---	---	---
SLC9A3	6550	broad.mit.edu	37	5	492080	492080	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:492080C>T	uc003jbe.2	-	2	430	c.318G>A	c.(316-318)GCG>GCA	p.A106A	SLC9A3_uc011clx.1_Silent_p.A106A	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	106	Extracellular (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)															---	---	---	---
TERT	7015	broad.mit.edu	37	5	1264611	1264611	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1264611C>T	uc003jcb.1	-	11	2809	c.2751G>A	c.(2749-2751)ACG>ACA	p.T917T	TERT_uc003jbz.1_Silent_p.T113T|TERT_uc003jca.1_Silent_p.T905T|TERT_uc003jcc.1_Intron|TERT_uc003jcd.1_Intron|TERT_uc003jce.1_Intron	NM_198253	NP_937983	O14746	TERT_HUMAN	telomerase reverse transcriptase isoform 1	917	Required for oligomerization.|Reverse transcriptase.				anti-apoptosis|DNA strand elongation|replicative senescence|telomere formation via telomerase|telomere maintenance via telomerase	cytoplasm|nucleolus|PML body|telomerase holoenzyme complex	protein homodimerization activity|telomeric DNA binding|telomeric RNA binding|telomeric template RNA reverse transcriptase activity			lung(7)|ovary(2)|central_nervous_system(2)|skin(1)	12	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)											TERT_Mutation-Associated_Haematological_Disorders|Congenital_Dyskeratosis|Pulmonary_Fibrosis_Idiopathic				---	---	---	---
SLC6A3	6531	broad.mit.edu	37	5	1409199	1409199	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1409199G>A	uc003jck.2	-	11	1561	c.1440C>T	c.(1438-1440)GCC>GCT	p.A480A		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	480					cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)													---	---	---	---
IRX4	50805	broad.mit.edu	37	5	1879729	1879729	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1879729G>A	uc003jcz.2	-	4	744	c.625C>T	c.(625-627)CCG>TCG	p.P209S	IRX4_uc011cmf.1_Missense_Mutation_p.P70S	NM_016358	NP_057442	P78413	IRX4_HUMAN	iroquois homeobox 4	209					heart development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(108;0.242)														---	---	---	---
KIAA0947	23379	broad.mit.edu	37	5	5461451	5461451	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5461451G>A	uc003jdm.3	+	13	2226	c.2004G>A	c.(2002-2004)CCG>CCA	p.P668P		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	668										ovary(1)|central_nervous_system(1)	2																		---	---	---	---
KIAA0947	23379	broad.mit.edu	37	5	5464600	5464600	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5464600C>T	uc003jdm.3	+	13	5375	c.5153C>T	c.(5152-5154)GCG>GTG	p.A1718V		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1718	Pro-rich.									ovary(1)|central_nervous_system(1)	2																		---	---	---	---
KIAA0947	23379	broad.mit.edu	37	5	5489418	5489418	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5489418C>T	uc003jdm.3	+	19	6998	c.6776C>T	c.(6775-6777)GCC>GTC	p.A2259V		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	2259										ovary(1)|central_nervous_system(1)	2																		---	---	---	---
FLJ33360	401172	broad.mit.edu	37	5	6337301	6337301	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:6337301C>T	uc003jdn.1	-	1	105	c.8G>A	c.(7-9)GGC>GAC	p.G3D		NM_001001702	NP_001001702			SubName: Full=FLJ33360 protein; SubName: Full=cDNA FLJ33360 fis, clone BRACE2005253;												0																		---	---	---	---
NSUN2	54888	broad.mit.edu	37	5	6607320	6607320	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:6607320C>T	uc003jdu.2	-	13	1566	c.1501G>A	c.(1501-1503)GTG>ATG	p.V501M	NSUN2_uc003jds.2_5'Flank|NSUN2_uc003jdt.2_Missense_Mutation_p.V265M|NSUN2_uc011cmk.1_Missense_Mutation_p.V466M|NSUN2_uc003jdv.2_Missense_Mutation_p.V265M	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	501						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1																		---	---	---	---
DNAH5	1767	broad.mit.edu	37	5	13811916	13811916	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:13811916C>T	uc003jfd.2	-	44	7289	c.7247G>A	c.(7246-7248)CGC>CAC	p.R2416H		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2416	AAA 2 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)													Kartagener_syndrome				---	---	---	---
DNAH5	1767	broad.mit.edu	37	5	13891148	13891148	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:13891148C>T	uc003jfd.2	-	17	2556	c.2514G>A	c.(2512-2514)ACG>ACA	p.T838T		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	838	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)													Kartagener_syndrome				---	---	---	---
TRIO	7204	broad.mit.edu	37	5	14367023	14367023	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14367023G>A	uc003jff.2	+	16	2815	c.2809G>A	c.(2809-2811)GCC>ACC	p.A937T	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.A888T|TRIO_uc003jfh.1_Missense_Mutation_p.A586T	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	937	Spectrin 3.				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)																	---	---	---	---
TRIO	7204	broad.mit.edu	37	5	14401091	14401091	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14401091C>T	uc003jff.2	+	31	4640	c.4634C>T	c.(4633-4635)ACA>ATA	p.T1545I	TRIO_uc003jfg.2_RNA|TRIO_uc003jfh.1_Missense_Mutation_p.T1194I	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1545	PH 1.				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)																	---	---	---	---
FAM105A	54491	broad.mit.edu	37	5	14609132	14609132	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14609132C>T	uc003jfj.2	+							NM_019018	NP_061891			hypothetical protein LOC54491											ovary(1)	1	Lung NSC(4;0.00592)																	---	---	---	---
FAM105B	90268	broad.mit.edu	37	5	14693162	14693162	+	3'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14693162C>T	uc003jfk.2	+	7						NM_138348	NP_612357			hypothetical protein LOC90268											ovary(2)	2	Lung NSC(4;0.00696)																	---	---	---	---
FBXL7	23194	broad.mit.edu	37	5	15936704	15936704	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:15936704G>A	uc003jfn.1	+	4	1366	c.885G>A	c.(883-885)GCG>GCA	p.A295A		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	295	LRR 5.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3																		---	---	---	---
MYO10	4651	broad.mit.edu	37	5	16673839	16673839	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:16673839G>A	uc003jft.3	-	36	5592	c.5124C>T	c.(5122-5124)GGC>GGT	p.G1708G	MYO10_uc011cnb.1_Silent_p.G337G|MYO10_uc011cnc.1_Silent_p.G587G|MYO10_uc011cnd.1_Silent_p.G1065G|MYO10_uc011cne.1_Silent_p.G1065G|MYO10_uc010itx.2_Silent_p.G1330G	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1708	FERM.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3																		---	---	---	---
MYO10	4651	broad.mit.edu	37	5	16818205	16818205	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:16818205G>A	uc003jft.3	-	3	660	c.192C>T	c.(190-192)GGC>GGT	p.G64G	MYO10_uc003jfu.2_Silent_p.G31G|MYO10_uc003jfv.2_Silent_p.G64G	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	64	Myosin head-like.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3																		---	---	---	---
CDH12	1010	broad.mit.edu	37	5	21752162	21752162	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:21752162C>T	uc010iuc.2	-	12	2527	c.2069G>A	c.(2068-2070)CGC>CAC	p.R690H	CDH12_uc011cno.1_Missense_Mutation_p.R650H|CDH12_uc003jgk.2_Missense_Mutation_p.R690H|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	690	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2															HNSCC(59;0.17)			---	---	---	---
PRDM9	56979	broad.mit.edu	37	5	23509190	23509190	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:23509190G>A	uc003jgo.2	+	2	230	c.48G>A	c.(46-48)GAG>GAA	p.E16E		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	16					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6															HNSCC(3;0.000094)			---	---	---	---
CDH10	1008	broad.mit.edu	37	5	24492981	24492981	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:24492981T>A	uc003jgr.1	-	10	1901	c.1569A>T	c.(1567-1569)AAA>AAT	p.K523N	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	523	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)											HNSCC(23;0.051)			---	---	---	---
CDH10	1008	broad.mit.edu	37	5	24498629	24498629	+	Splice_Site	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:24498629C>A	uc003jgr.1	-	9	1726	c.1394_splice	c.e9-1	p.N465_splice	CDH10_uc011cnu.1_Splice_Site	NM_006727	NP_006718			cadherin 10, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)											HNSCC(23;0.051)			---	---	---	---
CDH10	1008	broad.mit.edu	37	5	24505247	24505247	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:24505247T>A	uc003jgr.1	-	8	1699	c.1367A>T	c.(1366-1368)AAT>ATT	p.N456I	CDH10_uc011cnu.1_Intron	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	456	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)											HNSCC(23;0.051)			---	---	---	---
CDH10	1008	broad.mit.edu	37	5	24535840	24535840	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:24535840C>A	uc003jgr.1	-	4	950	c.618G>T	c.(616-618)CAG>CAT	p.Q206H	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	206	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)											HNSCC(23;0.051)			---	---	---	---
CDH9	1007	broad.mit.edu	37	5	26885767	26885767	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:26885767G>A	uc003jgs.1	-	11	2007	c.1838C>T	c.(1837-1839)ACG>ATG	p.T613M	CDH9_uc011cnv.1_Missense_Mutation_p.T206M	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	613	Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9																		---	---	---	---
C5orf22	55322	broad.mit.edu	37	5	31541102	31541102	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31541102G>A	uc003jhj.3	+	5	981	c.854G>A	c.(853-855)GGC>GAC	p.G285D	C5orf22_uc011cnw.1_Intron|C5orf22_uc003jhk.3_Missense_Mutation_p.G20D	NM_018356	NP_060826	Q49AR2	CE022_HUMAN	hypothetical protein LOC55322	285										ovary(2)	2																		---	---	---	---
PDZD2	23037	broad.mit.edu	37	5	31799525	31799525	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31799525T>C	uc003jhl.2	+	2	558	c.170T>C	c.(169-171)GTC>GCC	p.V57A	PDZD2_uc003jhm.2_Missense_Mutation_p.V57A	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	57					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9																		---	---	---	---
ZFR	51663	broad.mit.edu	37	5	32380215	32380215	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:32380215G>A	uc003jhr.1	-	16	2785	c.2705C>T	c.(2704-2706)GCT>GTT	p.A902V	ZFR_uc010ium.1_Missense_Mutation_p.A33V|ZFR_uc011cny.1_Intron	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	902	DZF.				multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)														---	---	---	---
NPR3	4883	broad.mit.edu	37	5	32712628	32712628	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:32712628G>A	uc003jhv.2	+	1	964	c.746G>A	c.(745-747)CGC>CAC	p.R249H	NPR3_uc010iuo.2_Intron|NPR3_uc011cnz.1_Intron|NPR3_uc003jhu.2_Missense_Mutation_p.R249H	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	249	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)													---	---	---	---
TARS	6897	broad.mit.edu	37	5	33453456	33453456	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33453456G>A	uc003jhy.2	+	4	687	c.392G>A	c.(391-393)CGC>CAC	p.R131H	TARS_uc011cob.1_Missense_Mutation_p.R119H|TARS_uc010iup.1_Missense_Mutation_p.R72H|TARS_uc011coc.1_Missense_Mutation_p.R152H|TARS_uc003jhz.2_Missense_Mutation_p.R27H|TARS_uc011cod.1_Intron	NM_152295	NP_689508	P26639	SYTC_HUMAN	threonyl-tRNA synthetase	131					threonyl-tRNA aminoacylation	cytosol	ATP binding|protein homodimerization activity|threonine-tRNA ligase activity			ovary(2)	2					L-Threonine(DB00156)													---	---	---	---
RXFP3	51289	broad.mit.edu	37	5	33937066	33937066	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33937066C>T	uc003jic.1	+	1	578	c.221C>T	c.(220-222)GCG>GTG	p.A74V		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	74	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1																		---	---	---	---
RXFP3	51289	broad.mit.edu	37	5	33938061	33938061	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33938061C>T	uc003jic.1	+	1	1573	c.1216C>T	c.(1216-1218)CGC>TGC	p.R406C		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	406	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1																		---	---	---	---
TTC23L	153657	broad.mit.edu	37	5	34850347	34850347	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:34850347G>T	uc003jiu.2	+	4	416	c.313G>T	c.(313-315)GGG>TGG	p.G105W		NM_144725	NP_653326	Q6PF05	TT23L_HUMAN	tetratricopeptide repeat domain 23-like	105							binding			central_nervous_system(1)	1																		---	---	---	---
DNAJC21	134218	broad.mit.edu	37	5	34934024	34934024	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:34934024C>T	uc003jjc.2	+						DNAJC21_uc003jjb.2_Intron|DNAJC21_uc010iuu.1_5'Flank	NM_001012339	NP_001012339			DnaJ homology subfamily A member 5 isoform 2						protein folding	ribosome	heat shock protein binding|nucleic acid binding|unfolded protein binding|zinc ion binding			breast(1)|skin(1)	2	all_lung(31;7.08e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)															---	---	---	---
LMBRD2	92255	broad.mit.edu	37	5	36142712	36142712	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:36142712G>A	uc003jkb.1	-							NM_001007527	NP_001007528			LMBR1 domain containing 2							integral to membrane					0	all_lung(31;0.000146)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)															---	---	---	---
SKP2	6502	broad.mit.edu	37	5	36168477	36168477	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:36168477G>A	uc003jkc.1	+	5	781	c.599G>A	c.(598-600)GGC>GAC	p.G200D	SKP2_uc011cou.1_Intron|SKP2_uc003jkd.2_Missense_Mutation_p.G200D	NM_005983	NP_005974	Q13309	SKP2_HUMAN	S-phase kinase-associated protein 2 isoform 1	200	LRR 3.				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)															---	---	---	---
NIPBL	25836	broad.mit.edu	37	5	37006526	37006526	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37006526C>T	uc003jkl.3	+	17	4422	c.3923C>T	c.(3922-3924)GCG>GTG	p.A1308V	NIPBL_uc003jkk.3_Missense_Mutation_p.A1308V	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1308					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)															---	---	---	---
C5orf42	65250	broad.mit.edu	37	5	37196023	37196023	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37196023C>T	uc011cpa.1	-	21	3979	c.3748G>A	c.(3748-3750)GCA>ACA	p.A1250T	C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.A325T|C5orf42_uc011cpb.1_Missense_Mutation_p.A131T	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1250										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)															---	---	---	---
EGFLAM	133584	broad.mit.edu	37	5	38418215	38418215	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:38418215C>T	uc003jlc.1	+	12	1866	c.1542C>T	c.(1540-1542)GGC>GGT	p.G514G	EGFLAM_uc003jlb.1_Silent_p.G514G|EGFLAM_uc003jle.1_Silent_p.G280G|EGFLAM_uc003jlf.1_Intron	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	514	Laminin G-like 1.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)																	---	---	---	---
RICTOR	253260	broad.mit.edu	37	5	39002706	39002706	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:39002706C>T	uc003jlp.2	-	5	347	c.323G>A	c.(322-324)CGA>CAA	p.R108Q	RICTOR_uc003jlo.2_Missense_Mutation_p.R108Q|RICTOR_uc010ivf.2_5'UTR|RICTOR_uc003jlq.1_Missense_Mutation_p.R92Q|RICTOR_uc011cpk.1_Missense_Mutation_p.R108Q	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	108					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)																	---	---	---	---
C9	735	broad.mit.edu	37	5	39341719	39341719	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:39341719C>T	uc003jlv.3	-	3	356	c.267G>A	c.(265-267)GTG>GTA	p.V89V		NM_001737	NP_001728	P02748	CO9_HUMAN	complement component 9 precursor	89	TSP type-1.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis|hemolysis by symbiont of host erythrocytes	extracellular region|membrane attack complex					0	all_lung(31;0.000197)	all_neural(839;7.57e-10)|Lung NSC(810;2.62e-08)|Ovarian(839;0.00384)|Breast(839;0.0184)|Myeloproliferative disorder(839;0.0511)	Epithelial(62;0.158)															---	---	---	---
DAB2	1601	broad.mit.edu	37	5	39388941	39388941	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:39388941G>A	uc003jlx.2	-	8	1115	c.584C>T	c.(583-585)GCC>GTC	p.A195V	DAB2_uc003jlw.2_Missense_Mutation_p.A195V	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	195	PID.				cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)															---	---	---	---
C7	730	broad.mit.edu	37	5	40959677	40959677	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:40959677C>T	uc003jmh.2	+	12	1730	c.1616C>T	c.(1615-1617)ACG>ATG	p.T539M	C7_uc011cpn.1_RNA	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	539	TSP type-1 2.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)																---	---	---	---
FBXO4	26272	broad.mit.edu	37	5	41927346	41927346	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41927346G>A	uc003jmq.2	+	2	477	c.421G>A	c.(421-423)GCA>ACA	p.A141T	FBXO4_uc003jmp.2_Missense_Mutation_p.A141T|FBXO4_uc003jmr.2_Missense_Mutation_p.A141T	NM_012176	NP_036308	Q9UKT5	FBX4_HUMAN	F-box only protein 4 isoform 1	141					positive regulation of protein ubiquitination|protein polyubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|telomere maintenance|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	protein binding|protein homodimerization activity|ubiquitin-protein ligase activity			liver(1)	1		Lung NSC(810;4.15e-05)|Breast(839;0.00093)|Ovarian(839;0.00965)|Myeloproliferative disorder(839;0.0255)|all_neural(839;0.0604)																---	---	---	---
CCL28	56477	broad.mit.edu	37	5	43388544	43388544	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:43388544C>T	uc003jnu.2	-	2	169	c.99G>A	c.(97-99)GAG>GAA	p.E33E	CCL28_uc003jns.2_RNA|CCL28_uc003jnt.2_RNA|CCL28_uc010ivn.2_5'UTR	NM_148672	NP_683513	Q9NRJ3	CCL28_HUMAN	chemokine (C-C motif) ligand 28 precursor	33					chemotaxis|immune response	extracellular space	chemokine activity			ovary(1)|kidney(1)	2																		---	---	---	---
C5orf34	375444	broad.mit.edu	37	5	43494677	43494677	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:43494677A>G	uc003jnz.1	-	8	1496	c.1179T>C	c.(1177-1179)AAT>AAC	p.N393N		NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	393										breast(1)	1	Lung NSC(6;2.07e-05)																	---	---	---	---
FGF10	2255	broad.mit.edu	37	5	44305128	44305128	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:44305128G>A	uc003jog.1	-	3	596	c.596C>T	c.(595-597)GCT>GTT	p.A199V		NM_004465	NP_004456	O15520	FGF10_HUMAN	fibroblast growth factor 10 precursor	199					actin cytoskeleton reorganization|activation of MAPK activity|bud outgrowth involved in lung branching|ERK1 and ERK2 cascade|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|insulin receptor signaling pathway|lacrimal gland development|lung saccule development|mesonephros development|negative regulation of cell cycle arrest|positive regulation of ATPase activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of DNA repair|positive regulation of DNA replication|positive regulation of epithelial cell migration|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of ERK1 and ERK2 cascade|positive regulation of hair follicle cell proliferation|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of lymphocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of Ras protein signal transduction|positive regulation of transcription, DNA-dependent|positive regulation of urothelial cell proliferation|protein localization at cell surface|radial glial cell differentiation|regulation of saliva secretion|response to protein stimulus|secretion by lung epithelial cell involved in lung growth|tear secretion|thymus development|urothelial cell proliferation	cell surface|extracellular space|nucleus|plasma membrane	chemoattractant activity|growth factor activity|heparin binding|type 2 fibroblast growth factor receptor binding			lung(3)	3	Lung NSC(6;1.12e-06)																	---	---	---	---
MRPS30	10884	broad.mit.edu	37	5	44811197	44811197	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:44811197C>T	uc003joh.2	+	2	726	c.688C>T	c.(688-690)CGA>TGA	p.R230*	MRPS30_uc003joi.1_RNA	NM_016640	NP_057724	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	230					apoptosis|translation	mitochondrion|ribosome	structural constituent of ribosome				0	Lung NSC(6;8.08e-07)																	---	---	---	---
HCN1	348980	broad.mit.edu	37	5	45267276	45267276	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:45267276C>T	uc003jok.2	-	7	1723	c.1698G>A	c.(1696-1698)GTG>GTA	p.V566V		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	566	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1																		---	---	---	---
ISL1	3670	broad.mit.edu	37	5	50687126	50687126	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:50687126G>T	uc003jor.2	+	5	1332	c.784G>T	c.(784-786)GGA>TGA	p.G262*		NM_002202	NP_002193	P61371	ISL1_HUMAN	islet-1	262	Gln-rich.				generation of precursor metabolites and energy|multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3		Lung NSC(810;0.000845)|Breast(144;0.0411)																---	---	---	---
PELO	53918	broad.mit.edu	37	5	52096901	52096901	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:52096901G>A	uc003jos.2	+	2	1658	c.673G>A	c.(673-675)GCA>ACA	p.A225T	ITGA1_uc003jov.2_Intron|ITGA1_uc003jou.2_Intron|PELO_uc003jot.1_Intron	NM_015946	NP_057030	Q9BRX2	PELO_HUMAN	pelota homolog	225					cell cycle|cell division|translation	cytoplasm|nucleus	endonuclease activity|metal ion binding|protein binding				0		Lung NSC(810;4.94e-05)|Breast(144;0.0848)																---	---	---	---
SNX18	112574	broad.mit.edu	37	5	53815142	53815142	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:53815142C>T	uc003jpj.3	+	1	1550	c.1360C>T	c.(1360-1362)CGC>TGC	p.R454C	SNX18_uc011cqg.1_Missense_Mutation_p.R454C|SNX18_uc003jpi.3_Missense_Mutation_p.R454C	NM_052870	NP_443102	Q96RF0	SNX18_HUMAN	sorting nexin 18 isoform b	454	BAR.				cell communication|endocytosis|positive regulation of GTPase activity|protein transport	endomembrane system|endosome membrane|extrinsic to internal side of plasma membrane	phosphatidylinositol binding|protein binding				0		Lung NSC(810;3.46e-05)|Breast(144;0.102)																---	---	---	---
MIR449A	554213	broad.mit.edu	37	5	54466399	54466399	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:54466399C>T	hsa-mir-449a|MI0001648	-			c.52C>T			CDC20B_uc003jpn.1_Intron|CDC20B_uc010ivu.1_Intron|CDC20B_uc003jpo.1_Intron|CDC20B_uc010ivv.1_Intron|CDC20B_uc003jpp.2_Intron|uc011cqh.1_RNA																	0																		---	---	---	---
DDX4	54514	broad.mit.edu	37	5	55082359	55082359	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:55082359C>T	uc003jqg.3	+	14	952	c.878C>T	c.(877-879)GCT>GTT	p.A293V	DDX4_uc010ivz.2_Missense_Mutation_p.A273V|DDX4_uc003jqh.3_Missense_Mutation_p.A259V|DDX4_uc003jqj.2_Missense_Mutation_p.A144V	NM_001136034	NP_001129506	Q9NQI0	DDX4_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 4 isoform	293	Q motif.				multicellular organismal development|sperm motility	perinuclear region of cytoplasm|pi-body|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|skin(1)	2		Lung NSC(810;6.93e-05)|all_neural(839;0.00409)|Prostate(74;0.0107)|Breast(144;0.0544)|Ovarian(174;0.223)																---	---	---	---
MAP3K1	4214	broad.mit.edu	37	5	56155650	56155650	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56155650C>T	uc003jqw.3	+	3	1243	c.742C>T	c.(742-744)CGA>TGA	p.R248*		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	248					cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)														---	---	---	---
MAP3K1	4214	broad.mit.edu	37	5	56160643	56160643	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56160643G>A	uc003jqw.3	+	4	1418	c.917G>A	c.(916-918)CGC>CAC	p.R306H		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	306					cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)														---	---	---	---
C5orf35	133383	broad.mit.edu	37	5	56207341	56207341	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56207341C>T	uc003jqx.2	+	2	817	c.444C>T	c.(442-444)GGC>GGT	p.G148G	C5orf35_uc003jqy.2_Intron	NM_153706	NP_714917	Q8NE22	CE035_HUMAN	hypothetical protein LOC133383	148										ovary(1)	1		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.173)		OV - Ovarian serous cystadenocarcinoma(10;2.58e-39)														---	---	---	---
GPBP1	65056	broad.mit.edu	37	5	56542211	56542211	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56542211T>C	uc003jrh.3	+	7	1837	c.563T>C	c.(562-564)TTC>TCC	p.F188S	GPBP1_uc010iwg.2_Missense_Mutation_p.F208S|GPBP1_uc003jri.3_Missense_Mutation_p.F17S|GPBP1_uc003jrj.3_Missense_Mutation_p.F195S|GPBP1_uc003jrk.3_Missense_Mutation_p.F195S|GPBP1_uc003jrl.3_RNA	NM_022913	NP_075064	Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1 isoform 1	188					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			large_intestine(1)|central_nervous_system(1)	2		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)														---	---	---	---
RAB3C	115827	broad.mit.edu	37	5	58120962	58120962	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:58120962C>T	uc003jrp.2	+	4	566	c.469C>T	c.(469-471)CGA>TGA	p.R157*		NM_138453	NP_612462	Q96E17	RAB3C_HUMAN	RAB3C, member RAS oncogene family	157					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)|central_nervous_system(1)	2		all_cancers(5;9.93e-10)|all_epithelial(5;1.49e-10)|all_lung(5;8.97e-05)|Lung NSC(5;0.000139)|Prostate(74;0.0664)		OV - Ovarian serous cystadenocarcinoma(10;1.8e-34)														---	---	---	---
NLN	57486	broad.mit.edu	37	5	65118709	65118709	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:65118709C>T	uc003juf.2	+	13	2197	c.2081C>T	c.(2080-2082)GCG>GTG	p.A694V	NLN_uc003jug.2_Missense_Mutation_p.A523V|NLN_uc010iww.2_Missense_Mutation_p.A371V	NM_020726	NP_065777	Q9BYT8	NEUL_HUMAN	neurolysin precursor	694					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)														---	---	---	---
ERBB2IP	55914	broad.mit.edu	37	5	65340041	65340041	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:65340041T>C	uc003juk.1	+	17	1813	c.1505T>C	c.(1504-1506)GTA>GCA	p.V502A	ERBB2IP_uc003juh.1_Missense_Mutation_p.V502A|ERBB2IP_uc003jui.1_Missense_Mutation_p.V502A|ERBB2IP_uc003juj.1_Missense_Mutation_p.V502A|ERBB2IP_uc011cqx.1_Missense_Mutation_p.V502A|ERBB2IP_uc011cqy.1_Missense_Mutation_p.V502A|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Missense_Mutation_p.V502A|ERBB2IP_uc003jul.1_Missense_Mutation_p.V502A	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	502					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)														---	---	---	---
ERBB2IP	55914	broad.mit.edu	37	5	65349316	65349316	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:65349316G>A	uc003juk.1	+	21	2478	c.2170G>A	c.(2170-2172)GAT>AAT	p.D724N	ERBB2IP_uc003jui.1_Missense_Mutation_p.D724N|ERBB2IP_uc003juj.1_Missense_Mutation_p.D724N|ERBB2IP_uc011cqx.1_Missense_Mutation_p.D724N|ERBB2IP_uc011cqy.1_Missense_Mutation_p.D724N|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Missense_Mutation_p.D720N|ERBB2IP_uc003jul.1_Missense_Mutation_p.D720N	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	724					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)														---	---	---	---
MAST4	375449	broad.mit.edu	37	5	66396393	66396393	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:66396393C>A	uc003jut.1	+	7	544	c.476C>A	c.(475-477)CCG>CAG	p.P159Q	MAST4_uc003jus.2_Missense_Mutation_p.P159Q|MAST4_uc003juu.1_Missense_Mutation_p.P169Q|MAST4_uc011cra.1_Missense_Mutation_p.P142Q|MAST4_uc010ixa.2_RNA|MAST4_uc003juv.2_Missense_Mutation_p.P154Q|MAST4_uc003juw.2_Missense_Mutation_p.P154Q	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	351						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)														---	---	---	---
MAST4	375449	broad.mit.edu	37	5	66448493	66448493	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:66448493T>C	uc003jut.1	+	24	2825	c.2757T>C	c.(2755-2757)AGT>AGC	p.S919S	MAST4_uc003juw.2_Silent_p.S847S	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1111	Ser-rich.					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)														---	---	---	---
MAST4	375449	broad.mit.edu	37	5	66460439	66460439	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:66460439C>T	uc003jut.1	+	28	4933	c.4865C>T	c.(4864-4866)TCC>TTC	p.S1622F	MAST4_uc003juw.2_Missense_Mutation_p.S1550F|MAST4_uc003jux.2_5'Flank	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1814						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)														---	---	---	---
BDP1	55814	broad.mit.edu	37	5	70805292	70805292	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:70805292C>T	uc003kbp.1	+	17	2636	c.2373C>T	c.(2371-2373)AGC>AGT	p.S791S	BDP1_uc003kbn.1_Silent_p.S791S|BDP1_uc003kbo.2_Silent_p.S791S	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	791					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)														---	---	---	---
CARTPT	9607	broad.mit.edu	37	5	71016372	71016372	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71016372C>T	uc003kbv.1	+	3	408	c.281C>T	c.(280-282)GCA>GTA	p.A94V		NM_004291	NP_004282	Q16568	CART_HUMAN	cocaine- and amphetamine-regulated transcript	94					activation of MAPKK activity|adult feeding behavior|cellular glucose homeostasis|cellular response to starvation|circadian regulation of gene expression|negative regulation of appetite|negative regulation of bone resorption|negative regulation of osteoclast differentiation|neuropeptide signaling pathway|positive regulation of blood pressure|positive regulation of epinephrine secretion|positive regulation of transmission of nerve impulse|synaptic transmission	extracellular space				ovary(1)	1		Lung NSC(167;0.00153)|Ovarian(174;0.0175)|Prostate(74;0.11)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;8.4e-56)	Amphetamine(DB00182)													---	---	---	---
MAP1B	4131	broad.mit.edu	37	5	71491738	71491738	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71491738G>T	uc003kbw.3	+	5	2797	c.2556G>T	c.(2554-2556)AAG>AAT	p.K852N	MAP1B_uc010iyw.1_Missense_Mutation_p.K869N|MAP1B_uc010iyx.1_Missense_Mutation_p.K726N|MAP1B_uc010iyy.1_Missense_Mutation_p.K726N	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	852						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)														---	---	---	---
ZNF366	167465	broad.mit.edu	37	5	71743088	71743088	+	Missense_Mutation	SNP	G	A	A	rs144490986		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71743088G>A	uc003kce.1	-	4	1867	c.1681C>T	c.(1681-1683)CGG>TGG	p.R561W		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	561					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)														---	---	---	---
TMEM171	134285	broad.mit.edu	37	5	72427511	72427511	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:72427511C>T	uc003kcm.2	+	4	1133	c.929C>T	c.(928-930)GCT>GTT	p.A310V	TMEM171_uc003kcn.3_Missense_Mutation_p.A309V	NM_173490	NP_775761	Q8WVE6	TM171_HUMAN	transmembrane protein 171 isoform 1	310						integral to membrane					0		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.87e-54)|Lung(70;0.115)														---	---	---	---
RGNEF	64283	broad.mit.edu	37	5	73069726	73069726	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73069726C>T	uc011csq.1	+	4	533	c.522C>T	c.(520-522)GGC>GGT	p.G174G	RGNEF_uc003kcx.2_Silent_p.G174G|RGNEF_uc003kcy.1_Silent_p.G174G|RGNEF_uc010izf.2_Silent_p.G174G	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	174					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)														---	---	---	---
ENC1	8507	broad.mit.edu	37	5	73931937	73931937	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73931937T>C	uc003kdc.3	-	2	1505	c.374A>G	c.(373-375)GAC>GGC	p.D125G	ENC1_uc011css.1_Missense_Mutation_p.D52G	NM_003633	NP_003624	O14682	ENC1_HUMAN	ectodermal-neural cortex (with BTB-like domain)	125				INEENAESLLEAGDMLEFQ -> HQLEGKCRNSLLGSLVTC WSFK (in Ref. 1).	nervous system development	cytoplasm|cytoskeleton|nuclear matrix	actin binding			ovary(1)|pancreas(1)|skin(1)	3		all_lung(232;0.0154)|Lung NSC(167;0.0331)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.45e-59)														---	---	---	---
IQGAP2	10788	broad.mit.edu	37	5	75893291	75893291	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:75893291C>T	uc003kek.2	+	10	1157	c.935C>T	c.(934-936)GCT>GTT	p.A312V		NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	312					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)														---	---	---	---
IQGAP2	10788	broad.mit.edu	37	5	75967720	75967720	+	Missense_Mutation	SNP	G	A	A	rs138211969	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:75967720G>A	uc003kek.2	+	24	3202	c.2980G>A	c.(2980-2982)GAC>AAC	p.D994N	IQGAP2_uc010izv.2_Missense_Mutation_p.D547N|IQGAP2_uc011csv.1_Missense_Mutation_p.D490N|IQGAP2_uc003kel.2_Missense_Mutation_p.D490N|IQGAP2_uc010izw.1_5'Flank	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	994	Ras-GAP.				small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)														---	---	---	---
AGGF1	55109	broad.mit.edu	37	5	76357633	76357633	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:76357633A>G	uc003ket.2	+							NM_018046	NP_060516			angiogenic factor VG5Q						angiogenesis|cell adhesion|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|RNA processing|vasculogenesis	extracellular region|perinuclear region of cytoplasm	eukaryotic cell surface binding|nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;4.51e-51)|Epithelial(54;2.2e-45)|all cancers(79;6.68e-41)														---	---	---	---
WDR41	55255	broad.mit.edu	37	5	76729078	76729078	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:76729078G>A	uc003kff.1	-	13	1549	c.1262C>T	c.(1261-1263)ACG>ATG	p.T421M	WDR41_uc011csy.1_Missense_Mutation_p.T363M|WDR41_uc011csz.1_Missense_Mutation_p.T366M	NM_018268	NP_060738	Q9HAD4	WDR41_HUMAN	WD repeat domain 41	421	WD 6.										0		all_lung(232;0.000961)|Lung NSC(167;0.0011)|Ovarian(174;0.0105)|Prostate(461;0.059)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-50)|Epithelial(54;2.04e-44)|all cancers(79;6.84e-40)														---	---	---	---
BHMT2	23743	broad.mit.edu	37	5	78379533	78379533	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:78379533C>T	uc003kft.2	+	7	887	c.864C>T	c.(862-864)GGC>GGT	p.G288G	BHMT2_uc011cth.1_Silent_p.G224G	NM_017614	NP_060084	Q9H2M3	BHMT2_HUMAN	betaine-homocysteine methyltransferase 2	288	Hcy-binding.				methionine biosynthetic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00063)|Lung NSC(167;0.00171)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;2.09e-45)|Epithelial(54;9.3e-41)|all cancers(79;4.09e-36)	L-Methionine(DB00134)													---	---	---	---
BHMT	635	broad.mit.edu	37	5	78415085	78415085	+	Missense_Mutation	SNP	G	A	A	rs147391267		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:78415085G>A	uc003kfu.3	+	3	275	c.170G>A	c.(169-171)CGC>CAC	p.R57H	BHMT_uc011cti.1_Intron	NM_001713	NP_001704	Q93088	BHMT1_HUMAN	betaine-homocysteine methyltransferase	57	Hcy-binding.				protein methylation|regulation of homocysteine metabolic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.88e-45)|Epithelial(54;8.07e-41)|all cancers(79;3.51e-36)	L-Methionine(DB00134)													---	---	---	---
THBS4	7060	broad.mit.edu	37	5	79357547	79357547	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79357547G>A	uc003kgh.2	+	9	1340	c.1017G>A	c.(1015-1017)GTG>GTA	p.V339V		NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	339	EGF-like 2; calcium-binding (Potential).				endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)														---	---	---	---
SERINC5	256987	broad.mit.edu	37	5	79498704	79498704	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79498704C>T	uc003kgj.2	-	2	324	c.195_splice	c.e2+1	p.H65_splice	SERINC5_uc003kgk.2_Splice_Site_p.H65_splice|SERINC5_uc003kgl.2_Splice_Site|SERINC5_uc003kgm.2_Splice_Site_p.H65_splice|SERINC5_uc011ctj.1_Splice_Site_p.H65_splice	NM_178276	NP_840060			developmentally regulated protein TPO1						phosphatidylserine metabolic process|phospholipid biosynthetic process|positive regulation of transferase activity	endoplasmic reticulum membrane|integral to membrane				ovary(1)	1		Lung NSC(167;0.00328)|all_lung(232;0.00356)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;2.93e-46)|Epithelial(54;5.59e-40)|all cancers(79;1.89e-34)														---	---	---	---
ZFYVE16	9765	broad.mit.edu	37	5	79733039	79733039	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79733039G>A	uc003kgr.3	+	4	837	c.535G>A	c.(535-537)GAC>AAC	p.D179N	ZFYVE16_uc010jak.1_Missense_Mutation_p.D179N|ZFYVE16_uc003kgp.2_Missense_Mutation_p.D179N|ZFYVE16_uc003kgq.3_Missense_Mutation_p.D179N|ZFYVE16_uc003kgs.3_Missense_Mutation_p.D179N	NM_001105251	NP_001098721	Q7Z3T8	ZFY16_HUMAN	zinc finger, FYVE domain containing 16	179					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	80548572	80548572	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:80548572G>A	uc003khc.3	+	4	453	c.211G>A	c.(211-213)GCC>ACC	p.A71T	RNU5E_uc011cto.1_Intron|CKMT2_uc010jaq.2_Missense_Mutation_p.A71T|CKMT2_uc003khd.3_Missense_Mutation_p.A71T|uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NM_001825	NP_001816	P17540	KCRS_HUMAN	sarcomeric mitochondrial creatine kinase	71	Phosphagen kinase N-terminal.				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)													---	---	---	---
ATP6AP1L	92270	broad.mit.edu	37	5	81613943	81613943	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:81613943C>A	uc003khv.2	+	10	1824	c.499C>A	c.(499-501)CTG>ATG	p.L167M	ATP6AP1L_uc003khw.2_Missense_Mutation_p.L167M	NM_001017971	NP_001017971	Q52LC2	VAS1L_HUMAN	ATPase, H+ transporting, lysosomal accessory	167	Helical; (Potential).				ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0																		---	---	---	---
XRCC4	7518	broad.mit.edu	37	5	82406986	82406986	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:82406986T>C	uc003kib.2	+	3	407	c.279T>C	c.(277-279)TGT>TGC	p.C93C	XRCC4_uc003kia.1_Silent_p.C93C|XRCC4_uc003kid.2_Silent_p.C93C|XRCC4_uc003kic.2_Silent_p.C93C|XRCC4_uc003kie.2_Silent_p.C93C|XRCC4_uc003kif.1_Silent_p.C93C	NM_022406	NP_071801	Q13426	XRCC4_HUMAN	X-ray repair cross complementing protein 4	93					DNA ligation involved in DNA repair|double-strand break repair via nonhomologous end joining|initiation of viral infection|positive regulation of ligase activity|provirus integration|response to X-ray	cytosol|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|nucleoplasm	DNA binding|protein C-terminus binding			skin(3)	3		Lung NSC(167;0.00132)|all_lung(232;0.00154)|Ovarian(174;0.034)		OV - Ovarian serous cystadenocarcinoma(54;1.44e-38)|Epithelial(54;3.72e-33)|all cancers(79;9.22e-28)									NHEJ					---	---	---	---
MEF2C	4208	broad.mit.edu	37	5	88100421	88100421	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:88100421G>A	uc003kjj.2	-	3	925	c.252C>T	c.(250-252)ATC>ATT	p.I84I	MEF2C_uc003kji.2_Silent_p.I84I|MEF2C_uc003kjk.2_Silent_p.I84I|MEF2C_uc003kjm.2_Silent_p.I84I|MEF2C_uc003kjl.2_Silent_p.I84I	NM_002397	NP_002388	Q06413	MEF2C_HUMAN	myocyte enhancer factor 2C isoform 1	84	Mef2-type (Potential).				apoptosis|B cell proliferation|innate immune response|learning or memory|muscle cell differentiation|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|neuron development|positive regulation of muscle cell differentiation|positive regulation of survival gene product expression|positive regulation of transcription from RNA polymerase II promoter|regulation of germinal center formation|regulation of megakaryocyte differentiation|regulation of synaptic activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	nuclear speck	activating transcription factor binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(3)|breast(2)|ovary(1)|large_intestine(1)	7		all_cancers(142;6.67e-05)|all_epithelial(76;7.77e-07)|Lung NSC(167;0.00566)|all_lung(232;0.00732)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;1.04e-33)|Epithelial(54;1.6e-28)|all cancers(79;2.9e-25)											HNSCC(66;0.2)			---	---	---	---
MCTP1	79772	broad.mit.edu	37	5	94267673	94267673	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:94267673C>T	uc003kkx.2	-	6	1197	c.1197G>A	c.(1195-1197)TGG>TGA	p.W399*	MCTP1_uc003kkv.2_Nonsense_Mutation_p.W178*|MCTP1_uc003kkw.2_Nonsense_Mutation_p.W178*|MCTP1_uc003kkz.2_Nonsense_Mutation_p.W60*|MCTP1_uc003kku.2_5'Flank	NM_024717	NP_078993	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1 isoform L	399					calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)														---	---	---	---
RHOBTB3	22836	broad.mit.edu	37	5	95072640	95072640	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:95072640C>T	uc003klm.2	+	3	813	c.276C>T	c.(274-276)GGC>GGT	p.G92G	RHOBTB3_uc003klk.1_5'UTR	NM_014899	NP_055714	O94955	RHBT3_HUMAN	rho-related BTB domain containing 3	92	Rho-like.				retrograde transport, endosome to Golgi	Golgi apparatus	ATP binding|ATPase activity|Rab GTPase binding			lung(1)|skin(1)	2		all_cancers(142;2.58e-06)|all_epithelial(76;4.19e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0164)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.79e-16)														---	---	---	---
PCSK1	5122	broad.mit.edu	37	5	95728946	95728946	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:95728946G>A	uc003kls.1	-	14	2227	c.2021C>T	c.(2020-2022)GCT>GTT	p.A674V	PCSK1_uc010jbi.1_Missense_Mutation_p.A364V	NM_000439	NP_000430	P29120	NEC1_HUMAN	proprotein convertase subtilisin/kexin type 1	674					cell-cell signaling|cellular nitrogen compound metabolic process|energy reserve metabolic process|hormone biosynthetic process|peptide biosynthetic process|peptide hormone processing|regulation of insulin secretion	extracellular space|stored secretory granule|transport vesicle	serine-type endopeptidase activity			ovary(2)	2		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)													---	---	---	---
CHD1	1105	broad.mit.edu	37	5	98232112	98232112	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:98232112G>T	uc003knf.2	-	11	1676	c.1528C>A	c.(1528-1530)CTT>ATT	p.L510I		NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	510	Helicase ATP-binding.|ATP (Potential).				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)													---	---	---	---
CHD1	1105	broad.mit.edu	37	5	98240797	98240797	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:98240797G>A	uc003knf.2	-	2	207	c.59C>T	c.(58-60)TCG>TTG	p.S20L		NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	20	Ser-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)													---	---	---	---
ST8SIA4	7903	broad.mit.edu	37	5	100238558	100238558	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:100238558C>T	uc003knk.2	-	1	430	c.102G>A	c.(100-102)ACG>ACA	p.T34T	ST8SIA4_uc003knl.2_Silent_p.T34T	NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	34	Lumenal (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)														---	---	---	---
SLCO4C1	353189	broad.mit.edu	37	5	101592920	101592920	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:101592920A>G	uc003knm.2	-	8	1655	c.1368T>C	c.(1366-1368)TTT>TTC	p.F456F		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	456	Helical; Name=9; (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)														---	---	---	---
PAM	5066	broad.mit.edu	37	5	102237087	102237087	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:102237087C>T	uc003knw.2	+	3	611	c.238C>T	c.(238-240)CGA>TGA	p.R80*	PAM_uc003kns.2_Nonsense_Mutation_p.R80*|PAM_uc003knt.2_Nonsense_Mutation_p.R80*|PAM_uc003knu.2_Nonsense_Mutation_p.R80*|PAM_uc003knv.2_Nonsense_Mutation_p.R80*|PAM_uc011cuz.1_Intron	NM_000919	NP_000910	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	80	Peptidylglycine alpha-hydroxylating monooxygenase (By similarity).|Intragranular (Potential).				peptide metabolic process|protein modification process	extracellular region|integral to membrane|stored secretory granule	L-ascorbic acid binding|peptidylamidoglycolate lyase activity|peptidylglycine monooxygenase activity|protein binding				0		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)													---	---	---	---
PPIP5K2	23262	broad.mit.edu	37	5	102474135	102474135	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:102474135G>A	uc003kod.3	+	5	968	c.449G>A	c.(448-450)CGT>CAT	p.R150H	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Missense_Mutation_p.R150H|PPIP5K2_uc010jbo.1_Missense_Mutation_p.R72H	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	150					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2																		---	---	---	---
NUDT12	83594	broad.mit.edu	37	5	102891660	102891660	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:102891660G>A	uc003koi.2	-	4	1029	c.936C>T	c.(934-936)GGC>GGT	p.G312G	NUDT12_uc011cvb.1_Silent_p.G294G	NM_031438	NP_113626	Q9BQG2	NUD12_HUMAN	nudix-type motif 12	312						nucleus|peroxisome	metal ion binding|NAD+ diphosphatase activity				0		all_cancers(142;6.38e-08)|all_epithelial(76;1.99e-10)|Prostate(80;0.0138)|Lung NSC(167;0.0212)|Colorectal(57;0.0247)|all_lung(232;0.0283)|Ovarian(225;0.0423)		Epithelial(69;9.3e-13)|COAD - Colon adenocarcinoma(37;0.0221)														---	---	---	---
FER	2241	broad.mit.edu	37	5	108207070	108207070	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:108207070G>T	uc003kop.1	+	7	1054	c.670G>T	c.(670-672)GGT>TGT	p.G224C	FER_uc011cve.1_Missense_Mutation_p.G164C|FER_uc011cvf.1_RNA|FER_uc011cvg.1_Missense_Mutation_p.G49C	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	224	Important for interaction with membranes containing phosphoinositides.				intracellular signal transduction|peptidyl-tyrosine phosphorylation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|kidney(1)	5		all_cancers(142;2.86e-06)|all_epithelial(76;9.81e-08)|Prostate(80;0.00972)|Lung NSC(167;0.039)|Ovarian(225;0.0448)|all_lung(232;0.0496)|Colorectal(57;0.0986)|Breast(839;0.152)		OV - Ovarian serous cystadenocarcinoma(64;6.77e-10)|Epithelial(69;4.13e-08)|COAD - Colon adenocarcinoma(37;0.0174)														---	---	---	---
APC	324	broad.mit.edu	37	5	112137021	112137021	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)			---	---	---	---
REEP5	7905	broad.mit.edu	37	5	112257795	112257795	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:112257795G>A	uc003kqe.1	-	1	237	c.93C>T	c.(91-93)GGC>GGT	p.G31G	REEP5_uc011cvw.1_5'Flank|REEP5_uc011cvx.1_RNA|REEP5_uc011cvy.1_Silent_p.G31G|REEP5_uc011cvz.1_RNA	NM_005669	NP_005660	Q00765	REEP5_HUMAN	receptor accessory protein 5	31						integral to membrane	protein binding				0		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		Epithelial(69;1.3e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.26e-08)|all cancers(49;3.56e-07)|Colorectal(14;0.00778)|COAD - Colon adenocarcinoma(37;0.013)														---	---	---	---
AQPEP	206338	broad.mit.edu	37	5	115338603	115338603	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:115338603G>A	uc003kro.2	+	11	2056	c.1892G>A	c.(1891-1893)AGC>AAC	p.S631N	AQPEP_uc003krp.2_RNA|AQPEP_uc003krq.2_RNA|AQPEP_uc003krr.2_RNA|AQPEP_uc003krs.2_RNA	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	631	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0																		---	---	---	---
SEMA6A	57556	broad.mit.edu	37	5	115783256	115783256	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:115783256C>A	uc010jck.2	-	19	2855	c.2146G>T	c.(2146-2148)GAC>TAC	p.D716Y	SEMA6A_uc003krx.3_Missense_Mutation_p.D733Y|SEMA6A_uc011cwe.1_Missense_Mutation_p.D95Y|SEMA6A_uc003krv.3_Missense_Mutation_p.D143Y|SEMA6A_uc003krw.3_Missense_Mutation_p.D193Y|SEMA6A_uc010jcj.2_Missense_Mutation_p.D260Y	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	716	Cytoplasmic (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)														---	---	---	---
DMXL1	1657	broad.mit.edu	37	5	118486125	118486125	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118486125A>G	uc003ksd.2	+						DMXL1_uc010jcl.1_Intron	NM_005509	NP_005500			Dmx-like 1											ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)														---	---	---	---
FTMT	94033	broad.mit.edu	37	5	121188112	121188112	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121188112G>A	uc003kss.2	+	1	463	c.454G>A	c.(454-456)GAC>AAC	p.D152N		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	152	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)														---	---	---	---
SNCAIP	9627	broad.mit.edu	37	5	121761189	121761189	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121761189A>C	uc003ksw.1	+	5	1351	c.1145A>C	c.(1144-1146)AAC>ACC	p.N382T	SNCAIP_uc011cwl.1_Intron|SNCAIP_uc010jct.2_Missense_Mutation_p.N382T|SNCAIP_uc003ksx.1_Missense_Mutation_p.N429T|SNCAIP_uc003ksy.1_Intron|SNCAIP_uc003ksz.1_Intron|SNCAIP_uc010jcu.2_Intron|SNCAIP_uc011cwm.1_Intron|SNCAIP_uc003kta.1_Intron|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.N76T|SNCAIP_uc010jcx.1_Intron	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	382					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)														---	---	---	---
CSNK1G3	1456	broad.mit.edu	37	5	122950080	122950080	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:122950080G>A	uc003ktm.2	+	13	2053	c.1334G>A	c.(1333-1335)CGC>CAC	p.R445H	CSNK1G3_uc003ktl.2_Missense_Mutation_p.R453H|CSNK1G3_uc003ktn.2_Missense_Mutation_p.R421H|CSNK1G3_uc003kto.2_Missense_Mutation_p.R413H|CSNK1G3_uc011cwr.1_Missense_Mutation_p.R346H|CSNK1G3_uc011cws.1_Missense_Mutation_p.R309H|CSNK1G3_uc010jda.2_Missense_Mutation_p.R422H	NM_004384	NP_004375	Q9Y6M4	KC1G3_HUMAN	casein kinase 1, gamma 3 isoform 1	445					Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0		all_cancers(142;0.0156)|Prostate(80;0.0322)|Lung NSC(810;0.245)	KIRC - Kidney renal clear cell carcinoma(527;0.165)|Kidney(363;0.229)	OV - Ovarian serous cystadenocarcinoma(64;0.000121)|Epithelial(69;0.000227)|all cancers(49;0.00176)														---	---	---	---
ZNF608	57507	broad.mit.edu	37	5	123984239	123984239	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:123984239C>T	uc003ktq.1	-	4	1961	c.1838G>A	c.(1837-1839)AGC>AAC	p.S613N	ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Missense_Mutation_p.S613N|ZNF608_uc003ktt.1_Missense_Mutation_p.S613N	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	613						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)														---	---	---	---
MEGF10	84466	broad.mit.edu	37	5	126755870	126755870	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:126755870C>T	uc003kuh.3	+	13	1923	c.1561C>T	c.(1561-1563)CGC>TGC	p.R521C	MEGF10_uc010jdc.1_Missense_Mutation_p.R521C|MEGF10_uc010jdd.1_Missense_Mutation_p.R521C|MEGF10_uc003kui.3_Missense_Mutation_p.R521C	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	521	Extracellular (Potential).|EGF-like 9.|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)														---	---	---	---
FBN2	2201	broad.mit.edu	37	5	127668686	127668686	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:127668686C>T	uc003kuu.2	-	32	4579	c.4140G>A	c.(4138-4140)ATG>ATA	p.M1380I	FBN2_uc003kuv.2_Missense_Mutation_p.M1347I	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1380	EGF-like 22; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)														---	---	---	---
FBN2	2201	broad.mit.edu	37	5	127685073	127685073	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:127685073G>A	uc003kuu.2	-	23	3394	c.2955C>T	c.(2953-2955)GGC>GGT	p.G985G	FBN2_uc003kuv.2_Silent_p.G952G	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	985	EGF-like 14; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)														---	---	---	---
FBN2	2201	broad.mit.edu	37	5	127712414	127712414	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:127712414C>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)														---	---	---	---
ADAMTS19	171019	broad.mit.edu	37	5	128796099	128796099	+	5'Flank	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:128796099C>T	uc003kvb.1	+						ADAMTS19_uc003kvc.1_5'Flank	NM_133638	NP_598377			ADAM metallopeptidase with thrombospondin type 1						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)														---	---	---	---
RAPGEF6	51735	broad.mit.edu	37	5	130764881	130764881	+	Silent	SNP	G	A	A	rs144023710		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:130764881G>A	uc003kvn.1	-	27	4700	c.4494C>T	c.(4492-4494)GAC>GAT	p.D1498D	RAPGEF6_uc003kvp.1_Silent_p.D1548D|RAPGEF6_uc003kvo.1_Intron|RAPGEF6_uc010jdi.1_Silent_p.D1506D|RAPGEF6_uc010jdj.1_Intron|RAPGEF6_uc003kvm.1_Silent_p.D421D	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	1498					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)														---	---	---	---
P4HA2	8974	broad.mit.edu	37	5	131534590	131534590	+	Silent	SNP	C	T	T	rs141851075		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:131534590C>T	uc003kwh.2	-	11	1851	c.1287G>A	c.(1285-1287)CCG>CCA	p.P429P	P4HA2_uc003kwg.2_Silent_p.P429P|P4HA2_uc003kwi.2_Silent_p.P429P|P4HA2_uc003kwk.2_Silent_p.P429P|P4HA2_uc003kwl.2_Silent_p.P429P|P4HA2_uc003kwj.2_Silent_p.P429P	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	429	Fe2OG dioxygenase.					endoplasmic reticulum lumen	electron carrier activity|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|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)													---	---	---	---
SLC22A4	6583	broad.mit.edu	37	5	131647916	131647916	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:131647916C>T	uc003kwq.2	+	2	621	c.456C>T	c.(454-456)GGC>GGT	p.G152G	SLC22A4_uc010jdq.1_RNA|uc003kwr.3_RNA	NM_003059	NP_003050	Q9H015	S22A4_HUMAN	solute carrier family 22 member 4	152	Helical; Name=2; (Potential).				body fluid secretion|sodium ion transport	apical plasma membrane|integral to plasma membrane|mitochondrion	ATP binding|carnitine transporter activity|cation:cation antiporter activity|PDZ domain binding|secondary active organic cation transmembrane transporter activity|symporter activity				0		all_cancers(142;0.0752)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Carnitine(DB00583)													---	---	---	---
KIF3A	11127	broad.mit.edu	37	5	132052617	132052617	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:132052617T>A	uc003kxo.2	-	6	830	c.676A>T	c.(676-678)ATT>TTT	p.I226F	KIF3A_uc003kxn.2_Missense_Mutation_p.I185F|KIF3A_uc011cxf.1_Missense_Mutation_p.I226F|KIF3A_uc003kxp.2_Missense_Mutation_p.I226F	NM_007054	NP_008985	Q9Y496	KIF3A_HUMAN	kinesin family member 3A	226	Kinesin-motor.				blood coagulation|organelle organization|plus-end-directed vesicle transport along microtubule	centrosome|cytosol|kinesin II complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|protein binding			pancreas(1)	1		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)															---	---	---	---
CCNI2	645121	broad.mit.edu	37	5	132086668	132086668	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:132086668G>A	uc003kxq.1	+	4	804	c.753G>A	c.(751-753)ACG>ACA	p.T251T	CCNI2_uc011cxg.1_Silent_p.T251T|CCNI2_uc011cxh.1_Silent_p.T252T|SEPT8_uc003kxr.2_3'UTR	NM_001039780	NP_001034869	Q6ZMN8	CCNI2_HUMAN	cyclin I family, member 2	251					regulation of cyclin-dependent protein kinase activity		protein kinase binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)															---	---	---	---
PPP2CA	5515	broad.mit.edu	37	5	133537696	133537696	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:133537696C>T	uc003kze.2	-	3	727	c.329G>A	c.(328-330)CGC>CAC	p.R110H		NM_002715	NP_002706	P67775	PP2AA_HUMAN	protein phosphatase 2, catalytic subunit, alpha	110					ceramide metabolic process|inactivation of MAPK activity|induction of apoptosis|meiosis|negative regulation of cell growth|negative regulation of epithelial to mesenchymal transition|negative regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of protein serine/threonine kinase activity|protein dephosphorylation|regulation of cell adhesion|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction|spindle pole	metal ion binding|phosphoprotein phosphatase activity			ovary(2)|lung(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Vitamin E(DB00163)													---	---	---	---
C5orf20	140947	broad.mit.edu	37	5	134782488	134782488	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:134782488G>A	uc003lav.2	-	1	551	c.311C>T	c.(310-312)GCG>GTG	p.A104V		NM_130848	NP_570900	Q8TF63	DCNP1_HUMAN	dendritic cell nuclear protein 1	104						nucleus					0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)															---	---	---	---
TRPC7	57113	broad.mit.edu	37	5	135551934	135551934	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:135551934G>A	uc003lbn.1	-	10	2373	c.2370C>T	c.(2368-2370)TAC>TAT	p.Y790Y	TRPC7_uc010jef.1_Silent_p.Y727Y|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Silent_p.Y721Y|TRPC7_uc010jei.1_Silent_p.Y666Y|TRPC7_uc010jej.1_Silent_p.Y342Y	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	791	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)															---	---	---	---
NME5	8382	broad.mit.edu	37	5	137454523	137454523	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137454523T>G	uc003lce.2	-	5	617	c.539A>C	c.(538-540)AAA>ACA	p.K180T	BRD8_uc003lcc.1_Intron	NM_003551	NP_003542	P56597	NDK5_HUMAN	non-metastatic cells 5, protein expressed in	180					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)															---	---	---	---
CDC23	8697	broad.mit.edu	37	5	137527970	137527970	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137527970G>A	uc003lcl.2	-	11	1305	c.1274C>T	c.(1273-1275)GCC>GTC	p.A425V		NM_004661	NP_004652	Q9UJX2	CDC23_HUMAN	cell division cycle protein 23	425	TPR 7.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1 phase of mitotic cell cycle|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase plate congression|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of exit from mitosis	anaphase-promoting complex|cytosol|nucleoplasm	binding|ubiquitin-protein ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)															---	---	---	---
CDC25C	995	broad.mit.edu	37	5	137621809	137621809	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137621809G>A	uc003lcp.1	-	13	1445	c.1174C>T	c.(1174-1176)CGT>TGT	p.R392C	CDC25C_uc003lcq.1_Missense_Mutation_p.R319C|CDC25C_uc003lcr.1_Missense_Mutation_p.R392C|CDC25C_uc011cyp.1_Missense_Mutation_p.R409C|CDC25C_uc003lcs.1_Missense_Mutation_p.R470C	NM_001790	NP_001781	P30307	MPIP3_HUMAN	cell division cycle 25C isoform a	392	Rhodanese.				cell cycle checkpoint|cell division|cell proliferation|DNA replication|G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm	protein tyrosine phosphatase activity|WW domain binding			lung(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)															---	---	---	---
REEP2	51308	broad.mit.edu	37	5	137776765	137776765	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137776765C>T	uc003lcz.2	+	2	215	c.93C>T	c.(91-93)AAC>AAT	p.N31N	REEP2_uc003lda.2_Silent_p.N31N|REEP2_uc011cyt.1_Translation_Start_Site	NM_016606	NP_057690	Q9BRK0	REEP2_HUMAN	receptor accessory protein 2	31						integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)															---	---	---	---
REEP2	51308	broad.mit.edu	37	5	137780150	137780150	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137780150C>A	uc003lcz.2	+	4	351	c.229C>A	c.(229-231)CTG>ATG	p.L77M	REEP2_uc003lda.2_Missense_Mutation_p.L77M|REEP2_uc011cyt.1_Missense_Mutation_p.L38M	NM_016606	NP_057690	Q9BRK0	REEP2_HUMAN	receptor accessory protein 2	77						integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)															---	---	---	---
ETF1	2107	broad.mit.edu	37	5	137848611	137848611	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137848611G>A	uc003ldc.3	-	6	739	c.574C>T	c.(574-576)CGT>TGT	p.R192C	ETF1_uc011cyv.1_Missense_Mutation_p.R178C|ETF1_uc010jex.2_RNA|ETF1_uc003ldd.3_Missense_Mutation_p.R159C|ETF1_uc010jey.1_5'UTR	NM_004730	NP_004721	P62495	ERF1_HUMAN	eukaryotic translation termination factor 1	192					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|protein methylation|regulation of translational termination	cytoplasm	protein binding|ribosome binding|translation release factor activity, codon specific			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)															---	---	---	---
CXXC5	51523	broad.mit.edu	37	5	139060723	139060723	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:139060723G>A	uc010jfg.1	+	2	905	c.615G>A	c.(613-615)CAG>CAA	p.Q205Q	CXXC5_uc003let.2_Silent_p.Q205Q	NM_016463	NP_057547	Q7LFL8	CXXC5_HUMAN	CXXC finger 5	205					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|nucleus	DNA binding|signal transducer activity|zinc ion binding			central_nervous_system(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
SRA1	10011	broad.mit.edu	37	5	139930355	139930355	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:139930355G>A	uc003lga.2	-	5	1247	c.641C>T	c.(640-642)GCC>GTC	p.A214V	SRA1_uc003lfz.2_Missense_Mutation_p.A140V|SRA1_uc010jfm.2_Missense_Mutation_p.A140V	NM_001035235	NP_001030312	Q9HD15	SRA1_HUMAN	steroid receptor RNA activator 1	214					apoptosis|cell differentiation|cell proliferation|transcription, DNA-dependent	cytoplasm|ribonucleoprotein complex	receptor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
TMCO6	55374	broad.mit.edu	37	5	140022233	140022233	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140022233G>T	uc003lgl.2	+	6	767	c.666G>T	c.(664-666)GAG>GAT	p.E222D	TMCO6_uc003lgm.2_Missense_Mutation_p.E222D|TMCO6_uc010jft.2_Translation_Start_Site|TMCO6_uc003lgn.2_Missense_Mutation_p.E113D|TMCO6_uc003lgo.2_Translation_Start_Site	NM_018502	NP_060972	Q96DC7	TMCO6_HUMAN	transmembrane and coiled-coil domains 6	222					protein import into nucleus	cytoplasm|nuclear pore	binding|protein transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
ZMAT2	153527	broad.mit.edu	37	5	140085213	140085213	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140085213G>A	uc003lgy.1	+	6	486	c.472G>A	c.(472-474)GCG>ACG	p.A158T		NM_144723	NP_653324	Q96NC0	ZMAT2_HUMAN	zinc finger, matrin type 2	158						nucleus	DNA binding|zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHA1	56147	broad.mit.edu	37	5	140166015	140166015	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140166015G>A	uc003lhb.2	+	1	140	c.140G>A	c.(139-141)CGC>CAC	p.R47H	PCDHA1_uc003lha.2_Missense_Mutation_p.R47H|PCDHA1_uc003lgz.2_Missense_Mutation_p.R47H	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	47	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHA1	56147	broad.mit.edu	37	5	140167729	140167729	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140167729G>A	uc003lhb.2	+	1	1854	c.1854G>A	c.(1852-1854)GCG>GCA	p.A618A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Silent_p.A618A	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	618	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHA2	56146	broad.mit.edu	37	5	140175845	140175845	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140175845G>A	uc003lhd.2	+	1	1402	c.1296G>A	c.(1294-1296)TCG>TCA	p.S432S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.S432S|PCDHA2_uc011czy.1_Silent_p.S432S	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	432	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHA4	56144	broad.mit.edu	37	5	140188422	140188422	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140188422G>A	uc003lhi.2	+	1	1751	c.1650G>A	c.(1648-1650)ACG>ACA	p.T550T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.T550T|PCDHA4_uc011daa.1_Silent_p.T550T	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	550	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHA5	56143	broad.mit.edu	37	5	140201540	140201540	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140201540G>A	uc003lhl.2	+	1	180	c.180G>A	c.(178-180)CCG>CCA	p.P60P	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_Silent_p.P60P|PCDHA5_uc003lhj.1_Silent_p.P60P	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	60	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding	p.Q49fs*50(1)		ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHA8	56140	broad.mit.edu	37	5	140222549	140222549	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140222549A>G	uc003lhs.2	+	1	1643	c.1643A>G	c.(1642-1644)AAC>AGC	p.N548S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.N548S	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	548	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHA10	56139	broad.mit.edu	37	5	140237080	140237080	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140237080G>A	uc003lhx.2	+	1	1447	c.1447G>A	c.(1447-1449)GCG>ACG	p.A483T	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_Missense_Mutation_p.A483T|PCDHA10_uc011dad.1_Missense_Mutation_p.A483T	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	483	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHA11	56138	broad.mit.edu	37	5	140249671	140249671	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140249671C>A	uc003lia.2	+	1	1841	c.983C>A	c.(982-984)CCA>CAA	p.P328Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.P328Q	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	328	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHA11	56138	broad.mit.edu	37	5	140250178	140250178	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140250178G>A	uc003lia.2	+	1	2348	c.1490G>A	c.(1489-1491)CGG>CAG	p.R497Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.R497Q	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	497	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHA12	56137	broad.mit.edu	37	5	140256328	140256328	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140256328T>C	uc003lic.2	+	1	1398	c.1271T>C	c.(1270-1272)GTG>GCG	p.V424A	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_uc011daf.1_Missense_Mutation_p.V424A	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	424	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHA12	56137	broad.mit.edu	37	5	140256730	140256730	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140256730A>T	uc003lic.2	+	1	1800	c.1673A>T	c.(1672-1674)GAG>GTG	p.E558V	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_uc011daf.1_Missense_Mutation_p.E558V	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	558	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHA13	56136	broad.mit.edu	37	5	140261998	140261998	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140261998G>A	uc003lif.2	+	1	145	c.145G>A	c.(145-147)GCT>ACT	p.A49T	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_Missense_Mutation_p.A49T|PCDHA13_uc003lid.2_Missense_Mutation_p.A49T	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	49	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHAC1	56135	broad.mit.edu	37	5	140307066	140307066	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140307066G>A	uc003lih.2	+	1	765	c.589G>A	c.(589-591)GCC>ACC	p.A197T	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.A197T	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	197	Cadherin 2.|Extracellular (Potential).				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)															---	---	---	---
PCDHAC1	56135	broad.mit.edu	37	5	140307389	140307389	+	Silent	SNP	G	A	A	rs112037348	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140307389G>A	uc003lih.2	+	1	1088	c.912G>A	c.(910-912)ACG>ACA	p.T304T	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_Silent_p.T304T	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	304	Extracellular (Potential).|Cadherin 3.				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)															---	---	---	---
PCDHAC2	56134	broad.mit.edu	37	5	140347212	140347212	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140347212C>T	uc003lii.2	+	1	1101	c.861C>T	c.(859-861)GGC>GGT	p.G287G	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_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Silent_p.G287G	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	287	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHB2	56133	broad.mit.edu	37	5	140475246	140475246	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140475246G>A	uc003lil.2	+	1	1010	c.872G>A	c.(871-873)CGC>CAC	p.R291H	PCDHB2_uc003lim.1_5'UTR	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	291	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB3	56132	broad.mit.edu	37	5	140481651	140481651	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140481651T>C	uc003lio.2	+	1	1418	c.1418T>C	c.(1417-1419)GTC>GCC	p.V473A	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	473	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB3	56132	broad.mit.edu	37	5	140481683	140481683	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140481683G>A	uc003lio.2	+	1	1450	c.1450G>A	c.(1450-1452)GCC>ACC	p.A484T	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	484	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB7	56129	broad.mit.edu	37	5	140554671	140554671	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140554671G>A	uc003lit.2	+	1	2429	c.2255G>A	c.(2254-2256)TGC>TAC	p.C752Y	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	752	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)															---	---	---	---
PCDHB8	56128	broad.mit.edu	37	5	140559017	140559017	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140559017G>A	uc011dai.1	+	1	1588	c.1402G>A	c.(1402-1404)GCC>ACC	p.A468T	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	468	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB16	57717	broad.mit.edu	37	5	140563922	140563922	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140563922G>A	uc003liv.2	+	1	2943	c.1788G>A	c.(1786-1788)TCG>TCA	p.S596S	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	596	Cadherin 6.|Extracellular (Potential).				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)															---	---	---	---
PCDHB9	56127	broad.mit.edu	37	5	140568423	140568423	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140568423G>A	uc003liw.1	+	3	1532	c.1532G>A	c.(1531-1533)GGC>GAC	p.G511D		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	511	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB9	56127	broad.mit.edu	37	5	140569104	140569104	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140569104A>G	uc003liw.1	+	3	2213	c.2213A>G	c.(2212-2214)GAC>GGC	p.D738G	PCDHB10_uc003lix.2_5'Flank	NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	738	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB10	56126	broad.mit.edu	37	5	140574209	140574209	+	Missense_Mutation	SNP	C	T	T	rs138601077	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140574209C>T	uc003lix.2	+	1	2258	c.2084C>T	c.(2083-2085)GCG>GTG	p.A695V		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	695	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB11	56125	broad.mit.edu	37	5	140581476	140581476	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140581476C>T	uc003liy.2	+	1	2129	c.2129C>T	c.(2128-2130)GCG>GTG	p.A710V	PCDHB11_uc011daj.1_Missense_Mutation_p.A345V	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	710	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB11	56125	broad.mit.edu	37	5	140581505	140581505	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140581505G>A	uc003liy.2	+	1	2158	c.2158G>A	c.(2158-2160)GCC>ACC	p.A720T	PCDHB11_uc011daj.1_Missense_Mutation_p.A355T	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	720	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB12	56124	broad.mit.edu	37	5	140589821	140589821	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140589821G>A	uc003liz.2	+	1	1531	c.1342G>A	c.(1342-1344)GCC>ACC	p.A448T	PCDHB12_uc011dak.1_Missense_Mutation_p.A111T	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	448	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB13	56123	broad.mit.edu	37	5	140594472	140594472	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140594472C>T	uc003lja.1	+	1	964	c.777C>T	c.(775-777)GGC>GGT	p.G259G		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	259	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB14	56122	broad.mit.edu	37	5	140604673	140604673	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140604673C>T	uc003ljb.2	+	1	1596	c.1596C>T	c.(1594-1596)GGC>GGT	p.G532G	PCDHB14_uc011dal.1_Silent_p.G379G	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	532	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB14	56122	broad.mit.edu	37	5	140605138	140605138	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140605138C>T	uc003ljb.2	+	1	2061	c.2061C>T	c.(2059-2061)ACC>ACT	p.T687T	PCDHB14_uc011dal.1_Silent_p.T534T	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	687	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
TAF7	6879	broad.mit.edu	37	5	140699196	140699196	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140699196G>A	uc003ljg.2	-	1	1156	c.416C>T	c.(415-417)CCT>CTT	p.P139L		NM_005642	NP_005633	Q15545	TAF7_HUMAN	TATA box-binding protein-associated factor 2F	139					negative regulation of histone acetylation|negative regulation of protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|spermine transport|transcription initiation from RNA polymerase II promoter	Golgi apparatus|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	histone acetyltransferase binding|thyroid hormone receptor binding|transcription coactivator activity|transcription regulatory region DNA binding|vitamin D receptor binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHGA1	56114	broad.mit.edu	37	5	140710396	140710396	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140710396G>A	uc003lji.1	+	1	145	c.145G>A	c.(145-147)GCC>ACC	p.A49T	PCDHGA1_uc011dan.1_Missense_Mutation_p.A49T	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	49	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHGA1	56114	broad.mit.edu	37	5	140711370	140711370	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140711370C>A	uc003lji.1	+	1	1119	c.1119C>A	c.(1117-1119)GAC>GAA	p.D373E	PCDHGA1_uc011dan.1_Missense_Mutation_p.D373E	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	373	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHGA5	56110	broad.mit.edu	37	5	140745824	140745824	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140745824G>A	uc003lju.1	+	1	1927	c.1927G>A	c.(1927-1929)GTG>ATG	p.V643M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.V643M	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	643	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHGA5	56110	broad.mit.edu	37	5	140746261	140746261	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140746261C>T	uc003lju.1	+	1	2364	c.2364C>T	c.(2362-2364)AGC>AGT	p.S788S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Silent_p.S788S	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	788	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHGA7	56108	broad.mit.edu	37	5	140762959	140762959	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140762959A>G	uc003lka.1	+	1	493	c.493A>G	c.(493-495)AAC>GAC	p.N165D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.N165D	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	165	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHGA9	56107	broad.mit.edu	37	5	140784212	140784212	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140784212C>T	uc003lkh.1	+	1	1693	c.1693C>T	c.(1693-1695)CCT>TCT	p.P565S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.P565S	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	565	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHGA9	56107	broad.mit.edu	37	5	140784685	140784685	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140784685G>A	uc003lkh.1	+	1	2166	c.2166G>A	c.(2164-2166)TCG>TCA	p.S722S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Silent_p.S722S	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	722	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHGB6	56100	broad.mit.edu	37	5	140789114	140789114	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140789114G>A	uc003lkj.1	+	1	1345	c.1345G>A	c.(1345-1347)GCC>ACC	p.A449T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Missense_Mutation_p.A449T	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	449	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHGA12	26025	broad.mit.edu	37	5	140810542	140810542	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140810542G>A	uc003lkt.1	+	1	385	c.216G>A	c.(214-216)ACG>ACA	p.T72T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.T72T	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	72	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHGA12	26025	broad.mit.edu	37	5	140812003	140812003	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140812003G>A	uc003lkt.1	+	1	1846	c.1677G>A	c.(1675-1677)GCG>GCA	p.A559A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.A559A	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	559	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHGC3	5098	broad.mit.edu	37	5	140857013	140857013	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140857013C>T	uc003lkv.1	+	1	1445	c.1330C>T	c.(1330-1332)CGT>TGT	p.R444C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lku.1_Missense_Mutation_p.R444C|PCDHGC3_uc003lkw.1_Intron	NM_002588	NP_002579	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3 isoform 1	444	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
HDAC3	8841	broad.mit.edu	37	5	141005313	141005313	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141005313G>A	uc003llf.2	-	13	1064	c.998C>T	c.(997-999)GCC>GTC	p.A333V	HDAC3_uc003lle.1_Missense_Mutation_p.A276V	NM_003883	NP_003874	O15379	HDAC3_HUMAN	histone deacetylase 3	333					anti-apoptosis|cellular lipid metabolic process|negative regulation of cell cycle|negative regulation of JNK cascade|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|spindle assembly|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|spindle microtubule|transcriptional repressor complex	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)|transcription corepressor activity|transcription factor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Vorinostat(DB02546)													---	---	---	---
KCTD16	57528	broad.mit.edu	37	5	143853254	143853254	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:143853254C>T	uc003lnm.1	+	4	1493	c.864C>T	c.(862-864)TGC>TGT	p.C288C	KCTD16_uc003lnn.1_Silent_p.C288C	NM_020768	NP_065819	Q68DU8	KCD16_HUMAN	potassium channel tetramerisation domain	288						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)															---	---	---	---
RBM27	54439	broad.mit.edu	37	5	145631338	145631338	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:145631338G>A	uc003lnz.3	+	9	1510	c.1344G>A	c.(1342-1344)CCG>CCA	p.P448P	RBM27_uc003lny.2_Intron	NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	448					mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
DPYSL3	1809	broad.mit.edu	37	5	146785170	146785170	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:146785170C>T	uc003lon.1	-						DPYSL3_uc003loo.2_Intron	NM_001387	NP_001378			dihydropyrimidinase-like 3						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)															---	---	---	---
JAKMIP2	9832	broad.mit.edu	37	5	147012252	147012252	+	Silent	SNP	T	C	C	rs75918574		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:147012252T>C	uc003loq.1	-	13	2149	c.1767A>G	c.(1765-1767)CTA>CTG	p.L589L	JAKMIP2_uc011dbx.1_Silent_p.L547L|JAKMIP2_uc003lor.1_Silent_p.L568L|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Silent_p.L589L	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	589	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
HTR4	3360	broad.mit.edu	37	5	147889355	147889355	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:147889355C>A	uc003lpn.2	-	6	904	c.740G>T	c.(739-741)AGC>ATC	p.S247I	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_Missense_Mutation_p.S247I|HTR4_uc003lpj.1_Missense_Mutation_p.S247I|HTR4_uc003lpk.2_Missense_Mutation_p.S247I|HTR4_uc011dby.1_Missense_Mutation_p.S247I|HTR4_uc003lpl.2_Missense_Mutation_p.S261I|HTR4_uc003lpm.2_Missense_Mutation_p.S247I|HTR4_uc010jgv.2_RNA|HTR4_uc003lpo.1_Missense_Mutation_p.S247I	NM_000870	NP_000861	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform b	247	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)													---	---	---	---
PCYOX1L	78991	broad.mit.edu	37	5	148745609	148745609	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148745609C>T	uc003lqk.2	+	4	637	c.575C>T	c.(574-576)GCT>GTT	p.A192V	PCYOX1L_uc003lql.2_Missense_Mutation_p.A175V|PCYOX1L_uc010jgz.2_Intron|PCYOX1L_uc003lqm.2_Missense_Mutation_p.A74V|PCYOX1L_uc003lqn.2_Missense_Mutation_p.A102V	NM_024028	NP_076933	Q8NBM8	PCYXL_HUMAN	prenylcysteine oxidase 1 like precursor	192					prenylcysteine catabolic process	extracellular region	oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCYOX1L	78991	broad.mit.edu	37	5	148747580	148747580	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148747580C>T	uc003lqk.2	+	6	910	c.848C>T	c.(847-849)GCG>GTG	p.A283V	PCYOX1L_uc003lql.2_Missense_Mutation_p.A266V|PCYOX1L_uc010jgz.2_Missense_Mutation_p.A207V|PCYOX1L_uc003lqm.2_Missense_Mutation_p.A165V|PCYOX1L_uc003lqn.2_Missense_Mutation_p.A193V	NM_024028	NP_076933	Q8NBM8	PCYXL_HUMAN	prenylcysteine oxidase 1 like precursor	283					prenylcysteine catabolic process	extracellular region	oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)													OREG0016912	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
ARHGEF37	389337	broad.mit.edu	37	5	148980761	148980761	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148980761G>T	uc003lra.1	+	3	341	c.277G>T	c.(277-279)GCC>TCC	p.A93S		NM_001001669	NP_001001669	A1IGU5	ARH37_HUMAN	hypothetical protein LOC389337	93	DH.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0																		---	---	---	---
PPARGC1B	133522	broad.mit.edu	37	5	149206304	149206304	+	Silent	SNP	C	T	T	rs141027780	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149206304C>T	uc003lrc.2	+	3	363	c.321C>T	c.(319-321)GAC>GAT	p.D107D	PPARGC1B_uc003lrb.1_Silent_p.D107D|PPARGC1B_uc003lrd.2_Silent_p.D107D|PPARGC1B_uc003lrf.2_Silent_p.D86D|PPARGC1B_uc003lre.1_Silent_p.D86D	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	107					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)															---	---	---	---
PDE6A	5145	broad.mit.edu	37	5	149242740	149242740	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149242740G>A	uc003lrg.3	-	21	2568	c.2448C>T	c.(2446-2448)TAC>TAT	p.Y816Y		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A	816					cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)															---	---	---	---
SLC26A2	1836	broad.mit.edu	37	5	149360038	149360038	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149360038C>T	uc003lrh.2	+	3	1150	c.882C>T	c.(880-882)TTC>TTT	p.F294F		NM_000112	NP_000103	P50443	S26A2_HUMAN	solute carrier family 26 member 2	294	Extracellular (Potential).					integral to plasma membrane|membrane fraction	secondary active sulfate transmembrane transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)															---	---	---	---
CSF1R	1436	broad.mit.edu	37	5	149439266	149439266	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149439266C>T	uc003lrl.2	-	14	2324	c.2129G>A	c.(2128-2130)CGC>CAC	p.R710H	CSF1R_uc011dcd.1_Intron|CSF1R_uc010jhc.2_Intron|CSF1R_uc003lrm.2_Missense_Mutation_p.R710H	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	710	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)													---	---	---	---
CSF1R	1436	broad.mit.edu	37	5	149441338	149441338	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149441338C>T	uc003lrl.2	-	11	1896	c.1701G>A	c.(1699-1701)ACG>ACA	p.T567T	CSF1R_uc011dcd.1_Silent_p.T419T|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Silent_p.T567T	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	567	Cytoplasmic (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)													---	---	---	---
CSF1R	1436	broad.mit.edu	37	5	149447825	149447825	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149447825C>T	uc003lrl.2	-	10	1774	c.1579G>A	c.(1579-1581)GCC>ACC	p.A527T	CSF1R_uc011dcd.1_Missense_Mutation_p.A379T|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Missense_Mutation_p.A527T	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	527	Helical; (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)													---	---	---	---
CSF1R	1436	broad.mit.edu	37	5	149459840	149459840	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149459840C>T	uc003lrl.2	-	3	562	c.367G>A	c.(367-369)GCA>ACA	p.A123T	CSF1R_uc011dcd.1_5'UTR|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Missense_Mutation_p.A123T|CSF1R_uc011dce.1_Missense_Mutation_p.A123T|CSF1R_uc011dcf.1_Missense_Mutation_p.A123T	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	123	Extracellular (Potential).|Ig-like C2-type 2.				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)													---	---	---	---
PDGFRB	5159	broad.mit.edu	37	5	149501454	149501454	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149501454T>C	uc003lro.2	-	16	2802	c.2333A>G	c.(2332-2334)TAC>TGC	p.Y778C	PDGFRB_uc010jhd.2_Missense_Mutation_p.Y617C	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	778	Cytoplasmic (Potential).|Protein kinase.				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								---	---	---	---
CAMK2A	815	broad.mit.edu	37	5	149631348	149631348	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149631348G>A	uc003lru.2	-	9	873	c.658C>T	c.(658-660)CGC>TGC	p.R220C	CAMK2A_uc003lrt.2_Missense_Mutation_p.R220C|CAMK2A_uc010jhe.2_Missense_Mutation_p.R200C|CAMK2A_uc010jhf.1_Silent_p.T57T	NM_171825	NP_741960	Q9UQM7	KCC2A_HUMAN	calcium/calmodulin-dependent protein kinase II	220	Protein kinase.				interferon-gamma-mediated signaling pathway|positive regulation of NF-kappaB transcription factor activity|synaptic transmission	cell junction|cytosol|endocytic vesicle membrane|nucleoplasm|presynaptic membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)	1		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
TCOF1	6949	broad.mit.edu	37	5	149775932	149775932	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149775932C>T	uc003lry.2	+	24	3977	c.3869C>T	c.(3868-3870)GCG>GTG	p.A1290V	TCOF1_uc011dch.1_Missense_Mutation_p.A1253V|TCOF1_uc003lrz.2_Missense_Mutation_p.A1252V|TCOF1_uc003lrx.2_Missense_Mutation_p.A1214V|TCOF1_uc003lsa.2_Missense_Mutation_p.A1213V	NM_001135243	NP_001128715	Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	1290					skeletal system development	nucleolus	protein binding|transporter activity			ovary(2)|large_intestine(1)	3		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
NDST1	3340	broad.mit.edu	37	5	149907766	149907766	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149907766G>A	uc003lsk.3	+	3	1416	c.914G>A	c.(913-915)CGC>CAC	p.R305H	NDST1_uc011dcj.1_Missense_Mutation_p.R305H|NDST1_uc003lsl.2_Missense_Mutation_p.R305H	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	305	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
ANXA6	309	broad.mit.edu	37	5	150489327	150489327	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150489327C>T	uc003ltl.1	-	22	1823	c.1671G>A	c.(1669-1671)CCG>CCA	p.P557P	ANXA6_uc011dcp.1_Silent_p.P525P|ANXA6_uc003ltm.1_Silent_p.P551P|ANXA6_uc003ltn.1_Silent_p.P344P|ANXA6_uc003lto.1_Silent_p.P144P	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1	557	Annexin 7.					melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
ANXA6	309	broad.mit.edu	37	5	150509077	150509077	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150509077C>T	uc003ltl.1	-	12	961	c.809G>A	c.(808-810)CGG>CAG	p.R270Q	ANXA6_uc011dcp.1_Missense_Mutation_p.R238Q|ANXA6_uc003ltm.1_Missense_Mutation_p.R270Q|ANXA6_uc003ltn.1_Intron|ANXA6_uc003lto.1_Intron	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1	270	Annexin 4.					melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
FAT2	2196	broad.mit.edu	37	5	150885564	150885564	+	Silent	SNP	C	T	T	rs142209223	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150885564C>T	uc003lue.3	-	23	12625	c.12612G>A	c.(12610-12612)CCG>CCA	p.P4204P	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Silent_p.P811P	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	4204	Cytoplasmic (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
FAT2	2196	broad.mit.edu	37	5	150897291	150897291	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150897291G>A	uc003lue.3	-	19	11366	c.11353C>T	c.(11353-11355)CGG>TGG	p.R3785W	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.R478W	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3785	Extracellular (Potential).|Laminin G-like.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
FAT2	2196	broad.mit.edu	37	5	150922506	150922506	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150922506G>A	uc003lue.3	-	9	8195	c.8182C>T	c.(8182-8184)CGG>TGG	p.R2728W	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	2728	Cadherin 24.|Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
SPARC	6678	broad.mit.edu	37	5	151043671	151043671	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:151043671G>A	uc003luh.2	-	8	884	c.860C>T	c.(859-861)GCC>GTC	p.A287V	GM2A_uc011dcs.1_Intron|SPARC_uc003lug.2_Missense_Mutation_p.A121V|SPARC_uc003lui.2_Missense_Mutation_p.A287V	NM_003118	NP_003109	P09486	SPRC_HUMAN	secreted protein, acidic, cysteine-rich	287	EF-hand.				ossification|platelet activation|platelet degranulation|signal transduction	basement membrane|extracellular space|platelet alpha granule lumen	calcium ion binding|collagen binding			central_nervous_system(1)	1		Medulloblastoma(196;0.109)|all_hematologic(541;0.122)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)	OV - Ovarian serous cystadenocarcinoma(192;0.00118)	Becaplermin(DB00102)													---	---	---	---
HAND1	9421	broad.mit.edu	37	5	153857252	153857252	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:153857252C>T	uc003lvn.2	-	1	573	c.317G>A	c.(316-318)CGC>CAC	p.R106H		NM_004821	NP_004812	O96004	HAND1_HUMAN	basic helix-loop-helix transcription factor	106	Basic motif.				angiogenesis|cardiac left ventricle formation|cardiac right ventricle formation|cardiac septum morphogenesis|heart looping|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|trophectodermal cell differentiation|ventricular cardiac muscle tissue morphogenesis	cytoplasm|nucleolus|nucleoplasm	bHLH transcription factor binding|DNA binding|protein homodimerization activity|transcription coactivator activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)															---	---	---	---
GEMIN5	25929	broad.mit.edu	37	5	154292517	154292517	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154292517G>A	uc003lvx.3	-	14	2020	c.1937C>T	c.(1936-1938)GCG>GTG	p.A646V	GEMIN5_uc011ddk.1_Missense_Mutation_p.A645V	NM_015465	NP_056280	Q8TEQ6	GEMI5_HUMAN	gemin 5	646	WD 12.				ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding			skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)															---	---	---	---
KIF4B	285643	broad.mit.edu	37	5	154393675	154393675	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154393675G>A	uc010jih.1	+	1	416	c.256G>A	c.(256-258)GCC>ACC	p.A86T		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	86	Kinesin-motor.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)															---	---	---	---
TIMD4	91937	broad.mit.edu	37	5	156375417	156375417	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156375417G>A	uc003lwh.2	-						TIMD4_uc010jii.2_Intron	NM_138379	NP_612388			T-cell immunoglobulin and mucin domain							integral to membrane				ovary(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)															---	---	---	---
TIMD4	91937	broad.mit.edu	37	5	156378680	156378680	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156378680T>C	uc003lwh.2	-	3	579	c.522A>G	c.(520-522)ACA>ACG	p.T174T	TIMD4_uc010jii.2_Silent_p.T174T	NM_138379	NP_612388	Q96H15	TIMD4_HUMAN	T-cell immunoglobulin and mucin domain	174	Extracellular (Potential).|Thr-rich.					integral to membrane				ovary(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)															---	---	---	---
CYFIP2	26999	broad.mit.edu	37	5	156751021	156751021	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156751021C>A	uc003lwq.2	+	18	1902	c.1764C>A	c.(1762-1764)GTC>GTA	p.V588V	CYFIP2_uc011ddn.1_Silent_p.V562V|CYFIP2_uc011ddo.1_Silent_p.V392V|CYFIP2_uc003lwr.2_Silent_p.V588V|CYFIP2_uc003lws.2_Silent_p.V588V|CYFIP2_uc003lwt.2_Silent_p.V491V|CYFIP2_uc011ddp.1_Silent_p.V322V	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	613					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)															---	---	---	---
SOX30	11063	broad.mit.edu	37	5	157053375	157053375	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:157053375T>C	uc003lxb.1	-	5	2577	c.2235A>G	c.(2233-2235)GAA>GAG	p.E745E	SOX30_uc003lxc.1_3'UTR|SOX30_uc011dds.1_Silent_p.E440E	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	745					regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|response to corticosteroid stimulus|transcription, DNA-dependent	nucleus|nucleus	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)|central_nervous_system(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)															---	---	---	---
THG1L	54974	broad.mit.edu	37	5	157159916	157159916	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:157159916C>T	uc003lxd.2	+	2	358	c.232C>T	c.(232-234)CGT>TGT	p.R78C	THG1L_uc011ddu.1_5'UTR	NM_017872	NP_060342	Q9NWX6	THG1_HUMAN	interphase cytoplasmic foci protein 45	78					protein homotetramerization|tRNA modification	mitochondrion	GTP binding|metal ion binding|tRNA guanylyltransferase activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)															---	---	---	---
ADRA1B	147	broad.mit.edu	37	5	159344141	159344141	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:159344141C>T	uc003lxt.1	+	1	402	c.229C>T	c.(229-231)CGG>TGG	p.R77W		NM_000679	NP_000670	P35368	ADA1B_HUMAN	alpha-1B-adrenergic receptor	77	Cytoplasmic (By similarity).				cell proliferation|cell-cell signaling|G-protein signaling, coupled to cAMP nucleotide second messenger|intracellular protein kinase cascade	integral to plasma membrane	alpha1-adrenergic receptor activity			lung(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Modafinil(DB00745)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Olanzapine(DB00334)|Phendimetrazine(DB01579)|Phenylephrine(DB00388)|Prazosin(DB00457)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Trazodone(DB00656)													---	---	---	---
CCNJL	79616	broad.mit.edu	37	5	159680757	159680757	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:159680757G>A	uc003lyb.1	-	7	1188	c.936C>T	c.(934-936)GCC>GCT	p.A312A	CCNJL_uc011dee.1_Silent_p.A264A|CCNJL_uc003lyc.1_RNA	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	312						nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)															---	---	---	---
HMMR	3161	broad.mit.edu	37	5	162910329	162910329	+	Missense_Mutation	SNP	C	T	T	rs140371330	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:162910329C>T	uc003lzf.2	+	15	1920	c.1738C>T	c.(1738-1740)CGT>TGT	p.R580C	HMMR_uc003lzh.2_Missense_Mutation_p.R581C|HMMR_uc003lzg.2_Missense_Mutation_p.R565C|HMMR_uc011dem.1_Missense_Mutation_p.R494C|uc003lzi.2_Intron	NM_012484	NP_036616	O75330	HMMR_HUMAN	hyaluronan-mediated motility receptor isoform b	580						cell surface|cytoplasm	hyaluronic acid binding				0	Renal(175;0.000281)	Medulloblastoma(196;0.00853)|all_neural(177;0.0408)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0296)|OV - Ovarian serous cystadenocarcinoma(192;0.0423)|Epithelial(171;0.0848)														---	---	---	---
ODZ2	57451	broad.mit.edu	37	5	167645893	167645893	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167645893G>C	uc010jjd.2	+	23	4970	c.4970G>C	c.(4969-4971)GGC>GCC	p.G1657A	ODZ2_uc003lzr.3_Missense_Mutation_p.G1427A|ODZ2_uc003lzt.3_Missense_Mutation_p.G1030A|ODZ2_uc010jje.2_Missense_Mutation_p.G921A	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)														---	---	---	---
ODZ2	57451	broad.mit.edu	37	5	167673925	167673925	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167673925C>T	uc010jjd.2	+	27	5954	c.5954C>T	c.(5953-5955)GCT>GTT	p.A1985V	ODZ2_uc003lzr.3_Missense_Mutation_p.A1755V|ODZ2_uc003lzt.3_Missense_Mutation_p.A1358V|ODZ2_uc010jje.2_Missense_Mutation_p.A1249V	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)														---	---	---	---
RARS	5917	broad.mit.edu	37	5	167944920	167944920	+	Missense_Mutation	SNP	C	T	T	rs147793623		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167944920C>T	uc003lzx.2	+	14	1767	c.1726C>T	c.(1726-1728)CGG>TGG	p.R576W	RARS_uc011deo.1_Missense_Mutation_p.R370W	NM_002887	NP_002878	P54136	SYRC_HUMAN	arginyl-tRNA synthetase	576					arginyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|skin(1)	3	Renal(175;0.000159)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0208)|all_neural(177;0.0227)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0693)|Epithelial(171;0.131)|OV - Ovarian serous cystadenocarcinoma(192;0.156)														---	---	---	---
DOCK2	1794	broad.mit.edu	37	5	169230209	169230209	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169230209C>T	uc003maf.2	+	26	2782	c.2702C>T	c.(2701-2703)GCG>GTG	p.A901V	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.A393V	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	901					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)															---	---	---	---
DOCK2	1794	broad.mit.edu	37	5	169463553	169463553	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169463553A>G	uc003maf.2	+	36	3739	c.3659A>G	c.(3658-3660)TAC>TGC	p.Y1220C	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.Y712C	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1220	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)															---	---	---	---
FOXI1	2299	broad.mit.edu	37	5	169535053	169535053	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169535053G>A	uc003mai.3	+	2	620	c.575G>A	c.(574-576)GGC>GAC	p.G192D	FOXI1_uc003maj.3_Intron	NM_012188	NP_036320	Q12951	FOXI1_HUMAN	forkhead box I1 isoform a	192	Fork-head.				epidermal cell fate specification|otic placode formation|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0267)|all_lung(126;0.04)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)											Pendred_syndrome				---	---	---	---
NPM1	4869	broad.mit.edu	37	5	170833403	170833403	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:170833403G>A	uc011dex.1	+						NPM1_uc003mbh.2_Silent_p.A258A|NPM1_uc003mbi.2_Intron|NPM1_uc003mbj.2_Intron	NM_002520	NP_002511			nucleophosmin 1 isoform 1						anti-apoptosis|cell aging|CenH3-containing nucleosome assembly at centromere|centrosome cycle|DNA repair|interspecies interaction between organisms|intracellular protein transport|negative regulation of cell proliferation|negative regulation of centrosome duplication|nucleocytoplasmic transport|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|regulation of endodeoxyribonuclease activity|regulation of endoribonuclease activity|ribosome assembly|signal transduction	nucleolus|nucleoplasm|ribonucleoprotein complex|spindle pole centrosome	histone binding|NF-kappaB binding|protein binding|protein heterodimerization activity|protein homodimerization activity|ribosomal large subunit binding|ribosomal small subunit binding|RNA binding|Tat protein binding|transcription coactivator activity|unfolded protein binding		NPM1/ALK(632)	haematopoietic_and_lymphoid_tissue(3109)|skin(1)	3110	Renal(175;0.000159)|Lung NSC(126;0.00576)|all_lung(126;0.00963)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)					T|F 	ALK|RARA|MLF1	NHL|APL|AML								---	---	---	---
SH3PXD2B	285590	broad.mit.edu	37	5	171777377	171777377	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:171777377G>A	uc003mbr.2	-	10	1173	c.1002C>T	c.(1000-1002)GAC>GAT	p.D334D		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	334					adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)															---	---	---	---
CPEB4	80315	broad.mit.edu	37	5	173317732	173317732	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:173317732G>A	uc003mcs.3	+	1	2402	c.996G>A	c.(994-996)TCG>TCA	p.S332S	CPEB4_uc010jju.1_Silent_p.S332S|CPEB4_uc010jjv.2_Silent_p.S332S|CPEB4_uc011dfg.1_Silent_p.S332S|CPEB4_uc003mct.3_5'Flank|CPEB4_uc003mcu.3_5'Flank	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	332							nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)															---	---	---	---
CPEB4	80315	broad.mit.edu	37	5	173383101	173383101	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:173383101C>T	uc003mcs.3	+	10	3557	c.2151C>T	c.(2149-2151)GGC>GGT	p.G717G	CPEB4_uc010jjv.2_Silent_p.G700G|CPEB4_uc011dfg.1_Silent_p.G692G|CPEB4_uc003mct.3_Silent_p.G327G|CPEB4_uc003mcu.3_Silent_p.G310G	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	717							nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)															---	---	---	---
CPLX2	10814	broad.mit.edu	37	5	175306958	175306958	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175306958C>T	uc003mde.1	+	5	661	c.315C>T	c.(313-315)TGC>TGT	p.C105C	CPLX2_uc003mdf.1_Silent_p.C105C	NM_006650	NP_006641	Q6PUV4	CPLX2_HUMAN	complexin 2	105					mast cell degranulation|positive regulation of synaptic plasticity|vesicle docking involved in exocytosis	cytosol		p.C105C(1)		ovary(1)	1	all_cancers(89;0.004)|Renal(175;0.000269)|Lung NSC(126;0.00441)|all_lung(126;0.00747)	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;0.000183)															---	---	---	---
FAF2	23197	broad.mit.edu	37	5	175919216	175919216	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175919216G>A	uc003mej.3	+	5	419	c.366G>A	c.(364-366)CGG>CGA	p.R122R		NM_014613	NP_055428	Q96CS3	FAF2_HUMAN	UBX domain containing 8	122					response to unfolded protein	endoplasmic reticulum|lipid particle	protein binding			ovary(1)	1																		---	---	---	---
CDHR2	54825	broad.mit.edu	37	5	176011688	176011688	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176011688C>T	uc003mem.1	+	19	2472	c.2406C>T	c.(2404-2406)AAC>AAT	p.N802N	CDHR2_uc003men.1_Silent_p.N802N	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	802	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2																		---	---	---	---
NSD1	64324	broad.mit.edu	37	5	176638555	176638555	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176638555G>A	uc003mfr.3	+	5	3293	c.3155G>A	c.(3154-3156)CGC>CAC	p.R1052H	NSD1_uc003mft.3_Missense_Mutation_p.R783H|NSD1_uc003mfs.1_Missense_Mutation_p.R949H|NSD1_uc011dfx.1_Missense_Mutation_p.R700H	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1052					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)				T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			---	---	---	---
NSD1	64324	broad.mit.edu	37	5	176638998	176638998	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176638998C>T	uc003mfr.3	+	5	3736	c.3598C>T	c.(3598-3600)CGG>TGG	p.R1200W	NSD1_uc003mft.3_Missense_Mutation_p.R931W|NSD1_uc003mfs.1_Missense_Mutation_p.R1097W|NSD1_uc011dfx.1_Missense_Mutation_p.R848W	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1200					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)				T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			---	---	---	---
NSD1	64324	broad.mit.edu	37	5	176665366	176665366	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176665366G>A	uc003mfr.3	+	7	4188	c.4050G>A	c.(4048-4050)CCG>CCA	p.P1350P	NSD1_uc003mft.3_Silent_p.P1081P|NSD1_uc003mfs.1_Silent_p.P1247P|NSD1_uc011dfx.1_Silent_p.P998P	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1350					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)				T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			---	---	---	---
DDX41	51428	broad.mit.edu	37	5	176941755	176941755	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176941755G>A	uc003mho.2	-	9	903	c.882C>T	c.(880-882)TGC>TGT	p.C294C	DDX41_uc003mhm.2_Silent_p.C74C|DDX41_uc003mhn.2_Silent_p.C163C|DDX41_uc003mhp.2_Silent_p.C163C|DDX41_uc003mhq.1_Silent_p.C74C	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	294	Helicase ATP-binding.				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)															---	---	---	---
FAM193B	54540	broad.mit.edu	37	5	176965990	176965990	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176965990G>A	uc003mhs.3	-	3	1619	c.30C>T	c.(28-30)GGC>GGT	p.G10G	FAM193B_uc003mht.2_5'Flank|FAM193B_uc003mhu.2_5'Flank|FAM193B_uc003mhv.2_5'UTR|FAM193B_uc003mhw.2_RNA	NM_019057	NP_061930	E9PET5	E9PET5_HUMAN	hypothetical protein LOC54540	123											0																		---	---	---	---
B4GALT7	11285	broad.mit.edu	37	5	177035954	177035954	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177035954G>A	uc003mhy.2	+	5	807	c.767G>A	c.(766-768)CGC>CAC	p.R256H	B4GALT7_uc003mhz.2_Missense_Mutation_p.R142H	NM_007255	NP_009186	Q9UBV7	B4GT7_HUMAN	xylosylprotein beta 1,4-galactosyltransferase 7	256	Lumenal (Potential).				fibril organization|glycosaminoglycan biosynthetic process|negative regulation of fibroblast proliferation|protein modification process|proteoglycan metabolic process	Golgi cisterna membrane|integral to membrane	metal ion binding|xylosylprotein 4-beta-galactosyltransferase activity			pancreas(1)	1	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)															---	---	---	---
CLK4	57396	broad.mit.edu	37	5	178032359	178032359	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178032359C>T	uc003mjf.1	-	11	1267	c.1159G>A	c.(1159-1161)GCA>ACA	p.A387T	CLK4_uc003mjg.1_Missense_Mutation_p.A351T|CLK4_uc010jku.1_Missense_Mutation_p.A207T|CLK4_uc003mjh.1_Missense_Mutation_p.A207T|CLK4_uc010jkv.1_RNA|CLK4_uc011dgg.1_Intron|CLK4_uc011dgh.1_Missense_Mutation_p.A207T	NM_020666	NP_065717	Q9HAZ1	CLK4_HUMAN	CDC-like kinase 4	387	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(1)	1	all_cancers(89;0.000969)|Renal(175;0.000159)|all_epithelial(37;0.000451)|Lung NSC(126;0.00545)|all_lung(126;0.00918)	all_cancers(40;0.0272)|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;0.235)														---	---	---	---
RUFY1	80230	broad.mit.edu	37	5	178987036	178987036	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178987036C>T	uc003mka.1	+	2	321	c.321C>T	c.(319-321)TGC>TGT	p.C107C	RUFY1_uc003mkb.1_5'UTR|RUFY1_uc003mkc.1_5'UTR	NM_025158	NP_079434	Q96T51	RUFY1_HUMAN	RUN and FYVE domain-containing 1 isoform a	107					endocytosis|protein transport	early endosome membrane	lipid binding|zinc ion binding			ovary(4)|breast(1)	5	all_cancers(89;0.00018)|all_epithelial(37;8.37e-05)|Renal(175;0.000159)|Lung NSC(126;0.00108)|all_lung(126;0.00195)	all_cancers(40;0.0322)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)												HNSCC(44;0.11)			---	---	---	---
MGAT4B	11282	broad.mit.edu	37	5	179228442	179228442	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179228442G>A	uc003mks.2	-	4	819	c.450C>T	c.(448-450)AGC>AGT	p.S150S	MGAT4B_uc003mkp.2_Silent_p.S5S|MGAT4B_uc003mkq.2_Silent_p.S5S|MGAT4B_uc003mkr.2_Silent_p.S165S	NM_014275	NP_055090	Q9UQ53	MGT4B_HUMAN	alpha-1,3-mannosyl-glycoprotein	150	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding				0	all_cancers(89;0.000201)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0525)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)															---	---	---	---
SQSTM1	8878	broad.mit.edu	37	5	179250014	179250014	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179250014T>C	uc003mkw.3	+	2	357	c.262T>C	c.(262-264)TCC>CCC	p.S88P	SQSTM1_uc011dgr.1_Missense_Mutation_p.S4P|SQSTM1_uc011dgs.1_Missense_Mutation_p.S4P|SQSTM1_uc003mkv.3_Missense_Mutation_p.S88P|SQSTM1_uc003mkx.2_Missense_Mutation_p.S4P	NM_003900	NP_003891	Q13501	SQSTM_HUMAN	sequestosome 1 isoform 1	88	OPR.|Interaction with PRKCZ and dimerization (By similarity).				anti-apoptosis|apoptosis|cell differentiation|endosome transport|induction of apoptosis by extracellular signals|intracellular signal transduction|macroautophagy|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein localization|regulation of I-kappaB kinase/NF-kappaB cascade|ubiquitin-dependent protein catabolic process	cytosol|late endosome|nucleoplasm	protein kinase C binding|receptor tyrosine kinase binding|SH2 domain binding|ubiquitin binding|zinc ion binding		SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(89;0.000205)|all_epithelial(37;7.15e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0395)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)											Paget_Disease_of_Bone				---	---	---	---
C5orf45	51149	broad.mit.edu	37	5	179268896	179268896	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179268896G>A	uc003mla.2	-						C5orf45_uc003mky.2_Intron|C5orf45_uc011dgt.1_Intron|C5orf45_uc011dgu.1_Intron|C5orf45_uc003mlc.2_Intron|C5orf45_uc003mlb.2_Intron	NM_016175	NP_057259			hypothetical protein LOC51149 isoform 1												0																		---	---	---	---
MAPK9	5601	broad.mit.edu	37	5	179676011	179676011	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179676011G>A	uc003mls.3	-	6	849	c.578C>T	c.(577-579)GCG>GTG	p.A193V	MAPK9_uc003mlt.3_Missense_Mutation_p.A193V|MAPK9_uc010jlc.2_Missense_Mutation_p.A193V|MAPK9_uc003mlv.3_Missense_Mutation_p.A193V|MAPK9_uc011dgx.1_Missense_Mutation_p.A193V	NM_002752	NP_002743	P45984	MK09_HUMAN	mitogen-activated protein kinase 9 isoform JNK2	193	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|protein binding|protein binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)	4	all_cancers(89;6.54e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0236)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)															---	---	---	---
GFPT2	9945	broad.mit.edu	37	5	179745956	179745956	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179745956G>A	uc003mlw.1	-	10	893	c.795C>T	c.(793-795)AGC>AGT	p.S265S		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	265	Glutamine amidotransferase type-2.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)													---	---	---	---
CNOT6	57472	broad.mit.edu	37	5	179992901	179992901	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179992901C>T	uc003mlx.2	+	7	990	c.641C>T	c.(640-642)GCG>GTG	p.A214V	CNOT6_uc010jld.2_Missense_Mutation_p.A214V|CNOT6_uc010jle.2_Missense_Mutation_p.A209V	NM_015455	NP_056270	Q9ULM6	CNOT6_HUMAN	CCR4-NOT transcription complex, subunit 6	214					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	exonuclease activity|metal ion binding|protein binding|RNA binding				0	all_cancers(89;3.3e-05)|all_epithelial(37;7.38e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00543)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.023)														---	---	---	---
EXOC2	55770	broad.mit.edu	37	6	549284	549284	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:549284C>T	uc003mtd.2	-	22	2263	c.2129G>A	c.(2128-2130)CGC>CAC	p.R710H	EXOC2_uc003mte.2_Missense_Mutation_p.R710H|EXOC2_uc011dho.1_Missense_Mutation_p.R305H	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	710					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)														---	---	---	---
EXOC2	55770	broad.mit.edu	37	6	576783	576783	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:576783C>A	uc003mtd.2	-	12	1426	c.1292G>T	c.(1291-1293)AGC>ATC	p.S431I	EXOC2_uc003mte.2_Missense_Mutation_p.S431I|EXOC2_uc011dho.1_Missense_Mutation_p.S26I	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	431					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)														---	---	---	---
MYLK4	340156	broad.mit.edu	37	6	2671523	2671523	+	3'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:2671523G>A	uc003mty.3	-	12					MYLK4_uc003mtx.3_3'UTR	NM_001012418	NP_001012418			myosin light chain kinase family, member 4								ATP binding|protein serine/threonine kinase activity			breast(3)|ovary(1)	4	Ovarian(93;0.0412)	all_hematologic(90;0.0897)																---	---	---	---
WRNIP1	56897	broad.mit.edu	37	6	2785298	2785298	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:2785298T>C	uc003mtz.2	+	7	1971	c.1780T>C	c.(1780-1782)TAC>CAC	p.Y594H	WRNIP1_uc003mua.2_Missense_Mutation_p.Y569H	NM_020135	NP_064520	Q96S55	WRIP1_HUMAN	Werner helicase interacting protein isoform 1	594					DNA replication|DNA synthesis involved in DNA repair|regulation of DNA-dependent DNA replication initiation	mitochondrion|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|DNA binding|metal ion binding|protein binding			ovary(1)|pancreas(1)	2	Ovarian(93;0.0412)	all_hematologic(90;0.0895)																---	---	---	---
SERPINB9	5272	broad.mit.edu	37	6	2900805	2900805	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:2900805C>T	uc003mug.2	-	2	162	c.41G>A	c.(40-42)CGC>CAC	p.R14H	uc003mue.2_RNA|SERPINB9_uc003muh.2_Missense_Mutation_p.R14H	NM_004155	NP_004146	P50453	SPB9_HUMAN	serpin peptidase inhibitor, clade B, member 9	14					anti-apoptosis|cellular response to estrogen stimulus|immune response|mast cell mediated immunity|regulation of proteolysis	cytosol|extracellular space|nucleus	caspase inhibitor activity|protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.108)																---	---	---	---
RIPK1	8737	broad.mit.edu	37	6	3083441	3083441	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:3083441G>A	uc010jni.2	+	5	814	c.582G>A	c.(580-582)GCG>GCA	p.A194A	RIPK1_uc003muv.3_Silent_p.A31A|RIPK1_uc003muw.3_Silent_p.A129A|RIPK1_uc011dhs.1_Silent_p.A148A|RIPK1_uc003mux.2_Silent_p.A194A	NM_003804	NP_003795	Q13546	RIPK1_HUMAN	receptor (TNFRSF)-interacting serine-threonine	194	Protein kinase.				activation of caspase activity|activation of JUN kinase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|induction of necroptosis by extracellular signals|innate immune response|MyD88-independent toll-like receptor signaling pathway|positive regulation of anti-apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|protein autophosphorylation|regulation of ATP:ADP antiporter activity|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|death-inducing signaling complex|endosome membrane|mitochondrion|receptor complex	ATP binding|death domain binding|death receptor binding|protein serine/threonine kinase activity			large_intestine(3)|lung(1)|skin(1)	5	Ovarian(93;0.0386)	all_hematologic(90;0.0895)																---	---	---	---
FAM50B	26240	broad.mit.edu	37	6	3850869	3850869	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:3850869G>A	uc003mvu.2	+	2	936	c.824G>A	c.(823-825)CGC>CAC	p.R275H		NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	275						nucleus				pancreas(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)																---	---	---	---
CDYL	9425	broad.mit.edu	37	6	4935874	4935874	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:4935874C>T	uc003mwi.2	+	5	1110	c.979C>T	c.(979-981)CGA>TGA	p.R327*	CDYL_uc003mwj.2_Nonsense_Mutation_p.R273*|CDYL_uc003mwk.2_Nonsense_Mutation_p.R38*|CDYL_uc011dhx.1_Nonsense_Mutation_p.R141*|CDYL_uc011dhy.1_Nonsense_Mutation_p.R141*	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	327					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)														---	---	---	---
FARS2	10667	broad.mit.edu	37	6	5368994	5368994	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:5368994G>A	uc010jnv.1	+	2	527	c.191G>A	c.(190-192)AGC>AAC	p.S64N	FARS2_uc003mwr.2_Missense_Mutation_p.S64N|FARS2_uc003mws.1_Missense_Mutation_p.S64N	NM_006567	NP_006558	O95363	SYFM_HUMAN	phenylalanyl-tRNA synthetase 2 precursor	64					phenylalanyl-tRNA aminoacylation|tRNA processing	mitochondrial matrix|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0	Ovarian(93;0.11)	all_hematologic(90;0.0104)			L-Phenylalanine(DB00120)													---	---	---	---
NRN1	51299	broad.mit.edu	37	6	6002648	6002648	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:6002648G>A	uc003mwu.2	-	2	789	c.138C>T	c.(136-138)GGC>GGT	p.G46G	NRN1_uc003mwt.2_Silent_p.G72G	NM_016588	NP_057672	Q9NPD7	NRN1_HUMAN	neuritin precursor	46						anchored to membrane|plasma membrane					0	Ovarian(93;0.0816)	all_hematologic(90;0.151)		OV - Ovarian serous cystadenocarcinoma(45;0.00415)														---	---	---	---
RREB1	6239	broad.mit.edu	37	6	7229286	7229286	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7229286C>T	uc003mxc.2	+	10	1344	c.954C>T	c.(952-954)TGC>TGT	p.C318C	RREB1_uc003mxb.2_Silent_p.C318C|RREB1_uc010jnx.2_Silent_p.C318C	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	318	C2H2-type 6.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)																---	---	---	---
RREB1	6239	broad.mit.edu	37	6	7229303	7229303	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7229303C>T	uc003mxc.2	+	10	1361	c.971C>T	c.(970-972)GCG>GTG	p.A324V	RREB1_uc003mxb.2_Missense_Mutation_p.A324V|RREB1_uc010jnx.2_Missense_Mutation_p.A324V	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	324	C2H2-type 6.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)																---	---	---	---
RREB1	6239	broad.mit.edu	37	6	7247285	7247285	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7247285C>T	uc003mxc.2	+	11	4827	c.4437C>T	c.(4435-4437)AGC>AGT	p.S1479S	RREB1_uc003mxb.2_Silent_p.S1534S|RREB1_uc010jnx.2_Intron	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1479					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)																---	---	---	---
DSP	1832	broad.mit.edu	37	6	7583315	7583315	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7583315T>C	uc003mxp.1	+	24	6099	c.5820T>C	c.(5818-5820)GAT>GAC	p.D1940D	DSP_uc003mxq.1_Silent_p.D1341D	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	1940	Central fibrous rod domain.|Potential.				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)														---	---	---	---
DSP	1832	broad.mit.edu	37	6	7584793	7584793	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7584793G>A	uc003mxp.1	+	24	7577	c.7298G>A	c.(7297-7299)TGC>TAC	p.C2433Y	DSP_uc003mxq.1_Missense_Mutation_p.C1834Y	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2433	Plectin 11.|Globular 2.				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)														---	---	---	---
SNRNP48	154007	broad.mit.edu	37	6	7606353	7606353	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7606353G>T	uc003mxr.2	+	8	955	c.896G>T	c.(895-897)AGG>ATG	p.R299M	SNRNP48_uc003mxs.2_RNA|SNRNP48_uc003mxt.1_Missense_Mutation_p.R51M	NM_152551	NP_689764	Q6IEG0	SNR48_HUMAN	U11/U12 snRNP 48K	299	Arg-rich.				mRNA processing	cytoplasm|U12-type spliceosomal complex	metal ion binding				0																		---	---	---	---
SLC35B3	51000	broad.mit.edu	37	6	8428259	8428259	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:8428259G>A	uc010joe.2	-	4	496	c.330C>T	c.(328-330)TCC>TCT	p.S110S	SLC35B3_uc003mya.2_Silent_p.S78S|SLC35B3_uc003myc.2_RNA|SLC35B3_uc003myb.2_Silent_p.S110S|SLC35B3_uc011did.1_Silent_p.S110S|SLC35B3_uc003myd.2_RNA	NM_001142541	NP_001136013	Q9H1N7	S35B3_HUMAN	solute carrier family 35, member B3	110					transmembrane transport	Golgi membrane|integral to membrane					0	Ovarian(93;0.0569)																	---	---	---	---
Unknown	0	broad.mit.edu	37	6	9933039	9933039	+	RNA	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:9933039G>C	uc003myg.1	-	2		c.208C>G			uc010jog.1_Missense_Mutation_p.Q49E|uc003myh.1_Missense_Mutation_p.Q74E|uc003myj.1_Missense_Mutation_p.Q74E|uc003myk.1_RNA|uc003myn.2_Missense_Mutation_p.Q74E|uc010joi.1_Missense_Mutation_p.Q142E|uc010joh.1_RNA|uc011dif.1_Missense_Mutation_p.Q74E|uc011dig.1_Missense_Mutation_p.Q74E					Homo sapiens clone 958LR MRDS1 protein (MRDS1) mRNA, complete cds.																														---	---	---	---
GCNT2	2651	broad.mit.edu	37	6	10586430	10586430	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10586430C>T	uc010joo.2	+						GCNT2_uc010jol.2_Intron|GCNT2_uc010jom.2_Intron|GCNT2_uc010jop.2_Intron|GCNT2_uc003mza.2_Intron|GCNT2_uc003mzc.3_Intron|GCNT2_uc003mzd.2_Intron|GCNT2_uc003mze.2_Nonsense_Mutation_p.R70*	NM_145649	NP_663624			glucosaminyl (N-acetyl) transferase 2,							Golgi membrane|integral to membrane	N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(2)	2	Ovarian(93;0.107)|Breast(50;0.148)	all_hematologic(90;0.107)		KIRC - Kidney renal clear cell carcinoma(1;0.099)|Kidney(1;0.119)														---	---	---	---
MAK	4117	broad.mit.edu	37	6	10809075	10809075	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10809075C>T	uc003mzl.2	-	5	688	c.459G>A	c.(457-459)CAG>CAA	p.Q153Q	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Silent_p.Q153Q|MAK_uc010jov.1_RNA	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	153	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)																---	---	---	---
GCM2	9247	broad.mit.edu	37	6	10875058	10875058	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10875058G>A	uc003mzn.3	-	5	763	c.691C>T	c.(691-693)CCT>TCT	p.P231S	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	231					cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)																---	---	---	---
SYCP2L	221711	broad.mit.edu	37	6	10924769	10924769	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10924769G>A	uc003mzo.2	+	15	1409	c.1113G>A	c.(1111-1113)AAG>AAA	p.K371K	SYCP2L_uc011din.1_Silent_p.K212K|SYCP2L_uc010jow.2_5'UTR	NM_001040274	NP_001035364	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	371						nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)															---	---	---	---
SYCP2L	221711	broad.mit.edu	37	6	10924823	10924823	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10924823G>A	uc003mzo.2	+	15	1463	c.1167G>A	c.(1165-1167)TTG>TTA	p.L389L	SYCP2L_uc011din.1_Silent_p.L230L|SYCP2L_uc010jow.2_Silent_p.L9L	NM_001040274	NP_001035364	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	389						nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)															---	---	---	---
NEDD9	4739	broad.mit.edu	37	6	11190445	11190445	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:11190445C>T	uc003mzv.2	-	5	1824	c.1657G>A	c.(1657-1659)GCA>ACA	p.A553T	NEDD9_uc010joz.2_Missense_Mutation_p.A553T|NEDD9_uc003mzw.3_Missense_Mutation_p.A407T	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	553					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)															---	---	---	---
NEDD9	4739	broad.mit.edu	37	6	11193820	11193820	+	Intron	SNP	G	A	A	rs142112537	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:11193820G>A	uc003mzv.2	-						NEDD9_uc010joz.2_Intron|NEDD9_uc003mzw.3_Intron	NM_006403	NP_006394			neural precursor cell expressed, developmentally						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)															---	---	---	---
EDN1	1906	broad.mit.edu	37	6	12296243	12296243	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12296243G>T	uc003nae.3	+	5	916	c.582G>T	c.(580-582)AAG>AAT	p.K194N	EDN1_uc003nad.2_3'UTR|EDN1_uc003naf.3_Missense_Mutation_p.K193N	NM_001955	NP_001946	P05305	EDN1_HUMAN	endothelin 1 precursor	194					artery smooth muscle contraction|calcium-mediated signaling|leukocyte activation|negative regulation of blood coagulation|negative regulation of cellular protein metabolic process|negative regulation of nitric-oxide synthase biosynthetic process|negative regulation of transcription from RNA polymerase II promoter|nitric oxide transport|peptide hormone secretion|phosphatidylinositol 3-kinase cascade|positive regulation of cardiac muscle hypertrophy|positive regulation of cell size|positive regulation of endothelial cell migration|positive regulation of heart rate|positive regulation of hormone secretion|positive regulation of JUN kinase activity|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of sarcomere organization|positive regulation of smooth muscle cell proliferation|prostaglandin biosynthetic process|protein kinase C deactivation|regulation of systemic arterial blood pressure by endothelin|regulation of vasoconstriction|vein smooth muscle contraction	cytoplasm|extracellular space	cytokine activity|endothelin A receptor binding|endothelin B receptor binding|hormone activity			skin(1)	1	all_cancers(95;0.241)|Breast(50;0.0266)|Ovarian(93;0.12)	all_hematologic(90;0.117)																---	---	---	---
PHACTR1	221692	broad.mit.edu	37	6	12933967	12933967	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12933967G>A	uc010jpc.2	+						PHACTR1_uc011dir.1_Intron|PHACTR1_uc003nag.1_Intron|PHACTR1_uc003nah.1_Intron|PHACTR1_uc003nai.2_Missense_Mutation_p.G118D	NM_030948	NP_112210			phosphatase and actin regulator 1							cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)															---	---	---	---
PHACTR1	221692	broad.mit.edu	37	6	13228299	13228299	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:13228299C>T	uc010jpc.2	+						PHACTR1_uc011dir.1_Intron|PHACTR1_uc003nag.1_Intron|PHACTR1_uc003nah.1_Intron	NM_030948	NP_112210			phosphatase and actin regulator 1							cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)															---	---	---	---
RANBP9	10048	broad.mit.edu	37	6	13638133	13638133	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:13638133C>T	uc003nbb.2	-	10	1639	c.1580G>A	c.(1579-1581)TGC>TAC	p.C527Y	RANBP9_uc003nba.2_Missense_Mutation_p.C186Y	NM_005493	NP_005484	Q96S59	RANB9_HUMAN	RAN binding protein 9	527					axon guidance|microtubule nucleation|protein complex assembly	cytosol|microtubule associated complex|nucleus	Ran GTPase binding			lung(1)|skin(1)	2	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.223)															---	---	---	---
JARID2	3720	broad.mit.edu	37	6	15520488	15520488	+	3'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:15520488C>T	uc003nbj.2	+	18					JARID2_uc011div.1_3'UTR	NM_004973	NP_004964			jumonji, AT rich interactive domain 2 protein						central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)																---	---	---	---
DTNBP1	84062	broad.mit.edu	37	6	15627674	15627674	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:15627674C>T	uc003nbm.2	-	5	426	c.255G>A	c.(253-255)GCG>GCA	p.A85A	DTNBP1_uc003nbl.2_Silent_p.A4A|DTNBP1_uc003nbn.2_RNA|DTNBP1_uc003nbo.2_RNA|DTNBP1_uc003nbp.2_Silent_p.A85A|DTNBP1_uc010jph.2_Silent_p.A72A	NM_032122	NP_115498	Q96EV8	DTBP1_HUMAN	dystrobrevin binding protein 1 isoform a	85					actin cytoskeleton reorganization|cellular membrane organization|neuron projection morphogenesis|post-Golgi vesicle-mediated transport|regulation of dopamine receptor signaling pathway	axon part|BLOC-1 complex|cell junction|dendritic spine|endoplasmic reticulum membrane|endosome membrane|growth cone|melanosome membrane|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|synaptic vesicle membrane|synaptosome	identical protein binding				0	Breast(50;0.0289)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.211)											Hermansky-Pudlak_syndrome				---	---	---	---
MYLIP	29116	broad.mit.edu	37	6	16143955	16143955	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:16143955G>A	uc003nbq.2	+	5	925	c.688G>A	c.(688-690)GCC>ACC	p.A230T	MYLIP_uc003nbr.2_Missense_Mutation_p.A49T	NM_013262	NP_037394	Q8WY64	MYLIP_HUMAN	myosin regulatory light chain interacting	230	FERM.				cellular component movement|nervous system development	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|ubiquitin-protein ligase activity|zinc ion binding			pancreas(1)	1	Breast(50;0.0799)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.241)															---	---	---	---
CAP2	10486	broad.mit.edu	37	6	17421836	17421836	+	Missense_Mutation	SNP	G	A	A	rs141863829		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17421836G>A	uc003ncb.2	+	2	293	c.50G>A	c.(49-51)CGC>CAC	p.R17H	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Missense_Mutation_p.R17H|CAP2_uc011djb.1_Missense_Mutation_p.R17H|CAP2_uc011djc.1_Missense_Mutation_p.R17H|CAP2_uc011djd.1_Missense_Mutation_p.R17H	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	17					activation of adenylate cyclase activity|axon guidance|cytoskeleton organization|establishment or maintenance of cell polarity|signal transduction	plasma membrane	actin binding			ovary(1)	1	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)															---	---	---	---
CAP2	10486	broad.mit.edu	37	6	17543142	17543142	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17543142C>T	uc003ncb.2	+	10	1320	c.1077C>T	c.(1075-1077)TGC>TGT	p.C359C	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Silent_p.C333C|CAP2_uc011djb.1_Silent_p.C295C|CAP2_uc011djc.1_Silent_p.C247C|CAP2_uc011djd.1_Silent_p.C99C	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	359	C-CAP/cofactor C-like.				activation of adenylate cyclase activity|axon guidance|cytoskeleton organization|establishment or maintenance of cell polarity|signal transduction	plasma membrane	actin binding			ovary(1)	1	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)															---	---	---	---
NUP153	9972	broad.mit.edu	37	6	17637996	17637996	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17637996C>T	uc003ncd.1	-	16	2052	c.1852G>A	c.(1852-1854)GCA>ACA	p.A618T	NUP153_uc011dje.1_Missense_Mutation_p.A649T|NUP153_uc010jpl.1_Missense_Mutation_p.A576T	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	618					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)															---	---	---	---
KDM1B	221656	broad.mit.edu	37	6	18200713	18200713	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:18200713G>T	uc003nco.1	+	6	731	c.656G>T	c.(655-657)TGG>TTG	p.W219L	KDM1B_uc003ncn.1_Missense_Mutation_p.W290L	NM_153042	NP_694587	Q8NB78	KDM1B_HUMAN	amine oxidase (flavin containing) domain 1	422	FAD (Potential).				multicellular organismal development|regulation of DNA methylation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-monomethyl-K4 specific)|oxidoreductase activity|zinc ion binding			skin(1)	1																		---	---	---	---
KDM1B	221656	broad.mit.edu	37	6	18200736	18200736	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:18200736G>A	uc003nco.1	+	6	754	c.679G>A	c.(679-681)GTC>ATC	p.V227I	KDM1B_uc003ncn.1_Missense_Mutation_p.V298I	NM_153042	NP_694587	Q8NB78	KDM1B_HUMAN	amine oxidase (flavin containing) domain 1	430	FAD (Potential).				multicellular organismal development|regulation of DNA methylation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-monomethyl-K4 specific)|oxidoreductase activity|zinc ion binding			skin(1)	1																		---	---	---	---
MBOAT1	154141	broad.mit.edu	37	6	20118754	20118754	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:20118754C>T	uc003ncx.1	-	9	1130	c.925G>A	c.(925-927)GCA>ACA	p.A309T	MBOAT1_uc011dji.1_Missense_Mutation_p.A160T	NM_001080480	NP_001073949	Q6ZNC8	MBOA1_HUMAN	membrane bound O-acyltransferase domain	309	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(95;0.244)|Breast(50;0.0379)|Ovarian(93;0.0473)|all_epithelial(95;0.109)		OV - Ovarian serous cystadenocarcinoma(7;0.00392)|all cancers(50;0.0117)|Epithelial(50;0.0454)															---	---	---	---
E2F3	1871	broad.mit.edu	37	6	20481611	20481611	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:20481611G>T	uc003nda.2	+	3	1007	c.680G>T	c.(679-681)GGC>GTC	p.G227V	E2F3_uc003ncz.2_Missense_Mutation_p.G221V	NM_001949	NP_001940	O00716	E2F3_HUMAN	E2F transcription factor 3	227	Potential.|DEF box.				G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|transcription initiation from RNA polymerase II promoter	transcription factor complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(95;0.154)|all_epithelial(95;0.0585)|Breast(50;0.146)|Ovarian(93;0.148)		OV - Ovarian serous cystadenocarcinoma(7;0.0068)|all cancers(50;0.0148)|Epithelial(50;0.0562)															---	---	---	---
CDKAL1	54901	broad.mit.edu	37	6	20546663	20546663	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:20546663C>T	uc003ndc.1	+	3	256	c.82C>T	c.(82-84)CAT>TAT	p.H28Y	CDKAL1_uc003ndd.1_Missense_Mutation_p.H28Y|CDKAL1_uc003nde.1_5'UTR|CDKAL1_uc010jpo.1_Missense_Mutation_p.H28Y|CDKAL1_uc003ndb.1_Missense_Mutation_p.H28Y	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	28					RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)															---	---	---	---
PRL	5617	broad.mit.edu	37	6	22294697	22294697	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22294697G>A	uc003ndp.2	-	2	664	c.145C>T	c.(145-147)CGC>TGC	p.R49C	PRL_uc003ndo.2_Missense_Mutation_p.R50C|PRL_uc003ndq.2_Missense_Mutation_p.R49C|PRL_uc003ndr.1_RNA	NM_000948	NP_000939	P01236	PRL_HUMAN	prolactin precursor	49					cell proliferation|cell surface receptor linked signaling pathway|female pregnancy|lactation|positive regulation of JAK-STAT cascade|regulation of multicellular organism growth	cytosol|extracellular region	hormone activity|prolactin receptor binding				0	Ovarian(93;0.163)																	---	---	---	---
KIAA0319	9856	broad.mit.edu	37	6	24583828	24583828	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24583828T>C	uc011djo.1	-						KIAA0319_uc011djp.1_Intron|KIAA0319_uc003neh.1_Intron|KIAA0319_uc011djq.1_Intron|KIAA0319_uc011djr.1_Intron|KIAA0319_uc010jpt.1_5'Flank	NM_014809	NP_055624			KIAA0319 precursor						negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2																		---	---	---	---
KIAA0319	9856	broad.mit.edu	37	6	24588855	24588855	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24588855C>T	uc011djo.1	-	4	1197	c.960G>A	c.(958-960)GAG>GAA	p.E320E	KIAA0319_uc011djp.1_Silent_p.E275E|KIAA0319_uc003neh.1_Silent_p.E320E|KIAA0319_uc011djq.1_Silent_p.E311E|KIAA0319_uc011djr.1_Silent_p.E320E	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	320	Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2																		---	---	---	---
C6orf62	81688	broad.mit.edu	37	6	24714622	24714622	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24714622C>T	uc003nel.2	-	3	860	c.353G>A	c.(352-354)CGG>CAG	p.R118Q		NM_030939	NP_112201	Q9GZU0	CF062_HUMAN	hypothetical protein LOC81688	118						intracellular					0																		---	---	---	---
LRRC16A	55604	broad.mit.edu	37	6	25594745	25594745	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:25594745A>G	uc011djw.1	+	32	3485	c.3109A>G	c.(3109-3111)ATG>GTG	p.M1037V	LRRC16A_uc010jpx.2_Missense_Mutation_p.M1037V|LRRC16A_uc010jpy.2_Missense_Mutation_p.M1037V	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	1037	Inhibits capping activity of CAPZA2 (By similarity).				actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4																		---	---	---	---
SCGN	10590	broad.mit.edu	37	6	25701574	25701574	+	3'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:25701574C>T	uc003nfb.2	+	11					SCGN_uc010jpz.2_3'UTR	NM_006998	NP_008929			secretagogin precursor							extracellular region|transport vesicle membrane	calcium ion binding			ovary(2)|pancreas(1)	3																		---	---	---	---
HIST1H1A	3024	broad.mit.edu	37	6	26017792	26017792	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26017792G>A	uc003nfo.2	-	1	249	c.169C>T	c.(169-171)CGT>TGT	p.R57C	HIST1H3A_uc003nfp.1_5'Flank	NM_005325	NP_005316	Q02539	H11_HUMAN	histone cluster 1, H1a	57	H15.				nucleosome assembly|spermatogenesis	nucleosome|nucleus	DNA binding			ovary(2)	2																		---	---	---	---
HFE	3077	broad.mit.edu	37	6	26093362	26093362	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26093362G>A	uc003nfx.1	+	5	1068	c.908G>A	c.(907-909)GGC>GAC	p.G303D	HFE_uc003nfy.1_Missense_Mutation_p.G280D|HFE_uc010jqe.1_Missense_Mutation_p.G300D|HFE_uc003nfz.1_Missense_Mutation_p.G215D|HFE_uc003ngd.1_Missense_Mutation_p.G201D|HFE_uc003nga.1_Missense_Mutation_p.G289D|HFE_uc003ngb.1_Missense_Mutation_p.G197D|HFE_uc003ngc.1_Missense_Mutation_p.G211D|HFE_uc003nge.1_Missense_Mutation_p.G123D|HFE_uc003ngf.1_Missense_Mutation_p.G31D	NM_000410	NP_000401	Q30201	HFE_HUMAN	hemochromatosis protein isoform 1 precursor	303	Connecting peptide.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|cellular iron ion homeostasis|immune response|iron ion transport|protein complex assembly|receptor-mediated endocytosis	apical part of cell|basal part of cell|cytoplasmic vesicle|early endosome|integral to plasma membrane|MHC class I protein complex|perinuclear region of cytoplasm|recycling endosome	protein binding				0														Hemochromatosis				---	---	---	---
HIST1H1T	3010	broad.mit.edu	37	6	26107824	26107824	+	Silent	SNP	G	A	A	rs143215132	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26107824G>A	uc003ngj.2	-	1	541	c.498C>T	c.(496-498)AGC>AGT	p.S166S		NM_005323	NP_005314	P22492	H1T_HUMAN	histone cluster 1, H1t	166					cell differentiation|multicellular organismal development|nucleosome assembly|spermatogenesis	nucleosome	DNA binding			ovary(2)	2																		---	---	---	---
HIST1H2AC	8334	broad.mit.edu	37	6	26124765	26124765	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26124765C>T	uc003ngm.2	+	1	393	c.305C>T	c.(304-306)ACC>ATC	p.T102I	HIST1H2BC_uc003ngk.3_5'Flank|HIST1H2BC_uc003ngl.2_5'Flank|HIST1H2AC_uc003ngn.2_RNA|HIST1H2AC_uc003ngo.2_RNA|HIST1H2AC_uc003ngp.2_Missense_Mutation_p.T102I	NM_003512	NP_003503	Q93077	H2A1C_HUMAN	histone cluster 1, H2ac	102					nucleosome assembly	nucleosome|nucleus	DNA binding				0																		---	---	---	---
HIST1H3E	8353	broad.mit.edu	37	6	26225715	26225715	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26225715C>T	uc003nhb.2	+	2	693	c.333C>T	c.(331-333)TGC>TGT	p.C111C	HIST1H3E_uc003nhc.3_Silent_p.C111C	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	111					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.0223)|Acute lymphoblastic leukemia(11;0.0351)														OREG0017240	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
HIST1H2BH	8345	broad.mit.edu	37	6	26252014	26252014	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26252014C>T	uc003nhh.2	+	1	136	c.136C>T	c.(136-138)CTG>TTG	p.L46L	HIST1H3F_uc003nhg.1_5'Flank	NM_003524	NP_003515	Q93079	H2B1H_HUMAN	histone cluster 1, H2bh	46					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)	3																		---	---	---	---
BTN2A2	10385	broad.mit.edu	37	6	26390250	26390250	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26390250G>A	uc003nhq.2	+	5	828	c.742G>A	c.(742-744)GCA>ACA	p.A248T	BTN2A2_uc011dkf.1_Missense_Mutation_p.A132T|BTN2A2_uc011dkg.1_Missense_Mutation_p.A154T|BTN2A2_uc003nhr.2_Missense_Mutation_p.A132T|BTN2A2_uc011dkh.1_Missense_Mutation_p.A38T|BTN2A2_uc003nhs.2_Missense_Mutation_p.A248T|BTN2A2_uc003nht.2_Missense_Mutation_p.A248T|BTN2A2_uc011dki.1_5'UTR	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	248	Extracellular (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0																		---	---	---	---
BTN2A2	10385	broad.mit.edu	37	6	26392964	26392964	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26392964C>T	uc003nhq.2	+	8	1427	c.1341C>T	c.(1339-1341)GGC>GGT	p.G447G	BTN2A2_uc011dkg.1_3'UTR|BTN2A2_uc003nhr.2_Silent_p.G331G|BTN2A2_uc011dkh.1_Silent_p.G237G|BTN2A2_uc003nhs.2_Intron|BTN2A2_uc003nht.2_Silent_p.G447G|BTN2A2_uc011dki.1_3'UTR	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	447	B30.2/SPRY.|Cytoplasmic (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0																		---	---	---	---
BTN2A3	54718	broad.mit.edu	37	6	26431654	26431654	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26431654G>A	uc011dkl.1	+	6	1602	c.1572G>A	c.(1570-1572)ACG>ACA	p.T524T	BTN2A3_uc011dkm.1_RNA					RecName: Full=Butyrophilin subfamily 2 member A3; Flags: Precursor;												0																		---	---	---	---
BTN3A3	10384	broad.mit.edu	37	6	26452025	26452025	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26452025C>T	uc003nhz.2	+	11	1321	c.1141C>T	c.(1141-1143)CGT>TGT	p.R381C	BTN3A3_uc003nia.2_Missense_Mutation_p.R339C|BTN3A3_uc011dkn.1_Missense_Mutation_p.R332C	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	381	B30.2/SPRY.|Cytoplasmic (Potential).					integral to membrane					0																		---	---	---	---
ABT1	29777	broad.mit.edu	37	6	26597319	26597319	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26597319T>C	uc003nii.2	+	1	140	c.109T>C	c.(109-111)TGT>CGT	p.C37R		NM_013375	NP_037507	Q9ULW3	ABT1_HUMAN	activator of basal transcription 1	37					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleolus	DNA binding|nucleotide binding|protein binding|RNA binding|transcription coactivator activity			ovary(1)	1																		---	---	---	---
HIST1H2BN	8341	broad.mit.edu	37	6	27806762	27806762	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27806762C>T	uc003njv.2	+	1	323	c.323C>T	c.(322-324)GCC>GTC	p.A108V	HIST1H2AK_uc003njs.2_5'Flank|HIST1H2BN_uc003njt.1_RNA|HIST1H2BN_uc003nju.1_Missense_Mutation_p.A108V	NM_003520	NP_003511	Q99877	H2B1N_HUMAN	histone cluster 1, H2bn	108					nucleosome assembly	nucleosome|nucleus	DNA binding				0																		---	---	---	---
ZNF193	7746	broad.mit.edu	37	6	28200861	28200861	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28200861C>T	uc003nkq.1	+	4	1205	c.1090C>T	c.(1090-1092)CGA>TGA	p.R364*	ZNF193_uc003nkr.1_Nonsense_Mutation_p.R364*|ZNF193_uc010jqz.1_Nonsense_Mutation_p.R415*	NM_006299	NP_006290	O15535	ZN193_HUMAN	zinc finger protein 193	364					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0																		---	---	---	---
PGBD1	84547	broad.mit.edu	37	6	28251950	28251950	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28251950G>C	uc003nky.2	+	2	730	c.360G>C	c.(358-360)GAG>GAC	p.E120D	PGBD1_uc003nkz.2_Missense_Mutation_p.E120D	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	120	SCAN box.				viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	29231718	29231718	+	IGR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29231718G>A								OR2J2 (89368 upstream) : OR14J1 (42749 downstream)																																			---	---	---	---
OR14J1	442191	broad.mit.edu	37	6	29274617	29274617	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29274617C>T	uc011dln.1	+	1	151	c.151C>T	c.(151-153)CGT>TGT	p.R51C		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	51	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1																		---	---	---	---
OR5V1	81696	broad.mit.edu	37	6	29323210	29323210	+	Missense_Mutation	SNP	C	T	T	rs141436521	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29323210C>T	uc011dlo.1	-	1	845	c.763G>A	c.(763-765)GCC>ACC	p.A255T		NM_030876	NP_110503	Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|kidney(1)	4																		---	---	---	---
OR10C1	442194	broad.mit.edu	37	6	29408113	29408113	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29408113C>T	uc011dlp.1	+	1	321	c.321C>T	c.(319-321)GGC>GGT	p.G107G	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	107	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0																		---	---	---	---
OR2H1	26716	broad.mit.edu	37	6	29430238	29430238	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29430238C>A	uc003nmi.2	+	3	1135	c.692C>A	c.(691-693)GCA>GAA	p.A231E	OR2H1_uc003nmj.1_Missense_Mutation_p.A231E|OR2H1_uc010jri.1_Missense_Mutation_p.A153E	NM_030883	NP_112145	Q9GZK4	OR2H1_HUMAN	olfactory receptor, family 2, subfamily H,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0																		---	---	---	---
MAS1L	116511	broad.mit.edu	37	6	29455184	29455184	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29455184C>T	uc011dlq.1	-	1	496	c.496G>A	c.(496-498)GCC>ACC	p.A166T		NM_052967	NP_443199	P35410	MAS1L_HUMAN	MAS1 oncogene-like	166	Helical; Name=3; (Potential).					cytoplasm|integral to membrane|nucleus|plasma membrane	G-protein coupled receptor activity			ovary(7)|lung(2)	9																		---	---	---	---
MOG	4340	broad.mit.edu	37	6	29638111	29638111	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29638111C>T	uc003nnf.2	+	6	824	c.646C>T	c.(646-648)CCG>TCG	p.P216S	MOG_uc003nmy.1_Missense_Mutation_p.P216S|MOG_uc003nmz.2_3'UTR|MOG_uc011dlt.1_Missense_Mutation_p.P146S|MOG_uc003nna.2_Missense_Mutation_p.P100S|MOG_uc011dlu.1_Intron|MOG_uc011dlv.1_Intron|MOG_uc003nnd.2_3'UTR|MOG_uc003nne.2_Missense_Mutation_p.P216S|MOG_uc003nng.2_Intron|MOG_uc003nnh.2_Intron|MOG_uc003nni.2_Intron|MOG_uc003nnj.2_Intron|MOG_uc003nnk.2_Intron	NM_206809	NP_996532	Q16653	MOG_HUMAN	myelin oligodendrocyte glycoprotein isoform	216	Helical; (Potential).				cell adhesion|central nervous system development|positive regulation of MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)	1																		---	---	---	---
HLA-F	3134	broad.mit.edu	37	6	29692164	29692164	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29692164C>T	uc010jrl.2	+	3	673	c.549C>T	c.(547-549)GGC>GGT	p.G183G	HLA-F_uc003nnm.3_Silent_p.G183G|HLA-F_uc003nno.3_Silent_p.G183G|HLA-F_uc011dlx.1_Silent_p.G183G|HLA-F_uc011dly.1_RNA	NM_018950	NP_061823	P30511	HLAF_HUMAN	major histocompatibility complex, class I, F	183	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity				0																		---	---	---	---
TRIM31	11074	broad.mit.edu	37	6	30080406	30080406	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30080406G>A	uc003npg.1	-	2	287	c.177C>T	c.(175-177)TCC>TCT	p.S59S	TRIM31_uc003npi.3_RNA	NM_007028	NP_008959	Q9BZY9	TRI31_HUMAN	tripartite motif protein 31	59						mitochondrion	ligase activity|zinc ion binding			lung(1)	1																		---	---	---	---
PPP1R10	5514	broad.mit.edu	37	6	30569937	30569937	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30569937C>T	uc003nqn.1	-	19	3041	c.2489G>A	c.(2488-2490)CGC>CAC	p.R830H	PPP1R10_uc010jsc.1_Missense_Mutation_p.R484H	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	830	Gly-rich.				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4																		---	---	---	---
PPP1R10	5514	broad.mit.edu	37	6	30571953	30571953	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30571953G>A	uc003nqn.1	-	14	1892	c.1340C>T	c.(1339-1341)GCG>GTG	p.A447V	PPP1R10_uc010jsc.1_Missense_Mutation_p.A101V	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	447	Essential for PPP1CA inhibition (By similarity).|Interaction with WDR82 (By similarity).				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4																		---	---	---	---
DHX16	8449	broad.mit.edu	37	6	30624478	30624478	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30624478C>T	uc003nqz.2	-	14	2419	c.2207G>A	c.(2206-2208)CGC>CAC	p.R736H	DHX16_uc003nqy.2_Missense_Mutation_p.R255H|DHX16_uc011dmo.1_Missense_Mutation_p.R676H	NM_003587	NP_003578	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	736	Helicase C-terminal.				mRNA processing|RNA splicing	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(2)|kidney(2)	4																		---	---	---	---
DHX16	8449	broad.mit.edu	37	6	30633376	30633376	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30633376C>T	uc003nqz.2	-	5	1013	c.801G>A	c.(799-801)CGG>CGA	p.R267R	DHX16_uc011dmo.1_Silent_p.R207R	NM_003587	NP_003578	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	267					mRNA processing|RNA splicing	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(2)|kidney(2)	4																		---	---	---	---
KIAA1949	170954	broad.mit.edu	37	6	30653639	30653639	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30653639G>T	uc003nra.2	-	2	388	c.157C>A	c.(157-159)CTG>ATG	p.L53M	KIAA1949_uc003nrb.3_Missense_Mutation_p.L53M	NM_001134870	NP_001128342	Q6NYC8	PHTNS_HUMAN	phostensin	53						cytoplasm|cytoskeleton	actin binding				0																		---	---	---	---
MDC1	9656	broad.mit.edu	37	6	30681102	30681102	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30681102C>T	uc003nrg.3	-	5	1057	c.617G>A	c.(616-618)GGC>GAC	p.G206D	MDC1_uc003nrf.3_5'UTR|MDC1_uc011dmp.1_Missense_Mutation_p.G78D|MDC1_uc003nrh.1_Missense_Mutation_p.G78D|MDC1_uc003nri.2_Missense_Mutation_p.G206D	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	206	Interaction with the MRN complex.|Required for nuclear localization (NLS1).				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4													Other_conserved_DNA_damage_response_genes					---	---	---	---
PSORS1C1	170679	broad.mit.edu	37	6	31106442	31106442	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31106442C>T	uc003nsl.1	+	5	327	c.53C>T	c.(52-54)ACC>ATC	p.T18I	PSORS1C1_uc010jsj.1_Intron|PSORS1C1_uc003nsn.1_Intron|PSORS1C2_uc003nso.3_Intron	NM_014068	NP_054787	Q9UIG5	PS1C1_HUMAN	SEEK1 protein	18										ovary(1)	1																		---	---	---	---
BAT2	7916	broad.mit.edu	37	6	31595695	31595695	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31595695C>T	uc003nvb.3	+	12	1693	c.1444C>T	c.(1444-1446)CGC>TGC	p.R482C	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Missense_Mutation_p.R482C	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	482	4 X 57 AA type A repeats.|2 X type B repeats.					cytoplasm|nucleus	protein binding				0																		---	---	---	---
BAT2	7916	broad.mit.edu	37	6	31597080	31597080	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31597080C>T	uc003nvb.3	+	13	2174	c.1925C>T	c.(1924-1926)TCG>TTG	p.S642L	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Missense_Mutation_p.S642L	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	642	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0																		---	---	---	---
LY6G6F	259215	broad.mit.edu	37	6	31675769	31675769	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31675769C>T	uc003nwa.1	+	3	504	c.504C>T	c.(502-504)GGC>GGT	p.G168G	BAT5_uc011dnz.1_Intron|LY6G6F_uc003nwb.1_Silent_p.G168G	NM_001003693	NP_001003693	Q5SQ64	LY66F_HUMAN	G6f protein precursor	168	Extracellular (Potential).					integral to membrane|plasma membrane				breast(1)|central_nervous_system(1)	2																		---	---	---	---
DDAH2	23564	broad.mit.edu	37	6	31695064	31695064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31695064C>T	uc003nwp.2	-	6	1439	c.808G>A	c.(808-810)GCC>ACC	p.A270T	DDAH2_uc003nwq.2_Missense_Mutation_p.A270T	NM_013974	NP_039268	O95865	DDAH2_HUMAN	dimethylarginine dimethylaminohydrolase 2	270					anti-apoptosis|arginine catabolic process|citrulline metabolic process|nitric oxide biosynthetic process|nitric oxide mediated signal transduction	cytoplasm	dimethylargininase activity|protein binding				0					L-Citrulline(DB00155)													---	---	---	---
MSH5	4439	broad.mit.edu	37	6	31713064	31713064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31713064C>T	uc003nwv.1	+	9	813	c.734C>T	c.(733-735)GCC>GTC	p.A245V	MSH5_uc003nwt.1_Missense_Mutation_p.A262V|MSH5_uc003nwu.1_Missense_Mutation_p.A245V|MSH5_uc003nww.1_Missense_Mutation_p.A245V|MSH5_uc003nwx.1_Missense_Mutation_p.A262V|MSH5_uc011dof.1_Intron	NM_172166	NP_751898	O43196	MSH5_HUMAN	mutS homolog 5 isoform c	245					chiasma assembly|homologous chromosome segregation|meiotic prophase II|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			ovary(2)|breast(1)	3													Direct_reversal_of_damage|MMR					---	---	---	---
SLC44A4	80736	broad.mit.edu	37	6	31833122	31833122	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31833122G>A	uc010jti.2	-	17	1796	c.1730C>T	c.(1729-1731)GCG>GTG	p.A577V	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	577	Helical; (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)													---	---	---	---
ZBTB12	221527	broad.mit.edu	37	6	31868726	31868726	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31868726G>A	uc003nyd.1	-	2	533	c.357C>T	c.(355-357)TGC>TGT	p.C119C	C2_uc003nyc.2_Intron|C2_uc011doo.1_Intron|C2_uc011dop.1_5'Flank	NM_181842	NP_862825	Q9Y330	ZBT12_HUMAN	zinc finger and BTB domain containing 12	119					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
CFB	629	broad.mit.edu	37	6	31915615	31915615	+	Missense_Mutation	SNP	G	A	A	rs145082719		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31915615G>A	uc003nyj.3	+	5	1033	c.755G>A	c.(754-756)GGC>GAC	p.G252D	CFB_uc011dor.1_Missense_Mutation_p.G754D|CFB_uc003nyi.2_Missense_Mutation_p.G252D	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	252					complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1																		---	---	---	---
DOM3Z	1797	broad.mit.edu	37	6	31938887	31938887	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31938887G>A	uc003nyo.1	-	2	928	c.394C>T	c.(394-396)CGG>TGG	p.R132W	DOM3Z_uc003nyp.1_Missense_Mutation_p.R132W|DOM3Z_uc003nyq.1_5'UTR|DOM3Z_uc003nyr.1_Missense_Mutation_p.R132W|DOM3Z_uc003nys.1_Missense_Mutation_p.R132W|DOM3Z_uc010jtl.1_3'UTR|STK19_uc003nyt.2_5'Flank|STK19_uc011dow.1_5'Flank|STK19_uc011dox.1_5'Flank|STK19_uc003nyv.2_5'Flank|STK19_uc003nyw.2_5'Flank|STK19_uc010jtn.1_5'Flank	NM_005510	NP_005501	O77932	DOM3Z_HUMAN	DOM-3 homolog Z	132		GDP (By similarity).					identical protein binding|metal ion binding|nucleotide binding				0																		---	---	---	---
C4A	720	broad.mit.edu	37	6	31997013	31997013	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31997013G>A	uc011dpd.1	+	28	3625	c.3574G>A	c.(3574-3576)GCA>ACA	p.A1192T	C4A_uc011dpe.1_Missense_Mutation_p.A1192T	NM_007293	NP_009224	P0C0L4	CO4A_HUMAN	complement component 4A preproprotein	1192					complement activation, classical pathway|inflammatory response|innate immune response	extracellular space	endopeptidase inhibitor activity				0																		---	---	---	---
TNXB	7148	broad.mit.edu	37	6	32017064	32017064	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32017064G>A	uc003nzl.2	-	28	9936	c.9734C>T	c.(9733-9735)TCC>TTC	p.S3245F	TNXB_uc003nzh.1_5'Flank	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3292	Fibronectin type-III 24.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0																		---	---	---	---
TNXB	7148	broad.mit.edu	37	6	32020573	32020573	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32020573G>A	uc003nzl.2	-	26	9185	c.8983C>T	c.(8983-8985)CGT>TGT	p.R2995C		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3042	Fibronectin type-III 22.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0																		---	---	---	---
TNXB	7148	broad.mit.edu	37	6	32041456	32041456	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32041456C>T	uc003nzl.2	-	12	4851	c.4649G>A	c.(4648-4650)CGC>CAC	p.R1550H		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1637	Fibronectin type-III 8.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0																		---	---	---	---
TNXB	7148	broad.mit.edu	37	6	32052264	32052264	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32052264C>T	uc003nzl.2	-	8	3573	c.3371G>A	c.(3370-3372)CGC>CAC	p.R1124H		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1211	Fibronectin type-III 4.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0																		---	---	---	---
TNXB	7148	broad.mit.edu	37	6	32063527	32063527	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32063527G>A	uc003nzl.2	-	3	2305	c.2103C>T	c.(2101-2103)GGC>GGT	p.G701G		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	701	EGF-like 18.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0																		---	---	---	---
NOTCH4	4855	broad.mit.edu	37	6	32165126	32165126	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32165126G>A	uc003obb.2	-	27	5141	c.5002C>T	c.(5002-5004)CGC>TGC	p.R1668C	GPSM3_uc003oaz.2_5'Flank|NOTCH4_uc011dpt.1_Missense_Mutation_p.R77C|NOTCH4_uc003oba.2_Missense_Mutation_p.R328C|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc011dpw.1_Missense_Mutation_p.R77C	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1668	Cytoplasmic (Potential).|ANK 2.				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22																		---	---	---	---
NOTCH4	4855	broad.mit.edu	37	6	32166736	32166736	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32166736C>T	uc003obb.2	-	24	4641	c.4502G>A	c.(4501-4503)CGG>CAG	p.R1501Q	NOTCH4_uc011dpt.1_5'Flank|NOTCH4_uc003oba.2_Missense_Mutation_p.R164Q|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc011dpw.1_5'Flank	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1501	Cytoplasmic (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																		---	---	---	---
C6orf10	10665	broad.mit.edu	37	6	32261736	32261736	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32261736G>A	uc011dpy.1	-	12	887	c.714C>T	c.(712-714)GGC>GGT	p.G238G	C6orf10_uc011dpx.1_Silent_p.G20G	NM_006781	NP_006772	Q5SRN2	CF010_HUMAN	chromosome 6 open reading frame 10	238						integral to membrane				skin(1)	1																		---	---	---	---
BRD2	6046	broad.mit.edu	37	6	32944496	32944496	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32944496G>A	uc003ocn.3	+	7	2684	c.983G>A	c.(982-984)CGC>CAC	p.R328H	BRD2_uc003oco.2_RNA|BRD2_uc003ocq.3_Missense_Mutation_p.R328H|BRD2_uc003ocp.3_Missense_Mutation_p.R208H|BRD2_uc010juh.2_Missense_Mutation_p.R328H	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	328					spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5																		---	---	---	---
COL11A2	1302	broad.mit.edu	37	6	33138611	33138611	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33138611C>T	uc003ocx.1	-	46	3678	c.3450G>A	c.(3448-3450)GGG>GGA	p.G1150G	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Silent_p.G1064G|COL11A2_uc003ocz.1_Silent_p.G1043G	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1150	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	33157087	33157087	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33157087T>C	uc003ocx.1	-						COL11A2_uc003ocy.1_Intron|COL11A2_uc003ocz.1_Intron|COL11A2_uc003oda.2_Intron	NM_080680	NP_542411			collagen, type XI, alpha 2 isoform 1						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																		---	---	---	---
VPS52	6293	broad.mit.edu	37	6	33236902	33236902	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33236902G>A	uc003odm.1	-	6	647	c.437C>T	c.(436-438)ACA>ATA	p.T146I	VPS52_uc003odn.1_Missense_Mutation_p.T21I|VPS52_uc003odo.1_Missense_Mutation_p.T71I|VPS52_uc011dqy.1_Missense_Mutation_p.T21I|VPS52_uc011dqz.1_Missense_Mutation_p.T21I|RPS18_uc003odp.1_5'Flank|RPS18_uc010jum.1_5'Flank	NM_022553	NP_072047	Q8N1B4	VPS52_HUMAN	vacuolar protein sorting 52	146					protein transport	endosome membrane|Golgi apparatus				ovary(4)|skin(1)	5																		---	---	---	---
TAPBP	6892	broad.mit.edu	37	6	33273060	33273060	+	Missense_Mutation	SNP	C	T	T	rs146216992		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33273060C>T	uc003odx.1	-	4	745	c.574G>A	c.(574-576)GCC>ACC	p.A192T	TAPBP_uc010jus.1_Missense_Mutation_p.A210T|TAPBP_uc003ody.2_Missense_Mutation_p.A192T|TAPBP_uc003odz.2_Missense_Mutation_p.A192T|TAPBP_uc010jut.1_Missense_Mutation_p.A105T|TAPBP_uc011drc.1_Missense_Mutation_p.A192T	NM_003190	NP_003181	O15533	TPSN_HUMAN	tapasin isoform 1 precursor	192	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|immune response|peptide antigen stabilization|protein complex assembly|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|MHC class I peptide loading complex|microsome	MHC class I protein binding|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|unfolded protein binding			ovary(1)	1																		---	---	---	---
DAXX	1616	broad.mit.edu	37	6	33287520	33287520	+	Missense_Mutation	SNP	C	T	T	rs141395832	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33287520C>T	uc003oec.2	-	6	1781	c.1577G>A	c.(1576-1578)CGC>CAC	p.R526H	ZBTB22_uc003oeb.2_5'Flank|ZBTB22_uc010juu.2_5'Flank|DAXX_uc011drd.1_Missense_Mutation_p.R451H|DAXX_uc011dre.1_Missense_Mutation_p.R538H|DAXX_uc003oed.2_Missense_Mutation_p.R526H	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	526	Asp/Glu-rich (acidic).|Interaction with MAP3K5.|Necessary for interaction with USP7.				activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23								Mis|F|N		Pancreatic neuroendocrine tumors								---	---	---	---
DAXX	1616	broad.mit.edu	37	6	33288785	33288785	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33288785C>T	uc003oec.2	-	3	971	c.767G>A	c.(766-768)CGC>CAC	p.R256H	DAXX_uc011drd.1_Missense_Mutation_p.R181H|DAXX_uc011dre.1_Missense_Mutation_p.R268H|DAXX_uc003oed.2_Missense_Mutation_p.R256H|DAXX_uc010juw.2_Missense_Mutation_p.R181H	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	256					activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23								Mis|F|N		Pancreatic neuroendocrine tumors								---	---	---	---
KIFC1	3833	broad.mit.edu	37	6	33371778	33371778	+	Missense_Mutation	SNP	C	T	T	rs142313923	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33371778C>T	uc003oef.3	+	6	1078	c.628C>T	c.(628-630)CGT>TGT	p.R210C	KIFC1_uc011drf.1_Missense_Mutation_p.R202C	NM_002263	NP_002254	Q9BW19	KIFC1_HUMAN	kinesin family member C1	210	Potential.				blood coagulation|cell division|microtubule-based movement|mitotic sister chromatid segregation	early endosome|microtubule|microtubule associated complex|microtubule organizing center|nucleus|spindle	ATP binding|microtubule motor activity				0																		---	---	---	---
PHF1	5252	broad.mit.edu	37	6	33380151	33380151	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33380151G>A	uc003oeh.2	+	2	347	c.111G>A	c.(109-111)GTG>GTA	p.V37V	PHF1_uc011drh.1_RNA|PHF1_uc003oei.2_Silent_p.V37V|PHF1_uc010jux.2_5'UTR	NM_024165	NP_077084	O43189	PHF1_HUMAN	PHD finger protein 1 isoform b	37					chromatin modification	nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(999;0.0443)																---	---	---	---
CUTA	51596	broad.mit.edu	37	6	33385291	33385291	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33385291C>T	uc003oej.1	-	2	512	c.224G>A	c.(223-225)TGC>TAC	p.C75Y	CUTA_uc003oek.1_Missense_Mutation_p.C52Y|CUTA_uc003oel.1_Missense_Mutation_p.C52Y|CUTA_uc003oem.1_Missense_Mutation_p.C52Y|CUTA_uc003oen.1_Missense_Mutation_p.C94Y|SYNGAP1_uc003oeo.1_5'Flank|SYNGAP1_uc011dri.1_5'Flank|SYNGAP1_uc010juy.2_5'Flank	NM_001014840	NP_001014840	O60888	CUTA_HUMAN	cutA divalent cation tolerance homolog isoform	75					protein localization|response to metal ion	membrane	enzyme binding				0																		---	---	---	---
SYNGAP1	8831	broad.mit.edu	37	6	33403339	33403339	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33403339C>T	uc011dri.1	+	7	906	c.711C>T	c.(709-711)GCC>GCT	p.A237A	SYNGAP1_uc003oeo.1_Silent_p.A222A|SYNGAP1_uc010juy.2_Silent_p.A222A|SYNGAP1_uc010juz.2_5'Flank	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	237	PH.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4																		---	---	---	---
ITPR3	3710	broad.mit.edu	37	6	33638955	33638955	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33638955C>T	uc011drk.1	+	21	2819	c.2600C>T	c.(2599-2601)GCG>GTG	p.A867V		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	867	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19																		---	---	---	---
ITPR3	3710	broad.mit.edu	37	6	33646527	33646527	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33646527C>T	uc011drk.1	+	30	4102	c.3883C>T	c.(3883-3885)CGC>TGC	p.R1295C		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1295	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19																		---	---	---	---
ITPR3	3710	broad.mit.edu	37	6	33661334	33661334	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33661334A>G	uc011drk.1	+	56	7856	c.7637A>G	c.(7636-7638)GAC>GGC	p.D2546G	ITPR3_uc003oey.2_Missense_Mutation_p.D633G	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	2546	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19																		---	---	---	---
NUDT3	11165	broad.mit.edu	37	6	34309727	34309727	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:34309727C>T	uc003ojl.2	-	2	424	c.122G>A	c.(121-123)CGC>CAC	p.R41H		NM_006703	NP_006694	O95989	NUDT3_HUMAN	nudix-type motif 3	41	Nudix hydrolase.	Substrate.			cell-cell signaling|diadenosine polyphosphate catabolic process|diphosphoinositol polyphosphate catabolic process	cytoplasm	diphosphoinositol-polyphosphate diphosphatase activity|magnesium ion binding				0																		---	---	---	---
ANKS1A	23294	broad.mit.edu	37	6	34949512	34949512	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:34949512C>T	uc003ojx.3	+	4	623	c.481C>T	c.(481-483)CAC>TAC	p.H161Y	ANKS1A_uc011dss.1_Missense_Mutation_p.H161Y|ANKS1A_uc011dst.1_5'UTR|ANKS1A_uc010jvp.1_5'UTR|ANKS1A_uc010jvr.1_RNA	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	161	ANK 3.					cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4																		---	---	---	---
ANKS1A	23294	broad.mit.edu	37	6	35053698	35053698	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35053698C>T	uc003ojx.3	+	22	3430	c.3288C>T	c.(3286-3288)GGC>GGT	p.G1096G	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_Silent_p.G637G|ANKS1A_uc010jvp.1_Silent_p.G470G	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	1096						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4																		---	---	---	---
TCP11	6954	broad.mit.edu	37	6	35090014	35090014	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35090014G>A	uc003okd.2	-	5	678	c.497C>T	c.(496-498)GCC>GTC	p.A166V	TCP11_uc003ojz.1_Missense_Mutation_p.A91V|TCP11_uc003oka.2_Missense_Mutation_p.A91V|TCP11_uc003okb.2_Missense_Mutation_p.A90V|TCP11_uc003okc.2_Missense_Mutation_p.A90V|TCP11_uc011dsu.1_Missense_Mutation_p.A148V|TCP11_uc011dsv.1_Missense_Mutation_p.A115V|TCP11_uc011dsw.1_Missense_Mutation_p.A120V	NM_001093728	NP_001087197	Q8WWU5	TCP11_HUMAN	t-complex 11 isoform 1	153					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(3)|skin(2)	5																		---	---	---	---
C6orf81	221481	broad.mit.edu	37	6	35716414	35716414	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35716414G>A	uc003ola.2	+	6	898	c.871G>A	c.(871-873)GCA>ACA	p.A291T	C6orf81_uc003olb.1_Missense_Mutation_p.A254T	NM_145028	NP_659465	Q5T9G4	CF081_HUMAN	hypothetical protein LOC221481	264							binding			ovary(1)	1																		---	---	---	---
LHFPL5	222662	broad.mit.edu	37	6	35773525	35773525	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35773525C>T	uc003olg.1	+	1	455	c.78C>T	c.(76-78)GGC>GGT	p.G26G		NM_182548	NP_872354	Q8TAF8	TMHS_HUMAN	lipoma HMGIC fusion partner-like 5	26	Helical; (Potential).					integral to membrane				skin(1)	1																		---	---	---	---
LHFPL5	222662	broad.mit.edu	37	6	35773571	35773571	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35773571G>A	uc003olg.1	+	1	501	c.124G>A	c.(124-126)GCC>ACC	p.A42T		NM_182548	NP_872354	Q8TAF8	TMHS_HUMAN	lipoma HMGIC fusion partner-like 5	42	Helical; (Potential).					integral to membrane				skin(1)	1																		---	---	---	---
MAPK14	1432	broad.mit.edu	37	6	36020576	36020576	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:36020576C>T	uc003olp.2	+	2	698	c.217C>T	c.(217-219)CGG>TGG	p.R73W	MAPK14_uc011dth.1_Missense_Mutation_p.R73W|MAPK14_uc003olo.2_Missense_Mutation_p.R73W|MAPK14_uc003olq.2_Missense_Mutation_p.R73W|MAPK14_uc003olr.2_Missense_Mutation_p.R73W|MAPK14_uc011dti.1_5'UTR	NM_001315	NP_001306	Q16539	MK14_HUMAN	mitogen-activated protein kinase 14 isoform 1	73	Protein kinase.				activation of MAPK activity|cellular component movement|cellular response to ionizing radiation|chemotaxis|innate immune response|mRNA metabolic process|muscle cell differentiation|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of muscle cell differentiation|positive regulation of reactive oxygen species metabolic process|Ras protein signal transduction|regulation of sequence-specific DNA binding transcription factor activity|signal transduction in response to DNA damage|stress-activated MAPK cascade|stress-induced premature senescence|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|MAP kinase kinase activity|protein binding			ovary(2)|stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	6																		---	---	---	---
BRPF3	27154	broad.mit.edu	37	6	36168834	36168834	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:36168834C>T	uc003olv.3	+	2	959	c.735C>T	c.(733-735)GGC>GGT	p.G245G	BRPF3_uc010jwb.2_Silent_p.G245G|BRPF3_uc011dtj.1_RNA|BRPF3_uc010jwc.2_RNA|BRPF3_uc011dtk.1_Silent_p.G245G	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	245	PHD-type.				histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2																		---	---	---	---
CPNE5	57699	broad.mit.edu	37	6	36767799	36767799	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:36767799G>A	uc003omr.1	-	4	299	c.232C>T	c.(232-234)CGC>TGC	p.R78C	CPNE5_uc003oms.1_Missense_Mutation_p.R40C	NM_020939	NP_065990	Q9HCH3	CPNE5_HUMAN	copine V	78	C2 1.									skin(1)	1																		---	---	---	---
MTCH1	23787	broad.mit.edu	37	6	36938172	36938172	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:36938172G>A	uc003ond.1	-						MTCH1_uc003onc.1_Intron|MTCH1_uc010jwo.1_Intron|MTCH1_uc003one.3_Intron|MTCH1_uc011dtt.1_Intron	NM_014341	NP_055156			mitochondrial carrier homolog 1						activation of caspase activity|neuronal ion channel clustering|positive regulation of apoptosis|regulation of signal transduction|transport	integral to membrane|mitochondrial inner membrane	protein binding				0																		---	---	---	---
MTCH1	23787	broad.mit.edu	37	6	36938207	36938207	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:36938207C>T	uc003ond.1	-	10	997	c.997G>A	c.(997-999)GAC>AAC	p.D333N	MTCH1_uc003onc.1_Missense_Mutation_p.D316N|MTCH1_uc010jwo.1_RNA|MTCH1_uc003one.3_Missense_Mutation_p.D333N|MTCH1_uc011dtt.1_Missense_Mutation_p.D148N	NM_014341	NP_055156	Q9NZJ7	MTCH1_HUMAN	mitochondrial carrier homolog 1	333	Helical; (Potential).				activation of caspase activity|neuronal ion channel clustering|positive regulation of apoptosis|regulation of signal transduction|transport	integral to membrane|mitochondrial inner membrane	protein binding				0																		---	---	---	---
FGD2	221472	broad.mit.edu	37	6	36993700	36993700	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:36993700C>T	uc010jwp.1	+	14	1762	c.1591C>T	c.(1591-1593)CGG>TGG	p.R531W	FGD2_uc003ong.2_Missense_Mutation_p.R253W|FGD2_uc011dtv.1_Missense_Mutation_p.R159W|FGD2_uc003onj.1_Missense_Mutation_p.R108W	NM_173558	NP_775829	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	531					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			upper_aerodigestive_tract(1)|lung(1)|pancreas(1)	3																		---	---	---	---
FTSJD2	23070	broad.mit.edu	37	6	37430612	37430612	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:37430612G>A	uc003ons.2	+	13	1586	c.1333G>A	c.(1333-1335)GTG>ATG	p.V445M		NM_015050	NP_055865	Q8N1G2	MTR1_HUMAN	FtsJ methyltransferase domain containing 2	445					mRNA capping	cytoplasm|nucleus	mRNA (nucleoside-2'-O-)-methyltransferase activity|nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5																		---	---	---	---
MDGA1	266727	broad.mit.edu	37	6	37622633	37622633	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:37622633G>A	uc003onu.1	-	5	1834	c.655C>T	c.(655-657)CGT>TGT	p.R219C	MDGA1_uc003onw.3_5'Flank	NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	219	Ig-like 2.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2																		---	---	---	---
ZFAND3	60685	broad.mit.edu	37	6	38120051	38120051	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38120051C>T	uc003onx.2	+	6	985	c.570C>T	c.(568-570)CAC>CAT	p.H190H		NM_021943	NP_068762	Q9H8U3	ZFAN3_HUMAN	zinc finger, AN1-type domain 3	190	AN1-type.						DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
DNAH8	1769	broad.mit.edu	37	6	38781840	38781840	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38781840C>T	uc003ooe.1	+	23	3217	c.2617C>T	c.(2617-2619)CGA>TGA	p.R873*		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21																		---	---	---	---
DNAH8	1769	broad.mit.edu	37	6	38840404	38840404	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38840404G>A	uc003ooe.1	+	48	7032	c.6432G>A	c.(6430-6432)GCG>GCA	p.A2144A		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21																		---	---	---	---
DNAH8	1769	broad.mit.edu	37	6	38840416	38840416	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38840416C>T	uc003ooe.1	+	48	7044	c.6444C>T	c.(6442-6444)TGC>TGT	p.C2148C		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21																		---	---	---	---
KCNK5	8645	broad.mit.edu	37	6	39158947	39158947	+	Missense_Mutation	SNP	C	T	T	rs147451811	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:39158947C>T	uc003oon.2	-	5	1583	c.1219G>A	c.(1219-1221)GCC>ACC	p.A407T		NM_003740	NP_003731	O95279	KCNK5_HUMAN	potassium channel, subfamily K, member 5	407					excretion	integral to plasma membrane	potassium channel activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2																		---	---	---	---
DAAM2	23500	broad.mit.edu	37	6	39847178	39847178	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:39847178C>T	uc003oow.2	+	14	1926	c.1770C>T	c.(1768-1770)GAC>GAT	p.D590D	DAAM2_uc010jxc.2_Silent_p.D590D|DAAM2_uc003oox.2_Silent_p.D590D	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	590	FH1.|Pro-rich.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)																	---	---	---	---
LRFN2	57497	broad.mit.edu	37	6	40400194	40400194	+	Missense_Mutation	SNP	C	T	T	rs140980612		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:40400194C>T	uc003oph.1	-	2	1124	c.659G>A	c.(658-660)CGC>CAC	p.R220H		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	220	Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)																	---	---	---	---
UNC5CL	222643	broad.mit.edu	37	6	41002811	41002811	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41002811C>T	uc003opi.2	-	2	92	c.3G>A	c.(1-3)ATG>ATA	p.M1I	UNC5CL_uc010jxe.1_Missense_Mutation_p.M1I	NM_173561	NP_775832	Q8IV45	UN5CL_HUMAN	unc-5 homolog C-like	1	Extracellular (Potential).				signal transduction	cytoplasm|integral to membrane				ovary(2)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)																	---	---	---	---
TFEB	7942	broad.mit.edu	37	6	41654874	41654874	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41654874C>T	uc003oqs.1	-	8	1063	c.761G>A	c.(760-762)CGC>CAC	p.R254H	TFEB_uc003oqt.1_Missense_Mutation_p.R254H|TFEB_uc003oqu.1_Missense_Mutation_p.R268H|TFEB_uc003oqv.1_Missense_Mutation_p.R254H|TFEB_uc003oqr.1_Missense_Mutation_p.R169H	NM_007162	NP_009093	P19484	TFEB_HUMAN	transcription factor EB	254	Helix-loop-helix motif.				embryonic placenta development|humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;7.61e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)					T	ALPHA	renal (childhood epithelioid)								---	---	---	---
PGC	5225	broad.mit.edu	37	6	41710065	41710065	+	Missense_Mutation	SNP	C	T	T	rs143935750	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41710065C>T	uc003ora.1	-	5	659	c.610G>A	c.(610-612)GCC>ACC	p.A204T		NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C) precursor	204					digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)															---	---	---	---
PGC	5225	broad.mit.edu	37	6	41711128	41711128	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41711128C>T	uc003ora.1	-	4	378	c.329_splice	c.e4-1	p.T110_splice		NM_002630	NP_002621			progastricsin (pepsinogen C) precursor						digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)															---	---	---	---
USP49	25862	broad.mit.edu	37	6	41773964	41773964	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41773964G>A	uc003ori.2	-	4	980	c.758C>T	c.(757-759)ACG>ATG	p.T253M		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	253					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)															---	---	---	---
MED20	9477	broad.mit.edu	37	6	41884626	41884626	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41884626C>T	uc003ork.2	-	2	187	c.66G>A	c.(64-66)GAG>GAA	p.E22E	MED20_uc003orj.2_5'UTR|MED20_uc011duh.1_Silent_p.E22E|MED20_uc011dui.1_RNA|MED20_uc011duj.1_Intron	NM_004275	NP_004266	Q9H944	MED20_HUMAN	Trf (TATA binding protein-related	22					regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	mediator complex	DNA-directed RNA polymerase activity|protein binding				0	Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000367)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)															---	---	---	---
CCND3	896	broad.mit.edu	37	6	41904988	41904988	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41904988C>T	uc003orn.2	-	3	724	c.559G>A	c.(559-561)GCC>ACC	p.A187T	CCND3_uc003orp.2_Missense_Mutation_p.A106T|CCND3_uc011duk.1_5'UTR|CCND3_uc011dum.1_Missense_Mutation_p.A106T|CCND3_uc003orm.2_Missense_Mutation_p.A137T|CCND3_uc003oro.2_Missense_Mutation_p.A115T|CCND3_uc011dul.1_Missense_Mutation_p.A115T	NM_001760	NP_001751	P30281	CCND3_HUMAN	cyclin D3 isoform 2	187					cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding				0	Colorectal(47;0.121)		Epithelial(12;0.000178)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)					T	IGH@	MM								---	---	---	---
TRERF1	55809	broad.mit.edu	37	6	42227309	42227309	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:42227309G>A	uc003osd.2	-	9	2600	c.2037C>T	c.(2035-2037)GGC>GGT	p.G679G	TRERF1_uc011duq.1_Silent_p.G596G|TRERF1_uc003osb.2_Silent_p.G435G|TRERF1_uc003osc.2_Silent_p.G435G|TRERF1_uc003ose.2_Silent_p.G699G	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	679	Pro-rich.|Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)															---	---	---	---
KIAA0240	23506	broad.mit.edu	37	6	42796383	42796383	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:42796383C>T	uc003osn.1	+	6	463	c.312C>T	c.(310-312)GAC>GAT	p.D104D	KIAA0240_uc003osm.1_Silent_p.D104D|KIAA0240_uc011duw.1_Silent_p.D104D|KIAA0240_uc003oso.1_Silent_p.D104D|KIAA0240_uc003osp.1_Silent_p.D104D	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	104										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)															---	---	---	---
KLC4	89953	broad.mit.edu	37	6	43034106	43034106	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43034106C>T	uc003otv.1	+	5	711	c.634C>T	c.(634-636)CGG>TGG	p.R212W	KLC4_uc003otr.1_RNA|KLC4_uc011dvd.1_Missense_Mutation_p.R135W|KLC4_uc003otu.2_Missense_Mutation_p.R212W|KLC4_uc003otw.1_Missense_Mutation_p.R230W|KLC4_uc003otx.1_Missense_Mutation_p.R212W|KLC4_uc003oty.1_Missense_Mutation_p.R212W|KLC4_uc003otz.1_Missense_Mutation_p.R212W	NM_201521	NP_958929	Q9NSK0	KLC4_HUMAN	kinesin-like 8 isoform a	212	TPR 2.					cytoplasm|kinesin complex|microtubule	microtubule motor activity|protein binding			skin(3)|ovary(1)	4			all cancers(41;0.00169)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0376)|KIRC - Kidney renal clear cell carcinoma(2;0.0453)															---	---	---	---
TTBK1	84630	broad.mit.edu	37	6	43225666	43225666	+	Silent	SNP	G	A	A	rs139836965		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43225666G>A	uc003ouq.1	+	10	1257	c.978G>A	c.(976-978)CCG>CCA	p.P326P		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	326						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)															---	---	---	---
ZNF318	24149	broad.mit.edu	37	6	43333190	43333190	+	Intron	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43333190A>C	uc003oux.2	-						ZNF318_uc003ouw.2_Intron	NM_014345	NP_055160			zinc finger protein 318						meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)															---	---	---	---
ABCC10	89845	broad.mit.edu	37	6	43406513	43406513	+	Missense_Mutation	SNP	G	A	A	rs140043327		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43406513G>A	uc003ouy.1	+	8	2322	c.2107G>A	c.(2107-2109)GCC>ACC	p.A703T	ABCC10_uc003ouz.1_Missense_Mutation_p.A675T|ABCC10_uc010jyo.1_5'UTR	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	703	ABC transporter 1.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)															---	---	---	---
ABCC10	89845	broad.mit.edu	37	6	43412099	43412099	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43412099C>T	uc003ouy.1	+						ABCC10_uc003ouz.1_Intron|ABCC10_uc010jyo.1_Intron	NM_033450	NP_258261			ATP-binding cassette, sub-family C, member 10							integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)															---	---	---	---
ABCC10	89845	broad.mit.edu	37	6	43414079	43414079	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43414079A>G	uc003ouy.1	+	16	3654	c.3439A>G	c.(3439-3441)ACA>GCA	p.T1147A	ABCC10_uc003ouz.1_Missense_Mutation_p.T1119A|ABCC10_uc010jyo.1_Missense_Mutation_p.T253A	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	1147	ABC transmembrane type-1 2.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)															---	---	---	---
RSPH9	221421	broad.mit.edu	37	6	43638573	43638573	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43638573C>T	uc003ovw.1	+	5	744	c.718C>T	c.(718-720)CGC>TGC	p.R240C	RSPH9_uc003ovx.1_Missense_Mutation_p.A257V	NM_152732	NP_689945	Q9H1X1	RSPH9_HUMAN	radial spoke head 9 homolog	240					cilium axoneme assembly|cilium movement	cytoplasm|cytoskeleton				upper_aerodigestive_tract(1)|skin(1)	2														Kartagener_syndrome				---	---	---	---
TMEM63B	55362	broad.mit.edu	37	6	44115223	44115223	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44115223C>T	uc003owr.2	+	12	1037	c.973C>T	c.(973-975)CGA>TGA	p.R325*	TMEM63B_uc003owq.1_Nonsense_Mutation_p.R325*|TMEM63B_uc003ows.2_Nonsense_Mutation_p.R228*|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	325						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)															---	---	---	---
TCTE1	202500	broad.mit.edu	37	6	44248038	44248038	+	Silent	SNP	G	A	A	rs149052184		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44248038G>A	uc003oxi.2	-	5	1542	c.1386C>T	c.(1384-1386)AGC>AGT	p.S462S	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_182539	NP_872345	Q5JU00	TCTE1_HUMAN	t-complex-associated testis expressed 1	462										ovary(2)|skin(2)	4	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)															---	---	---	---
CDC5L	988	broad.mit.edu	37	6	44364110	44364110	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44364110C>T	uc003oxl.2	+	5	731	c.472C>T	c.(472-474)CGC>TGC	p.R158C		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	158	Potential.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)															---	---	---	---
CDC5L	988	broad.mit.edu	37	6	44376319	44376319	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44376319G>A	uc003oxl.2	+	8	1301	c.1042G>A	c.(1042-1044)GTT>ATT	p.V348I		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	348	Interaction with PPP1R8.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)															---	---	---	---
SUPT3H	8464	broad.mit.edu	37	6	44922276	44922276	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44922276C>T	uc003oxo.2	-	10	1000	c.682G>A	c.(682-684)GCA>ACA	p.A228T	SUPT3H_uc003oxn.1_Missense_Mutation_p.A217T|SUPT3H_uc011dvv.1_Missense_Mutation_p.A65T|SUPT3H_uc003oxp.2_Missense_Mutation_p.A217T|SUPT3H_uc011dvw.1_Missense_Mutation_p.A131T	NM_181356	NP_852001	O75486	SUPT3_HUMAN	suppressor of Ty 3 homolog isoform 2	299					histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3																		---	---	---	---
CLIC5	53405	broad.mit.edu	37	6	45922936	45922936	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:45922936G>A	uc003oxv.3	-	2	692	c.586C>T	c.(586-588)CGC>TGC	p.R196C	CLIC5_uc003oxu.3_Missense_Mutation_p.R37C|CLIC5_uc003oxx.2_Missense_Mutation_p.R37C	NM_001114086	NP_001107558	Q9NZA1	CLIC5_HUMAN	chloride intracellular channel 5 isoform a	196	Helical; Note=After insertion into the membrane; (Potential).				female pregnancy	actin cytoskeleton|cell cortex|chloride channel complex|Golgi apparatus|Golgi apparatus|insoluble fraction|microtubule organizing center	protein binding|voltage-gated chloride channel activity			ovary(1)|skin(1)	2																		---	---	---	---
ENPP4	22875	broad.mit.edu	37	6	46111218	46111218	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46111218C>T	uc003oxy.2	+	4	1462	c.1203C>T	c.(1201-1203)TGC>TGT	p.C401C		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	401	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4																		---	---	---	---
TDRD6	221400	broad.mit.edu	37	6	46657655	46657655	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46657655C>T	uc003oyj.2	+	1	1790	c.1790C>T	c.(1789-1791)GCT>GTT	p.A597V	TDRD6_uc010jze.2_Missense_Mutation_p.A591V	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	597					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)															---	---	---	---
GPR116	221395	broad.mit.edu	37	6	46828556	46828556	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46828556C>T	uc003oyo.3	-	16	2564	c.2275G>A	c.(2275-2277)GCG>ACG	p.A759T	GPR116_uc011dwj.1_Missense_Mutation_p.A314T|GPR116_uc011dwk.1_Missense_Mutation_p.A188T|GPR116_uc003oyp.3_Missense_Mutation_p.A617T|GPR116_uc003oyq.3_Missense_Mutation_p.A759T|GPR116_uc010jzi.1_Missense_Mutation_p.A431T	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	759	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)															---	---	---	---
TNFRSF21	27242	broad.mit.edu	37	6	47253980	47253980	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:47253980A>G	uc003oyv.2	-	2	881	c.448T>C	c.(448-450)TGT>CGT	p.C150R		NM_014452	NP_055267	O75509	TNR21_HUMAN	tumor necrosis factor receptor superfamily,	150	Extracellular (Potential).|TNFR-Cys 3.				cellular lipid metabolic process	cytoplasm|integral to membrane	protein binding|receptor activity				0			Lung(136;0.189)															---	---	---	---
C6orf138	442213	broad.mit.edu	37	6	47847321	47847321	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:47847321A>G	uc011dwm.1	-	3	1293	c.1208T>C	c.(1207-1209)GTG>GCG	p.V403A	C6orf138_uc011dwn.1_Missense_Mutation_p.V167A	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	420						integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1																		---	---	---	---
RHAG	6005	broad.mit.edu	37	6	49580252	49580252	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:49580252G>A	uc003ozk.3	-						RHAG_uc010jzl.2_Intron|RHAG_uc010jzm.2_Intron	NM_000324	NP_000315			Rh-associated glycoprotein						carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)																	---	---	---	---
TFAP2B	7021	broad.mit.edu	37	6	50796321	50796321	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:50796321T>C	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)																	---	---	---	---
TFAP2B	7021	broad.mit.edu	37	6	50796340	50796340	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:50796340A>C	uc003pag.2	+	3	715	c.549A>C	c.(547-549)GAA>GAC	p.E183D		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	183					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)																	---	---	---	---
PKHD1	5314	broad.mit.edu	37	6	51484273	51484273	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51484273T>C	uc003pah.1	-	67	12107	c.11831A>G	c.(11830-11832)CAC>CGC	p.H3944R		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3944	Cytoplasmic (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)																	---	---	---	---
PKHD1	5314	broad.mit.edu	37	6	51732850	51732850	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51732850G>A	uc003pah.1	-	48	7820	c.7544C>T	c.(7543-7545)GCA>GTA	p.A2515V	PKHD1_uc010jzn.1_Missense_Mutation_p.A498V|PKHD1_uc003pai.2_Missense_Mutation_p.A2515V	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2515	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)																	---	---	---	---
PKHD1	5314	broad.mit.edu	37	6	51900433	51900433	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51900433C>T	uc003pah.1	-	28	3460	c.3184G>A	c.(3184-3186)GCT>ACT	p.A1062T	PKHD1_uc003pai.2_Missense_Mutation_p.A1062T	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1062	IPT/TIG 5.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)																	---	---	---	---
GSTA2	2939	broad.mit.edu	37	6	52617800	52617800	+	Intron	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52617800G>C	uc003pay.2	-							NM_000846	NP_000837			glutathione S-transferase alpha 2						glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.118)				Aminophenazone(DB01424)|Amsacrine(DB00276)|Busulfan(DB01008)|Chlorambucil(DB00291)|Chloroquine(DB00608)|Cinnarizine(DB00568)|Clofibrate(DB00636)|Ethacrynic acid(DB00903)|Glutathione(DB00143)|Mechlorethamine(DB00888)|Praziquantel(DB01058)|Vitamin E(DB00163)													---	---	---	---
GSTA4	2941	broad.mit.edu	37	6	52849393	52849393	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52849393A>G	uc003pbc.2	-	4	347	c.283T>C	c.(283-285)TAC>CAC	p.Y95H	GSTA4_uc003pbd.2_Missense_Mutation_p.Y2H|GSTA4_uc003pbe.2_Missense_Mutation_p.Y2H|GSTA4_uc003pbf.2_Missense_Mutation_p.Y95H	NM_001512	NP_001503	O15217	GSTA4_HUMAN	glutathione S-transferase alpha 4	95	GST C-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity|protein homodimerization activity				0	Lung NSC(77;0.103)				Glutathione(DB00143)													---	---	---	---
ICK	22858	broad.mit.edu	37	6	52883237	52883237	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52883237G>A	uc003pbh.2	-	8	1044	c.554C>T	c.(553-555)GCG>GTG	p.A185V	ICK_uc003pbi.2_Missense_Mutation_p.A185V|ICK_uc003pbj.2_Missense_Mutation_p.A185V	NM_016513	NP_057597	Q9UPZ9	ICK_HUMAN	intestinal cell kinase	185	Protein kinase.				intracellular protein kinase cascade|multicellular organismal development	cytosol|nucleus	ATP binding|cyclin-dependent protein kinase activity|magnesium ion binding	p.A185A(1)		ovary(1)|large_intestine(1)|lung(1)|kidney(1)|central_nervous_system(1)	5	Lung NSC(77;0.103)																	---	---	---	---
GCM1	8521	broad.mit.edu	37	6	52996822	52996822	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52996822G>A	uc003pbp.2	-	4	633	c.424C>T	c.(424-426)CGC>TGC	p.R142C	GCM1_uc010jzr.2_Missense_Mutation_p.R142C	NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	142	GCM.					transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)																	---	---	---	---
KLHL31	401265	broad.mit.edu	37	6	53516493	53516493	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:53516493G>A	uc003pcb.3	-	3	1949	c.1808C>T	c.(1807-1809)GCC>GTC	p.A603V	uc003pcc.1_5'UTR	NM_001003760	NP_001003760	Q9H511	KLH31_HUMAN	kelch repeat and BTB (POZ) domain containing 1	603	Kelch 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent					ovary(1)	1	Lung NSC(77;0.0158)															OREG0017507	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
GFRAL	389400	broad.mit.edu	37	6	55216125	55216125	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:55216125G>A	uc003pcm.1	+	5	531	c.445G>A	c.(445-447)GCC>ACC	p.A149T		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	149	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)															---	---	---	---
BMP5	653	broad.mit.edu	37	6	55623844	55623844	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:55623844C>T	uc003pcq.2	-	6	1886	c.1174G>A	c.(1174-1176)GCC>ACC	p.A392T	BMP5_uc011dxf.1_Intron	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	392					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)															---	---	---	---
DST	667	broad.mit.edu	37	6	56323854	56323854	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56323854C>T	uc003pdf.2	-	97	17005	c.16977G>A	c.(16975-16977)ACG>ACA	p.T5659T	DST_uc003pcz.3_Silent_p.T5481T|DST_uc011dxj.1_Silent_p.T5510T|DST_uc011dxk.1_Silent_p.T5521T|DST_uc003pcy.3_Silent_p.T5155T|DST_uc003pcv.3_Silent_p.T277T|DST_uc003pcw.3_Silent_p.T238T|DST_uc003pcx.3_Silent_p.T201T	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	7554					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)															---	---	---	---
DST	667	broad.mit.edu	37	6	56392496	56392496	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56392496G>A	uc003pdf.2	-	62	11388	c.11360C>T	c.(11359-11361)GCC>GTC	p.A3787V	DST_uc003pcz.3_Missense_Mutation_p.A3609V|DST_uc011dxj.1_Missense_Mutation_p.A3638V|DST_uc011dxk.1_Missense_Mutation_p.A3649V|DST_uc003pcy.3_Missense_Mutation_p.A3283V	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5695					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)															---	---	---	---
DST	667	broad.mit.edu	37	6	56464943	56464943	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56464943C>T	uc003pdf.2	-	39	5289	c.5261G>A	c.(5260-5262)CGC>CAC	p.R1754H	DST_uc003pcz.3_Missense_Mutation_p.R1576H|DST_uc011dxj.1_Missense_Mutation_p.R1605H|DST_uc011dxk.1_Missense_Mutation_p.R1616H|DST_uc003pcy.3_Missense_Mutation_p.R1250H|DST_uc010kaa.1_5'Flank	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	3662					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)															---	---	---	---
DST	667	broad.mit.edu	37	6	56495997	56495997	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56495997G>A	uc003pdf.2	-						DST_uc003pcz.3_Intron|DST_uc011dxj.1_Intron|DST_uc011dxk.1_Intron|DST_uc003pcy.3_Intron|DST_uc003pdb.2_Intron|DST_uc003pdc.3_Intron|DST_uc003pdd.3_Intron	NM_001144769	NP_001138241			dystonin isoform 2						cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)															---	---	---	---
DST	667	broad.mit.edu	37	6	56499320	56499320	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56499320A>G	uc003pdf.2	-	25	3363	c.3335T>C	c.(3334-3336)GTC>GCC	p.V1112A	DST_uc003pcz.3_Missense_Mutation_p.V934A|DST_uc011dxj.1_Missense_Mutation_p.V963A|DST_uc011dxk.1_Missense_Mutation_p.V974A|DST_uc003pcy.3_Missense_Mutation_p.V608A|DST_uc003pdb.2_Missense_Mutation_p.V608A|DST_uc003pdc.3_Missense_Mutation_p.V608A|DST_uc003pdd.3_Missense_Mutation_p.V608A	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	934	SH3.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)															---	---	---	---
BEND6	221336	broad.mit.edu	37	6	56880071	56880071	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56880071A>G	uc010kab.2	+	4	1025	c.439A>G	c.(439-441)ACA>GCA	p.T147A	BEND6_uc003pdi.3_Missense_Mutation_p.T49A	NM_152731	NP_689944	Q5SZJ8	BEND6_HUMAN	BEN domain containing 6	147											0																		---	---	---	---
KIAA1586	57691	broad.mit.edu	37	6	56917800	56917800	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56917800G>A	uc003pdj.2	+	4	673	c.503G>A	c.(502-504)CGG>CAG	p.R168Q	KIAA1586_uc011dxm.1_Missense_Mutation_p.R141Q	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	168							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)															---	---	---	---
KIAA1586	57691	broad.mit.edu	37	6	56918150	56918150	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56918150C>T	uc003pdj.2	+	4	1023	c.853C>T	c.(853-855)CGT>TGT	p.R285C	KIAA1586_uc011dxm.1_Missense_Mutation_p.R258C	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	285							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)															---	---	---	---
PTP4A1	7803	broad.mit.edu	37	6	64286802	64286802	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64286802G>A	uc003pek.2	+	4	1003	c.17G>A	c.(16-18)CGC>CAC	p.R6H	PTP4A1_uc003pel.2_Missense_Mutation_p.R6H	NM_003463	NP_003454	Q93096	TP4A1_HUMAN	protein tyrosine phosphatase type IVA, member 1	6					cell cycle|multicellular organismal development	early endosome|endoplasmic reticulum|internal side of plasma membrane|spindle	protein binding|protein tyrosine phosphatase activity				0	all_cancers(3;0.071)|all_epithelial(2;0.0146)|Lung NSC(77;0.175)		Epithelial(2;0.0365)|LUSC - Lung squamous cell carcinoma(74;0.0644)|all cancers(2;0.112)|Lung(124;0.13)															---	---	---	---
EYS	346007	broad.mit.edu	37	6	66200576	66200576	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:66200576C>A	uc011dxu.1	-	5	1311	c.773G>T	c.(772-774)GGC>GTC	p.G258V	EYS_uc003peq.2_Missense_Mutation_p.G258V|EYS_uc003per.1_Missense_Mutation_p.G258V|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	258	EGF-like 3.				response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6																		---	---	---	---
BAI3	577	broad.mit.edu	37	6	69646544	69646544	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:69646544G>T	uc003pev.3	+	5	1450	c.1002G>T	c.(1000-1002)AGG>AGT	p.R334S	BAI3_uc010kak.2_Missense_Mutation_p.R334S	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	334	TSP type-1 1.|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)																---	---	---	---
BAI3	577	broad.mit.edu	37	6	69665995	69665995	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:69665995G>A	uc003pev.3	+	7	1723	c.1275G>A	c.(1273-1275)CGG>CGA	p.R425R	BAI3_uc010kak.2_Silent_p.R425R	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	425	TSP type-1 3.|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)																---	---	---	---
BAI3	577	broad.mit.edu	37	6	69666038	69666038	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:69666038C>T	uc003pev.3	+	7	1766	c.1318C>T	c.(1318-1320)CCA>TCA	p.P440S	BAI3_uc010kak.2_Missense_Mutation_p.P440S	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	440	TSP type-1 3.|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)																---	---	---	---
BAI3	577	broad.mit.edu	37	6	69703826	69703826	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:69703826G>T	uc003pev.3	+	11	2349	c.1901G>T	c.(1900-1902)AGT>ATT	p.S634I	BAI3_uc010kak.2_Missense_Mutation_p.S634I	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	634	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)																---	---	---	---
BAI3	577	broad.mit.edu	37	6	69758103	69758103	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:69758103G>T	uc003pev.3	+	14	2582	c.2134G>T	c.(2134-2136)GCC>TCC	p.A712S	BAI3_uc010kak.2_Missense_Mutation_p.A712S	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	712	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)																---	---	---	---
BAI3	577	broad.mit.edu	37	6	70098714	70098714	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70098714A>G	uc003pev.3	+	32	4948	c.4500A>G	c.(4498-4500)CCA>CCG	p.P1500P	BAI3_uc010kak.2_Silent_p.P1500P|BAI3_uc011dxx.1_Silent_p.P706P	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1500	Cytoplasmic (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)																---	---	---	---
COL19A1	1310	broad.mit.edu	37	6	70639416	70639416	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70639416C>T	uc003pfc.1	+	6	607	c.490C>T	c.(490-492)CGT>TGT	p.R164C	COL19A1_uc010kam.1_Missense_Mutation_p.R60C	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	164	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4																		---	---	---	---
COL19A1	1310	broad.mit.edu	37	6	70639518	70639518	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70639518G>A	uc003pfc.1	+	6	709	c.592G>A	c.(592-594)GAT>AAT	p.D198N	COL19A1_uc010kam.1_Missense_Mutation_p.D94N	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	198	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4																		---	---	---	---
COL9A1	1297	broad.mit.edu	37	6	71003937	71003937	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:71003937C>T	uc003pfg.3	-	5	788	c.629G>A	c.(628-630)GGC>GAC	p.G210D		NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	210	Nonhelical region (NC4).|TSP N-terminal.				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4																		---	---	---	---
SMAP1	60682	broad.mit.edu	37	6	71442157	71442157	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:71442157T>C	uc003pfr.2	+	2	443	c.195T>C	c.(193-195)GTT>GTC	p.V65V	SMAP1_uc011dxy.1_RNA|SMAP1_uc003pfs.2_Silent_p.V65V|SMAP1_uc010kao.2_Silent_p.V65V|SMAP1_uc010kap.2_Silent_p.V55V	NM_001044305	NP_001037770	Q8IYB5	SMAP1_HUMAN	stromal membrane-associated GTPase-activating	65	Arf-GAP.				regulation of ARF GTPase activity	plasma membrane	ARF GTPase activator activity|zinc ion binding				0																		---	---	---	---
RIMS1	22999	broad.mit.edu	37	6	73016981	73016981	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:73016981C>T	uc003pga.2	+	27	3948	c.3871C>T	c.(3871-3873)CGA>TGA	p.R1291*	RIMS1_uc011dyb.1_Nonsense_Mutation_p.R688*|RIMS1_uc003pgc.2_Nonsense_Mutation_p.R740*|RIMS1_uc010kaq.2_Nonsense_Mutation_p.R611*|RIMS1_uc011dyc.1_Intron|RIMS1_uc010kar.2_Intron|RIMS1_uc011dyd.1_Intron|RIMS1_uc003pgf.2_Nonsense_Mutation_p.R300*|RIMS1_uc003pgg.2_Intron|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Intron|RIMS1_uc003pgd.2_Nonsense_Mutation_p.R357*|RIMS1_uc003pge.2_Nonsense_Mutation_p.R331*|RIMS1_uc011dye.1_Nonsense_Mutation_p.R97*|RIMS1_uc011dyf.1_Intron	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1291					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)																---	---	---	---
KCNQ5	56479	broad.mit.edu	37	6	73787158	73787158	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:73787158C>T	uc003pgk.2	+	4	1077	c.730C>T	c.(730-732)CGC>TGC	p.R244C	KCNQ5_uc003pgj.3_Missense_Mutation_p.R244C|KCNQ5_uc011dyh.1_Missense_Mutation_p.R244C|KCNQ5_uc011dyi.1_Missense_Mutation_p.R244C|KCNQ5_uc010kat.2_Missense_Mutation_p.R244C|KCNQ5_uc011dyj.1_Missense_Mutation_p.R244C|KCNQ5_uc011dyk.1_Missense_Mutation_p.R3C	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	244	Helical; Voltage-sensor; Name=Segment S4; (Potential).		R -> C (in a colorectal cancer sample; somatic mutation).		protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity	p.R244C(1)		ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)														---	---	---	---
KCNQ5	56479	broad.mit.edu	37	6	73879485	73879485	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:73879485C>T	uc003pgk.2	+	11	1832	c.1485C>T	c.(1483-1485)GGC>GGT	p.G495G	KCNQ5_uc011dyh.1_Silent_p.G514G|KCNQ5_uc011dyi.1_Silent_p.G505G|KCNQ5_uc010kat.2_Silent_p.G486G|KCNQ5_uc011dyj.1_Intron|KCNQ5_uc011dyk.1_Silent_p.G245G	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	495					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)														---	---	---	---
COL12A1	1303	broad.mit.edu	37	6	75839850	75839850	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:75839850C>A	uc003phs.2	-	37	6333	c.6167G>T	c.(6166-6168)AGG>ATG	p.R2056M	COL12A1_uc003pht.2_Missense_Mutation_p.R892M	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2056	Fibronectin type-III 16.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9																		---	---	---	---
COL12A1	1303	broad.mit.edu	37	6	75841653	75841653	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:75841653T>C	uc003phs.2	-						COL12A1_uc003pht.2_Intron	NM_004370	NP_004361			collagen, type XII, alpha 1 long isoform						cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9																		---	---	---	---
FILIP1	27145	broad.mit.edu	37	6	76023157	76023157	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:76023157A>G	uc003pia.2	-	5	2764	c.2391T>C	c.(2389-2391)GAT>GAC	p.D797D	FILIP1_uc003phy.1_Silent_p.D797D|FILIP1_uc003phz.2_Silent_p.D698D|FILIP1_uc010kbe.2_Silent_p.D800D|FILIP1_uc003pib.1_Silent_p.D549D	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	797										skin(3)|ovary(1)	4																		---	---	---	---
PHIP	55023	broad.mit.edu	37	6	79668246	79668246	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:79668246C>T	uc003pir.2	-	32	3954	c.3728G>A	c.(3727-3729)AGC>AAC	p.S1243N	PHIP_uc003piq.2_Missense_Mutation_p.S267N|PHIP_uc011dyp.1_Missense_Mutation_p.S1242N|PHIP_uc003pio.3_Missense_Mutation_p.S129N	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1243	Bromo 1.				insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)														---	---	---	---
PHIP	55023	broad.mit.edu	37	6	79695140	79695140	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:79695140G>A	uc003pir.2	-	22	2692	c.2466C>T	c.(2464-2466)GGC>GGT	p.G822G	PHIP_uc003piq.2_5'Flank|PHIP_uc011dyp.1_Silent_p.G821G	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	822					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)														---	---	---	---
PHIP	55023	broad.mit.edu	37	6	79708078	79708078	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:79708078T>G	uc003pir.2	-	18	2136	c.1910A>C	c.(1909-1911)AAC>ACC	p.N637T	PHIP_uc011dyp.1_Missense_Mutation_p.N637T	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	637					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)														---	---	---	---
ELOVL4	6785	broad.mit.edu	37	6	80635973	80635973	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80635973G>A	uc003pja.3	-	2	545	c.226C>T	c.(226-228)CGT>TGT	p.R76C	ELOVL4_uc011dyt.1_Intron	NM_022726	NP_073563	Q9GZR5	ELOV4_HUMAN	elongation of very long chain fatty acids-like	76					fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	integral to endoplasmic reticulum membrane	G-protein coupled photoreceptor activity|protein binding|transferase activity, transferring acyl groups other than amino-acyl groups			ovary(1)|skin(1)	2		all_cancers(76;1.83e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.011)		BRCA - Breast invasive adenocarcinoma(397;0.0168)	Alpha-Linolenic Acid(DB00132)													---	---	---	---
IBTK	25998	broad.mit.edu	37	6	82933304	82933304	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:82933304A>G	uc003pjl.1	-	8	1504	c.977T>C	c.(976-978)GTA>GCA	p.V326A	IBTK_uc011dyv.1_Missense_Mutation_p.V326A|IBTK_uc011dyw.1_Missense_Mutation_p.V326A|IBTK_uc010kbi.1_Missense_Mutation_p.V20A|IBTK_uc003pjm.2_Missense_Mutation_p.V326A	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	326					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)														---	---	---	---
DOPEY1	23033	broad.mit.edu	37	6	83835317	83835317	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83835317A>T	uc003pjs.1	+	15	1844	c.1584A>T	c.(1582-1584)GAA>GAT	p.E528D	DOPEY1_uc011dyy.1_Missense_Mutation_p.E519D|DOPEY1_uc010kbl.1_Missense_Mutation_p.E519D	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	528					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)														---	---	---	---
DOPEY1	23033	broad.mit.edu	37	6	83845508	83845508	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83845508T>C	uc003pjs.1	+	20	3301	c.3041T>C	c.(3040-3042)GTA>GCA	p.V1014A	DOPEY1_uc011dyy.1_Missense_Mutation_p.V1005A|DOPEY1_uc010kbl.1_Missense_Mutation_p.V1005A|DOPEY1_uc003pjt.2_5'Flank	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1014					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)														---	---	---	---
DOPEY1	23033	broad.mit.edu	37	6	83848526	83848526	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83848526C>T	uc003pjs.1	+	21	5025	c.4765C>T	c.(4765-4767)CTG>TTG	p.L1589L	DOPEY1_uc011dyy.1_Silent_p.L1580L|DOPEY1_uc010kbl.1_Silent_p.L1580L|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1589					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)														---	---	---	---
DOPEY1	23033	broad.mit.edu	37	6	83863283	83863283	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83863283T>C	uc003pjs.1	+	31	6443	c.6183T>C	c.(6181-6183)GTT>GTC	p.V2061V	DOPEY1_uc011dyy.1_Silent_p.V2052V|DOPEY1_uc010kbl.1_Silent_p.V2052V|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	2061					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)														---	---	---	---
DOPEY1	23033	broad.mit.edu	37	6	83877659	83877659	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83877659C>T	uc003pjs.1	+	39	7431	c.7171C>T	c.(7171-7173)CGC>TGC	p.R2391C	DOPEY1_uc011dyy.1_Missense_Mutation_p.R2402C|DOPEY1_uc010kbl.1_Missense_Mutation_p.R2382C|DOPEY1_uc003pjt.2_RNA|uc003pju.1_5'Flank	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	2391					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)														---	---	---	---
PGM3	5238	broad.mit.edu	37	6	83900638	83900638	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83900638C>T	uc003pjv.2	-	2	134	c.94G>A	c.(94-96)GCA>ACA	p.A32T	PGM3_uc003pjw.2_Intron|PGM3_uc011dyz.1_Missense_Mutation_p.A60T|RWDD2A_uc003pjx.3_5'Flank|RWDD2A_uc011dza.1_5'Flank	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3	32					dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)														---	---	---	---
NT5E	4907	broad.mit.edu	37	6	86199295	86199295	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86199295G>A	uc003pko.3	+	6	1744	c.1188G>A	c.(1186-1188)TCG>TCA	p.S396S	NT5E_uc010kbr.2_Silent_p.S396S	NM_002526	NP_002517	P21589	5NTD_HUMAN	5' nucleotidase, ecto precursor	396					DNA metabolic process|purine base metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	5'-nucleotidase activity|nucleotide binding			ovary(3)|central_nervous_system(1)	4		all_cancers(76;0.000215)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0427)		BRCA - Breast invasive adenocarcinoma(108;0.0417)	Pentoxifylline(DB00806)													---	---	---	---
SYNCRIP	10492	broad.mit.edu	37	6	86324613	86324613	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86324613C>T	uc003pla.2	-	11	2274	c.1733G>A	c.(1732-1734)CGC>CAC	p.R578H	SYNCRIP_uc003pku.2_Intron|SYNCRIP_uc003pkw.2_Intron|SYNCRIP_uc003pky.2_Intron|SYNCRIP_uc003pkv.2_Intron|SYNCRIP_uc003pkx.2_Intron|SYNCRIP_uc003pkz.2_Missense_Mutation_p.R543H	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	578	Bipartite nuclear localization signal (Potential).				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)														---	---	---	---
HTR1E	3354	broad.mit.edu	37	6	87725357	87725357	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:87725357A>G	uc003pli.2	+	2	1008	c.305A>G	c.(304-306)GAC>GGC	p.D102G		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	102	Helical; Name=3; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)													---	---	---	---
HTR1E	3354	broad.mit.edu	37	6	87725457	87725457	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:87725457G>A	uc003pli.2	+	2	1108	c.405G>A	c.(403-405)ACG>ACA	p.T135T		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	135	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)													---	---	---	---
C6orf162	57150	broad.mit.edu	37	6	88049953	88049953	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88049953G>A	uc003plp.1	+	4	344	c.255G>A	c.(253-255)GGG>GGA	p.G85G	C6orf164_uc003plr.2_Intron|C6orf162_uc003plq.1_Silent_p.G85G	NM_001042493	NP_001035958	Q96KF7	CF162_HUMAN	hypothetical protein LOC57150	85						integral to membrane					0		all_cancers(76;3.81e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.15e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.3e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0164)														---	---	---	---
C6orf165	154313	broad.mit.edu	37	6	88128088	88128088	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88128088C>T	uc003plv.2	+	7	886	c.794C>T	c.(793-795)GCG>GTG	p.A265V	C6orf165_uc003plw.2_Missense_Mutation_p.A77V|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Missense_Mutation_p.A265V	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	265										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)														---	---	---	---
ORC3L	23595	broad.mit.edu	37	6	88321908	88321908	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88321908G>A	uc003pmh.2	+	8	859	c.815G>A	c.(814-816)TGC>TAC	p.C272Y	ORC3L_uc011dzl.1_Missense_Mutation_p.C272Y|ORC3L_uc011dzm.1_Missense_Mutation_p.C272Y|ORC3L_uc011dzn.1_RNA|ORC3L_uc003pmg.2_Missense_Mutation_p.C272Y|ORC3L_uc003pmi.2_Missense_Mutation_p.C272Y|ORC3L_uc011dzo.1_Missense_Mutation_p.C129Y|ORC3L_uc011dzp.1_Missense_Mutation_p.C129Y	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	272					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)														---	---	---	---
ORC3L	23595	broad.mit.edu	37	6	88372743	88372743	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88372743A>T	uc003pmh.2	+	17	1758	c.1714A>T	c.(1714-1716)ACA>TCA	p.T572S	ORC3L_uc011dzn.1_RNA|ORC3L_uc003pmg.2_Missense_Mutation_p.T573S|ORC3L_uc003pmi.2_Missense_Mutation_p.T535S|ORC3L_uc011dzo.1_Missense_Mutation_p.T429S|ORC3L_uc011dzp.1_Missense_Mutation_p.T429S|ORC3L_uc003pmj.1_5'Flank	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	572					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)														---	---	---	---
ORC3L	23595	broad.mit.edu	37	6	88372813	88372813	+	Missense_Mutation	SNP	C	T	T	rs61747273	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88372813C>T	uc003pmh.2	+	17	1828	c.1784C>T	c.(1783-1785)CCG>CTG	p.P595L	ORC3L_uc011dzn.1_RNA|ORC3L_uc003pmg.2_Missense_Mutation_p.P596L|ORC3L_uc003pmi.2_Missense_Mutation_p.P558L|ORC3L_uc011dzo.1_Missense_Mutation_p.P452L|ORC3L_uc011dzp.1_Missense_Mutation_p.P452L|ORC3L_uc003pmj.1_5'Flank	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	595					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)														---	---	---	---
CNR1	1268	broad.mit.edu	37	6	88854116	88854116	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88854116G>A	uc011dzq.1	-	2	4441	c.878C>T	c.(877-879)GCG>GTG	p.A293V	CNR1_uc010kbz.2_Missense_Mutation_p.A293V|CNR1_uc011dzr.1_Missense_Mutation_p.A293V|CNR1_uc011dzs.1_Missense_Mutation_p.A293V|CNR1_uc003pmq.3_Missense_Mutation_p.A293V|CNR1_uc011dzt.1_Missense_Mutation_p.A293V|CNR1_uc010kca.2_Missense_Mutation_p.A260V	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	293	Helical; Name=5; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)													---	---	---	---
PM20D2	135293	broad.mit.edu	37	6	89868083	89868083	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89868083C>A	uc003pmz.2	+	5	1047	c.952C>A	c.(952-954)CTT>ATT	p.L318I		NM_001010853	NP_001010853	Q8IYS1	P20D2_HUMAN	aminoacylase 1-like 2	318							hydrolase activity				0		all_cancers(76;9.47e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00813)														---	---	---	---
MDN1	23195	broad.mit.edu	37	6	90363931	90363931	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90363931C>T	uc003pnn.1	-	93	15729	c.15613G>A	c.(15613-15615)GAG>AAG	p.E5205K		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5205					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)														---	---	---	---
MDN1	23195	broad.mit.edu	37	6	90365627	90365627	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90365627G>A	uc003pnn.1	-	92	15462	c.15346C>T	c.(15346-15348)CGT>TGT	p.R5116C		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5116					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)														---	---	---	---
MDN1	23195	broad.mit.edu	37	6	90372631	90372631	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90372631G>A	uc003pnn.1	-	86	14408	c.14292C>T	c.(14290-14292)GGC>GGT	p.G4764G		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4764					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)														---	---	---	---
MDN1	23195	broad.mit.edu	37	6	90420485	90420485	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90420485A>T	uc003pnn.1	-	50	7796	c.7680T>A	c.(7678-7680)AGT>AGA	p.S2560R		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2560					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)														---	---	---	---
MDN1	23195	broad.mit.edu	37	6	90422950	90422950	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90422950G>A	uc003pnn.1	-	47	7251	c.7135C>T	c.(7135-7137)CGA>TGA	p.R2379*		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2379					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)														---	---	---	---
MDN1	23195	broad.mit.edu	37	6	90433295	90433295	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90433295G>A	uc003pnn.1	-	39	5830	c.5714C>T	c.(5713-5715)GCC>GTC	p.A1905V		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1905					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)														---	---	---	---
MDN1	23195	broad.mit.edu	37	6	90499580	90499580	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90499580C>T	uc003pnn.1	-	7	1265	c.1149G>A	c.(1147-1149)TGG>TGA	p.W383*	MDN1_uc003pnp.1_Nonsense_Mutation_p.W383*	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	383					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)														---	---	---	---
CASP8AP2	9994	broad.mit.edu	37	6	90572093	90572093	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90572093G>A	uc003pnr.2	+	7	861	c.665G>A	c.(664-666)TGC>TAC	p.C222Y	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.C222Y|CASP8AP2_uc011dzz.1_Missense_Mutation_p.C222Y	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	222					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)														---	---	---	---
BACH2	60468	broad.mit.edu	37	6	90660539	90660539	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90660539C>A	uc011eab.1	-	7	2095	c.1286G>T	c.(1285-1287)AGG>ATG	p.R429M	BACH2_uc003pnw.2_Missense_Mutation_p.R429M|BACH2_uc010kch.2_Missense_Mutation_p.R429M	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	429						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)														---	---	---	---
BACH2	60468	broad.mit.edu	37	6	90718450	90718450	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90718450G>A	uc011eab.1	-	6	923	c.114C>T	c.(112-114)GAC>GAT	p.D38D	BACH2_uc003pnw.2_Silent_p.D38D|BACH2_uc010kch.2_Silent_p.D38D	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	38	BTB.					nucleus	protein dimerization activity|sequence-specific DNA binding	p.D38N(1)		ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)														---	---	---	---
KIAA0776	23376	broad.mit.edu	37	6	96984150	96984150	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:96984150G>A	uc003por.2	+	8	734	c.686G>A	c.(685-687)CGC>CAC	p.R229H	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	229	Involved in CDK5RAP3-binding.				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)														---	---	---	---
KLHL32	114792	broad.mit.edu	37	6	97562260	97562260	+	Missense_Mutation	SNP	G	A	A	rs150244885		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:97562260G>A	uc010kcm.1	+	7	1701	c.1229G>A	c.(1228-1230)CGC>CAC	p.R410H	KLHL32_uc003poy.2_Missense_Mutation_p.R410H|KLHL32_uc011ead.1_Missense_Mutation_p.R374H|KLHL32_uc003poz.2_Intron|KLHL32_uc011eae.1_Missense_Mutation_p.R341H|KLHL32_uc003ppa.2_Intron	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	410	Kelch 3.									ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)														---	---	---	---
POU3F2	5454	broad.mit.edu	37	6	99283807	99283807	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:99283807G>A	uc003ppe.2	+	1	1228	c.1058G>A	c.(1057-1059)CGC>CAC	p.R353H		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	353					positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)														---	---	---	---
POU3F2	5454	broad.mit.edu	37	6	99283841	99283841	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:99283841C>T	uc003ppe.2	+	1	1262	c.1092C>T	c.(1090-1092)AGC>AGT	p.S364S		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	364	Homeobox.				positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)														---	---	---	---
COQ3	51805	broad.mit.edu	37	6	99824065	99824065	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:99824065G>A	uc003ppk.2	-							NM_017421	NP_059117			hexaprenyldihydroxybenzoate methyltransferase						glycerol metabolic process|ubiquinone biosynthetic process	mitochondrial matrix	2-polyprenyl-6-methoxy-1,4-benzoquinone methyltransferase activity|3-demethylubiquinone-9 3-O-methyltransferase activity|hexaprenyldihydroxybenzoate methyltransferase activity			upper_aerodigestive_tract(1)	1		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0625)														---	---	---	---
SFRS18	25957	broad.mit.edu	37	6	99849276	99849276	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:99849276T>C	uc003ppo.3	-	12	1786	c.1558A>G	c.(1558-1560)AGC>GGC	p.S520G	SFRS18_uc003ppl.2_Missense_Mutation_p.S66G|SFRS18_uc003ppp.3_Missense_Mutation_p.S520G|SFRS18_uc011eag.1_Missense_Mutation_p.S520G	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	520	Ser-rich.					nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)														---	---	---	---
SFRS18	25957	broad.mit.edu	37	6	99855980	99855980	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:99855980G>A	uc003ppo.3	-	7	1069	c.841C>T	c.(841-843)CGT>TGT	p.R281C	SFRS18_uc003ppp.3_Missense_Mutation_p.R281C|SFRS18_uc011eag.1_Missense_Mutation_p.R281C|SFRS18_uc003ppr.2_Missense_Mutation_p.R281C	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	281						nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)														---	---	---	---
SFRS18	25957	broad.mit.edu	37	6	99856111	99856111	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:99856111C>T	uc003ppo.3	-	7	938	c.710G>A	c.(709-711)CGC>CAC	p.R237H	SFRS18_uc003ppp.3_Missense_Mutation_p.R237H|SFRS18_uc011eag.1_Missense_Mutation_p.R237H|SFRS18_uc003ppr.2_Missense_Mutation_p.R237H	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	237	Potential.					nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)														---	---	---	---
PRDM13	59336	broad.mit.edu	37	6	100062403	100062403	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100062403G>A	uc003pqg.1	+	4	2153	c.1892G>A	c.(1891-1893)CGC>CAC	p.R631H		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	631	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)														---	---	---	---
MCHR2	84539	broad.mit.edu	37	6	100403950	100403950	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100403950G>T	uc003pqh.1	-	2	389	c.74C>A	c.(73-75)GCT>GAT	p.A25D	MCHR2_uc003pqi.1_Missense_Mutation_p.A25D	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	25	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)														---	---	---	---
SIM1	6492	broad.mit.edu	37	6	100896014	100896014	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100896014C>T	uc003pqj.3	-						SIM1_uc010kcu.2_Intron	NM_005068	NP_005059			single-minded homolog 1						cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)														---	---	---	---
SIM1	6492	broad.mit.edu	37	6	100897563	100897563	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100897563C>T	uc003pqj.3	-	4	568	c.361G>A	c.(361-363)GGA>AGA	p.G121R	SIM1_uc010kcu.2_Missense_Mutation_p.G121R	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	121	PAS 1.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)														---	---	---	---
ASCC3	10973	broad.mit.edu	37	6	101109778	101109778	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:101109778C>T	uc003pqk.2	-	16	2936	c.2607G>A	c.(2605-2607)ACG>ACA	p.T869T	ASCC3_uc011eai.1_Silent_p.T771T	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	869	Helicase C-terminal 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)														---	---	---	---
ASCC3	10973	broad.mit.edu	37	6	101165958	101165958	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:101165958G>A	uc003pqk.2	-	12	2401	c.2072C>T	c.(2071-2073)GCA>GTA	p.A691V	ASCC3_uc011eai.1_Missense_Mutation_p.A593V|ASCC3_uc003pql.2_Missense_Mutation_p.A691V	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	691					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)														---	---	---	---
ASCC3	10973	broad.mit.edu	37	6	101215064	101215064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:101215064C>T	uc003pqk.2	-	9	1882	c.1553G>A	c.(1552-1554)CGC>CAC	p.R518H	ASCC3_uc011eai.1_Missense_Mutation_p.R420H|ASCC3_uc003pql.2_Missense_Mutation_p.R518H	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	518	Helicase ATP-binding 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)														---	---	---	---
GRIK2	2898	broad.mit.edu	37	6	101847167	101847167	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:101847167T>A	uc003pqp.3	+	1	263	c.14T>A	c.(13-15)TTC>TAC	p.F5Y	GRIK2_uc003pqn.2_Missense_Mutation_p.F5Y|GRIK2_uc003pqo.3_Missense_Mutation_p.F5Y|GRIK2_uc010kcw.2_Missense_Mutation_p.F5Y	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	5					glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)													---	---	---	---
GRIK2	2898	broad.mit.edu	37	6	102074360	102074360	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:102074360T>C	uc003pqp.3	+	3	638	c.389T>C	c.(388-390)ATA>ACA	p.I130T	GRIK2_uc003pqn.2_Missense_Mutation_p.I130T|GRIK2_uc003pqo.3_Missense_Mutation_p.I130T|GRIK2_uc010kcw.2_Missense_Mutation_p.I130T	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	130	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)													---	---	---	---
HACE1	57531	broad.mit.edu	37	6	105244857	105244857	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105244857C>T	uc003pqu.1	-	8	938	c.661G>A	c.(661-663)GCC>ACC	p.A221T	HACE1_uc010kcy.1_5'UTR|HACE1_uc010kcz.1_Missense_Mutation_p.A221T	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	221	ANK 5.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)														---	---	---	---
POPDC3	64208	broad.mit.edu	37	6	105609713	105609713	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105609713C>A	uc003prb.2	-	2	474	c.72G>T	c.(70-72)GAG>GAT	p.E24D	uc003pqz.2_Intron|POPDC3_uc003pra.2_RNA	NM_022361	NP_071756	Q9HBV1	POPD3_HUMAN	popeye protein 3	24						integral to membrane				skin(3)|ovary(2)	5		all_cancers(87;4.87e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0157)|Colorectal(196;0.202)|Lung NSC(302;0.238)																---	---	---	---
PREP	5550	broad.mit.edu	37	6	105730445	105730445	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105730445G>A	uc003prc.2	-	13	1765	c.1562C>T	c.(1561-1563)GCC>GTC	p.A521V		NM_002726	NP_002717	P48147	PPCE_HUMAN	prolyl endopeptidase	521					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)													---	---	---	---
PREP	5550	broad.mit.edu	37	6	105736746	105736746	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105736746A>G	uc003prc.2	-	11	1544	c.1341T>C	c.(1339-1341)GGT>GGC	p.G447G		NM_002726	NP_002717	P48147	PPCE_HUMAN	prolyl endopeptidase	447					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)													---	---	---	---
PRDM1	639	broad.mit.edu	37	6	106553770	106553770	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:106553770G>A	uc003prd.2	+	5	1969	c.1735G>A	c.(1735-1737)GTT>ATT	p.V579I	PRDM1_uc003pre.2_Missense_Mutation_p.V445I	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	579	C2H2-type 1.				negative regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.?(1)		haematopoietic_and_lymphoid_tissue(54)|ovary(1)|skin(1)	56	Breast(9;0.022)	all_cancers(87;2.2e-31)|all_epithelial(87;2.03e-21)|Acute lymphoblastic leukemia(125;4.99e-11)|all_lung(197;7.55e-09)|all_hematologic(75;5.82e-08)|Lung NSC(302;1.28e-06)|Colorectal(196;0.0112)|Ovarian(999;0.0365)		all cancers(137;1.83e-46)|Epithelial(106;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(136;1.99e-20)|GBM - Glioblastoma multiforme(226;3.72e-11)|BRCA - Breast invasive adenocarcinoma(108;1.38e-05)				D|N|Mis|F|S		DLBCL								---	---	---	---
SOBP	55084	broad.mit.edu	37	6	107956476	107956476	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:107956476G>A	uc003prx.2	+	6	2932	c.2428G>A	c.(2428-2430)GCG>ACG	p.A810T		NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog	810							metal ion binding			ovary(1)	1		all_cancers(87;5.26e-06)|Acute lymphoblastic leukemia(125;2.87e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.00193)|Colorectal(196;0.156)		BRCA - Breast invasive adenocarcinoma(108;0.026)|all cancers(137;0.087)|Epithelial(106;0.104)|OV - Ovarian serous cystadenocarcinoma(136;0.154)														---	---	---	---
FOXO3	2309	broad.mit.edu	37	6	108984700	108984700	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:108984700C>T	uc003psk.2	+	3	980	c.664C>T	c.(664-666)CGG>TGG	p.R222W	FOXO3_uc003psn.2_Intron|FOXO3_uc003psm.2_Missense_Mutation_p.R222W|FOXO3_uc011ean.1_Missense_Mutation_p.R2W|FOXO3_uc010kdj.1_Missense_Mutation_p.R2W	NM_201559	NP_963853	O43524	FOXO3_HUMAN	forkhead box O3A	222	Fork-head.				antral ovarian follicle growth|apoptosis|embryo development|glucose homeostasis|induction of apoptosis|initiation of primordial ovarian follicle growth|insulin receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|oocyte maturation|ovulation from ovarian follicle|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			central_nervous_system(4)|lung(2)	6		all_cancers(87;1.78e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;3.88e-05)|Colorectal(196;0.0294)|all_lung(197;0.0487)|Lung SC(18;0.152)		Epithelial(106;0.000759)|all cancers(137;0.00121)|BRCA - Breast invasive adenocarcinoma(108;0.00163)|OV - Ovarian serous cystadenocarcinoma(136;0.00718)														---	---	---	---
FIG4	9896	broad.mit.edu	37	6	110146311	110146311	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110146311C>T	uc003ptt.2	+	23	2782	c.2567C>T	c.(2566-2568)TCG>TTG	p.S856L	FIG4_uc011eau.1_Missense_Mutation_p.S550L	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	856					cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)														---	---	---	---
WASF1	8936	broad.mit.edu	37	6	110421800	110421800	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110421800C>T	uc003ptv.1	-	11	2442	c.1605G>A	c.(1603-1605)CTG>CTA	p.L535L	WASF1_uc003ptw.1_Silent_p.L535L|WASF1_uc003ptx.1_Silent_p.L535L|WASF1_uc003pty.1_Silent_p.L535L	NM_003931	NP_003922	Q92558	WASF1_HUMAN	Wiskott-Aldrich syndrome protein family member	535					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)														---	---	---	---
CDC40	51362	broad.mit.edu	37	6	110547422	110547422	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110547422C>T	uc003pua.2	+	13	1417	c.1393C>T	c.(1393-1395)CCT>TCT	p.P465S		NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog	465	WD 5.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)														---	---	---	---
SLC22A16	85413	broad.mit.edu	37	6	110746270	110746270	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110746270C>T	uc003puf.2	-	8	1607	c.1540G>A	c.(1540-1542)GCC>ACC	p.A514T	SLC22A16_uc003pue.2_Missense_Mutation_p.A495T	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	514	Helical; (Potential).				acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)														---	---	---	---
REV3L	5980	broad.mit.edu	37	6	111694065	111694065	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111694065G>A	uc003puy.3	-	13	5816	c.5493C>T	c.(5491-5493)GAC>GAT	p.D1831D	REV3L_uc003pux.3_Silent_p.D1753D|REV3L_uc003puz.3_Silent_p.D1753D	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1831					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)									DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					---	---	---	---
LAMA4	3910	broad.mit.edu	37	6	112460964	112460964	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112460964G>A	uc003pvu.2	-	23	3409	c.3100C>T	c.(3100-3102)CCA>TCA	p.P1034S	LAMA4_uc003pvv.2_Missense_Mutation_p.P1027S|LAMA4_uc003pvt.2_Missense_Mutation_p.P1027S	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1034	Laminin G-like 1.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)														---	---	---	---
LAMA4	3910	broad.mit.edu	37	6	112508790	112508790	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112508790G>A	uc003pvu.2	-	8	1137	c.828C>T	c.(826-828)TGC>TGT	p.C276C	LAMA4_uc003pvv.2_Silent_p.C269C|LAMA4_uc003pvt.2_Silent_p.C269C	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	276	Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)														---	---	---	---
HDAC2	3066	broad.mit.edu	37	6	114266574	114266574	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:114266574G>T	uc003pwd.1	-	10	1325	c.1325C>A	c.(1324-1326)CCT>CAT	p.P442H	HDAC2_uc003pwc.1_Missense_Mutation_p.P318H|HDAC2_uc003pwe.1_Missense_Mutation_p.P318H	NM_001527	NP_001518	Q92769	HDAC2_HUMAN	histone deacetylase 2	348					blood coagulation|dendrite development|embryonic digit morphogenesis|epidermal cell differentiation|eyelid development in camera-type eye|fungiform papilla formation|hair follicle placode formation|maintenance of chromatin silencing|negative regulation of apoptosis|negative regulation of cell cycle|negative regulation of neuron projection development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|odontogenesis of dentine-containing tooth|positive regulation of cell proliferation|positive regulation of proteolysis|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|ESC/E(Z) complex|NuRD complex|Sin3 complex	chromatin binding|enzyme 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)|sequence-specific DNA binding|transcription factor binding			skin(2)|ovary(1)|central_nervous_system(1)	4		all_cancers(87;0.000629)|all_epithelial(87;0.00274)|Colorectal(196;0.0317)|all_lung(197;0.24)		all cancers(137;0.00318)|OV - Ovarian serous cystadenocarcinoma(136;0.00569)|Epithelial(106;0.0112)|GBM - Glioblastoma multiforme(226;0.0832)	Vorinostat(DB02546)													---	---	---	---
HS3ST5	222537	broad.mit.edu	37	6	114379185	114379185	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:114379185C>T	uc003pwg.3	-	2	309	c.277G>A	c.(277-279)GCC>ACC	p.A93T	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.A93T	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	93	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)														---	---	---	---
HS3ST5	222537	broad.mit.edu	37	6	114379236	114379236	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:114379236C>T	uc003pwg.3	-	2	258	c.226G>A	c.(226-228)GCT>ACT	p.A76T	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.A76T	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	76	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)														---	---	---	---
TSPYL4	23270	broad.mit.edu	37	6	116574209	116574209	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116574209G>A	uc003pwn.2	-	1	1053	c.963C>T	c.(961-963)GGC>GGT	p.G321G	DSE_uc011ebf.1_5'Flank|TSPYL4_uc011ebe.1_Silent_p.G149G|uc003pwo.1_5'Flank	NM_021648	NP_067680	Q9UJ04	TSYL4_HUMAN	TSPY-like 4	321					nucleosome assembly	nucleus					0		all_cancers(87;0.0144)|all_epithelial(87;0.021)|Colorectal(196;0.234)		all cancers(137;0.045)|OV - Ovarian serous cystadenocarcinoma(136;0.0666)|GBM - Glioblastoma multiforme(226;0.095)|Epithelial(106;0.125)														---	---	---	---
DSE	29940	broad.mit.edu	37	6	116757490	116757490	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116757490A>G	uc003pws.2	+	6	2053	c.1859A>G	c.(1858-1860)GAC>GGC	p.D620G	DSE_uc011ebg.1_Missense_Mutation_p.D639G|DSE_uc003pwt.2_Missense_Mutation_p.D620G|DSE_uc003pwu.2_Missense_Mutation_p.D287G	NM_001080976	NP_001074445	Q9UL01	DSE_HUMAN	dermatan sulfate epimerase precursor	620					dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)														---	---	---	---
RFX6	222546	broad.mit.edu	37	6	117246695	117246695	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117246695C>T	uc003pxm.2	+	16	1821	c.1758C>T	c.(1756-1758)AGC>AGT	p.S586S		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	586					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3																		---	---	---	---
SLC35F1	222553	broad.mit.edu	37	6	118475668	118475668	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:118475668C>A	uc003pxx.3	+	2	435	c.234C>A	c.(232-234)GGC>GGA	p.G78G		NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	78	Helical; (Potential).				transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)														---	---	---	---
SLC35F1	222553	broad.mit.edu	37	6	118606424	118606424	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:118606424G>A	uc003pxx.3	+	7	1126	c.925G>A	c.(925-927)GCC>ACC	p.A309T	SLC35F1_uc003pxy.1_Missense_Mutation_p.A114T	NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	309					transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)												OREG0017635	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
C6orf204	387119	broad.mit.edu	37	6	118790423	118790423	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:118790423C>T	uc003pxz.1	-	12	2654	c.2066G>A	c.(2065-2067)GGC>GAC	p.G689D		NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	689						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)														---	---	---	---
C6orf204	387119	broad.mit.edu	37	6	118801652	118801652	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:118801652G>A	uc003pxz.1	-	9	2358	c.1770C>T	c.(1768-1770)TGC>TGT	p.C590C		NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	590	Potential.					centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)														---	---	---	---
MCM9	254394	broad.mit.edu	37	6	119238739	119238739	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:119238739G>A	uc003pyh.2	-	5	1154	c.891C>T	c.(889-891)AGC>AGT	p.S297S		NM_153255	NP_694987	Q9NXL9	MCM9_HUMAN	minichromosome maintenance complex component 9	297					DNA replication		ATP binding|DNA binding|nucleoside-triphosphatase activity			ovary(1)	1		all_cancers(87;0.122)|all_epithelial(87;0.179)		GBM - Glioblastoma multiforme(226;0.0676)|OV - Ovarian serous cystadenocarcinoma(136;0.194)														---	---	---	---
GJA1	2697	broad.mit.edu	37	6	121768421	121768421	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:121768421G>A	uc003pyr.2	+	2	678	c.428G>A	c.(427-429)GGT>GAT	p.G143D	GJA1_uc011ebo.1_Missense_Mutation_p.G44D|GJA1_uc011ebp.1_Intron	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	143	Cytoplasmic (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)													---	---	---	---
FABP7	2173	broad.mit.edu	37	6	123104893	123104893	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:123104893G>A	uc003pzf.2	+	4	674	c.380G>A	c.(379-381)CGC>CAC	p.R127H	FABP7_uc003pze.1_3'UTR	NM_001446	NP_001437	O15540	FABP7_HUMAN	fatty acid binding protein 7, brain	127	Fatty acid binding.				negative regulation of cell proliferation	cytoplasm	lipid binding|transporter activity				0				GBM - Glioblastoma multiforme(226;0.226)	Alpha-Linolenic Acid(DB00132)|gamma-Homolinolenic acid(DB00154)|Icosapent(DB00159)													---	---	---	---
STL	7955	broad.mit.edu	37	6	125233607	125233607	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:125233607C>T	uc003pzq.2	-	7		c.1127G>A				NR_026876				Homo sapiens mRNA; cDNA DKFZp451I132 (from clone DKFZp451I132).												0								T	ETV6	B-ALL								---	---	---	---
RNF217	154214	broad.mit.edu	37	6	125379190	125379190	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:125379190C>T	uc003pzs.2	+	5	681	c.343C>T	c.(343-345)CGT>TGT	p.R115C	RNF217_uc003pzr.2_Missense_Mutation_p.R172C|RNF217_uc003pzt.2_RNA	NM_152553	NP_689766	Q8TC41	RN217_HUMAN	ring finger protein 217	115					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0162)														---	---	---	---
RNF217	154214	broad.mit.edu	37	6	125403716	125403716	+	Intron	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:125403716A>T	uc003pzs.2	+						RNF217_uc003pzr.2_Intron|RNF217_uc003pzt.2_Intron	NM_152553	NP_689766			ring finger protein 217						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0162)														---	---	---	---
TPD52L1	7164	broad.mit.edu	37	6	125550412	125550412	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:125550412C>T	uc003pzu.1	+	3	503	c.284C>T	c.(283-285)GCC>GTC	p.A95V	TPD52L1_uc003pzv.1_Missense_Mutation_p.A95V|TPD52L1_uc003pzw.1_Missense_Mutation_p.A95V|TPD52L1_uc003pzx.1_Missense_Mutation_p.A66V|TPD52L1_uc003pzy.1_Missense_Mutation_p.A66V|TPD52L1_uc003pzz.1_Missense_Mutation_p.A66V	NM_003287	NP_003278	Q16890	TPD53_HUMAN	tumor protein D52-like 1 isoform 1	95					DNA fragmentation involved in apoptotic nuclear change|G2/M transition of mitotic cell cycle|induction of apoptosis|positive regulation of JNK cascade|positive regulation of MAP kinase activity	perinuclear region of cytoplasm	caspase activator activity|protein heterodimerization activity|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0265)														---	---	---	---
TPD52L1	7164	broad.mit.edu	37	6	125575018	125575018	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:125575018C>T	uc003pzu.1	+						TPD52L1_uc003pzv.1_Intron|TPD52L1_uc003pzw.1_Intron|TPD52L1_uc003pzy.1_Intron|TPD52L1_uc003pzz.1_Intron	NM_003287	NP_003278			tumor protein D52-like 1 isoform 1						DNA fragmentation involved in apoptotic nuclear change|G2/M transition of mitotic cell cycle|induction of apoptosis|positive regulation of JNK cascade|positive regulation of MAP kinase activity	perinuclear region of cytoplasm	caspase activator activity|protein heterodimerization activity|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0265)														---	---	---	---
HEY2	23493	broad.mit.edu	37	6	126080924	126080924	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:126080924G>T	uc003qad.2	+	5	1181	c.990G>T	c.(988-990)TGG>TGT	p.W330C	HEY2_uc011ebr.1_Missense_Mutation_p.W284C	NM_012259	NP_036391	Q9UBP5	HEY2_HUMAN	hairy/enhancer-of-split related with YRPW motif	330	YRPW motif.				negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription initiation from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|Notch signaling pathway|smooth muscle cell differentiation|transcription, DNA-dependent	transcriptional repressor complex	histone deacetylase binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0608)|GBM - Glioblastoma multiforme(226;0.0361)|all cancers(137;0.193)														---	---	---	---
C6orf174	387104	broad.mit.edu	37	6	127767937	127767937	+	3'UTR	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:127767937A>G	uc003qbd.2	-	11					C6orf174_uc003qbc.2_Silent_p.P509P|C6orf174_uc003qba.2_Intron|C6orf174_uc003qbb.2_Silent_p.P392P|KIAA0408_uc011ebs.1_Silent_p.P509P	NM_001012279	NP_001012279			hypothetical protein LOC387104 precursor							integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)														---	---	---	---
C6orf174	387104	broad.mit.edu	37	6	127796499	127796499	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:127796499C>T	uc003qbd.2	-	6	3537	c.2672G>A	c.(2671-2673)CGC>CAC	p.R891H	C6orf174_uc003qbc.2_5'UTR	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	891						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)														---	---	---	---
C6orf174	387104	broad.mit.edu	37	6	127796980	127796980	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:127796980A>G	uc003qbd.2	-	6	3056	c.2191T>C	c.(2191-2193)TCC>CCC	p.S731P	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	731						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)														---	---	---	---
C6orf174	387104	broad.mit.edu	37	6	127797299	127797299	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:127797299G>A	uc003qbd.2	-	6	2737	c.1872C>T	c.(1870-1872)GGC>GGT	p.G624G	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	624	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)														---	---	---	---
C6orf58	352999	broad.mit.edu	37	6	127911356	127911356	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:127911356C>T	uc003qbh.2	+	5	811	c.799C>T	c.(799-801)CCA>TCA	p.P267S		NM_001010905	NP_001010905	Q6P5S2	CF058_HUMAN	hypothetical protein LOC352999 precursor	267						extracellular region					0				GBM - Glioblastoma multiforme(226;0.0405)|all cancers(137;0.156)														---	---	---	---
THEMIS	387357	broad.mit.edu	37	6	128134766	128134766	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:128134766G>A	uc003qbi.2	-	5	1339	c.1020C>T	c.(1018-1020)GGC>GGT	p.G340G	THEMIS_uc010kfa.2_Silent_p.G243G|THEMIS_uc011ebt.1_Silent_p.G340G|THEMIS_uc010kfb.2_Silent_p.G305G	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	340	CABIT 2.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4																		---	---	---	---
PTPRK	5796	broad.mit.edu	37	6	128505866	128505866	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:128505866C>T	uc003qbk.2	-	7	1240	c.873G>A	c.(871-873)CCG>CCA	p.P291P	PTPRK_uc003qbj.2_Silent_p.P291P|PTPRK_uc010kfc.2_Silent_p.P291P|PTPRK_uc011ebu.1_Silent_p.P291P|PTPRK_uc003qbl.1_Silent_p.P161P|PTPRK_uc011ebv.1_Silent_p.P291P	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	291	Fibronectin type-III 1.|Extracellular (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)														---	---	---	---
L3MBTL3	84456	broad.mit.edu	37	6	130372535	130372535	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:130372535C>A	uc003qbt.2	+	6	601	c.431C>A	c.(430-432)GCT>GAT	p.A144D	L3MBTL3_uc003qbu.2_Missense_Mutation_p.A119D	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	144					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)														---	---	---	---
SAMD3	154075	broad.mit.edu	37	6	130465849	130465849	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:130465849T>C	uc003qbv.2	-	13	1705	c.1379A>G	c.(1378-1380)GAC>GGC	p.D460G	SAMD3_uc003qbx.2_Missense_Mutation_p.D460G|SAMD3_uc003qbw.2_Missense_Mutation_p.D460G	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	460										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)														---	---	---	---
TAAR6	319100	broad.mit.edu	37	6	132891588	132891588	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132891588C>T	uc011eck.1	+	1	128	c.128C>T	c.(127-129)GCT>GTT	p.A43V		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	43	Helical; Name=1; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)														---	---	---	---
TAAR5	9038	broad.mit.edu	37	6	132910431	132910431	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132910431C>T	uc003qdk.2	-	1	447	c.395G>A	c.(394-396)CGC>CAC	p.R132H		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	132	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)														---	---	---	---
TAAR5	9038	broad.mit.edu	37	6	132910625	132910625	+	Silent	SNP	C	T	T	rs145737701		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132910625C>T	uc003qdk.2	-	1	253	c.201G>A	c.(199-201)ACG>ACA	p.T67T		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	67	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)														---	---	---	---
EYA4	2070	broad.mit.edu	37	6	133789774	133789774	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:133789774C>T	uc003qec.3	+	11	1333	c.875C>T	c.(874-876)GCG>GTG	p.A292V	EYA4_uc011ecq.1_Missense_Mutation_p.A238V|EYA4_uc011ecr.1_Missense_Mutation_p.A238V|EYA4_uc003qed.3_Missense_Mutation_p.A292V|EYA4_uc003qee.3_Missense_Mutation_p.A269V|EYA4_uc011ecs.1_Missense_Mutation_p.A292V|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	292					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)														---	---	---	---
SLC2A12	154091	broad.mit.edu	37	6	134350436	134350436	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:134350436A>G	uc003qem.1	-	2	698	c.527T>C	c.(526-528)GTC>GCC	p.V176A		NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose	176	Helical; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)														---	---	---	---
ALDH8A1	64577	broad.mit.edu	37	6	135271176	135271176	+	Missense_Mutation	SNP	C	T	T	rs150345681	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:135271176C>T	uc003qew.2	-	1	69	c.16G>A	c.(16-18)GCA>ACA	p.A6T	ALDH8A1_uc003qex.2_Missense_Mutation_p.A6T|ALDH8A1_uc010kgh.2_5'UTR|ALDH8A1_uc011ecx.1_Missense_Mutation_p.A6T	NM_022568	NP_072090	Q9H2A2	AL8A1_HUMAN	aldehyde dehydrogenase 8A1 isoform 1	6					retinal metabolic process	cytoplasm	retinal dehydrogenase activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)														---	---	---	---
FAM54A	113115	broad.mit.edu	37	6	136554646	136554646	+	Intron	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136554646T>A	uc010kgp.1	-						FAM54A_uc003qgt.1_Intron|FAM54A_uc003qgu.1_Intron	NM_001099286	NP_001092756			DUF729 domain containing 1											skin(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00228)|OV - Ovarian serous cystadenocarcinoma(155;0.00504)														---	---	---	---
BCLAF1	9774	broad.mit.edu	37	6	136597397	136597397	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136597397A>T	uc003qgx.1	-	5	1519	c.1266T>A	c.(1264-1266)AGT>AGA	p.S422R	BCLAF1_uc003qgw.1_Intron|BCLAF1_uc003qgy.1_Missense_Mutation_p.S420R|BCLAF1_uc011edc.1_Intron|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.S420R	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	422					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)														---	---	---	---
PEX7	5191	broad.mit.edu	37	6	137187847	137187847	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:137187847T>C	uc003qhd.2	+	6	711	c.609T>C	c.(607-609)AGT>AGC	p.S203S	PEX7_uc010kgx.2_RNA	NM_000288	NP_000279	O00628	PEX7_HUMAN	peroxisomal biogenesis factor 7	203	WD 4.				ether lipid biosynthetic process|protein import into peroxisome matrix	peroxisome	peroxisome matrix targeting signal-2 binding				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000257)|OV - Ovarian serous cystadenocarcinoma(155;0.00492)														---	---	---	---
IL20RA	53832	broad.mit.edu	37	6	137322692	137322692	+	3'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:137322692G>A	uc003qhj.2	-	7					IL20RA_uc011edl.1_3'UTR|IL20RA_uc003qhk.2_3'UTR|IL20RA_uc003qhi.2_3'UTR	NM_014432	NP_055247			interleukin 20 receptor, alpha precursor							integral to membrane	receptor activity			ovary(2)|skin(2)	4	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000351)|OV - Ovarian serous cystadenocarcinoma(155;0.00459)														---	---	---	---
IL20RA	53832	broad.mit.edu	37	6	137322948	137322948	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:137322948C>A	uc003qhj.2	-	7	1842	c.1409G>T	c.(1408-1410)GGG>GTG	p.G470V	IL20RA_uc011edl.1_Missense_Mutation_p.G421V|IL20RA_uc003qhk.2_Missense_Mutation_p.G359V|IL20RA_uc003qhi.2_Missense_Mutation_p.G202V	NM_014432	NP_055247	Q9UHF4	I20RA_HUMAN	interleukin 20 receptor, alpha precursor	470	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(2)|skin(2)	4	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000351)|OV - Ovarian serous cystadenocarcinoma(155;0.00459)														---	---	---	---
KIAA1244	57221	broad.mit.edu	37	6	138655389	138655389	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138655389C>T	uc003qhu.2	+	33	5406	c.5406C>T	c.(5404-5406)GGC>GGT	p.G1802G		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1802					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)														---	---	---	---
KIAA1244	57221	broad.mit.edu	37	6	138655785	138655785	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138655785C>T	uc003qhu.2	+	33	5802	c.5802C>T	c.(5800-5802)GGC>GGT	p.G1934G		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1934					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)														---	---	---	---
REPS1	85021	broad.mit.edu	37	6	139234053	139234053	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139234053G>A	uc003qii.2	-	16	2399	c.1820C>T	c.(1819-1821)GCC>GTC	p.A607V	REPS1_uc003qig.3_Missense_Mutation_p.A580V|REPS1_uc011edr.1_Missense_Mutation_p.A606V|REPS1_uc003qij.2_Missense_Mutation_p.A516V|REPS1_uc003qik.2_Missense_Mutation_p.A213V	NM_031922	NP_114128	Q96D71	REPS1_HUMAN	RALBP1 associated Eps domain containing 1	607						coated pit|plasma membrane	calcium ion binding|SH3 domain binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(68;0.000434)|OV - Ovarian serous cystadenocarcinoma(155;0.000548)														---	---	---	---
HECA	51696	broad.mit.edu	37	6	139495646	139495646	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139495646C>T	uc003qin.2	+	3	1722	c.1437C>T	c.(1435-1437)TAC>TAT	p.Y479Y		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	479					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)														---	---	---	---
TXLNB	167838	broad.mit.edu	37	6	139563913	139563913	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139563913G>A	uc011eds.1	-	10	1970	c.1805C>T	c.(1804-1806)GCG>GTG	p.A602V		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	602						cytoplasm		p.A602A(1)		large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)														---	---	---	---
TXLNB	167838	broad.mit.edu	37	6	139564112	139564112	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139564112C>T	uc011eds.1	-	10	1771	c.1606G>A	c.(1606-1608)GCC>ACC	p.A536T		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	536						cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)														---	---	---	---
VTA1	51534	broad.mit.edu	37	6	142539749	142539749	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:142539749C>T	uc003qiw.2	+	8	908	c.893C>T	c.(892-894)GCT>GTT	p.A298V	VTA1_uc011edt.1_RNA|VTA1_uc011edu.1_Missense_Mutation_p.A213V	NM_016485	NP_057569	Q9NP79	VTA1_HUMAN	Vps20-associated 1 homolog	298	Interaction with VPS4B (By similarity).				cellular membrane organization|endosome transport|protein transport	cytosol|endosome membrane	protein binding				0	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;1.34e-05)|GBM - Glioblastoma multiforme(68;0.00182)														---	---	---	---
GPR126	57211	broad.mit.edu	37	6	142758632	142758632	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:142758632G>A	uc010khc.2	+	23	3792	c.3381G>A	c.(3379-3381)CGG>CGA	p.R1127R	GPR126_uc010khd.2_Silent_p.R1099R|GPR126_uc010khe.2_Silent_p.R1127R|GPR126_uc010khf.2_Silent_p.R1099R|GPR126_uc011edv.1_Silent_p.Q187Q	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	1127	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)														---	---	---	---
HIVEP2	3097	broad.mit.edu	37	6	143074822	143074822	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:143074822G>T	uc003qjd.2	-	10	7506	c.6763C>A	c.(6763-6765)CTG>ATG	p.L2255M		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	2255					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)														---	---	---	---
HIVEP2	3097	broad.mit.edu	37	6	143092794	143092794	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:143092794G>A	uc003qjd.2	-	5	3825	c.3082C>T	c.(3082-3084)CGA>TGA	p.R1028*		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1028					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)														---	---	---	---
HIVEP2	3097	broad.mit.edu	37	6	143093770	143093770	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:143093770G>A	uc003qjd.2	-	5	2849	c.2106C>T	c.(2104-2106)AGC>AGT	p.S702S		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	702					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)														---	---	---	---
AIG1	51390	broad.mit.edu	37	6	143382137	143382137	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:143382137G>T	uc003qjh.2	+	1	115	c.75G>T	c.(73-75)AAG>AAT	p.K25N	AIG1_uc003qjf.2_Missense_Mutation_p.K15N|AIG1_uc003qji.2_Missense_Mutation_p.K15N|AIG1_uc011edw.1_Missense_Mutation_p.K25N|AIG1_uc003qjg.2_Missense_Mutation_p.K25N	NM_016108	NP_057192	Q9NVV5	AIG1_HUMAN	androgen-induced 1	25						integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(155;2.34e-05)|GBM - Glioblastoma multiforme(68;0.0246)														---	---	---	---
LTV1	84946	broad.mit.edu	37	6	144183232	144183232	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144183232G>A	uc003qjs.2	+						LTV1_uc003qju.1_Intron|C6orf94_uc010khj.2_Intron|C6orf94_uc010khk.2_5'Flank|C6orf94_uc011edy.1_5'Flank	NM_032860	NP_116249			LTV1 homolog											ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;2.72e-06)|GBM - Glioblastoma multiforme(68;0.0372)														---	---	---	---
UTRN	7402	broad.mit.edu	37	6	144613000	144613000	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144613000C>T	uc003qkt.2	+	1	128	c.36C>T	c.(34-36)GAC>GAT	p.D12D	UTRN_uc010khq.1_Silent_p.D12D	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	12	Actin-binding.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)														---	---	---	---
UTRN	7402	broad.mit.edu	37	6	144801125	144801125	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144801125C>T	uc003qkt.2	+							NM_007124	NP_009055			utrophin						muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)														---	---	---	---
UTRN	7402	broad.mit.edu	37	6	145114966	145114966	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:145114966G>A	uc003qkt.2	+							NM_007124	NP_009055			utrophin						muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)														---	---	---	---
EPM2A	7957	broad.mit.edu	37	6	145948764	145948764	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:145948764C>T	uc003qkw.2	-	4	1141	c.784G>A	c.(784-786)GTG>ATG	p.V262M	EPM2A_uc003qkv.2_Missense_Mutation_p.V262M|EPM2A_uc010khr.2_Missense_Mutation_p.R181H|EPM2A_uc003qkx.2_Missense_Mutation_p.V124M|EPM2A_uc003qku.2_Missense_Mutation_p.V108M	NM_005670	NP_005661	O95278	EPM2A_HUMAN	laforin isoform a	262	Tyrosine-protein phosphatase.				glycogen metabolic process	cytosol|endoplasmic reticulum|nucleus|plasma membrane|polysome	carbohydrate binding|identical protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1		Ovarian(120;0.162)		OV - Ovarian serous cystadenocarcinoma(155;3.38e-07)|GBM - Glioblastoma multiforme(68;0.0203)														---	---	---	---
GRM1	2911	broad.mit.edu	37	6	146720226	146720226	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146720226G>A	uc010khw.1	+	8	2521	c.2051G>A	c.(2050-2052)CGC>CAC	p.R684H	GRM1_uc010khv.1_Missense_Mutation_p.R684H|GRM1_uc003qll.2_Missense_Mutation_p.R684H|GRM1_uc011edz.1_Missense_Mutation_p.R684H|GRM1_uc011eea.1_Missense_Mutation_p.R684H	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	684	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity	p.R684C(1)		lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)													---	---	---	---
GRM1	2911	broad.mit.edu	37	6	146720492	146720492	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146720492A>G	uc010khw.1	+	8	2787	c.2317A>G	c.(2317-2319)AAG>GAG	p.K773E	GRM1_uc010khv.1_Missense_Mutation_p.K773E|GRM1_uc003qll.2_Missense_Mutation_p.K773E|GRM1_uc011edz.1_Missense_Mutation_p.K773E|GRM1_uc011eea.1_Missense_Mutation_p.K773E	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	773	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)													---	---	---	---
RAB32	10981	broad.mit.edu	37	6	146865040	146865040	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146865040G>T	uc003qln.1	+	1	213	c.33G>T	c.(31-33)CTG>CTT	p.L11L		NM_006834	NP_006825	Q13637	RAB32_HUMAN	RAB32, member RAS oncogene family	11					protein transport|small GTPase mediated signal transduction	mitochondrion	GTP binding				0		Ovarian(120;0.142)		OV - Ovarian serous cystadenocarcinoma(155;2.68e-09)|GBM - Glioblastoma multiforme(68;0.00608)														---	---	---	---
SASH1	23328	broad.mit.edu	37	6	148808836	148808836	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:148808836C>T	uc003qme.1	+	8	1189	c.714C>T	c.(712-714)GGC>GGT	p.G238G		NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	238							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)														---	---	---	---
SASH1	23328	broad.mit.edu	37	6	148869651	148869651	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:148869651C>T	uc003qme.1	+	20	4176	c.3701C>T	c.(3700-3702)GCA>GTA	p.A1234V	SASH1_uc003qmf.1_Missense_Mutation_p.A644V	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	1234	SAM 2.						protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)														---	---	---	---
PCMT1	5110	broad.mit.edu	37	6	150111190	150111190	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:150111190G>A	uc003qne.2	+	4	500	c.467G>A	c.(466-468)CGT>CAT	p.R156H	PCMT1_uc003qna.2_Missense_Mutation_p.R156H|PCMT1_uc003qnb.2_Missense_Mutation_p.R156H|PCMT1_uc011eeg.1_Missense_Mutation_p.R121H|PCMT1_uc003qnc.2_Missense_Mutation_p.R35H|PCMT1_uc003qnd.2_Intron|PCMT1_uc003qnf.2_Intron	NM_005389	NP_005380			protein-L-isoaspartate (D-aspartate)											ovary(1)	1		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.221)	OV - Ovarian serous cystadenocarcinoma(155;5.63e-13)|GBM - Glioblastoma multiforme(68;0.207)														---	---	---	---
LRP11	84918	broad.mit.edu	37	6	150174287	150174287	+	Missense_Mutation	SNP	G	A	A	rs150922217	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:150174287G>A	uc003qng.2	-	2	947	c.623C>T	c.(622-624)GCG>GTG	p.A208V	LRP11_uc003qnh.1_Missense_Mutation_p.A208V	NM_032832	NP_116221	Q86VZ4	LRP11_HUMAN	low density lipoprotein receptor-related protein	208	Extracellular (Potential).					integral to membrane	receptor activity				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;4.56e-12)|GBM - Glioblastoma multiforme(68;0.225)														---	---	---	---
RAET1L	154064	broad.mit.edu	37	6	150342136	150342136	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:150342136G>A	uc011eei.1	-	3	597	c.536C>T	c.(535-537)GCC>GTC	p.A179V		NM_130900	NP_570970	Q5VY80	RET1L_HUMAN	retinoic acid early transcript 1L precursor	179	MHC class I alpha-2 like (By similarity).				antigen processing and presentation|immune response	anchored to membrane|MHC class I protein complex					0		Ovarian(120;0.028)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.4e-12)														---	---	---	---
PLEKHG1	57480	broad.mit.edu	37	6	151054969	151054969	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151054969C>T	uc003qny.1	+	3	464	c.152C>T	c.(151-153)GCC>GTC	p.A51V	PLEKHG1_uc011eel.1_Missense_Mutation_p.A91V|PLEKHG1_uc011eem.1_Missense_Mutation_p.A110V|PLEKHG1_uc003qnz.2_Missense_Mutation_p.A51V	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	51					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)														---	---	---	---
PLEKHG1	57480	broad.mit.edu	37	6	151130348	151130348	+	Silent	SNP	G	A	A	rs147935723	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151130348G>A	uc003qny.1	+	9	1332	c.1020G>A	c.(1018-1020)ACG>ACA	p.T340T	PLEKHG1_uc011eel.1_Silent_p.T380T|PLEKHG1_uc011eem.1_Silent_p.T399T|PLEKHG1_uc003qnz.2_Silent_p.T340T	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	340	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)														---	---	---	---
PLEKHG1	57480	broad.mit.edu	37	6	151152440	151152440	+	Silent	SNP	G	A	A	rs149258837		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151152440G>A	uc003qny.1	+	16	2505	c.2193G>A	c.(2191-2193)ACG>ACA	p.T731T	PLEKHG1_uc011eel.1_Silent_p.T771T|PLEKHG1_uc011eem.1_Silent_p.T790T|PLEKHG1_uc003qnz.2_Silent_p.T731T	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	731					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)														---	---	---	---
AKAP12	9590	broad.mit.edu	37	6	151671215	151671215	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151671215C>T	uc011eep.1	+	4	1929	c.1689C>T	c.(1687-1689)GGC>GGT	p.G563G	AKAP12_uc003qoe.2_Silent_p.G563G|AKAP12_uc003qof.2_Silent_p.G465G|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Silent_p.G458G	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	563					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)														---	---	---	---
AKAP12	9590	broad.mit.edu	37	6	151671867	151671867	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151671867G>A	uc011eep.1	+	4	2581	c.2341G>A	c.(2341-2343)GAA>AAA	p.E781K	AKAP12_uc003qoe.2_Missense_Mutation_p.E781K|AKAP12_uc003qof.2_Missense_Mutation_p.E683K|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.E676K	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	781	AKAP 2.				G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)														---	---	---	---
ZBTB2	57621	broad.mit.edu	37	6	151687601	151687601	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151687601G>A	uc003qoh.2	-	3	735	c.600C>T	c.(598-600)ACC>ACT	p.T200T		NM_020861	NP_065912	Q8N680	ZBTB2_HUMAN	zinc finger and BTB domain containing 2	200					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.63e-11)														---	---	---	---
ESR1	2099	broad.mit.edu	37	6	152201884	152201884	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152201884C>T	uc003qom.3	+	5	1108	c.738C>T	c.(736-738)TAC>TAT	p.Y246Y	ESR1_uc010kin.2_Silent_p.Y246Y|ESR1_uc010kio.2_Silent_p.Y248Y|ESR1_uc010kip.2_Silent_p.Y246Y|ESR1_uc003qon.3_Silent_p.Y246Y|ESR1_uc003qoo.3_Silent_p.Y246Y|ESR1_uc010kiq.2_Nonsense_Mutation_p.R3*|ESR1_uc010kir.2_Intron|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_RNA|ESR1_uc011eev.1_Intron|ESR1_uc011eew.1_Intron|ESR1_uc010kis.2_Silent_p.Y27Y|ESR1_uc011eex.1_Silent_p.Y27Y	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	246	Nuclear receptor.|Mediates interaction with DNTTIP2.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)													---	---	---	---
SYNE1	23345	broad.mit.edu	37	6	152631593	152631593	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152631593C>T	uc010kiw.2	-	89	17559	c.16957G>A	c.(16957-16959)GCA>ACA	p.A5653T	SYNE1_uc010kiv.2_Missense_Mutation_p.A177T|SYNE1_uc003qos.3_Missense_Mutation_p.A177T|SYNE1_uc003qot.3_Missense_Mutation_p.A5582T|SYNE1_uc003qou.3_Missense_Mutation_p.A5653T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5653	Spectrin 18.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)											HNSCC(10;0.0054)			---	---	---	---
SYNE1	23345	broad.mit.edu	37	6	152631641	152631641	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152631641A>T	uc010kiw.2	-	89	17511	c.16909T>A	c.(16909-16911)TTT>ATT	p.F5637I	SYNE1_uc010kiv.2_Missense_Mutation_p.F161I|SYNE1_uc003qos.3_Missense_Mutation_p.F161I|SYNE1_uc003qot.3_Missense_Mutation_p.F5566I|SYNE1_uc003qou.3_Missense_Mutation_p.F5637I	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5637	Spectrin 18.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)											HNSCC(10;0.0054)			---	---	---	---
SYNE1	23345	broad.mit.edu	37	6	152631934	152631934	+	Silent	SNP	G	A	A	rs142010074		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152631934G>A	uc010kiw.2	-	88	17387	c.16785C>T	c.(16783-16785)AGC>AGT	p.S5595S	SYNE1_uc010kiv.2_Silent_p.S119S|SYNE1_uc003qos.3_Silent_p.S119S|SYNE1_uc003qot.3_Silent_p.S5524S|SYNE1_uc003qou.3_Silent_p.S5595S	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5595	Spectrin 17.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)											HNSCC(10;0.0054)			---	---	---	---
SYNE1	23345	broad.mit.edu	37	6	152652833	152652833	+	Silent	SNP	C	T	T	rs140361556	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152652833C>T	uc010kiw.2	-	78	13589	c.12987G>A	c.(12985-12987)GAG>GAA	p.E4329E	SYNE1_uc003qot.3_Silent_p.E4258E|SYNE1_uc003qou.3_Silent_p.E4329E|SYNE1_uc010kiz.2_Silent_p.E84E	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4329	Cytoplasmic (Potential).|Spectrin 12.				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)			---	---	---	---
SYNE1	23345	broad.mit.edu	37	6	152746516	152746516	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152746516C>T	uc010kiw.2	-	39	5869	c.5267G>A	c.(5266-5268)AGG>AAG	p.R1756K	SYNE1_uc003qot.3_Missense_Mutation_p.R1763K|SYNE1_uc003qou.3_Missense_Mutation_p.R1756K|SYNE1_uc010kjb.1_Missense_Mutation_p.R1739K	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1756	Spectrin 2.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)											HNSCC(10;0.0054)			---	---	---	---
SYNE1	23345	broad.mit.edu	37	6	152841620	152841620	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152841620C>T	uc010kiw.2	-	6	885	c.283G>A	c.(283-285)GCA>ACA	p.A95T	SYNE1_uc003qot.3_Missense_Mutation_p.A95T|SYNE1_uc003qou.3_Missense_Mutation_p.A95T|SYNE1_uc010kjb.1_Missense_Mutation_p.A95T|SYNE1_uc003qpa.1_Missense_Mutation_p.A95T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	95	Actin-binding.|Cytoplasmic (Potential).|CH 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)			---	---	---	---
FBXO5	26271	broad.mit.edu	37	6	153296153	153296153	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:153296153C>T	uc003qpg.2	-	2	816	c.707G>A	c.(706-708)GGC>GAC	p.G236D	FBXO5_uc003qph.2_Missense_Mutation_p.G190D	NM_012177	NP_036309	Q9UKT4	FBX5_HUMAN	F-box only protein 5 isoform a	236	Interaction with EVI5.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm|spindle	metal ion binding|protein binding				0		Ovarian(120;0.125)		OV - Ovarian serous cystadenocarcinoma(155;4.38e-10)|BRCA - Breast invasive adenocarcinoma(81;0.0893)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	153603774	153603774	+	IGR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:153603774C>T								RGS17 (151385 upstream) : OPRM1 (727862 downstream)																																			---	---	---	---
IPCEF1	26034	broad.mit.edu	37	6	154481030	154481030	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:154481030T>C	uc003qpx.2	-	12	1403	c.1247A>G	c.(1246-1248)GAC>GGC	p.D416G	OPRM1_uc003qpt.1_Intron|IPCEF1_uc003qpv.2_Missense_Mutation_p.D287G|IPCEF1_uc003qpw.2_Missense_Mutation_p.D417G|IPCEF1_uc010kjh.2_Missense_Mutation_p.D417G	NM_015553	NP_056368	Q8WWN9	ICEF1_HUMAN	phosphoinositide-binding protein PIP3-E isoform	416					response to oxidative stress	cytoplasm|plasma membrane	oxygen transporter activity|peroxidase activity				0																		---	---	---	---
IPCEF1	26034	broad.mit.edu	37	6	154481146	154481146	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:154481146G>A	uc003qpx.2	-	12	1287	c.1131C>T	c.(1129-1131)AAC>AAT	p.N377N	OPRM1_uc003qpt.1_Intron|IPCEF1_uc003qpv.2_Silent_p.N248N|IPCEF1_uc003qpw.2_Silent_p.N378N|IPCEF1_uc010kjh.2_Silent_p.N378N	NM_015553	NP_056368	Q8WWN9	ICEF1_HUMAN	phosphoinositide-binding protein PIP3-E isoform	377					response to oxidative stress	cytoplasm|plasma membrane	oxygen transporter activity|peroxidase activity				0																		---	---	---	---
IPCEF1	26034	broad.mit.edu	37	6	154533894	154533894	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:154533894C>T	uc003qpx.2	-						OPRM1_uc003qpt.1_Intron|IPCEF1_uc003qpv.2_Intron|IPCEF1_uc003qpw.2_Intron|IPCEF1_uc010kjh.2_Intron	NM_015553	NP_056368			phosphoinositide-binding protein PIP3-E isoform						response to oxidative stress	cytoplasm|plasma membrane	oxygen transporter activity|peroxidase activity				0																		---	---	---	---
TIAM2	26230	broad.mit.edu	37	6	155469392	155469392	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155469392G>A	uc003qqb.2	+	9	3225	c.1952G>A	c.(1951-1953)AGC>AAC	p.S651N	TIAM2_uc003qqe.2_Missense_Mutation_p.S651N|TIAM2_uc010kjj.2_Missense_Mutation_p.S184N|TIAM2_uc003qqf.2_Missense_Mutation_p.S3N|TIAM2_uc011efl.1_5'Flank|TIAM2_uc003qqg.2_5'Flank	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	651	Potential.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)														---	---	---	---
TIAM2	26230	broad.mit.edu	37	6	155532367	155532367	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155532367G>T	uc003qqb.2	+	17	4367	c.3094G>T	c.(3094-3096)GGT>TGT	p.G1032C	TIAM2_uc003qqe.2_Missense_Mutation_p.G1032C|TIAM2_uc010kjj.2_Missense_Mutation_p.G565C|TIAM2_uc003qqf.2_Missense_Mutation_p.G408C|TIAM2_uc011efl.1_Missense_Mutation_p.G368C|TIAM2_uc003qqg.2_Missense_Mutation_p.G344C	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1032					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)														---	---	---	---
TIAM2	26230	broad.mit.edu	37	6	155532392	155532392	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155532392G>T	uc003qqb.2	+	17	4392	c.3119G>T	c.(3118-3120)GGC>GTC	p.G1040V	TIAM2_uc003qqe.2_Missense_Mutation_p.G1040V|TIAM2_uc010kjj.2_Missense_Mutation_p.G573V|TIAM2_uc003qqf.2_Missense_Mutation_p.G416V|TIAM2_uc011efl.1_Missense_Mutation_p.G376V|TIAM2_uc003qqg.2_Missense_Mutation_p.G352V	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1040					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)														---	---	---	---
TIAM2	26230	broad.mit.edu	37	6	155561791	155561791	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155561791G>A	uc003qqb.2	+	18	4569	c.3296G>A	c.(3295-3297)CGC>CAC	p.R1099H	TIAM2_uc003qqe.2_Missense_Mutation_p.R1099H|TIAM2_uc010kjj.2_Missense_Mutation_p.R632H|TIAM2_uc003qqf.2_Missense_Mutation_p.R475H|TIAM2_uc011efl.1_Missense_Mutation_p.R435H|TIAM2_uc003qqg.2_Missense_Mutation_p.R411H|TIAM2_uc003qqh.2_Missense_Mutation_p.R24H	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1099	DH.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)														---	---	---	---
TIAM2	26230	broad.mit.edu	37	6	155577914	155577914	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155577914G>A	uc003qqb.2	+	29	6038	c.4765G>A	c.(4765-4767)GAA>AAA	p.E1589K	TIAM2_uc003qqe.2_Missense_Mutation_p.E1589K|TIAM2_uc010kjj.2_Missense_Mutation_p.E1151K|TIAM2_uc003qqf.2_Missense_Mutation_p.E965K|TIAM2_uc011efl.1_Missense_Mutation_p.E933K|TIAM2_uc003qqg.2_Missense_Mutation_p.E901K|TIAM2_uc003qqh.2_Missense_Mutation_p.E514K|uc003qqi.1_5'Flank	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1589					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)														---	---	---	---
CLDN20	49861	broad.mit.edu	37	6	155596935	155596935	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155596935C>T	uc003qql.1	+	2	462	c.82C>T	c.(82-84)CCC>TCC	p.P28S	TFB1M_uc003qqj.3_Intron|TFB1M_uc003qqk.2_Intron	NM_001001346	NP_001001346	P56880	CLD20_HUMAN	claudin 20	28	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0				OV - Ovarian serous cystadenocarcinoma(155;7.82e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0114)														---	---	---	---
NOX3	50508	broad.mit.edu	37	6	155743924	155743924	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155743924G>A	uc003qqm.2	-	10	1315	c.1212C>T	c.(1210-1212)TGC>TGT	p.C404C		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	404	Helical; (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)														---	---	---	---
NOX3	50508	broad.mit.edu	37	6	155761236	155761236	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155761236G>A	uc003qqm.2	-	6	625	c.522C>T	c.(520-522)GGC>GGT	p.G174G		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	174	Ferric oxidoreductase.|Helical; (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)														---	---	---	---
ARID1B	57492	broad.mit.edu	37	6	157488293	157488293	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:157488293C>T	uc003qqn.2	+	9	2938	c.2786C>T	c.(2785-2787)GCG>GTG	p.A929V	ARID1B_uc003qqo.2_Missense_Mutation_p.A942V|ARID1B_uc003qqp.2_Missense_Mutation_p.A929V|ARID1B_uc010kjl.2_Missense_Mutation_p.A127V	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	987					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)														---	---	---	---
SNX9	51429	broad.mit.edu	37	6	158330785	158330785	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158330785G>A	uc003qqv.1	+	8	967	c.794G>A	c.(793-795)GGT>GAT	p.G265D		NM_016224	NP_057308	Q9Y5X1	SNX9_HUMAN	sorting nexin 9	265	PX.				cell communication|intracellular protein transport|lipid tube assembly|positive regulation of GTPase activity|positive regulation of protein oligomerization|receptor-mediated endocytosis	clathrin-coated vesicle|cytoplasmic vesicle membrane|extrinsic to internal side of plasma membrane|ruffle|trans-Golgi network	1-phosphatidylinositol binding|protein homodimerization activity|ubiquitin protein ligase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.167)		OV - Ovarian serous cystadenocarcinoma(65;8.06e-18)|BRCA - Breast invasive adenocarcinoma(81;4.48e-05)														---	---	---	---
SNX9	51429	broad.mit.edu	37	6	158362016	158362016	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158362016C>T	uc003qqv.1	+							NM_016224	NP_057308			sorting nexin 9						cell communication|intracellular protein transport|lipid tube assembly|positive regulation of GTPase activity|positive regulation of protein oligomerization|receptor-mediated endocytosis	clathrin-coated vesicle|cytoplasmic vesicle membrane|extrinsic to internal side of plasma membrane|ruffle|trans-Golgi network	1-phosphatidylinositol binding|protein homodimerization activity|ubiquitin protein ligase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.167)		OV - Ovarian serous cystadenocarcinoma(65;8.06e-18)|BRCA - Breast invasive adenocarcinoma(81;4.48e-05)														---	---	---	---
SYNJ2	8871	broad.mit.edu	37	6	158517270	158517270	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158517270C>T	uc003qqx.1	+	27	4440	c.4365C>T	c.(4363-4365)GGC>GGT	p.G1455G	SYNJ2_uc003qqy.1_Silent_p.G1168G|SYNJ2_uc003qqz.1_Silent_p.G1072G|SYNJ2_uc003qra.1_Silent_p.G798G|SYNJ2_uc010kjp.1_Silent_p.G338G	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	1455	Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)														---	---	---	---
SERAC1	84947	broad.mit.edu	37	6	158538748	158538748	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158538748G>A	uc003qrc.2	-						SERAC1_uc003qrb.2_Intron	NM_032861	NP_116250			serine active site containing 1						GPI anchor metabolic process|intracellular protein transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	binding|hydrolase activity, acting on ester bonds				0		Breast(66;0.00519)|Ovarian(120;0.123)|Prostate(117;0.178)		OV - Ovarian serous cystadenocarcinoma(65;1.37e-18)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)														---	---	---	---
TULP4	56995	broad.mit.edu	37	6	158923299	158923299	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158923299C>T	uc003qrf.2	+	13	3961	c.2604C>T	c.(2602-2604)GGC>GGT	p.G868G	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	868					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)														---	---	---	---
IGF2R	3482	broad.mit.edu	37	6	160453757	160453757	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160453757C>A	uc003qta.2	+							NM_000876	NP_000867			insulin-like growth factor 2 receptor precursor						receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)														---	---	---	---
IGF2R	3482	broad.mit.edu	37	6	160468277	160468277	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160468277C>T	uc003qta.2	+	16	2286	c.2138C>T	c.(2137-2139)ACA>ATA	p.T713I		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	713	5.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)														---	---	---	---
IGF2R	3482	broad.mit.edu	37	6	160497000	160497000	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160497000C>T	uc003qta.2	+	36	5436	c.5288C>T	c.(5287-5289)GCG>GTG	p.A1763V		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1763	Lumenal (Potential).|12.				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)														---	---	---	---
IGF2R	3482	broad.mit.edu	37	6	160523629	160523629	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160523629C>T	uc003qta.2	+	46	7069	c.6921C>T	c.(6919-6921)GGC>GGT	p.G2307G		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	2307	Helical; (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)														---	---	---	---
LPA	4018	broad.mit.edu	37	6	160977182	160977182	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160977182G>T	uc003qtl.2	-	31	4968	c.4848C>A	c.(4846-4848)TGC>TGA	p.C1616*		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	4124	Kringle 37.				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)													---	---	---	---
LPA	4018	broad.mit.edu	37	6	161006078	161006078	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161006078G>A	uc003qtl.2	-	27	4409	c.4289C>T	c.(4288-4290)GCT>GTT	p.A1430V		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3938	Kringle 35.				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)													---	---	---	---
LPA	4018	broad.mit.edu	37	6	161020532	161020532	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161020532G>A	uc003qtl.2	-	21	3407	c.3287C>T	c.(3286-3288)GCT>GTT	p.A1096V		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3604	Kringle 32.				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)													---	---	---	---
LPA	4018	broad.mit.edu	37	6	161026078	161026078	+	Missense_Mutation	SNP	G	A	A	rs139937718	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161026078G>A	uc003qtl.2	-	19	3065	c.2945C>T	c.(2944-2946)GCT>GTT	p.A982V		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3490	Kringle 31.				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)													---	---	---	---
PLG	5340	broad.mit.edu	37	6	161152221	161152221	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161152221G>A	uc003qtm.3	+	11	1458	c.1395G>A	c.(1393-1395)CCG>CCA	p.P465P		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	465					extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)													---	---	---	---
MAP3K4	4216	broad.mit.edu	37	6	161508846	161508846	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161508846G>A	uc003qtn.2	+	10	2825	c.2683G>A	c.(2683-2685)GTA>ATA	p.V895I	MAP3K4_uc010kkc.1_Missense_Mutation_p.V895I|MAP3K4_uc003qto.2_Missense_Mutation_p.V895I|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.V348I	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	895					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)														---	---	---	---
MAP3K4	4216	broad.mit.edu	37	6	161514004	161514004	+	Intron	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161514004T>G	uc003qtn.2	+						MAP3K4_uc010kkc.1_Intron|MAP3K4_uc003qto.2_Intron|MAP3K4_uc011efz.1_Intron|MAP3K4_uc011ega.1_Intron|MAP3K4_uc003qtp.2_Intron	NM_005922	NP_005913			mitogen-activated protein kinase kinase kinase 4						activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)														---	---	---	---
MAP3K4	4216	broad.mit.edu	37	6	161523018	161523018	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161523018C>T	uc003qtn.2	+	18	3911	c.3769C>T	c.(3769-3771)CGA>TGA	p.R1257*	MAP3K4_uc010kkc.1_Nonsense_Mutation_p.R1253*|MAP3K4_uc003qto.2_Nonsense_Mutation_p.R1207*|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Nonsense_Mutation_p.R710*|MAP3K4_uc003qtp.2_Nonsense_Mutation_p.R193*|MAP3K4_uc003qtq.2_5'UTR	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	1257					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)														---	---	---	---
MAP3K4	4216	broad.mit.edu	37	6	161533750	161533750	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161533750C>T	uc003qtn.2	+	25	4712	c.4570C>T	c.(4570-4572)CGT>TGT	p.R1524C	MAP3K4_uc003qto.2_Missense_Mutation_p.R1474C|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.R977C|MAP3K4_uc003qtp.2_Missense_Mutation_p.R460C|MAP3K4_uc003qtq.2_Missense_Mutation_p.R213C	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	1524	Protein kinase.				activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)														---	---	---	---
AGPAT4	56895	broad.mit.edu	37	6	161574408	161574408	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161574408C>T	uc003qtr.1	-	5	861	c.634G>A	c.(634-636)GCC>ACC	p.A212T	AGPAT4_uc003qts.1_Missense_Mutation_p.A72T|AGPAT4_uc011egb.1_Intron|AGPAT4_uc003qtt.1_RNA|AGPAT4_uc011egc.1_3'UTR|AGPAT4_uc011egd.1_3'UTR|AGPAT4_uc011ege.1_3'UTR	NM_020133	NP_064518	Q9NRZ5	PLCD_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 4	212					phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)												OREG0017775	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
QKI	9444	broad.mit.edu	37	6	163984542	163984542	+	Missense_Mutation	SNP	G	A	A	rs142647102		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:163984542G>A	uc003qui.2	+	6	1276	c.725G>A	c.(724-726)CGT>CAT	p.R242H	QKI_uc003que.2_Missense_Mutation_p.R242H|QKI_uc003quf.2_Missense_Mutation_p.R242H|QKI_uc003qug.2_Missense_Mutation_p.R242H|QKI_uc003quh.2_Missense_Mutation_p.R234H|QKI_uc003quj.2_Missense_Mutation_p.R234H	NM_006775	NP_006766	Q96PU8	QKI_HUMAN	quaking homolog, KH domain RNA binding isoform	242					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)														---	---	---	---
C6orf118	168090	broad.mit.edu	37	6	165715311	165715311	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:165715311C>T	uc003qum.3	-	2	536	c.500G>A	c.(499-501)GGC>GAC	p.G167D	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	167											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)														---	---	---	---
FGFR1OP	11116	broad.mit.edu	37	6	167436102	167436102	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167436102A>G	uc003qvj.2	+	8	870	c.785A>G	c.(784-786)AAG>AGG	p.K262R	CCR6_uc003qvl.2_5'UTR|FGFR1OP_uc011egp.1_Missense_Mutation_p.K215R|FGFR1OP_uc003qvk.2_Missense_Mutation_p.K242R	NM_007045	NP_008976	O95684	FR1OP_HUMAN	FGFR1 oncogene partner isoform a	262					G2/M transition of mitotic cell cycle|microtubule anchoring|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell proliferation	centrosome|cytosol|nucleus|perinuclear region of cytoplasm	protein homodimerization activity|protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(1)	1		Breast(66;1.48e-05)|Ovarian(120;0.0607)		OV - Ovarian serous cystadenocarcinoma(33;1.73e-19)|BRCA - Breast invasive adenocarcinoma(81;5.1e-06)|GBM - Glioblastoma multiforme(31;0.00231)				T	FGFR1	MPD|NHL								---	---	---	---
UNC93A	54346	broad.mit.edu	37	6	167728837	167728837	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167728837C>T	uc003qvq.2	+	8	1446	c.1271C>T	c.(1270-1272)GCG>GTG	p.A424V	UNC93A_uc003qvr.2_Missense_Mutation_p.A382V	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	424						integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)														---	---	---	---
MLLT4	4301	broad.mit.edu	37	6	168281118	168281118	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168281118C>A	uc003qwd.2	+	6	957	c.815C>A	c.(814-816)CCT>CAT	p.P272H	MLLT4_uc003qwb.1_Missense_Mutation_p.P272H|MLLT4_uc003qwc.1_Missense_Mutation_p.P273H|MLLT4_uc003qwf.2_Translation_Start_Site	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	273	Ras-associating 2.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)				T	MLL	AL								---	---	---	---
MLLT4	4301	broad.mit.edu	37	6	168312071	168312071	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168312071T>C	uc003qwd.2	+	15	2078	c.1936T>C	c.(1936-1938)TCC>CCC	p.S646P	MLLT4_uc003qwb.1_Missense_Mutation_p.S631P|MLLT4_uc003qwc.1_Missense_Mutation_p.S647P|MLLT4_uc003qwf.2_Missense_Mutation_p.S332P|MLLT4_uc003qwg.1_5'Flank	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	647					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)				T	MLL	AL								---	---	---	---
MLLT4	4301	broad.mit.edu	37	6	168344088	168344088	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168344088C>T	uc003qwd.2	+	24	3290	c.3148C>T	c.(3148-3150)CGT>TGT	p.R1050C	MLLT4_uc003qwb.1_Missense_Mutation_p.R1035C|MLLT4_uc003qwc.1_Missense_Mutation_p.R1051C|MLLT4_uc003qwg.1_Missense_Mutation_p.R360C	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1051	PDZ.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)				T	MLL	AL								---	---	---	---
MLLT4	4301	broad.mit.edu	37	6	168352728	168352728	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168352728G>A	uc003qwd.2	+	29	4812	c.4670G>A	c.(4669-4671)CGC>CAC	p.R1557H	MLLT4_uc003qwb.1_Missense_Mutation_p.R1542H|MLLT4_uc003qwc.1_Missense_Mutation_p.R1558H|MLLT4_uc003qwg.1_Missense_Mutation_p.R867H	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1558	Potential.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)				T	MLL	AL								---	---	---	---
DLL1	28514	broad.mit.edu	37	6	170592454	170592454	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170592454G>A	uc003qxm.2	-	9	2383	c.1913C>T	c.(1912-1914)GCG>GTG	p.A638V		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	638	Cytoplasmic (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)														---	---	---	---
FAM120B	84498	broad.mit.edu	37	6	170627136	170627136	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170627136G>A	uc003qxp.2	+	2	766	c.658G>A	c.(658-660)GCC>ACC	p.A220T	FAM120B_uc003qxo.1_Missense_Mutation_p.A220T|FAM120B_uc011ehd.1_Intron	NM_032448	NP_115824	Q96EK7	F120B_HUMAN	family with sequence similarity 120B	220					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)														---	---	---	---
HEATR2	54919	broad.mit.edu	37	7	796464	796464	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:796464G>A	uc010krz.1	+	6	1323	c.1303G>A	c.(1303-1305)GTG>ATG	p.V435M	HEATR2_uc003siz.2_Missense_Mutation_p.V303M	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	435							protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)														---	---	---	---
HEATR2	54919	broad.mit.edu	37	7	803547	803547	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:803547G>A	uc010krz.1	+	8	1739	c.1719G>A	c.(1717-1719)TCG>TCA	p.S573S	HEATR2_uc003siz.2_Silent_p.S441S|HEATR2_uc003sja.2_Silent_p.S31S	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	573							protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)														---	---	---	---
HEATR2	54919	broad.mit.edu	37	7	825235	825235	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:825235C>T	uc010krz.1	+	13	2533	c.2513C>T	c.(2512-2514)GCC>GTC	p.A838V	HEATR2_uc003siz.2_Missense_Mutation_p.A706V|HEATR2_uc003sjb.2_Missense_Mutation_p.A218V|HEATR2_uc003sjc.2_Missense_Mutation_p.A263V	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	838							protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)														---	---	---	---
SUN1	23353	broad.mit.edu	37	7	888056	888056	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:888056C>T	uc011jvp.1	+						SUN1_uc003sje.1_Silent_p.C220C|SUN1_uc003sjf.2_Intron|SUN1_uc011jvq.1_Intron|SUN1_uc003sjg.2_Silent_p.C31C|SUN1_uc011jvr.1_5'UTR|SUN1_uc003sji.2_5'Flank	NM_001130965	NP_001124437			unc-84 homolog A isoform a						cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0																		---	---	---	---
INTS1	26173	broad.mit.edu	37	7	1538054	1538054	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:1538054C>T	uc003skn.2	-	10	1520	c.1419G>A	c.(1417-1419)GCG>GCA	p.A473A	INTS1_uc003skq.2_Silent_p.A473A	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	473					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)														---	---	---	---
MAD1L1	8379	broad.mit.edu	37	7	1997289	1997289	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:1997289G>A	uc003slh.1	-	16	1837	c.1571C>T	c.(1570-1572)GCA>GTA	p.A524V	MAD1L1_uc003sle.1_Missense_Mutation_p.A253V|MAD1L1_uc003slf.1_Missense_Mutation_p.A524V|MAD1L1_uc003slg.1_Missense_Mutation_p.A524V|MAD1L1_uc010ksh.1_Missense_Mutation_p.A524V|MAD1L1_uc003sli.1_Missense_Mutation_p.A432V|MAD1L1_uc010ksi.1_Missense_Mutation_p.A477V|MAD1L1_uc010ksj.2_Missense_Mutation_p.A524V	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	524	Necessary for interaction with NEK2.|Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)														---	---	---	---
C7orf27	221927	broad.mit.edu	37	7	2583391	2583391	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2583391G>T	uc003smi.2	-	5	678	c.636C>A	c.(634-636)CCC>CCA	p.P212P	C7orf27_uc003smh.3_5'Flank|C7orf27_uc003smj.1_Silent_p.P212P	NM_152743	NP_689956	Q6PJG6	BRAT1_HUMAN	hypothetical protein LOC221927 precursor	212					response to ionizing radiation	nucleus	protein binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;2.91e-14)														---	---	---	---
TTYH3	80727	broad.mit.edu	37	7	2698584	2698584	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2698584G>A	uc003smp.2	+	13	1622	c.1435G>A	c.(1435-1437)GCT>ACT	p.A479T	TTYH3_uc010ksn.2_Missense_Mutation_p.A199T|TTYH3_uc003smq.2_Missense_Mutation_p.A308T	NM_025250	NP_079526	Q9C0H2	TTYH3_HUMAN	tweety 3	479	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.04e-14)														---	---	---	---
AMZ1	155185	broad.mit.edu	37	7	2740354	2740354	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2740354G>A	uc003smr.1	+	2	630	c.269G>A	c.(268-270)CGC>CAC	p.R90H	AMZ1_uc003sms.1_Missense_Mutation_p.R90H|AMZ1_uc011jwa.1_5'Flank	NM_133463	NP_597720	Q400G9	AMZ1_HUMAN	archaelysin family metallopeptidase 1	90							metallopeptidase activity|zinc ion binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;5.03e-14)														---	---	---	---
CARD11	84433	broad.mit.edu	37	7	2963993	2963993	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2963993C>T	uc003smv.2	-	15	2218	c.1814G>A	c.(1813-1815)AGT>AAT	p.S605N		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	605					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)				Mis		DLBCL								---	---	---	---
SDK1	221935	broad.mit.edu	37	7	3991379	3991379	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:3991379G>T	uc003smx.2	+	7	1116	c.977G>T	c.(976-978)AGT>ATT	p.S326I		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	326	Ig-like C2-type 3.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)														---	---	---	---
FOXK1	221937	broad.mit.edu	37	7	4796712	4796712	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:4796712C>T	uc003snc.1	+	5	1148	c.1138C>T	c.(1138-1140)CGA>TGA	p.R380*	FOXK1_uc003sna.1_Nonsense_Mutation_p.R217*	NM_001037165	NP_001032242	P85037	FOXK1_HUMAN	forkhead box K1	380	Fork-head.				cell differentiation|embryo development|muscle organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			upper_aerodigestive_tract(1)|skin(1)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)														---	---	---	---
RADIL	55698	broad.mit.edu	37	7	4871777	4871777	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:4871777C>T	uc003snj.1	-	5	1622	c.1449G>A	c.(1447-1449)GCG>GCA	p.A483A	RADIL_uc003sng.1_RNA|RADIL_uc003sni.1_5'UTR|RADIL_uc011jwc.1_Silent_p.A243A|RADIL_uc011jwd.1_RNA	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	483					cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)														---	---	---	---
RBAK	57786	broad.mit.edu	37	7	5097398	5097398	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5097398C>T	uc010kss.1	+	5	550	c.226C>T	c.(226-228)CAA>TAA	p.Q76*	LOC389458_uc003snr.2_Nonsense_Mutation_p.Q76*|RBAK_uc003sns.1_Nonsense_Mutation_p.Q76*	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	76	KRAB.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)														---	---	---	---
SLC29A4	222962	broad.mit.edu	37	7	5331433	5331433	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5331433C>T	uc003sod.2	+	5	686	c.525C>T	c.(523-525)ACC>ACT	p.T175T	SLC29A4_uc011jwg.1_RNA|SLC29A4_uc003soc.2_Silent_p.T175T|SLC29A4_uc003soe.2_Missense_Mutation_p.P163L	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	175	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)														---	---	---	---
FBXL18	80028	broad.mit.edu	37	7	5541130	5541130	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5541130C>T	uc003soo.2	-	3	864	c.770G>A	c.(769-771)CGC>CAC	p.R257H	FBXL18_uc003son.3_Missense_Mutation_p.R257H	NM_024963	NP_079239	Q96ME1	FXL18_HUMAN	F-box and leucine-rich repeat protein 18	257										central_nervous_system(2)|ovary(1)	3		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.181)|OV - Ovarian serous cystadenocarcinoma(56;3.64e-13)														---	---	---	---
ACTB	60	broad.mit.edu	37	7	5568056	5568056	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5568056C>T	uc003sos.3	-	3	694	c.658G>A	c.(658-660)GCC>ACC	p.A220T	ACTB_uc003sor.3_Missense_Mutation_p.A98T|ACTB_uc003sot.3_Missense_Mutation_p.A220T|ACTB_uc003soq.3_Missense_Mutation_p.A98T|ACTB_uc010ksy.2_Missense_Mutation_p.A98T	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	220					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)														---	---	---	---
ACTB	60	broad.mit.edu	37	7	5568123	5568123	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5568123G>T	uc003sos.3	-	3	627	c.591C>A	c.(589-591)GGC>GGA	p.G197G	ACTB_uc003sor.3_Silent_p.G75G|ACTB_uc003sot.3_Silent_p.G197G|ACTB_uc003soq.3_Silent_p.G75G|ACTB_uc010ksy.2_Silent_p.G75G	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	197					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)														---	---	---	---
RNF216	54476	broad.mit.edu	37	7	5792588	5792588	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5792588C>T	uc003soy.1	-	3	280	c.90G>A	c.(88-90)GGG>GGA	p.G30G	RNF216_uc010ksz.1_5'UTR|RNF216_uc010kta.1_5'UTR|RNF216_uc011jwj.1_Intron|RNF216_uc003sox.1_Silent_p.G30G	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	30					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)														---	---	---	---
RSPH10B2	728194	broad.mit.edu	37	7	6836263	6836263	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6836263C>T	uc011jxc.1	+	11	1434	c.1163C>T	c.(1162-1164)ACG>ATG	p.T388M	RSPH10B2_uc003sqw.1_Silent_p.Y766Y|RSPH10B2_uc010ktk.1_Silent_p.Y766Y|RSPH10B2_uc010ktl.1_RNA			B2RC85	R10B2_HUMAN	SubName: Full=cDNA FLJ54347;	Error:Variant_position_missing_in_B2RC85_after_alignment										ovary(1)|pancreas(1)|skin(1)	3																		---	---	---	---
MIOS	54468	broad.mit.edu	37	7	7636049	7636049	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:7636049G>A	uc003srf.2	+	11	2666	c.2358G>A	c.(2356-2358)GCG>GCA	p.A786A	MIOS_uc003srg.2_Silent_p.A321A|MIOS_uc010ktq.2_Silent_p.A181A	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	786											0																		---	---	---	---
THSD7A	221981	broad.mit.edu	37	7	11464343	11464343	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:11464343G>A	uc003ssf.3	-	15	3615	c.3363C>T	c.(3361-3363)GGC>GGT	p.G1121G		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1121	TSP type-1 11.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)											HNSCC(18;0.044)			---	---	---	---
TMEM106B	54664	broad.mit.edu	37	7	12263863	12263863	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12263863T>C	uc011jxk.1	+	5	693	c.293T>C	c.(292-294)GTG>GCG	p.V98A	TMEM106B_uc003ssh.2_Missense_Mutation_p.V98A	NM_018374	NP_060844	Q9NUM4	T106B_HUMAN	transmembrane protein 106B	98	Helical; (Potential).					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (126;0.185)														---	---	---	---
ARL4A	10124	broad.mit.edu	37	7	12727924	12727924	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12727924G>A	uc003ssp.2	+	2	322	c.45G>A	c.(43-45)CTG>CTA	p.L15L	ARL4A_uc003ssq.2_Silent_p.L15L|ARL4A_uc003ssr.2_Silent_p.L15L|ARL4A_uc003sss.2_Silent_p.L15L	NM_001037164	NP_001032241	P40617	ARL4A_HUMAN	ADP-ribosylation factor-like 4A	15					small GTPase mediated signal transduction	cytoplasm|nucleolus|plasma membrane	GTP binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (126;0.176)														---	---	---	---
ARL4A	10124	broad.mit.edu	37	7	12728427	12728427	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12728427A>G	uc003ssp.2	+	2	825	c.548A>G	c.(547-549)CAT>CGT	p.H183R	ARL4A_uc003ssq.2_Missense_Mutation_p.H183R|ARL4A_uc003ssr.2_Missense_Mutation_p.H183R|ARL4A_uc003sss.2_Missense_Mutation_p.H183R	NM_001037164	NP_001032241	P40617	ARL4A_HUMAN	ADP-ribosylation factor-like 4A	183					small GTPase mediated signal transduction	cytoplasm|nucleolus|plasma membrane	GTP binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (126;0.176)														---	---	---	---
ETV1	2115	broad.mit.edu	37	7	13971341	13971341	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:13971341G>T	uc011jxq.1	-	9	1327	c.588C>A	c.(586-588)TCC>TCA	p.S196S	ETV1_uc011jxn.1_Silent_p.S156S|ETV1_uc011jxo.1_Silent_p.S93S|ETV1_uc011jxp.1_Silent_p.S138S|ETV1_uc003ssw.3_Silent_p.S196S|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Silent_p.S178S|ETV1_uc011jxs.1_Silent_p.S178S|ETV1_uc010ktv.2_Silent_p.S65S	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	196					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35								T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								---	---	---	---
DGKB	1607	broad.mit.edu	37	7	14653016	14653016	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:14653016T>A	uc003ssz.2	-	15	1497	c.1310A>T	c.(1309-1311)CAC>CTC	p.H437L	DGKB_uc011jxt.1_Missense_Mutation_p.H418L|DGKB_uc003sta.2_Missense_Mutation_p.H437L|DGKB_uc011jxu.1_Missense_Mutation_p.H436L	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	437	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)													---	---	---	---
DGKB	1607	broad.mit.edu	37	7	14758253	14758253	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:14758253G>A	uc003ssz.2	-	5	567	c.380C>T	c.(379-381)ACG>ATG	p.T127M	DGKB_uc011jxt.1_Missense_Mutation_p.T120M|DGKB_uc003sta.2_Missense_Mutation_p.T127M|DGKB_uc011jxu.1_Missense_Mutation_p.T127M|DGKB_uc011jxv.1_Missense_Mutation_p.T127M	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	127					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)													---	---	---	---
TMEM195	392636	broad.mit.edu	37	7	15240962	15240962	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:15240962G>A	uc003stb.1	-	13	1456	c.1286C>T	c.(1285-1287)GCT>GTT	p.A429V		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	429	Helical; (Potential).				ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0																		---	---	---	---
FERD3L	222894	broad.mit.edu	37	7	19184742	19184742	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:19184742G>A	uc003suo.1	-	1	303	c.244C>T	c.(244-246)CGC>TGC	p.R82C	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	82					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1																		---	---	---	---
MACC1	346389	broad.mit.edu	37	7	20199427	20199427	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:20199427C>T	uc003sus.3	-	5	866	c.557G>A	c.(556-558)CGC>CAC	p.R186H	MACC1_uc010kug.2_Missense_Mutation_p.R186H	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	186					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3																		---	---	---	---
DNAH11	8701	broad.mit.edu	37	7	21627789	21627789	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21627789T>C	uc003svc.2	+	10	1849	c.1818T>C	c.(1816-1818)TGT>TGC	p.C606C		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	606	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15														Kartagener_syndrome				---	---	---	---
DNAH11	8701	broad.mit.edu	37	7	21631027	21631027	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21631027C>T	uc003svc.2	+	14	2530	c.2499C>T	c.(2497-2499)AAC>AAT	p.N833N		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	833	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15														Kartagener_syndrome				---	---	---	---
CDCA7L	55536	broad.mit.edu	37	7	21943869	21943869	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21943869C>T	uc010kuk.2	-	8	1176	c.1056G>A	c.(1054-1056)ACG>ACA	p.T352T	CDCA7L_uc003sve.3_Silent_p.T318T|CDCA7L_uc010kul.2_Silent_p.T306T|CDCA7L_uc003svf.3_Silent_p.T351T	NM_018719	NP_061189	Q96GN5	CDA7L_HUMAN	cell division cycle associated 7-like isoform 1	352					positive regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus					0																		---	---	---	---
C7orf46	340277	broad.mit.edu	37	7	23731194	23731194	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:23731194C>T	uc003swo.3	+	4	705	c.616C>T	c.(616-618)CGG>TGG	p.R206W	C7orf46_uc003swq.3_Missense_Mutation_p.R206W|C7orf46_uc003swr.3_Missense_Mutation_p.R148W|C7orf46_uc003swp.3_RNA|C7orf46_uc010kup.2_RNA	NM_199136	NP_954587	A4D161	CG046_HUMAN	hypothetical protein LOC340277 isoform 1	206											0																		---	---	---	---
DFNA5	1687	broad.mit.edu	37	7	24789387	24789387	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:24789387C>T	uc010kus.1	-	2	95	c.7G>A	c.(7-9)GCC>ACC	p.A3T	DFNA5_uc003swz.2_Intron|DFNA5_uc003sxa.1_Missense_Mutation_p.A3T|DFNA5_uc010kut.1_Intron|DFNA5_uc003sxb.2_Missense_Mutation_p.A3T|DFNA5_uc003sxc.2_Missense_Mutation_p.A3T	NM_001127453	NP_001120925	O60443	DFNA5_HUMAN	deafness, autosomal dominant 5 protein isoform	3					sensory perception of sound					ovary(1)	1																		---	---	---	---
OSBPL3	26031	broad.mit.edu	37	7	24839866	24839866	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:24839866C>T	uc003sxf.2	-	23	3005	c.2600G>A	c.(2599-2601)GGC>GAC	p.G867D	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Missense_Mutation_p.G831D|OSBPL3_uc003sxh.2_Missense_Mutation_p.G836D|OSBPL3_uc003sxi.2_Missense_Mutation_p.G800D	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	867					lipid transport		lipid binding|protein binding			skin(1)	1																		---	---	---	---
HOXA1	3198	broad.mit.edu	37	7	27134298	27134298	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27134298C>T	uc003sye.2	-	2	863	c.769G>A	c.(769-771)GCC>ACC	p.A257T	HOXA1_uc003syd.2_3'UTR|uc003syg.2_5'Flank	NM_005522	NP_005513	P49639	HXA1_HUMAN	homeobox A1 isoform a	257	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3																		---	---	---	---
HOXA1	3198	broad.mit.edu	37	7	27135154	27135154	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27135154G>A	uc003sye.2	-	1	472	c.378C>T	c.(376-378)TGC>TGT	p.C126C	HOXA1_uc003syd.2_Intron|uc003syg.2_5'Flank	NM_005522	NP_005513	P49639	HXA1_HUMAN	homeobox A1 isoform a	126						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3																		---	---	---	---
HOXA6	3203	broad.mit.edu	37	7	27185359	27185359	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27185359C>T	uc003syo.1	-	2	620	c.620G>A	c.(619-621)CGC>CAC	p.R207H	HOXA5_uc003syn.1_5'Flank|uc003syp.1_5'Flank	NM_024014	NP_076919	P31267	HXA6_HUMAN	homeobox A6	207	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
MIR550-1	693133	broad.mit.edu	37	7	30329450	30329450	+	RNA	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:30329450G>T	hsa-mir-550-1|MI0003600	+			c.41G>T			ZNRF2_uc003tat.2_Intron																	0																		---	---	---	---
NEUROD6	63974	broad.mit.edu	37	7	31378581	31378581	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:31378581G>A	uc003tch.2	-	2	655	c.302C>T	c.(301-303)GCG>GTG	p.A101V		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	101	Basic motif.				cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2																		---	---	---	---
CCDC129	223075	broad.mit.edu	37	7	31592727	31592727	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:31592727C>T	uc003tcj.1	+	2	1082	c.89C>T	c.(88-90)GCG>GTG	p.A30V	CCDC129_uc011kad.1_Missense_Mutation_p.A40V|CCDC129_uc003tci.1_Missense_Mutation_p.A29V|CCDC129_uc011kae.1_Missense_Mutation_p.A56V|CCDC129_uc003tck.1_5'Flank	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	30											0																		---	---	---	---
BMPER	168667	broad.mit.edu	37	7	33945297	33945297	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:33945297C>T	uc011kap.1	+	1	186	c.72C>T	c.(70-72)TGC>TGT	p.C24C		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	24					blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3																		---	---	---	---
BMPER	168667	broad.mit.edu	37	7	34118628	34118628	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:34118628G>A	uc011kap.1	+	12	1352	c.1238G>A	c.(1237-1239)CGC>CAC	p.R413H		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	413	VWFD.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3																		---	---	---	---
ANLN	54443	broad.mit.edu	37	7	36447449	36447449	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:36447449C>T	uc003tff.2	+	5	1184	c.980C>T	c.(979-981)ACG>ATG	p.T327M	ANLN_uc011kaz.1_Missense_Mutation_p.T239M|ANLN_uc003tfg.2_Missense_Mutation_p.T327M|ANLN_uc010kxe.2_Missense_Mutation_p.T327M	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	327	Interaction with F-actin.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3																		---	---	---	---
ELMO1	9844	broad.mit.edu	37	7	37253022	37253022	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37253022G>A	uc003tfk.1	-	12	1179	c.872C>T	c.(871-873)GCG>GTG	p.A291V	ELMO1_uc011kbc.1_Missense_Mutation_p.A195V|ELMO1_uc010kxg.1_Missense_Mutation_p.A291V	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	291					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6																		---	---	---	---
ELMO1	9844	broad.mit.edu	37	7	37264526	37264526	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37264526G>A	uc003tfk.1	-	9	966	c.659C>T	c.(658-660)GCG>GTG	p.A220V	ELMO1_uc011kbc.1_Missense_Mutation_p.A124V|ELMO1_uc010kxg.1_Missense_Mutation_p.A220V	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	220					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6																		---	---	---	---
ELMO1	9844	broad.mit.edu	37	7	37382208	37382208	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37382208G>A	uc003tfk.1	-						ELMO1_uc010kxg.1_Intron	NM_014800	NP_055615			engulfment and cell motility 1 isoform 1						actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6																		---	---	---	---
GPR141	353345	broad.mit.edu	37	7	37780303	37780303	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37780303T>C	uc003tfm.1	+	1	308	c.308T>C	c.(307-309)TTC>TCC	p.F103S	uc003tfl.2_Intron	NM_181791	NP_861456	Q7Z602	GP141_HUMAN	G protein-coupled receptor 141	103	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3																		---	---	---	---
SFRP4	6424	broad.mit.edu	37	7	37947223	37947223	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37947223T>C	uc003tfo.3	-	6	1285	c.899A>G	c.(898-900)GAC>GGC	p.D300G		NM_003014	NP_003005	Q6FHJ7	SFRP4_HUMAN	secreted frizzled-related  protein 4 precursor	300	NTR.				brain development|cell differentiation|decidualization|embryo development|epithelium development|gonad development|mammary gland involution|menstrual cycle phase|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell proliferation|negative regulation of JNK cascade|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of sodium-dependent phosphate transport|phosphate ion homeostasis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epidermal cell differentiation|positive regulation of gene expression|positive regulation of receptor internalization|vasculature development|Wnt receptor signaling pathway	cell surface|cytoplasm|extracellular space|nucleus	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	38279756	38279756	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38279756G>A	uc003tfu.3	-	5	488	c.253C>T	c.(253-255)CTG>TTG	p.L85L	uc003tfv.2_Silent_p.L85L					SubName: Full=TARP protein;																														---	---	---	---
INHBA	3624	broad.mit.edu	37	7	41729601	41729601	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:41729601G>A	uc003thq.2	-	2	1163	c.928C>T	c.(928-930)CGG>TGG	p.R310W	INHBA_uc003thr.2_Missense_Mutation_p.R310W	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	310					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6															TSP Lung(11;0.080)			---	---	---	---
GLI3	2737	broad.mit.edu	37	7	42085021	42085021	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:42085021G>A	uc011kbh.1	-	6	879	c.788C>T	c.(787-789)ACG>ATG	p.T263M	GLI3_uc011kbg.1_Missense_Mutation_p.T204M	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	263					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19														Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				---	---	---	---
C7orf25	79020	broad.mit.edu	37	7	42949911	42949911	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:42949911C>T	uc003thw.2	-	2	1053	c.589G>A	c.(589-591)GCT>ACT	p.A197T	C7orf25_uc010kxq.2_Missense_Mutation_p.A197T|C7orf25_uc003thx.3_Missense_Mutation_p.A255T|C7orf25_uc010kxr.2_Missense_Mutation_p.A255T	NM_024054	NP_076959	Q9BPX7	CG025_HUMAN	hypothetical protein LOC79020 b	197										skin(1)	1																		---	---	---	---
PSMA2	5683	broad.mit.edu	37	7	42967003	42967003	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:42967003C>T	uc003thy.2	-	2	145	c.97G>A	c.(97-99)GCC>ACC	p.A33T	C7orf25_uc010kxr.2_5'UTR|PSMA2_uc010kxt.2_5'UTR|PSMA2_uc003thz.1_Intron	NM_002787	NP_002778	P25787	PSA2_HUMAN	proteasome subunit alpha type 2	33					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|response to virus|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	protein binding|threonine-type endopeptidase activity			large_intestine(2)|ovary(1)	3																		---	---	---	---
HECW1	23072	broad.mit.edu	37	7	43546741	43546741	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43546741C>T	uc003tid.1	+	22	4242	c.3637C>T	c.(3637-3639)CAG>TAG	p.Q1213*	HECW1_uc011kbi.1_Nonsense_Mutation_p.Q1179*	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1213					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23																		---	---	---	---
HECW1	23072	broad.mit.edu	37	7	43580834	43580834	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43580834G>T	uc003tid.1	+	25	4697	c.4092G>T	c.(4090-4092)AGG>AGT	p.R1364S	HECW1_uc011kbi.1_Missense_Mutation_p.R1330S	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1364	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23																		---	---	---	---
HECW1	23072	broad.mit.edu	37	7	43594297	43594297	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43594297C>T	uc003tid.1	+	29	5222	c.4617C>T	c.(4615-4617)AGC>AGT	p.S1539S	HECW1_uc011kbi.1_Silent_p.S1505S	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1539	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity	p.S1518R(1)		ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23																		---	---	---	---
DBNL	28988	broad.mit.edu	37	7	44092477	44092477	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44092477C>T	uc003tjp.3	+	4	362	c.264C>T	c.(262-264)GGC>GGT	p.G88G	DBNL_uc003tjn.2_Intron|DBNL_uc003tjo.3_Silent_p.G88G|DBNL_uc003tjr.3_Intron|DBNL_uc003tjq.3_Silent_p.G88G|DBNL_uc011kbm.1_Intron|DBNL_uc011kbn.1_5'UTR|DBNL_uc011kbo.1_Intron|DBNL_uc011kbp.1_Silent_p.G88G|DBNL_uc011kbq.1_Silent_p.G13G|DBNL_uc011kbr.1_Silent_p.G36G|DBNL_uc011kbs.1_5'UTR	NM_001014436	NP_001014436	Q9UJU6	DBNL_HUMAN	drebrin-like isoform b	88	ADF-H.				activation of JUN kinase activity|cellular component disassembly involved in apoptosis|endocytosis|Rac protein signal transduction	cell cortex|cytoskeleton|cytosol|lamellipodium	actin binding|enzyme activator activity|identical protein binding			skin(1)	1																		---	---	---	---
AEBP1	165	broad.mit.edu	37	7	44147270	44147270	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44147270A>G	uc003tkb.2	+	4	1015	c.710A>G	c.(709-711)GAC>GGC	p.D237G		NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	237	Pro-rich.				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0																		---	---	---	---
NUDCD3	23386	broad.mit.edu	37	7	44432048	44432048	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44432048C>T	uc003tkz.2	-	5	1009	c.823G>A	c.(823-825)GCC>ACC	p.A275T	NUDCD3_uc010kye.2_RNA	NM_015332	NP_056147	Q8IVD9	NUDC3_HUMAN	NudC domain containing 3	275	CS.										0																		---	---	---	---
NUDCD3	23386	broad.mit.edu	37	7	44507529	44507529	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44507529A>G	uc003tkz.2	-						NUDCD3_uc010kye.2_Intron	NM_015332	NP_056147			NudC domain containing 3												0																		---	---	---	---
NUDCD3	23386	broad.mit.edu	37	7	44507625	44507625	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44507625A>G	uc003tkz.2	-						NUDCD3_uc010kye.2_Intron	NM_015332	NP_056147			NudC domain containing 3												0																		---	---	---	---
DDX56	54606	broad.mit.edu	37	7	44611252	44611252	+	Silent	SNP	G	A	A	rs150750277		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44611252G>A	uc003tlg.2	-	6	1372	c.729C>T	c.(727-729)GAC>GAT	p.D243D	DDX56_uc003tle.2_RNA|DDX56_uc003tlf.2_Silent_p.D179D|DDX56_uc003tlh.2_RNA|DDX56_uc010kyg.2_Silent_p.D243D|DDX56_uc010kyh.1_RNA	NM_019082	NP_061955	Q9NY93	DDX56_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56	243	Helicase C-terminal.				rRNA processing	nucleolus	ATP binding|ATP-dependent RNA helicase activity|identical protein binding|RNA binding			upper_aerodigestive_tract(1)	1																		---	---	---	---
OGDH	4967	broad.mit.edu	37	7	44706326	44706326	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44706326G>A	uc003tln.2	+						OGDH_uc003tlm.2_Intron|OGDH_uc011kbx.1_Intron|OGDH_uc011kby.1_Intron|OGDH_uc003tlp.2_Intron|OGDH_uc011kbz.1_Intron|OGDH_uc003tlo.1_Intron	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)													---	---	---	---
OGDH	4967	broad.mit.edu	37	7	44714124	44714124	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44714124C>T	uc003tln.2	+	7	1012	c.903C>T	c.(901-903)GGC>GGT	p.G301G	OGDH_uc003tlm.2_Silent_p.G301G|OGDH_uc011kbx.1_Silent_p.G297G|OGDH_uc011kby.1_Silent_p.G151G|OGDH_uc003tlp.2_Silent_p.G312G|OGDH_uc011kbz.1_Silent_p.G96G|OGDH_uc003tlo.1_Silent_p.G134G	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	301					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)													---	---	---	---
ZMIZ2	83637	broad.mit.edu	37	7	44796067	44796067	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44796067G>A	uc003tlr.2	+	3	217	c.94G>A	c.(94-96)GCC>ACC	p.A32T	ZMIZ2_uc003tlq.2_Missense_Mutation_p.A32T|ZMIZ2_uc003tls.2_Missense_Mutation_p.A32T	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	32					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5																		---	---	---	---
MYO1G	64005	broad.mit.edu	37	7	45005293	45005293	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45005293G>A	uc003tmh.2	-	17	2468	c.2324C>T	c.(2323-2325)CCG>CTG	p.P775L	MYO1G_uc003tmf.2_Missense_Mutation_p.P218L|MYO1G_uc003tmg.2_Missense_Mutation_p.P537L|MYO1G_uc010kym.2_Missense_Mutation_p.P660L	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	775						myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4																		---	---	---	---
MYO1G	64005	broad.mit.edu	37	7	45010231	45010231	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45010231C>T	uc003tmh.2	-	9	1321	c.1177G>A	c.(1177-1179)GTG>ATG	p.V393M	MYO1G_uc003tmf.2_5'Flank|MYO1G_uc003tmg.2_Missense_Mutation_p.V155M|MYO1G_uc010kym.2_Missense_Mutation_p.V278M|MYO1G_uc003tmi.1_Missense_Mutation_p.V305M|MYO1G_uc003tmj.2_Missense_Mutation_p.V155M	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	393	Myosin head-like.					myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4																		---	---	---	---
RAMP3	10268	broad.mit.edu	37	7	45222982	45222982	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45222982C>T	uc003tnb.2	+	3	479	c.418C>T	c.(418-420)CGC>TGC	p.R140C	RAMP3_uc003tnc.2_Missense_Mutation_p.R108C	NM_005856	NP_005847	O60896	RAMP3_HUMAN	receptor activity modifying protein 3 precursor	140	Cytoplasmic (Potential).				intracellular protein transport|receptor-mediated endocytosis|regulation of G-protein coupled receptor protein signaling pathway	integral to plasma membrane|lysosome	protein transporter activity				0					Pramlintide(DB01278)													---	---	---	---
ADCY1	107	broad.mit.edu	37	7	45662269	45662269	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45662269C>T	uc003tne.3	+	4	965	c.947C>T	c.(946-948)GCA>GTA	p.A316V	ADCY1_uc003tnd.2_Missense_Mutation_p.A91V	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	316	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|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)													---	---	---	---
ADCY1	107	broad.mit.edu	37	7	45717589	45717589	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45717589G>A	uc003tne.3	+	9	1745	c.1727G>A	c.(1726-1728)CGC>CAC	p.R576H		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	576	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|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)													---	---	---	---
TNS3	64759	broad.mit.edu	37	7	47409180	47409180	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47409180C>T	uc003tnv.2	-	17	1430	c.1063G>A	c.(1063-1065)GCG>ACG	p.A355T	TNS3_uc003tnw.2_Missense_Mutation_p.A355T	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	355						focal adhesion	protein binding			ovary(4)	4																		---	---	---	---
PKD1L1	168507	broad.mit.edu	37	7	47842892	47842892	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47842892G>A	uc003tny.1	-	53	7878	c.7878C>T	c.(7876-7878)TGC>TGT	p.C2626C	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2626	Helical; (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11																		---	---	---	---
ABCA13	154664	broad.mit.edu	37	7	48280633	48280633	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48280633G>A	uc003toq.2	+	10	1257	c.1232G>A	c.(1231-1233)GGC>GAC	p.G411D	ABCA13_uc010kyr.2_5'UTR	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	411					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10																		---	---	---	---
ABCA13	154664	broad.mit.edu	37	7	48314637	48314637	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48314637G>A	uc003toq.2	+	17	5399	c.5374G>A	c.(5374-5376)GCA>ACA	p.A1792T	ABCA13_uc010kyr.2_Missense_Mutation_p.A1295T	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1792					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10																		---	---	---	---
ABCA13	154664	broad.mit.edu	37	7	48318199	48318199	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48318199G>A	uc003toq.2	+	18	7433	c.7408G>A	c.(7408-7410)GCA>ACA	p.A2470T	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2470					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10																		---	---	---	---
ABCA13	154664	broad.mit.edu	37	7	48413962	48413962	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48413962G>A	uc003toq.2	+	34	11177	c.11152G>A	c.(11152-11154)GCC>ACC	p.A3718T	ABCA13_uc010kys.1_Missense_Mutation_p.A792T|ABCA13_uc003tos.1_Missense_Mutation_p.A544T|ABCA13_uc010kyt.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3718	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10																		---	---	---	---
ABCA13	154664	broad.mit.edu	37	7	48450180	48450180	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48450180C>T	uc003toq.2	+	40	12159	c.12134C>T	c.(12133-12135)GCC>GTC	p.A4045V	ABCA13_uc010kys.1_Missense_Mutation_p.A1119V|ABCA13_uc010kyt.1_RNA	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4045	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10																		---	---	---	---
FIGNL1	63979	broad.mit.edu	37	7	50514928	50514928	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:50514928C>T	uc003tpc.2	-	4	435	c.58G>A	c.(58-60)GCA>ACA	p.A20T	FIGNL1_uc003tpb.2_5'UTR|FIGNL1_uc003tpd.2_Missense_Mutation_p.A20T|FIGNL1_uc003tpe.2_Missense_Mutation_p.A20T|FIGNL1_uc010kyy.2_Missense_Mutation_p.A20T	NM_001042762	NP_001036227	Q6PIW4	FIGL1_HUMAN	fidgetin-like 1	20					ATP metabolic process|negative regulation of apoptosis|osteoblast differentiation|osteoblast proliferation|regulation of cell cycle	cytoplasm|nucleus	ATP binding|magnesium ion binding|nucleoside-triphosphatase activity			ovary(3)	3	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;3.73e-08)|all_hematologic(4;7.51e-06)																---	---	---	---
DDC	1644	broad.mit.edu	37	7	50611704	50611704	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:50611704C>T	uc003tpf.3	-	2	166	c.80G>A	c.(79-81)CGC>CAC	p.R27H	DDC_uc010kza.2_Missense_Mutation_p.R27H|DDC_uc003tpg.3_Missense_Mutation_p.R27H	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	27					cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)													---	---	---	---
EGFR	1956	broad.mit.edu	37	7	55214312	55214312	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55214312C>T	uc003tqk.2	+	4	684	c.438C>T	c.(436-438)GGC>GGT	p.G146G	EGFR_uc003tqh.2_Silent_p.G146G|EGFR_uc003tqi.2_Silent_p.G146G|EGFR_uc003tqj.2_Silent_p.G146G|EGFR_uc010kzg.1_Intron|EGFR_uc011kco.1_Silent_p.G93G	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	146	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V30_R297>G(5)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			---	---	---	---
EGFR	1956	broad.mit.edu	37	7	55214408	55214408	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55214408G>T	uc003tqk.2	+	4	780	c.534G>T	c.(532-534)ATG>ATT	p.M178I	EGFR_uc003tqh.2_Missense_Mutation_p.M178I|EGFR_uc003tqi.2_Missense_Mutation_p.M178I|EGFR_uc003tqj.2_Missense_Mutation_p.M178I|EGFR_uc010kzg.1_Intron|EGFR_uc011kco.1_Missense_Mutation_p.M125I	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	178	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V30_R297>G(5)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			---	---	---	---
EGFR	1956	broad.mit.edu	37	7	55220348	55220348	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55220348C>T	uc003tqk.2	+	6	984	c.738C>T	c.(736-738)AGC>AGT	p.S246S	EGFR_uc003tqh.2_Silent_p.S246S|EGFR_uc003tqi.2_Silent_p.S246S|EGFR_uc003tqj.2_Silent_p.S246S|EGFR_uc010kzg.1_Silent_p.S201S|EGFR_uc011kco.1_Silent_p.S193S|EGFR_uc003tql.1_RNA	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	246	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V30_R297>G(5)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			---	---	---	---
EGFR	1956	broad.mit.edu	37	7	55221829	55221829	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55221829C>T	uc003tqk.2	+	7	1119	c.873C>T	c.(871-873)TGC>TGT	p.C291C	EGFR_uc003tqh.2_Silent_p.C291C|EGFR_uc003tqi.2_Silent_p.C291C|EGFR_uc003tqj.2_Silent_p.C291C|EGFR_uc010kzg.1_Silent_p.C246C|EGFR_uc011kco.1_Silent_p.C238C|EGFR_uc011kcp.1_5'Flank|EGFR_uc011kcq.1_5'Flank	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	291	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V30_R297>G(5)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			---	---	---	---
EGFR	1956	broad.mit.edu	37	7	55242511	55242511	+	Missense_Mutation	SNP	G	A	A	rs121913418		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55242511G>A	uc003tqk.2	+	19	2527	c.2281G>A	c.(2281-2283)GAT>AAT	p.D761N	EGFR_uc010kzg.1_Missense_Mutation_p.D716N|EGFR_uc011kco.1_Missense_Mutation_p.D708N	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	761	Cytoplasmic (Potential).|Protein kinase.				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.D761Y(5)|p.D761_E762insEAFQ(3)|p.D761G(2)|p.S752_V769del(1)|p.D761N(1)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			---	---	---	---
LANCL2	55915	broad.mit.edu	37	7	55479775	55479775	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55479775C>T	uc003tqp.2	+	6	1579	c.1001C>T	c.(1000-1002)GCG>GTG	p.A334V		NM_018697	NP_061167	Q9NS86	LANC2_HUMAN	LanC lantibiotic synthetase component C-like 2	334					negative regulation of transcription, DNA-dependent|positive regulation of abscisic acid mediated signaling pathway	cortical actin cytoskeleton|cytosol|nucleus|plasma membrane	ATP binding|catalytic activity|GTP binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding			ovary(1)|skin(1)	2	Breast(14;0.0379)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00128)|Epithelial(13;0.0706)															---	---	---	---
CCT6A	908	broad.mit.edu	37	7	56122107	56122107	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:56122107G>A	uc003trl.1	+	3	411	c.247G>A	c.(247-249)GCC>ACC	p.A83T	PSPH_uc003trh.2_5'Flank|PSPH_uc003tri.2_5'Flank|PSPH_uc003trj.2_Intron|PSPH_uc003trk.1_5'Flank|CCT6A_uc003trm.1_Intron|CCT6A_uc011kcu.1_Missense_Mutation_p.A52T	NM_001762	NP_001753	P40227	TCPZ_HUMAN	chaperonin containing TCP1, subunit 6A isoform	83					'de novo' posttranslational protein folding	cytosol	ATP binding|unfolded protein binding			upper_aerodigestive_tract(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)															---	---	---	---
GUSB	2990	broad.mit.edu	37	7	65439577	65439577	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:65439577G>A	uc003tun.2	-	7	1256	c.1180C>T	c.(1180-1182)CAG>TAG	p.Q394*	GUSB_uc011kdt.1_Nonsense_Mutation_p.Q248*	NM_000181	NP_000172	P08236	BGLR_HUMAN	glucuronidase, beta precursor	394					glycosaminoglycan catabolic process	lysosome	beta-glucuronidase activity|cation binding				0																		---	---	---	---
AUTS2	26053	broad.mit.edu	37	7	70255333	70255333	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70255333G>A	uc003tvw.3	+	19	3874	c.3131G>A	c.(3130-3132)CGC>CAC	p.R1044H	AUTS2_uc003tvx.3_Missense_Mutation_p.R1020H|AUTS2_uc011keg.1_Missense_Mutation_p.R496H	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	1044										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)														---	---	---	---
WBSCR17	64409	broad.mit.edu	37	7	71142200	71142200	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:71142200G>A	uc003tvy.2	+	9	1409	c.1409G>A	c.(1408-1410)CGC>CAC	p.R470H	WBSCR17_uc003tvz.2_Missense_Mutation_p.R169H	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	470	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)																---	---	---	---
POM121	9883	broad.mit.edu	37	7	72413634	72413634	+	Silent	SNP	G	A	A	rs139238552	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72413634G>A	uc003twk.2	+	11	3102	c.3102G>A	c.(3100-3102)ACG>ACA	p.T1034T	POM121_uc003twj.2_Silent_p.T769T|POM121_uc010lam.1_Silent_p.T769T	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	1034	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)																---	---	---	---
NSUN5	55695	broad.mit.edu	37	7	72722781	72722781	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72722781G>A	uc003txw.2	-	1	43	c.7C>T	c.(7-9)CTG>TTG	p.L3L	FKBP6_uc003twz.2_Intron|NSUN5_uc003txv.2_Silent_p.L3L|NSUN5_uc003txx.2_Silent_p.L3L|NSUN5_uc011kev.1_Silent_p.L3L	NM_018044	NP_060514	Q96P11	NSUN5_HUMAN	NOL1/NOP2/Sun domain family, member 5 isoform 2	3							methyltransferase activity				0		Lung NSC(55;0.163)																---	---	---	---
BAZ1B	9031	broad.mit.edu	37	7	72884801	72884801	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72884801C>T	uc003tyc.2	-	8	2951	c.2606G>A	c.(2605-2607)CGC>CAC	p.R869H		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	869	Potential.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)																---	---	---	---
BAZ1B	9031	broad.mit.edu	37	7	72891452	72891452	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72891452C>T	uc003tyc.2	-	7	2684	c.2339G>A	c.(2338-2340)CGG>CAG	p.R780Q		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	780	Potential.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)																---	---	---	---
TBL2	26608	broad.mit.edu	37	7	72987764	72987764	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72987764G>A	uc003tyh.2	-	4	618	c.484C>T	c.(484-486)CGT>TGT	p.R162C	TBL2_uc011kex.1_Missense_Mutation_p.R126C|TBL2_uc010lbg.2_Missense_Mutation_p.R67C|TBL2_uc003tyi.2_5'UTR|TBL2_uc011key.1_Missense_Mutation_p.R33C|TBL2_uc010lbh.2_Missense_Mutation_p.R67C	NM_012453	NP_036585	Q9Y4P3	TBL2_HUMAN	transducin (beta)-like 2	162	WD 2.										0		Lung NSC(55;0.0659)|all_lung(88;0.152)																---	---	---	---
ELN	2006	broad.mit.edu	37	7	73474271	73474271	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73474271T>C	uc003tzw.2	+	23	1579	c.1488T>C	c.(1486-1488)GGT>GGC	p.G496G	RFC2_uc011kfa.1_Intron|ELN_uc003tzn.2_Silent_p.G490G|ELN_uc003tzz.2_Silent_p.G409G|ELN_uc003tzo.2_Silent_p.G457G|ELN_uc003tzp.2_Silent_p.G401G|ELN_uc003tzq.2_Silent_p.G354G|ELN_uc003tzr.2_Intron|ELN_uc003tzs.2_Silent_p.G471G|ELN_uc003tzt.2_Silent_p.G495G|ELN_uc003tzu.2_Silent_p.G476G|ELN_uc003tzv.2_Silent_p.G461G|ELN_uc003tzx.2_Silent_p.G480G|ELN_uc011kff.1_Silent_p.G490G|ELN_uc003tzy.2_Silent_p.G466G	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	519	Ala-rich.				blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome						---	---	---	---
LAT2	7462	broad.mit.edu	37	7	73636001	73636001	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73636001C>T	uc003uag.2	+	10	917	c.367C>T	c.(367-369)CGG>TGG	p.R123W	RFC2_uc011kfa.1_Intron|LAT2_uc003uah.2_Missense_Mutation_p.R123W|LAT2_uc003uai.2_Missense_Mutation_p.R123W|LAT2_uc010lbo.2_Intron	NM_032464	NP_115853	Q9GZY6	NTAL_HUMAN	linker for activation of T cells family member	123	Cytoplasmic (Potential).				B cell activation|B cell receptor signaling pathway|calcium-mediated signaling|mast cell degranulation	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding				0																		---	---	---	---
GTF2IRD1	9569	broad.mit.edu	37	7	73944220	73944220	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73944220G>A	uc003uaq.2	+	9	1640	c.1247G>A	c.(1246-1248)CGC>CAC	p.R416H	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.R448H|GTF2IRD1_uc003uap.2_Missense_Mutation_p.R416H|GTF2IRD1_uc003uar.1_Missense_Mutation_p.R416H	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	416	GTF2I-like 2.					nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4																		---	---	---	---
POM121C	100101267	broad.mit.edu	37	7	75068501	75068501	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75068501G>A	uc010lde.1	-	4	955	c.955C>T	c.(955-957)CGC>TGC	p.R319C	POM121C_uc003udk.3_Missense_Mutation_p.R77C			A8CG34	P121C_HUMAN	Homo sapiens POM121-2 mRNA for nuclear pore membrane protein 121-2, partial cds.	319	Required for targeting to the nucleus and nuclear pore complex.|Pore side (Potential).				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0																		---	---	---	---
RHBDD2	57414	broad.mit.edu	37	7	75517323	75517323	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75517323C>T	uc003udw.1	+	4	835	c.751C>T	c.(751-753)CCT>TCT	p.P251S	RHBDD2_uc003udv.1_Missense_Mutation_p.P110S	NM_001040456	NP_001035546	Q6NTF9	RHBD2_HUMAN	rhomboid domain containing 2 isoform a	251						integral to membrane	serine-type endopeptidase activity				0																		---	---	---	---
POR	5447	broad.mit.edu	37	7	75608862	75608862	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75608862C>T	uc003udy.2	+	4	413	c.331C>T	c.(331-333)CGA>TGA	p.R111*	POR_uc011kgb.1_RNA|POR_uc011kgc.1_5'Flank|POR_uc011kgd.1_5'Flank|POR_uc011kge.1_5'Flank	NM_000941	NP_000932	P16435	NCPR_HUMAN	cytochrome P450 reductase	108	Flavodoxin-like.				cellular organofluorine metabolic process|positive regulation of monooxygenase activity	endoplasmic reticulum membrane	iron ion binding|NADPH-hemoprotein reductase activity			central_nervous_system(1)	1					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Lipoic Acid(DB00166)|Menadione(DB00170)|Methoxyflurane(DB01028)|Mitomycin(DB00305)|Nilutamide(DB00665)													---	---	---	---
PTPN12	5782	broad.mit.edu	37	7	77210740	77210740	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77210740G>A	uc003ugh.2	+						PTPN12_uc011kgp.1_Intron|PTPN12_uc011kgq.1_Intron|PTPN12_uc010ldq.1_Intron|PTPN12_uc010ldr.1_Intron	NM_002835	NP_002826			protein tyrosine phosphatase, non-receptor type							soluble fraction	non-membrane spanning protein tyrosine phosphatase activity|SH3 domain binding			ovary(1)|breast(1)|pancreas(1)	3																		---	---	---	---
RSBN1L	222194	broad.mit.edu	37	7	77407902	77407902	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77407902G>A	uc010ldt.1	+	8	2002	c.1958G>A	c.(1957-1959)CGC>CAC	p.R653H	RSBN1L_uc003ugm.2_Missense_Mutation_p.R435H	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	653						nucleus				ovary(1)	1																		---	---	---	---
MAGI2	9863	broad.mit.edu	37	7	77824371	77824371	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77824371G>A	uc003ugx.2	-	12	2343	c.2089C>T	c.(2089-2091)CGA>TGA	p.R697*	MAGI2_uc003ugy.2_Nonsense_Mutation_p.R697*|MAGI2_uc010ldx.1_Nonsense_Mutation_p.R306*|MAGI2_uc010ldy.1_Nonsense_Mutation_p.R306*	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	697						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)																---	---	---	---
GNAT3	346562	broad.mit.edu	37	7	80088124	80088124	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:80088124G>C	uc011kgu.1	-	8	928	c.928C>G	c.(928-930)CTG>GTG	p.L310V	CD36_uc003uhc.2_Intron	NM_001102386	NP_001095856	A8MTJ3	GNAT3_HUMAN	guanine nucleotide binding protein, alpha	310					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|rhodopsin mediated phototransduction|sensory perception of sweet taste|sensory perception of umami taste	cytoplasm|heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1																		---	---	---	---
CACNA2D1	781	broad.mit.edu	37	7	81588645	81588645	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:81588645A>G	uc003uhr.1	-	38	3361	c.3105T>C	c.(3103-3105)GTT>GTC	p.V1035V	CACNA2D1_uc011kgy.1_Silent_p.V247V	NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	1047	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)													---	---	---	---
PCLO	27445	broad.mit.edu	37	7	82545507	82545507	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82545507G>A	uc003uhx.2	-	7	12084	c.11795C>T	c.(11794-11796)GCA>GTA	p.A3932V	PCLO_uc003uhv.2_Missense_Mutation_p.A3932V|PCLO_uc010lec.2_Missense_Mutation_p.A897V	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3863	Gln-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7																		---	---	---	---
PCLO	27445	broad.mit.edu	37	7	82581328	82581328	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82581328G>A	uc003uhx.2	-	5	9230	c.8941C>T	c.(8941-8943)CCA>TCA	p.P2981S	PCLO_uc003uhv.2_Missense_Mutation_p.P2981S|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2912					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7																		---	---	---	---
SEMA3A	10371	broad.mit.edu	37	7	83590759	83590759	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:83590759C>A	uc003uhz.2	-	17	2559	c.2244G>T	c.(2242-2244)AAG>AAT	p.K748N		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	748	Arg/Lys-rich (basic).				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4																		---	---	---	---
SEMA3A	10371	broad.mit.edu	37	7	83739781	83739781	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:83739781G>A	uc003uhz.2	-							NM_006080	NP_006071			semaphorin 3A precursor						axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4																		---	---	---	---
GRM3	2913	broad.mit.edu	37	7	86415724	86415724	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:86415724C>T	uc003uid.2	+	3	1715	c.616C>T	c.(616-618)CGC>TGC	p.R206C	GRM3_uc010lef.2_Missense_Mutation_p.R204C|GRM3_uc010leg.2_Missense_Mutation_p.R78C|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	206	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)													---	---	---	---
KIAA1324L	222223	broad.mit.edu	37	7	86542475	86542475	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:86542475C>T	uc011kha.1	-	14	1962	c.1777G>A	c.(1777-1779)GCC>ACC	p.A593T	KIAA1324L_uc003uif.1_Missense_Mutation_p.A353T|KIAA1324L_uc011kgz.1_Missense_Mutation_p.A479T|KIAA1324L_uc003uie.2_Missense_Mutation_p.A426T	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	593	Extracellular (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)																	---	---	---	---
CROT	54677	broad.mit.edu	37	7	87006753	87006753	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87006753G>A	uc003uit.2	+	10	1210	c.965G>A	c.(964-966)GGC>GAC	p.G322D	CROT_uc003uiu.2_Missense_Mutation_p.G350D	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	322					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)													---	---	---	---
ABCB1	5243	broad.mit.edu	37	7	87160729	87160729	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87160729G>A	uc003uiz.1	-	22	2984	c.2566C>T	c.(2566-2568)CAA>TAA	p.Q856*	ABCB1_uc011khc.1_Nonsense_Mutation_p.Q792*	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	856	ABC transmembrane type-1 2.|Helical; (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)													---	---	---	---
DBF4	10926	broad.mit.edu	37	7	87533646	87533646	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87533646A>G	uc003ujf.1	+	11	1468	c.964A>G	c.(964-966)AAC>GAC	p.N322D	DBF4_uc003ujh.1_Missense_Mutation_p.N62D|DBF4_uc003ujg.1_Missense_Mutation_p.N98D|DBF4_uc011khf.1_Missense_Mutation_p.N89D	NM_006716	NP_006707	Q9UBU7	DBF4A_HUMAN	activator of S phase kinase	322	DBF4-type.				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)																---	---	---	---
CDK14	5218	broad.mit.edu	37	7	90585004	90585004	+	Intron	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:90585004A>C	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																		---	---	---	---
CDK14	5218	broad.mit.edu	37	7	90747451	90747451	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:90747451A>G	uc003uky.2	+	14	1588	c.1366A>G	c.(1366-1368)AAA>GAA	p.K456E	CDK14_uc003ukz.1_Missense_Mutation_p.K438E|CDK14_uc010les.1_Missense_Mutation_p.K410E|CDK14_uc011khl.1_Missense_Mutation_p.K327E	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	456					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																		---	---	---	---
MTERF	7978	broad.mit.edu	37	7	91503707	91503707	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91503707C>T	uc003ulb.1	-	2	445	c.401G>A	c.(400-402)CGT>CAT	p.R134H	MTERF_uc010let.1_Intron|MTERF_uc003ulc.1_Missense_Mutation_p.R134H|MTERF_uc011khm.1_Missense_Mutation_p.R114H|MTERF_uc010leu.1_Missense_Mutation_p.R114H	NM_006980	NP_008911	Q99551	MTERF_HUMAN	mitochondrial transcription termination factor	134					DNA geometric change|regulation of transcription, DNA-dependent|termination of mitochondrial transcription	mitochondrial nucleoid	double-stranded DNA binding				0	all_cancers(62;2.28e-09)|all_epithelial(64;1.07e-07)|Breast(17;0.00371)|all_hematologic(106;0.091)|all_lung(186;0.178)|Lung NSC(181;0.235)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.0993)|Kidney(17;0.118)|Epithelial(20;0.136)|LUSC - Lung squamous cell carcinoma(200;0.176)															---	---	---	---
AKAP9	10142	broad.mit.edu	37	7	91652318	91652318	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91652318G>A	uc003ulg.2	+	14	4368	c.4143G>A	c.(4141-4143)CCG>CCA	p.P1381P	AKAP9_uc003ule.2_Silent_p.P1393P|AKAP9_uc003ulf.2_Silent_p.P1381P|AKAP9_uc003uli.2_Silent_p.P1006P	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1393					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)					T	BRAF	papillary thyroid								---	---	---	---
AKAP9	10142	broad.mit.edu	37	7	91668096	91668096	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91668096C>T	uc003ulg.2	+						AKAP9_uc003ule.2_Intron|AKAP9_uc003ulf.2_Intron|AKAP9_uc003uli.2_Intron	NM_005751	NP_005742			A-kinase anchor protein 9 isoform 2						G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)					T	BRAF	papillary thyroid								---	---	---	---
AKAP9	10142	broad.mit.edu	37	7	91718798	91718798	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91718798A>G	uc003ulg.2	+	38	9538	c.9313A>G	c.(9313-9315)AAA>GAA	p.K3105E	AKAP9_uc003ulf.2_Missense_Mutation_p.K3097E|AKAP9_uc003uli.2_Missense_Mutation_p.K2728E|AKAP9_uc003ulj.2_Missense_Mutation_p.K875E|AKAP9_uc003ulk.2_Missense_Mutation_p.K380E|AKAP9_uc003ull.2_5'Flank	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3109					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)					T	BRAF	papillary thyroid								---	---	---	---
AKAP9	10142	broad.mit.edu	37	7	91737871	91737871	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91737871C>T	uc003ulg.2	+	49	11835	c.11610C>T	c.(11608-11610)TAC>TAT	p.Y3870Y	AKAP9_uc003ulf.2_Silent_p.Y3862Y|AKAP9_uc003uli.2_Silent_p.Y3493Y|AKAP9_uc003ulj.2_Silent_p.Y1640Y|AKAP9_uc003ull.2_Silent_p.Y766Y	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3874					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)					T	BRAF	papillary thyroid								---	---	---	---
Unknown	0	broad.mit.edu	37	7	92099158	92099158	+	IGR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92099158C>T								GATAD1 (10416 upstream) : PEX1 (17180 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	92099550	92099550	+	IGR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92099550G>A								GATAD1 (10808 upstream) : PEX1 (16788 downstream)																																			---	---	---	---
SAMD9	54809	broad.mit.edu	37	7	92732197	92732197	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92732197G>A	uc003umf.2	-	3	3470	c.3214C>T	c.(3214-3216)CTT>TTT	p.L1072F	SAMD9_uc003umg.2_Missense_Mutation_p.L1072F	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	1072						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)															---	---	---	---
HEPACAM2	253012	broad.mit.edu	37	7	92848701	92848701	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92848701G>A	uc003umm.2	-	2	166	c.143C>T	c.(142-144)GCC>GTC	p.A48V	HEPACAM2_uc003uml.2_Missense_Mutation_p.A36V|HEPACAM2_uc010lff.2_Missense_Mutation_p.A36V|HEPACAM2_uc011khy.1_Missense_Mutation_p.A71V	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	48	Extracellular (Potential).					integral to membrane				ovary(3)|breast(1)|kidney(1)	5																		---	---	---	---
TFPI2	7980	broad.mit.edu	37	7	93519977	93519977	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:93519977C>T	uc003umy.1	-	1	89	c.14G>A	c.(13-15)CGC>CAC	p.R5H	GNGT1_uc003umx.1_Intron|TFPI2_uc003umz.1_Missense_Mutation_p.R5H|TFPI2_uc003una.1_Missense_Mutation_p.R5H|TFPI2_uc003unb.1_Missense_Mutation_p.R5H|TFPI2_uc010lfg.1_Missense_Mutation_p.R5H	NM_006528	NP_006519	P48307	TFPI2_HUMAN	tissue factor pathway inhibitor 2 precursor	5					blood coagulation	proteinaceous extracellular matrix	extracellular matrix structural constituent|serine-type endopeptidase inhibitor activity			pancreas(1)	1	all_cancers(62;4.45e-10)|all_epithelial(64;2.92e-09)|Lung NSC(181;0.218)		STAD - Stomach adenocarcinoma(171;0.000967)															---	---	---	---
COL1A2	1278	broad.mit.edu	37	7	94057646	94057646	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94057646G>A	uc003ung.1	+	50	4039	c.3568G>A	c.(3568-3570)GCT>ACT	p.A1190T	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1190	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)										HNSCC(75;0.22)			---	---	---	---
CASD1	64921	broad.mit.edu	37	7	94183893	94183893	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94183893T>C	uc003uni.3	+						CASD1_uc003unj.3_Intron	NM_022900	NP_075051			CAS1 domain containing 1 precursor							integral to membrane				ovary(2)	2	all_cancers(62;6.71e-10)|all_epithelial(64;5e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)															---	---	---	---
ASB4	51666	broad.mit.edu	37	7	95157128	95157128	+	Missense_Mutation	SNP	C	T	T	rs138454369		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95157128C>T	uc011kij.1	+	3	491	c.491C>T	c.(490-492)GCG>GTG	p.A164V	ASB4_uc003unx.2_Missense_Mutation_p.A164V	NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	164	ANK 3.				intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)													OREG0018172	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
ASB4	51666	broad.mit.edu	37	7	95157168	95157168	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95157168G>A	uc011kij.1	+	3	531	c.531G>A	c.(529-531)ACG>ACA	p.T177T	ASB4_uc003unx.2_Silent_p.T177T	NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	177	ANK 4.				intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)													OREG0018172	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
TECPR1	25851	broad.mit.edu	37	7	97850998	97850998	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97850998C>T	uc003upg.2	-	23	3337	c.3132G>A	c.(3130-3132)ACG>ACA	p.T1044T		NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	1044	TECPR 8.					integral to membrane	protein binding			pancreas(1)	1																		---	---	---	---
NPTX2	4885	broad.mit.edu	37	7	98254261	98254261	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98254261C>T	uc003upl.2	+	3	848	c.671C>T	c.(670-672)GCG>GTG	p.A224V		NM_002523	NP_002514	P47972	NPTX2_HUMAN	neuronal pentraxin II precursor	224					synaptic transmission	extracellular region	metal ion binding|sugar binding			central_nervous_system(2)|skin(1)	3	all_cancers(62;2.28e-09)|all_epithelial(64;4.86e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0128)|all_lung(186;0.0142)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
TRRAP	8295	broad.mit.edu	37	7	98478778	98478778	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98478778C>T	uc003upp.2	+	2	214	c.5C>T	c.(4-6)GCG>GTG	p.A2V	TRRAP_uc011kis.1_Missense_Mutation_p.A2V	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
TRRAP	8295	broad.mit.edu	37	7	98519385	98519385	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98519385C>T	uc003upp.2	+	21	2841	c.2632C>T	c.(2632-2634)CGC>TGC	p.R878C	TRRAP_uc011kis.1_Missense_Mutation_p.R878C|TRRAP_uc003upr.2_Missense_Mutation_p.R570C	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	878					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
TRRAP	8295	broad.mit.edu	37	7	98522829	98522829	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98522829C>T	uc003upp.2	+	22	3127	c.2918C>T	c.(2917-2919)GCC>GTC	p.A973V	TRRAP_uc011kis.1_Missense_Mutation_p.A973V|TRRAP_uc003upr.2_Missense_Mutation_p.A665V	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	973					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
TRRAP	8295	broad.mit.edu	37	7	98528370	98528370	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98528370C>T	uc003upp.2	+	25	3717	c.3508C>T	c.(3508-3510)CGG>TGG	p.R1170W	TRRAP_uc011kis.1_Missense_Mutation_p.R1170W|TRRAP_uc003upr.2_Missense_Mutation_p.R862W	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1170					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
TRRAP	8295	broad.mit.edu	37	7	98586514	98586514	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98586514C>T	uc003upp.2	+	62	9737	c.9528C>T	c.(9526-9528)GGC>GGT	p.G3176G	TRRAP_uc011kis.1_Silent_p.G3147G|TRRAP_uc003upr.2_Silent_p.G2864G	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3176	FAT.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)															---	---	---	---
SMURF1	57154	broad.mit.edu	37	7	98655043	98655043	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98655043C>T	uc003upu.1	-	4	655	c.335G>A	c.(334-336)GGA>GAA	p.G112E	SMURF1_uc003upv.1_Missense_Mutation_p.G112E|SMURF1_uc003upt.2_Missense_Mutation_p.G112E	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform	112					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)															---	---	---	---
ZSCAN21	7589	broad.mit.edu	37	7	99662020	99662020	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99662020C>T	uc003uso.2	+	4	1346	c.1202C>T	c.(1201-1203)GCG>GTG	p.A401V	ZSCAN21_uc003usn.1_Missense_Mutation_p.R366W|ZNF3_uc003usp.2_3'UTR	NM_145914	NP_666019	Q9Y5A6	ZSC21_HUMAN	zinc finger protein 38	401	C2H2-type 5.				positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3	Lung NSC(181;0.0211)|all_lung(186;0.0323)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)															---	---	---	---
STAG3	10734	broad.mit.edu	37	7	99808640	99808640	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99808640C>T	uc003utx.1	+	30	3400	c.3245C>T	c.(3244-3246)GCC>GTC	p.A1082V	STAG3_uc011kjk.1_Missense_Mutation_p.A1024V|GATS_uc003uty.3_Intron|GATS_uc003utz.3_Intron|GATS_uc003uua.3_Intron|GATS_uc010lgt.2_Intron|STAG3_uc003uub.1_Missense_Mutation_p.A306V	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	1082					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)																	---	---	---	---
SPDYE3	441272	broad.mit.edu	37	7	99913460	99913460	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99913460A>G	uc003uug.1	+	2	363	c.123A>G	c.(121-123)TCA>TCG	p.S41S		NM_001004351	NP_001004351	A6NKU9	SPDE3_HUMAN	speedy homolog E3	418											0																		---	---	---	---
GNB2	2783	broad.mit.edu	37	7	100275127	100275127	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100275127G>A	uc003uwb.2	+	6	547	c.274G>A	c.(274-276)GCC>ACC	p.A92T	GNB2_uc003uwc.2_Missense_Mutation_p.A48T|GNB2_uc010lhd.2_Missense_Mutation_p.A48T|GNB2_uc010lhe.2_Missense_Mutation_p.A48T|GNB2_uc003uwd.2_5'UTR|GNB2_uc010lhf.2_5'UTR|GNB2_uc003uwe.2_Missense_Mutation_p.A92T|GNB2_uc003uwf.2_5'UTR	NM_005273	NP_005264	P62879	GBB2_HUMAN	guanine nucleotide-binding protein, beta-2	92					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	perinuclear region of cytoplasm|plasma membrane	GTPase activity|GTPase binding|signal transducer activity			ovary(2)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)	Ovarian(593;0.238)																---	---	---	---
GNB2	2783	broad.mit.edu	37	7	100275393	100275393	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100275393G>A	uc003uwb.2	+	7	722	c.449G>A	c.(448-450)CGC>CAC	p.R150H	GNB2_uc003uwc.2_Missense_Mutation_p.R106H|GNB2_uc010lhd.2_Missense_Mutation_p.R106H|GNB2_uc010lhe.2_Missense_Mutation_p.R106H|GNB2_uc003uwd.2_Missense_Mutation_p.R50H|GNB2_uc010lhf.2_Missense_Mutation_p.R50H|GNB2_uc003uwe.2_Missense_Mutation_p.R150H|GNB2_uc003uwf.2_Missense_Mutation_p.R50H	NM_005273	NP_005264	P62879	GBB2_HUMAN	guanine nucleotide-binding protein, beta-2	150	WD 3.				cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	perinuclear region of cytoplasm|plasma membrane	GTPase activity|GTPase binding|signal transducer activity			ovary(2)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)	Ovarian(593;0.238)																---	---	---	---
ZAN	7455	broad.mit.edu	37	7	100352914	100352914	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100352914C>T	uc003uwj.2	+	15	3355	c.3190C>T	c.(3190-3192)CCT>TCT	p.P1064S	ZAN_uc003uwk.2_Missense_Mutation_p.P1064S|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1064	TIL 1.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)															---	---	---	---
ZAN	7455	broad.mit.edu	37	7	100389759	100389759	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100389759G>A	uc003uwj.2	+	42	7866	c.7701G>A	c.(7699-7701)GAG>GAA	p.E2567E	ZAN_uc003uwk.2_Silent_p.E2567E|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Missense_Mutation_p.S560N	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2567	Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)															---	---	---	---
EPHB4	2050	broad.mit.edu	37	7	100421410	100421410	+	Silent	SNP	C	T	T	rs150582750		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100421410C>T	uc003uwn.1	-	3	758	c.267G>A	c.(265-267)ACG>ACA	p.T89T	EPHB4_uc003uwm.1_5'UTR|EPHB4_uc010lhj.1_Silent_p.T89T|EPHB4_uc011kkf.1_Silent_p.T89T|EPHB4_uc011kkg.1_Silent_p.T89T|EPHB4_uc011kkh.1_Silent_p.T89T	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	89	Extracellular (Potential).				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)																	---	---	---	---
SLC12A9	56996	broad.mit.edu	37	7	100459098	100459098	+	Silent	SNP	C	T	T	rs113249714	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100459098C>T	uc003uwp.2	+	11	1570	c.1428C>T	c.(1426-1428)GGC>GGT	p.G476G	SLC12A9_uc003uwq.2_Silent_p.G387G|SLC12A9_uc011kki.1_Silent_p.G7G|SLC12A9_uc003uwr.2_Silent_p.G212G|SLC12A9_uc003uws.2_Silent_p.G7G|SLC12A9_uc003uwt.2_Silent_p.G212G|SLC12A9_uc003uwv.2_Silent_p.G7G	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	476	Helical; (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)																	---	---	---	---
SLC12A9	56996	broad.mit.edu	37	7	100460410	100460410	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100460410C>T	uc003uwp.2	+	13	1961	c.1819C>T	c.(1819-1821)CGC>TGC	p.R607C	SLC12A9_uc003uwq.2_Missense_Mutation_p.R518C|SLC12A9_uc011kki.1_Missense_Mutation_p.R138C|SLC12A9_uc003uwr.2_Missense_Mutation_p.R343C|SLC12A9_uc003uws.2_Missense_Mutation_p.R138C|SLC12A9_uc003uwt.2_Missense_Mutation_p.R343C|SLC12A9_uc003uwv.2_Missense_Mutation_p.R138C	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	607	Extracellular (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)																	---	---	---	---
SRRT	51593	broad.mit.edu	37	7	100485018	100485018	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100485018G>A	uc003uwy.2	+	17	2321	c.2053G>A	c.(2053-2055)GCC>ACC	p.A685T	SRRT_uc010lhl.1_Missense_Mutation_p.A684T|SRRT_uc003uxa.2_Missense_Mutation_p.A684T|SRRT_uc003uwz.2_Missense_Mutation_p.A685T	NM_015908	NP_056992	Q9BXP5	SRRT_HUMAN	arsenate resistance protein 2 isoform a	685					cell proliferation|primary miRNA processing|response to arsenic-containing substance	cytoplasm|nucleoplasm	protein binding			ovary(2)	2																		---	---	---	---
ACHE	43	broad.mit.edu	37	7	100491577	100491577	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100491577C>T	uc003uxd.2	-	1	433	c.277G>A	c.(277-279)GCT>ACT	p.A93T	ACHE_uc003uxe.2_Missense_Mutation_p.A93T|ACHE_uc003uxf.2_Missense_Mutation_p.A93T|ACHE_uc003uxg.2_Missense_Mutation_p.A93T|ACHE_uc003uxh.2_Missense_Mutation_p.A93T|ACHE_uc003uxi.2_Missense_Mutation_p.A93T|ACHE_uc003uxj.1_Missense_Mutation_p.A212T	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	93					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)													---	---	---	---
MUC17	140453	broad.mit.edu	37	7	100675395	100675395	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100675395C>T	uc003uxp.1	+	3	751	c.698C>T	c.(697-699)GCT>GTT	p.A233V	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	233	Extracellular (Potential).|1.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)																	---	---	---	---
MUC17	140453	broad.mit.edu	37	7	100676841	100676841	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100676841C>T	uc003uxp.1	+	3	2197	c.2144C>T	c.(2143-2145)ACC>ATC	p.T715I	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	715	Extracellular (Potential).|9.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)																	---	---	---	---
MUC17	140453	broad.mit.edu	37	7	100681920	100681920	+	Missense_Mutation	SNP	C	T	T	rs140211048	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100681920C>T	uc003uxp.1	+	3	7276	c.7223C>T	c.(7222-7224)CCG>CTG	p.P2408L	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2408	Extracellular (Potential).|59 X approximate tandem repeats.|38.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)																	---	---	---	---
MUC17	140453	broad.mit.edu	37	7	100695101	100695101	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100695101G>A	uc003uxp.1	+	9	13014	c.12961G>A	c.(12961-12963)GCC>ACC	p.A4321T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	4321	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)																	---	---	---	---
CUX1	1523	broad.mit.edu	37	7	101559425	101559425	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:101559425G>A	uc003uyx.3	+	2	99	c.61G>A	c.(61-63)GCG>ACG	p.A21T	CUX1_uc003uys.3_Missense_Mutation_p.A32T|CUX1_uc003uyt.2_Missense_Mutation_p.A32T|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Missense_Mutation_p.A32T|CUX1_uc003uyv.2_Missense_Mutation_p.A32T|CUX1_uc003uyu.2_Missense_Mutation_p.A32T	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	21	Potential.				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																		---	---	---	---
CUX1	1523	broad.mit.edu	37	7	101917564	101917564	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:101917564C>T	uc003uyt.2	+	16	1452	c.1433C>T	c.(1432-1434)GCC>GTC	p.A478V	CUX1_uc011kkn.1_Missense_Mutation_p.A439V|CUX1_uc003uyw.2_Missense_Mutation_p.A432V|CUX1_uc003uyv.2_Missense_Mutation_p.A462V|CUX1_uc003uyu.2_Missense_Mutation_p.A476V|CUX1_uc003uyz.2_RNA	NM_001913	NP_001904	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform b	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					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																		---	---	---	---
LRWD1	222229	broad.mit.edu	37	7	102106665	102106665	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102106665C>T	uc003uzn.2	+	3	518	c.380C>T	c.(379-381)GCG>GTG	p.A127V	ALKBH4_uc003uzl.2_5'Flank|ALKBH4_uc003uzm.2_5'Flank|LRWD1_uc003uzo.2_5'UTR	NM_152892	NP_690852	Q9UFC0	LRWD1_HUMAN	leucine-rich repeats and WD repeat domain	127					chromatin modification|DNA-dependent DNA replication initiation|establishment of protein localization to chromatin|G1 phase of mitotic cell cycle	centromeric heterochromatin|nuclear origin of replication recognition complex|telomeric heterochromatin	chromatin binding|methyl-CpG binding|methylated histone residue binding			skin(1)	1																		---	---	---	---
SLC26A5	375611	broad.mit.edu	37	7	103030938	103030938	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103030938C>A	uc003vbz.2	-	12	1485	c.1249G>T	c.(1249-1251)GCC>TCC	p.A417S	SLC26A5_uc003vbt.1_Missense_Mutation_p.A417S|SLC26A5_uc003vbu.1_Missense_Mutation_p.A417S|SLC26A5_uc003vbv.1_Intron|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Missense_Mutation_p.A417S|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_Intron	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	417	Helical; Name=10; (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1																		---	---	---	---
RELN	5649	broad.mit.edu	37	7	103629618	103629618	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103629618C>T	uc003vca.2	-	1	346	c.186G>A	c.(184-186)GCG>GCA	p.A62A	RELN_uc010liz.2_Silent_p.A62A	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	62	Reelin.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)														---	---	---	---
MLL5	55904	broad.mit.edu	37	7	104747108	104747108	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104747108G>A	uc003vcm.2	+	20	3270	c.2736G>A	c.(2734-2736)ACG>ACA	p.T912T	MLL5_uc010ljc.2_Silent_p.T912T|MLL5_uc010lje.1_Intron|MLL5_uc010ljf.1_5'Flank|MLL5_uc010ljg.2_5'Flank|MLL5_uc010ljh.1_5'Flank	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	912					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3																		---	---	---	---
MLL5	55904	broad.mit.edu	37	7	104753201	104753201	+	Silent	SNP	G	A	A	rs147477523		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104753201G>A	uc003vcm.2	+	27	5532	c.4998G>A	c.(4996-4998)TCG>TCA	p.S1666S	MLL5_uc010ljc.2_Silent_p.S1666S|MLL5_uc010ljf.1_Intron|MLL5_uc010ljg.2_Silent_p.S400S	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1666	Pro-rich.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3																		---	---	---	---
SRPK2	6733	broad.mit.edu	37	7	104783607	104783607	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104783607G>A	uc003vct.2	-	9	1138	c.951C>T	c.(949-951)GGC>GGT	p.G317G	SRPK2_uc003vcu.2_Silent_p.G317G|SRPK2_uc003vcv.2_Silent_p.G328G|SRPK2_uc003vcw.1_Silent_p.G317G	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	317	Protein kinase.				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.G317D(1)		central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6																		---	---	---	---
SRPK2	6733	broad.mit.edu	37	7	104807824	104807824	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104807824G>A	uc003vct.2	-	5	668	c.481C>T	c.(481-483)CAT>TAT	p.H161Y	SRPK2_uc003vcu.2_Missense_Mutation_p.H161Y|SRPK2_uc003vcv.2_Missense_Mutation_p.H172Y|SRPK2_uc003vcw.1_Missense_Mutation_p.H161Y	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	161	Protein kinase.				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6																		---	---	---	---
CDHR3	222256	broad.mit.edu	37	7	105662698	105662698	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:105662698G>A	uc003vdl.3	+	14	1988	c.1880G>A	c.(1879-1881)CGC>CAC	p.R627H	CDHR3_uc003vdk.2_Intron|CDHR3_uc003vdm.3_Missense_Mutation_p.R614H|CDHR3_uc011klt.1_Missense_Mutation_p.R539H|CDHR3_uc003vdn.2_Intron	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	627	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1																		---	---	---	---
HBP1	26959	broad.mit.edu	37	7	106827054	106827054	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106827054G>A	uc003vdy.2	+	6	879	c.693G>A	c.(691-693)TGG>TGA	p.W231*	HBP1_uc011klv.1_Nonsense_Mutation_p.W241*|HBP1_uc003vdz.2_Nonsense_Mutation_p.W231*|HBP1_uc003vea.2_Nonsense_Mutation_p.W231*|HBP1_uc003veb.1_Nonsense_Mutation_p.W231*	NM_012257	NP_036389	O60381	HBP1_HUMAN	HMG-box transcription factor 1	231	AXH.				cell cycle arrest|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	DNA binding			skin(1)	1																		---	---	---	---
GPR22	2845	broad.mit.edu	37	7	107115658	107115658	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107115658C>T	uc003vef.2	+	3	2499	c.1153C>T	c.(1153-1155)CGA>TGA	p.R385*	COG5_uc003vec.2_Intron|COG5_uc003ved.2_Intron|COG5_uc003vee.2_Intron	NM_005295	NP_005286	Q99680	GPR22_HUMAN	G protein-coupled receptor 22	385	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(2)	2																		---	---	---	---
SLC26A4	5172	broad.mit.edu	37	7	107323732	107323732	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107323732C>T	uc003vep.2	+	7	1075	c.851C>T	c.(850-852)GCA>GTA	p.A284V		NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	284	Helical; (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7														Pendred_syndrome				---	---	---	---
SLC26A4	5172	broad.mit.edu	37	7	107334884	107334884	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107334884G>A	uc003vep.2	+	11	1524	c.1300G>A	c.(1300-1302)GCC>ACC	p.A434T	SLC26A4_uc011kmb.1_Missense_Mutation_p.A21T|SLC26A4_uc011kmc.1_Intron|SLC26A4_uc011kmd.1_Missense_Mutation_p.A3T	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	434	Helical; (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7														Pendred_syndrome				---	---	---	---
LAMB1	3912	broad.mit.edu	37	7	107605020	107605020	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107605020C>A	uc003vew.2	-	14	2010	c.1675G>T	c.(1675-1677)GCG>TCG	p.A559S	LAMB1_uc003vev.2_Missense_Mutation_p.A583S|LAMB1_uc003vex.2_Missense_Mutation_p.A559S|LAMB1_uc010ljn.1_Missense_Mutation_p.A645S	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	559	Laminin IV type B.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
LAMB4	22798	broad.mit.edu	37	7	107671311	107671311	+	Silent	SNP	G	A	A	rs138458523		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107671311G>A	uc010ljo.1	-	32	5016	c.4932C>T	c.(4930-4932)CAC>CAT	p.H1644H	LAMB4_uc003vey.2_Silent_p.H1644H|LAMB4_uc010ljp.1_Silent_p.H613H	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	1644	Potential.|Domain I.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8																		---	---	---	---
DOCK4	9732	broad.mit.edu	37	7	111407090	111407090	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:111407090G>A	uc003vfx.2	-	37	4155	c.3886C>T	c.(3886-3888)CGG>TGG	p.R1296W	DOCK4_uc011kml.1_Missense_Mutation_p.R177W|DOCK4_uc011kmm.1_Missense_Mutation_p.R203W|DOCK4_uc003vfw.2_Missense_Mutation_p.R746W|DOCK4_uc003vfy.2_Missense_Mutation_p.R1341W	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1296	DHR-2.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)																---	---	---	---
DOCK4	9732	broad.mit.edu	37	7	111409619	111409619	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:111409619T>C	uc003vfx.2	-	36	4036	c.3767A>G	c.(3766-3768)CAC>CGC	p.H1256R	DOCK4_uc011kml.1_Missense_Mutation_p.H137R|DOCK4_uc011kmm.1_Missense_Mutation_p.H163R|DOCK4_uc003vfw.2_Missense_Mutation_p.H706R|DOCK4_uc003vfy.2_Missense_Mutation_p.H1301R	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1256	DHR-2.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)																---	---	---	---
DOCK4	9732	broad.mit.edu	37	7	111617195	111617195	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:111617195C>T	uc003vfx.2	-	8	962	c.693G>A	c.(691-693)CGG>CGA	p.R231R	DOCK4_uc003vfy.2_Silent_p.R231R|DOCK4_uc003vga.1_5'UTR|DOCK4_uc010ljt.1_Silent_p.R231R|DOCK4_uc003vgb.1_Silent_p.R155R	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	231					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)																---	---	---	---
DOCK4	9732	broad.mit.edu	37	7	111629103	111629103	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:111629103C>T	uc003vfx.2	-	6	700	c.431G>A	c.(430-432)CGC>CAC	p.R144H	DOCK4_uc003vfy.2_Missense_Mutation_p.R144H|DOCK4_uc003vga.1_5'UTR|DOCK4_uc010ljt.1_Missense_Mutation_p.R144H|DOCK4_uc003vgb.1_Missense_Mutation_p.R68H	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	144					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)																---	---	---	---
DOCK4	9732	broad.mit.edu	37	7	111629121	111629121	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:111629121C>T	uc003vfx.2	-	6	682	c.413G>A	c.(412-414)CGG>CAG	p.R138Q	DOCK4_uc003vfy.2_Missense_Mutation_p.R138Q|DOCK4_uc003vga.1_5'UTR|DOCK4_uc010ljt.1_Missense_Mutation_p.R138Q|DOCK4_uc003vgb.1_Missense_Mutation_p.R62Q	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	138					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)																---	---	---	---
TMEM168	64418	broad.mit.edu	37	7	112424684	112424684	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:112424684A>G	uc003vgn.2	-	2	589	c.197T>C	c.(196-198)GTA>GCA	p.V66A	TMEM168_uc010lju.2_Missense_Mutation_p.V66A|TMEM168_uc011kmr.1_Intron	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	66	Helical; (Potential).					integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2																		---	---	---	---
GPR85	54329	broad.mit.edu	37	7	112724294	112724294	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:112724294G>A	uc010ljv.2	-	2	1000	c.483C>T	c.(481-483)GGC>GGT	p.G161G	GPR85_uc003vgp.1_Silent_p.G161G|GPR85_uc003vgq.2_Silent_p.G161G|GPR85_uc010ljw.1_Silent_p.G161G	NM_001146266	NP_001139738	P60893	GPR85_HUMAN	G protein-coupled receptor 85	161	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
PPP1R3A	5506	broad.mit.edu	37	7	113558291	113558291	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113558291C>T	uc010ljy.1	-	1	792	c.761G>A	c.(760-762)GGC>GAC	p.G254D		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	254					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34																		---	---	---	---
PPP1R3A	5506	broad.mit.edu	37	7	113558550	113558550	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113558550T>A	uc010ljy.1	-	1	533	c.502A>T	c.(502-504)ACA>TCA	p.T168S		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	168	CBM21.				glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34																		---	---	---	---
MET	4233	broad.mit.edu	37	7	116340097	116340097	+	Missense_Mutation	SNP	C	T	T	rs35776110	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116340097C>T	uc003vij.2	+	2	1146	c.959C>T	c.(958-960)GCG>GTG	p.A320V	MET_uc010lkh.2_Missense_Mutation_p.A320V|MET_uc011knc.1_Missense_Mutation_p.A320V|MET_uc011knd.1_Missense_Mutation_p.A320V|MET_uc011kne.1_Missense_Mutation_p.A320V|MET_uc011knf.1_Missense_Mutation_p.A320V|MET_uc011kng.1_Missense_Mutation_p.A320V|MET_uc011knh.1_Missense_Mutation_p.A320V|MET_uc011kni.1_Missense_Mutation_p.A320V|MET_uc003vii.1_Missense_Mutation_p.A339V|MET_uc010lkg.2_Missense_Mutation_p.A320V|MET_uc011kmz.1_Missense_Mutation_p.A320V|MET_uc011kna.1_Missense_Mutation_p.A320V|MET_uc011knb.1_Missense_Mutation_p.A320V	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	320	Extracellular (Potential).|Sema.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)					Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				---	---	---	---
MET	4233	broad.mit.edu	37	7	116340317	116340317	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116340317T>A	uc003vij.2	+	2	1366	c.1179T>A	c.(1177-1179)AAT>AAA	p.N393K	MET_uc010lkh.2_Missense_Mutation_p.N393K|MET_uc011knc.1_Missense_Mutation_p.N393K|MET_uc011knd.1_Missense_Mutation_p.N393K|MET_uc011kne.1_Missense_Mutation_p.N393K|MET_uc011knf.1_Missense_Mutation_p.N393K|MET_uc011kng.1_Missense_Mutation_p.N393K|MET_uc011knh.1_Missense_Mutation_p.N393K|MET_uc011kni.1_Missense_Mutation_p.N393K|MET_uc003vii.1_Missense_Mutation_p.N412K|MET_uc010lkg.2_Missense_Mutation_p.N393K|MET_uc011kmz.1_Missense_Mutation_p.N393K|MET_uc011kna.1_Missense_Mutation_p.N393K|MET_uc011knb.1_Missense_Mutation_p.N393K	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	393	Extracellular (Potential).|Sema.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)					Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				---	---	---	---
MET	4233	broad.mit.edu	37	7	116417481	116417481	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116417481A>G	uc003vij.2	+	16	3485	c.3298A>G	c.(3298-3300)AAT>GAT	p.N1100D	MET_uc010lkh.2_Missense_Mutation_p.N1118D|MET_uc011knj.1_Missense_Mutation_p.N670D	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	1100	Protein kinase.|Cytoplasmic (Potential).				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding	p.N1118Y(1)|p.Q1029_G1105del(1)		upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)					Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				---	---	---	---
CTTNBP2	83992	broad.mit.edu	37	7	117501313	117501313	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117501313C>T	uc003vjf.2	-	2	231	c.139G>A	c.(139-141)GTG>ATG	p.V47M		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	47										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)														---	---	---	---
KCND2	3751	broad.mit.edu	37	7	119915461	119915461	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:119915461C>T	uc003vjj.1	+	1	1740	c.775C>T	c.(775-777)CGT>TGT	p.R259C		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	259	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)																	---	---	---	---
CADPS2	93664	broad.mit.edu	37	7	122261687	122261687	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:122261687C>T	uc010lkp.2	-	5	1115	c.952G>A	c.(952-954)GCC>ACC	p.A318T	CADPS2_uc003vkg.3_Missense_Mutation_p.A18T|CADPS2_uc010lkq.2_Missense_Mutation_p.A318T	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	318					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
IQUB	154865	broad.mit.edu	37	7	123109382	123109382	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:123109382C>T	uc003vkn.2	-	9	2044	c.1467G>A	c.(1465-1467)ACG>ACA	p.T489T	IQUB_uc003vko.2_Silent_p.T489T|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Silent_p.T489T	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	489										ovary(3)|large_intestine(1)	4																		---	---	---	---
SPAM1	6677	broad.mit.edu	37	7	123593822	123593822	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:123593822G>T	uc003vld.2	+	4	600	c.198G>T	c.(196-198)GAG>GAT	p.E66D	SPAM1_uc003vle.2_Missense_Mutation_p.E66D|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.E66D|SPAM1_uc010lku.2_Missense_Mutation_p.E66D	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	66					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)													---	---	---	---
POT1	25913	broad.mit.edu	37	7	124482994	124482994	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:124482994C>T	uc003vlm.2	-	13	1631	c.1030G>A	c.(1030-1032)GAG>AAG	p.E344K	POT1_uc011koe.1_RNA|POT1_uc003vlk.2_RNA|POT1_uc003vll.2_RNA|POT1_uc003vlo.2_Missense_Mutation_p.E213K|POT1_uc003vln.2_RNA	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	344					DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1																		---	---	---	---
GRM8	2918	broad.mit.edu	37	7	126173421	126173421	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:126173421C>T	uc003vlr.2	-	8	2326	c.2015G>A	c.(2014-2016)CGT>CAT	p.R672H	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.R672H|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	672	Cytoplasmic (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)										HNSCC(24;0.065)			---	---	---	---
MIR592	693177	broad.mit.edu	37	7	126698210	126698210	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:126698210G>A	hsa-mir-592|MI0003604	-			c.29G>A			GRM8_uc003vls.2_Intron|GRM8_uc003vlr.2_Intron|GRM8_uc011kof.1_Intron|GRM8_uc003vlt.2_Intron|GRM8_uc010lkz.1_Intron|GRM8_uc003vlu.1_Intron																	0																		---	---	---	---
GRM8	2918	broad.mit.edu	37	7	126883250	126883250	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:126883250G>A	uc003vlr.2	-	1	320	c.9C>T	c.(7-9)TGC>TGT	p.C3C	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.C3C|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	3					negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)										HNSCC(24;0.065)	OREG0003802	type=REGULATORY REGION|Gene=GRM8|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	---	---	---	---
GCC1	79571	broad.mit.edu	37	7	127222255	127222255	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127222255C>T	uc003vma.2	-	2	2559	c.2141G>A	c.(2140-2142)AGC>AAC	p.S714N		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	714	Potential.|GRIP.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2																		---	---	---	---
FSCN3	29999	broad.mit.edu	37	7	127240362	127240362	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127240362C>T	uc003vmd.1	+	6	1625	c.1406C>T	c.(1405-1407)GCC>GTC	p.A469V	FSCN3_uc011koh.1_Silent_p.G333G|FSCN3_uc010llc.1_Silent_p.G467G	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	469						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1																		---	---	---	---
LRRC4	64101	broad.mit.edu	37	7	127669682	127669682	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127669682G>A	uc003vmk.2	-	2	1149	c.1012C>T	c.(1012-1014)CGC>TGC	p.R338C	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	338	Extracellular (Potential).|LRRCT.					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)														---	---	---	---
LRRC4	64101	broad.mit.edu	37	7	127670230	127670230	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127670230C>T	uc003vmk.2	-	2	601	c.464G>A	c.(463-465)CGC>CAC	p.R155H	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	155	LRR 4.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)														---	---	---	---
RBM28	55131	broad.mit.edu	37	7	127964664	127964664	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127964664C>T	uc003vmp.2	-	12	1402	c.1287G>A	c.(1285-1287)ACG>ACA	p.T429T	RBM28_uc003vmo.2_Silent_p.T46T|RBM28_uc011koj.1_Silent_p.T288T|RBM28_uc011kok.1_Silent_p.T376T	NM_018077	NP_060547	Q9NW13	RBM28_HUMAN	RNA binding motif protein 28	429					mRNA processing|RNA splicing	Golgi apparatus|nucleolus|spliceosomal complex	nucleotide binding|RNA binding			ovary(2)	2																		---	---	---	---
FLNC	2318	broad.mit.edu	37	7	128482937	128482937	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128482937G>A	uc003vnz.3	+	16	2688	c.2479G>A	c.(2479-2481)GAC>AAC	p.D827N	FLNC_uc003voa.3_Missense_Mutation_p.D827N	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	827	Filamin 6.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12																		---	---	---	---
FAM40B	57464	broad.mit.edu	37	7	129122851	129122851	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129122851C>T	uc011koy.1	+	20	2258	c.2218C>T	c.(2218-2220)CGT>TGT	p.R740C	FAM40B_uc003vow.2_Missense_Mutation_p.R740C|FAM40B_uc011koz.1_Missense_Mutation_p.R232C	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	740											0																		---	---	---	---
CPA4	51200	broad.mit.edu	37	7	129962518	129962518	+	3'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129962518C>T	uc003vpr.2	+	11					CPA4_uc011kpd.1_3'UTR|CPA4_uc011kpe.1_3'UTR	NM_016352	NP_057436			carboxypeptidase A4 preproprotein						histone acetylation|proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)																	---	---	---	---
CPA1	1357	broad.mit.edu	37	7	130027747	130027747	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130027747G>A	uc003vpx.2	+	10	1227	c.1155G>A	c.(1153-1155)GGG>GGA	p.G385G		NM_001868	NP_001859	P15085	CBPA1_HUMAN	carboxypeptidase A1 precursor	385					proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)																	---	---	---	---
MEST	4232	broad.mit.edu	37	7	130138010	130138010	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130138010G>A	uc003vqg.2	+	5	587	c.370G>A	c.(370-372)GCC>ACC	p.A124T	MEST_uc003vqc.2_Missense_Mutation_p.A115T|MEST_uc003vqd.2_Missense_Mutation_p.A115T|MEST_uc003vqf.2_Missense_Mutation_p.A115T|MEST_uc011kph.1_Missense_Mutation_p.A110T|MEST_uc010lmg.2_Missense_Mutation_p.A124T	NM_002402	NP_002393	Q5EB52	MEST_HUMAN	mesoderm specific transcript isoform a	124					mesoderm development	endoplasmic reticulum membrane|integral to membrane	hydrolase activity|protein binding			ovary(2)	2	Melanoma(18;0.0435)																	---	---	---	---
PLXNA4	91584	broad.mit.edu	37	7	131829950	131829950	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:131829950T>A	uc003vra.3	-	29	5382	c.5153A>T	c.(5152-5154)GAC>GTC	p.D1718V	PLXNA4_uc003vqz.3_Missense_Mutation_p.D3V	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1718	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1																		---	---	---	---
PLXNA4	91584	broad.mit.edu	37	7	132174113	132174113	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132174113C>T	uc003vra.3	-	3	1538	c.1309G>A	c.(1309-1311)GCA>ACA	p.A437T	PLXNA4_uc003vrc.2_Missense_Mutation_p.A437T|PLXNA4_uc003vrb.2_Missense_Mutation_p.A437T	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	437	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1																		---	---	---	---
PLXNA4	91584	broad.mit.edu	37	7	132192896	132192896	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132192896G>A	uc003vra.3	-	2	786	c.557C>T	c.(556-558)GCC>GTC	p.A186V	PLXNA4_uc003vrc.2_Missense_Mutation_p.A186V|PLXNA4_uc003vrb.2_Missense_Mutation_p.A186V	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	186	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1																		---	---	---	---
CALD1	800	broad.mit.edu	37	7	134632408	134632408	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134632408C>T	uc003vrz.2	+	8	2141	c.1682C>T	c.(1681-1683)GCG>GTG	p.A561V	CALD1_uc003vry.2_Missense_Mutation_p.A306V|CALD1_uc003vsa.2_Missense_Mutation_p.A332V|CALD1_uc003vsb.2_Missense_Mutation_p.A306V|CALD1_uc010lmm.2_Missense_Mutation_p.A332V|CALD1_uc011kpt.1_Missense_Mutation_p.A80V|CALD1_uc003vsc.2_Missense_Mutation_p.A326V|CALD1_uc003vsd.2_Missense_Mutation_p.A300V|CALD1_uc011kpu.1_Missense_Mutation_p.A311V|CALD1_uc011kpv.1_Missense_Mutation_p.A170V|CALD1_uc003vse.2_Missense_Mutation_p.A425V	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	561					cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0																		---	---	---	---
NUP205	23165	broad.mit.edu	37	7	135303205	135303205	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:135303205C>T	uc003vsw.2	+	28	3848	c.3817C>T	c.(3817-3819)CTG>TTG	p.L1273L	NUP205_uc003vsx.2_5'Flank	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1273					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6																		---	---	---	---
NUP205	23165	broad.mit.edu	37	7	135304191	135304191	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:135304191G>A	uc003vsw.2	+	29	4015	c.3984G>A	c.(3982-3984)GCG>GCA	p.A1328A	NUP205_uc003vsx.2_5'Flank	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1328					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6																		---	---	---	---
SLC13A4	26266	broad.mit.edu	37	7	135390380	135390380	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:135390380C>T	uc003vta.2	-	5	1246	c.557G>A	c.(556-558)AGC>AAC	p.S186N	SLC13A4_uc003vtb.2_Missense_Mutation_p.S186N	NM_012450	NP_036582	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate	186						integral to plasma membrane	sodium:sulfate symporter activity				0																		---	---	---	---
PTN	5764	broad.mit.edu	37	7	136936003	136936003	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:136936003C>T	uc003vtq.2	-	4	788	c.425G>A	c.(424-426)GGC>GAC	p.G142D	PTN_uc010lmx.2_Missense_Mutation_p.G142D|PTN_uc003vtr.1_Missense_Mutation_p.G142D	NM_002825	NP_002816	P21246	PTN_HUMAN	pleiotrophin	142					nervous system development|positive regulation of cell division|positive regulation of cell proliferation|transmembrane receptor protein tyrosine phosphatase signaling pathway	endoplasmic reticulum|extracellular space	growth factor activity|heparin binding|protein phosphatase inhibitor activity			upper_aerodigestive_tract(1)|pancreas(1)	2																		---	---	---	---
TMEM213	155006	broad.mit.edu	37	7	138487646	138487646	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138487646C>T	uc010lna.2	+	3	267	c.156C>T	c.(154-156)AAC>AAT	p.N52N	TMEM213_uc010lnb.2_Silent_p.N51N	NM_001085429	NP_001078898	A2RRL7	TM213_HUMAN	transmembrane protein 213	52	Extracellular (Potential).					integral to membrane					0																		---	---	---	---
KIAA1549	57670	broad.mit.edu	37	7	138593813	138593813	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138593813C>T	uc011kql.1	-	5	3249	c.3200G>A	c.(3199-3201)CGC>CAC	p.R1067H	KIAA1549_uc003vuk.3_Missense_Mutation_p.R1017H|KIAA1549_uc011kqj.1_Missense_Mutation_p.R1067H	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1067						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230								O	BRAF	pilocytic astrocytoma								---	---	---	---
KIAA1549	57670	broad.mit.edu	37	7	138604036	138604036	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138604036C>T	uc011kql.1	-	2	385	c.336G>A	c.(334-336)CCG>CCA	p.P112P	KIAA1549_uc003vuk.3_Silent_p.P62P|KIAA1549_uc011kqj.1_Silent_p.P112P	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	112						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230								O	BRAF	pilocytic astrocytoma								---	---	---	---
UBN2	254048	broad.mit.edu	37	7	138978728	138978728	+	Splice_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138978728G>A	uc011kqr.1	+	17	3994	c.3994_splice	c.e17+1	p.D1332_splice		NM_173569	NP_775840			ubinuclein 2											ovary(1)|skin(1)	2																		---	---	---	---
TAS2R3	50831	broad.mit.edu	37	7	141464395	141464395	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141464395C>A	uc003vwp.1	+	1	499	c.437C>A	c.(436-438)GCA>GAA	p.A146E		NM_016943	NP_058639	Q9NYW6	TA2R3_HUMAN	taste receptor T2R3	146	Helical; Name=4; (Potential).				sensory perception of taste		taste receptor activity			central_nervous_system(1)	1	Melanoma(164;0.0171)																	---	---	---	---
MGAM	8972	broad.mit.edu	37	7	141796213	141796213	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141796213C>T	uc003vwy.2	+	42	5056	c.5002C>T	c.(5002-5004)CGT>TGT	p.R1668C		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1668	Glucoamylase.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)													---	---	---	---
MGAM	8972	broad.mit.edu	37	7	141797431	141797431	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141797431C>T	uc003vwy.2	+	43	5097	c.5043C>T	c.(5041-5043)CGC>CGT	p.R1681R		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1681	Glucoamylase.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)													---	---	---	---
TRPV5	56302	broad.mit.edu	37	7	142609695	142609695	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142609695T>G	uc003wby.1	-	13	2005	c.1741A>C	c.(1741-1743)ACC>CCC	p.T581P		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	581	Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)																	---	---	---	---
GSTK1	373156	broad.mit.edu	37	7	142962190	142962190	+	Intron	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142962190G>C	uc003wci.2	+						GSTK1_uc011ksy.1_Intron|GSTK1_uc003wcj.2_Missense_Mutation_p.S130T|GSTK1_uc011ksz.1_Intron	NM_015917	NP_057001			glutathione S-transferase kappa 1 isoform a							outer membrane-bounded periplasmic space|peroxisome	glutathione transferase activity|identical protein binding|protein disulfide oxidoreductase activity				0	Melanoma(164;0.059)				Glutathione(DB00143)													---	---	---	---
ZYX	7791	broad.mit.edu	37	7	143087068	143087068	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143087068G>A	uc003wcw.2	+	9	1767	c.1612G>A	c.(1612-1614)GAG>AAG	p.E538K	ZYX_uc011ktd.1_Missense_Mutation_p.E381K|ZYX_uc003wcx.2_Missense_Mutation_p.E538K|ZYX_uc011kte.1_Missense_Mutation_p.E507K|ZYX_uc011ktf.1_Missense_Mutation_p.E381K	NM_001010972	NP_001010972	Q15942	ZYX_HUMAN	zyxin	538	LIM zinc-binding 3.				cell adhesion|cell-cell signaling|interspecies interaction between organisms|signal transduction	cell-cell adherens junction|cytoplasm|focal adhesion|integral to plasma membrane|nucleus|stress fiber	protein binding|zinc ion binding				0	Melanoma(164;0.205)																	---	---	---	---
FAM115A	9747	broad.mit.edu	37	7	143573264	143573264	+	Silent	SNP	G	A	A	rs150457102	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143573264G>A	uc003wdo.1	-	2	571	c.438C>T	c.(436-438)GGC>GGT	p.G146G	FAM115A_uc011ktu.1_Intron|FAM115A_uc003wdp.1_Silent_p.G146G	NM_014719	NP_055534	Q9Y4C2	F115A_HUMAN	hypothetical protein LOC9747	146											0	Melanoma(164;0.0903)																	---	---	---	---
OR2F2	135948	broad.mit.edu	37	7	143632824	143632824	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143632824C>A	uc011ktv.1	+	1	499	c.499C>A	c.(499-501)CCC>ACC	p.P167T		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)																	---	---	---	---
OR2F1	26211	broad.mit.edu	37	7	143657808	143657808	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143657808G>A	uc003wds.1	+	1	789	c.745G>A	c.(745-747)GCC>ACC	p.A249T		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)																	---	---	---	---
OR2A5	393046	broad.mit.edu	37	7	143747493	143747493	+	5'Flank	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143747493G>A	uc011ktw.1	+							NM_012365	NP_036497			olfactory receptor, family 2, subfamily A,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)																	---	---	---	---
CNTNAP2	26047	broad.mit.edu	37	7	147336252	147336252	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:147336252T>C	uc003weu.1	+	13	2468	c.1952T>C	c.(1951-1953)GTC>GCC	p.V651A		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	651	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)												HNSCC(39;0.1)			---	---	---	---
CUL1	8454	broad.mit.edu	37	7	148456729	148456729	+	Silent	SNP	C	T	T	rs144866150	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:148456729C>T	uc010lpg.2	+	6	1150	c.624C>T	c.(622-624)TAC>TAT	p.Y208Y	CUL1_uc003wey.2_Silent_p.Y208Y|CUL1_uc003wez.2_Silent_p.Y98Y	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	208					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)															---	---	---	---
CUL1	8454	broad.mit.edu	37	7	148485686	148485686	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:148485686G>A	uc010lpg.2	+	14	2043	c.1517G>A	c.(1516-1518)CGC>CAC	p.R506H	CUL1_uc003wey.2_Missense_Mutation_p.R506H|CUL1_uc003wez.2_Missense_Mutation_p.R396H|CUL1_uc003wfa.2_Missense_Mutation_p.R167H	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	506					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)															---	---	---	---
CUL1	8454	broad.mit.edu	37	7	148496426	148496426	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:148496426C>T	uc010lpg.2	+	21	2722	c.2196C>T	c.(2194-2196)GGC>GGT	p.G732G	CUL1_uc003wey.2_Silent_p.G732G|CUL1_uc003wez.2_Silent_p.G622G|CUL1_uc003wfa.2_Silent_p.G393G	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	732					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)															---	---	---	---
EZH2	2146	broad.mit.edu	37	7	148544339	148544339	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:148544339G>A	uc003wfd.1	-	2	218	c.52C>T	c.(52-54)CGT>TGT	p.R18C	EZH2_uc011kug.1_Missense_Mutation_p.R18C|EZH2_uc003wfb.1_Missense_Mutation_p.R18C|EZH2_uc003wfc.1_Missense_Mutation_p.R18C|EZH2_uc011kuh.1_Missense_Mutation_p.R18C|EZH2_uc011kui.1_Missense_Mutation_p.R18C|EZH2_uc011kuj.1_RNA	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	18	Interaction with DNMT1, DNMT3A and DNMT3B.				negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding			haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)					Mis		DLBCL								---	---	---	---
Unknown	0	broad.mit.edu	37	7	148979250	148979250	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:148979250G>A	uc003wfr.3	+						uc011kuo.1_5'Flank					Homo sapiens cDNA FLJ36716 fis, clone UTERU2010651.																														---	---	---	---
ZNF767	79970	broad.mit.edu	37	7	149317123	149317123	+	RNA	SNP	C	T	T	rs148282289		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:149317123C>T	uc003wfy.3	-	4		c.682G>A			ZNF767_uc003wfx.2_RNA|ZNF767_uc011kuq.1_RNA	NR_027789				Homo sapiens cDNA FLJ12700 fis, clone NT2RP1000721.											central_nervous_system(1)	1	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00434)															---	---	---	---
C7orf29	113763	broad.mit.edu	37	7	150027622	150027622	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150027622C>T	uc003wgy.2	+	1	685	c.129C>T	c.(127-129)GGC>GGT	p.G43G	LRRC61_uc003wgv.2_Intron|LRRC61_uc003wgx.2_Intron|LRRC61_uc003wgw.2_Intron	NM_138434	NP_612443	Q96FA7	CG029_HUMAN	hypothetical protein LOC113763	43										ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.011)															---	---	---	---
REPIN1	29803	broad.mit.edu	37	7	150069158	150069158	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150069158G>T	uc010lpq.1	+	4	1317	c.828G>T	c.(826-828)AAG>AAT	p.K276N	REPIN1_uc003whd.2_Missense_Mutation_p.K265N|REPIN1_uc010lpr.1_Missense_Mutation_p.K333N|REPIN1_uc003whc.2_Missense_Mutation_p.K276N|REPIN1_uc003whe.2_Missense_Mutation_p.K276N	NM_013400	NP_037532	Q9BWE0	REPI1_HUMAN	replication initiator 1 isoform 1	276	C2H2-type 7.				DNA replication	nuclear origin of replication recognition complex	DNA binding|zinc ion binding			pancreas(1)	1	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.011)															---	---	---	---
AGAP3	116988	broad.mit.edu	37	7	150815376	150815376	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150815376C>T	uc003wjg.1	+	6	789	c.786C>T	c.(784-786)ACC>ACT	p.T262T	AGAP3_uc003wje.1_Silent_p.T34T|AGAP3_uc003wjf.1_Silent_p.T262T|AGAP3_uc010lpy.1_Silent_p.T262T|AGAP3_uc003wjh.1_Silent_p.T442T	NM_031946	NP_114152	Q96P47	AGAP3_HUMAN	centaurin, gamma 3 isoform a	226	Small GTPase-like.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm|membrane	ARF GTPase activator activity|GTP binding|GTPase activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3																		---	---	---	---
ABCF2	10061	broad.mit.edu	37	7	150912693	150912693	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150912693T>A	uc003wjp.2	-	13	1638	c.1527A>T	c.(1525-1527)CAA>CAT	p.Q509H	ABCF2_uc003wjo.1_Missense_Mutation_p.Q509H	NM_007189	NP_009120	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F, member 2	509	ABC transporter 2.					ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)														---	---	---	---
CHPF2	54480	broad.mit.edu	37	7	150932242	150932242	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150932242G>A	uc003wjr.1	+	2	1885	c.372G>A	c.(370-372)GTG>GTA	p.V124V	CHPF2_uc003wjq.1_Silent_p.V116V	NM_019015	NP_061888	Q9P2E5	CHPF2_HUMAN	chondroitin polymerizing factor 2	124	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(1)	1																		---	---	---	---
SMARCD3	6604	broad.mit.edu	37	7	150937502	150937502	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150937502C>T	uc003wjs.2	-						SMARCD3_uc003wjt.2_Intron|SMARCD3_uc003wju.2_Intron	NM_001003801	NP_001003801			SWI/SNF related, matrix associated, actin						cellular lipid metabolic process|chromatin modification|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	nuclear hormone receptor binding|protein binding|transcription coactivator activity|transcription factor binding			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)														---	---	---	---
MLL3	58508	broad.mit.edu	37	7	151836295	151836295	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151836295G>A	uc003wla.2	-	57	14729	c.14510C>T	c.(14509-14511)GCG>GTG	p.A4837V	MLL3_uc003wkz.2_Missense_Mutation_p.A3951V|MLL3_uc003wkx.2_Missense_Mutation_p.A995V|MLL3_uc003wky.2_Missense_Mutation_p.A2397V	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4837	SET.				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								---	---	---	---
MLL3	58508	broad.mit.edu	37	7	151836322	151836322	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151836322C>T	uc003wla.2	-	57	14702	c.14483G>A	c.(14482-14484)CGC>CAC	p.R4828H	MLL3_uc003wkz.2_Missense_Mutation_p.R3942H|MLL3_uc003wkx.2_Missense_Mutation_p.R986H|MLL3_uc003wky.2_Missense_Mutation_p.R2388H	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4828	SET.				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								---	---	---	---
MLL3	58508	broad.mit.edu	37	7	151845551	151845551	+	Silent	SNP	G	A	A	rs138230031		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151845551G>A	uc003wla.2	-	52	13680	c.13461C>T	c.(13459-13461)TGC>TGT	p.C4487C	MLL3_uc003wkz.2_Silent_p.C3605C|MLL3_uc003wkx.2_Silent_p.C645C|MLL3_uc003wky.2_Silent_p.C2051C	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4487					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								---	---	---	---
MLL3	58508	broad.mit.edu	37	7	151873336	151873336	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151873336G>A	uc003wla.2	-	38	9421	c.9202C>T	c.(9202-9204)CAG>TAG	p.Q3068*	MLL3_uc003wkz.2_Nonsense_Mutation_p.Q2129*|MLL3_uc003wky.2_Nonsense_Mutation_p.Q577*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3068	Potential.|Gln-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)				N		medulloblastoma								---	---	---	---
MLL3	58508	broad.mit.edu	37	7	151878430	151878430	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151878430T>C	uc003wla.2	-	36	6734	c.6515A>G	c.(6514-6516)GAC>GGC	p.D2172G	MLL3_uc003wkz.2_Missense_Mutation_p.D1233G	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2172	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)				N		medulloblastoma								---	---	---	---
MLL3	58508	broad.mit.edu	37	7	151878749	151878749	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151878749G>A	uc003wla.2	-	36	6415	c.6196C>T	c.(6196-6198)CGA>TGA	p.R2066*	MLL3_uc003wkz.2_Nonsense_Mutation_p.R1127*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2066	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)				N		medulloblastoma								---	---	---	---
MLL3	58508	broad.mit.edu	37	7	151962157	151962157	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151962157G>A	uc003wla.2	-	8	1369	c.1150C>T	c.(1150-1152)CAA>TAA	p.Q384*		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	384	PHD-type 1.|RING-type.				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								---	---	---	---
DPP6	1804	broad.mit.edu	37	7	154561150	154561150	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:154561150G>A	uc003wlk.2	+	9	1036	c.907G>A	c.(907-909)GCA>ACA	p.A303T	DPP6_uc003wli.2_Missense_Mutation_p.A239T|DPP6_uc003wlm.2_Missense_Mutation_p.A241T|DPP6_uc011kvq.1_Missense_Mutation_p.A196T	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	303	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)															---	---	---	---
DPP6	1804	broad.mit.edu	37	7	154684518	154684518	+	3'UTR	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:154684518A>G	uc003wlk.2	+	26					DPP6_uc003wli.2_3'UTR|DPP6_uc003wlm.2_3'UTR|DPP6_uc011kvq.1_3'UTR	NM_130797	NP_570629			dipeptidyl-peptidase 6 isoform 1						cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)															---	---	---	---
PTPRN2	5799	broad.mit.edu	37	7	157369425	157369425	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:157369425C>T	uc003wno.2	-	19	2784	c.2663G>A	c.(2662-2664)AGG>AAG	p.R888K	PTPRN2_uc003wnp.2_Missense_Mutation_p.R871K|PTPRN2_uc003wnq.2_Missense_Mutation_p.R859K|PTPRN2_uc003wnr.2_Missense_Mutation_p.R850K|PTPRN2_uc011kwa.1_Missense_Mutation_p.R911K|uc011kwb.1_5'Flank|MIR153-2_hsa-mir-153-2|MI0000464_5'Flank	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	888	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)														---	---	---	---
MIR595	693180	broad.mit.edu	37	7	158325474	158325474	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158325474C>T	hsa-mir-595|MI0003607	-			c.32C>T			PTPRN2_uc003wno.2_Intron|PTPRN2_uc003wnp.2_Intron|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Intron|PTPRN2_uc011kwa.1_Intron																	0																		---	---	---	---
PTPRN2	5799	broad.mit.edu	37	7	158334185	158334185	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158334185A>G	uc003wno.2	-						PTPRN2_uc003wnp.2_Intron|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Intron|uc003wnu.1_RNA|PTPRN2_uc011kwa.1_Silent_p.G38G	NM_002847	NP_002838			protein tyrosine phosphatase, receptor type, N							integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)														---	---	---	---
VIPR2	7434	broad.mit.edu	37	7	158896439	158896439	+	Intron	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158896439G>T	uc003woh.2	-						VIPR2_uc010lqx.2_Intron|VIPR2_uc010lqy.2_Intron	NM_003382	NP_003373			vasoactive intestinal peptide receptor 2						cell-cell signaling	integral to plasma membrane				lung(1)|central_nervous_system(1)	2	Ovarian(565;0.152)	all_cancers(7;1.13e-11)|all_epithelial(9;0.000545)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00231)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)|STAD - Stomach adenocarcinoma(7;0.18)														---	---	---	---
FBXO25	26260	broad.mit.edu	37	8	401417	401417	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:401417C>T	uc003wox.2	+	7	890	c.624C>T	c.(622-624)GCC>GCT	p.A208A	FBXO25_uc003woy.2_Silent_p.A208A|FBXO25_uc003woz.2_Silent_p.A141A|FBXO25_uc003wpa.2_5'UTR	NM_183421	NP_904357	Q8TCJ0	FBX25_HUMAN	F-box only protein 25 isoform 1	208						nucleus|SCF ubiquitin ligase complex	actin binding|ubiquitin-protein ligase activity			lung(1)	1		Ovarian(12;0.00965)|Colorectal(14;0.0815)|Myeloproliferative disorder(644;0.116)|all_neural(12;0.122)		Epithelial(5;3.14e-14)|OV - Ovarian serous cystadenocarcinoma(5;1.56e-07)|BRCA - Breast invasive adenocarcinoma(11;1.88e-06)														---	---	---	---
DLGAP2	9228	broad.mit.edu	37	8	1497706	1497706	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1497706G>A	uc003wpl.2	+	2	944	c.847G>A	c.(847-849)GCC>ACC	p.A283T	DLGAP2_uc003wpm.2_Missense_Mutation_p.A283T	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	362					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)														---	---	---	---
DLGAP2	9228	broad.mit.edu	37	8	1649446	1649446	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1649446A>G	uc003wpl.2	+	12	2899	c.2802A>G	c.(2800-2802)AGA>AGG	p.R934R	DLGAP2_uc003wpm.2_Silent_p.R920R	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	1013					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)														---	---	---	---
ARHGEF10	9639	broad.mit.edu	37	8	1814720	1814720	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1814720G>A	uc003wpr.2	+	6	752	c.574G>A	c.(574-576)GCA>ACA	p.A192T	ARHGEF10_uc003wpq.1_Missense_Mutation_p.A217T|ARHGEF10_uc003wps.2_Missense_Mutation_p.A193T|ARHGEF10_uc003wpt.2_Missense_Mutation_p.A107T|ARHGEF10_uc010lrd.1_Missense_Mutation_p.A107T|ARHGEF10_uc003wpu.2_Missense_Mutation_p.A106T	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	217					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)														---	---	---	---
ARHGEF10	9639	broad.mit.edu	37	8	1817418	1817418	+	Splice_Site	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1817418T>C	uc003wpr.2	+	7	857	c.679_splice	c.e7+2	p.D227_splice	ARHGEF10_uc003wpq.1_Splice_Site_p.D252_splice|ARHGEF10_uc003wps.2_Splice_Site_p.D228_splice|ARHGEF10_uc003wpt.2_Splice_Site_p.D142_splice|ARHGEF10_uc010lrd.1_Silent_p.G142G|ARHGEF10_uc003wpu.2_Silent_p.G141G	NM_014629	NP_055444			Rho guanine nucleotide exchange factor 10						centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)														---	---	---	---
CSMD1	64478	broad.mit.edu	37	8	3205517	3205517	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:3205517T>C	uc011kwk.1	-	22	3864	c.3474A>G	c.(3472-3474)CTA>CTG	p.L1158L	CSMD1_uc011kwj.1_Silent_p.L550L|CSMD1_uc003wqe.2_Silent_p.L314L	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1158	Extracellular (Potential).|CUB 7.					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)														---	---	---	---
ANGPT2	285	broad.mit.edu	37	8	6360702	6360702	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:6360702C>T	uc003wqj.3	-	9	1740	c.1411G>A	c.(1411-1413)GGC>AGC	p.G471S	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.G470S|ANGPT2_uc010lri.2_Missense_Mutation_p.G419S	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	471	Fibrinogen C-terminal.				angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)														---	---	---	---
ANGPT2	285	broad.mit.edu	37	8	6371295	6371295	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:6371295C>T	uc003wqj.3	-	7	1432	c.1103G>A	c.(1102-1104)CGC>CAC	p.R368H	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.R367H|ANGPT2_uc010lri.2_Missense_Mutation_p.R316H|ANGPT2_uc003wql.3_Missense_Mutation_p.R367H	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	368	Fibrinogen C-terminal.				angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)														---	---	---	---
ANGPT2	285	broad.mit.edu	37	8	6420295	6420295	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:6420295C>T	uc003wqj.3	-	1	490	c.161G>A	c.(160-162)CGC>CAC	p.R54H	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.R54H|ANGPT2_uc010lri.2_Missense_Mutation_p.R54H|ANGPT2_uc003wql.3_Missense_Mutation_p.R54H	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	54					angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)														---	---	---	---
AGPAT5	55326	broad.mit.edu	37	8	6614919	6614919	+	3'UTR	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:6614919T>C	uc003wqo.2	+	8					AGPAT5_uc011kwm.1_3'UTR	NM_018361	NP_060831			1-acylglycerol-3-phosphate O-acyltransferase 5						phospholipid biosynthetic process	integral to membrane|mitochondrion	1-acylglycerol-3-phosphate O-acyltransferase activity				0			STAD - Stomach adenocarcinoma(24;0.0578)	READ - Rectum adenocarcinoma(644;0.156)|COAD - Colon adenocarcinoma(149;0.191)														---	---	---	---
ERI1	90459	broad.mit.edu	37	8	8869247	8869247	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:8869247G>A	uc011kwu.1	+	3	743	c.483G>A	c.(481-483)ACG>ACA	p.T161T	ERI1_uc003wsk.2_Silent_p.T161T	NM_153332	NP_699163	Q8IV48	ERI1_HUMAN	three prime histone mRNA exonuclease 1	161	Exonuclease.				gene silencing by RNA|rRNA 3'-end processing	cytoplasm|histone pre-mRNA 3'end processing complex|nucleolus	3'-5' exonuclease activity|histone pre-mRNA stem-loop binding|metal ion binding|ribosome binding|rRNA binding				0					Adenosine monophosphate(DB00131)													---	---	---	---
TNKS	8658	broad.mit.edu	37	8	9567472	9567472	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:9567472C>T	uc003wss.2	+	10	1591	c.1586C>T	c.(1585-1587)GCT>GTT	p.A529V	TNKS_uc011kwv.1_Missense_Mutation_p.A529V|TNKS_uc011kww.1_Missense_Mutation_p.A292V	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	529	ANK 7.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)														---	---	---	---
TNKS	8658	broad.mit.edu	37	8	9605598	9605598	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:9605598C>T	uc003wss.2	+	18	2713	c.2708C>T	c.(2707-2709)GCG>GTG	p.A903V	TNKS_uc011kww.1_Missense_Mutation_p.A666V|TNKS_uc010lrt.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	903	ANK 15.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)														---	---	---	---
TNKS	8658	broad.mit.edu	37	8	9605648	9605648	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:9605648G>A	uc003wss.2	+	18	2763	c.2758G>A	c.(2758-2760)GCC>ACC	p.A920T	TNKS_uc011kww.1_Missense_Mutation_p.A683T|TNKS_uc010lrt.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	920	ANK 15.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding	p.A920T(1)		lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)														---	---	---	---
RP1L1	94137	broad.mit.edu	37	8	10464545	10464545	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10464545C>T	uc003wtc.2	-	4	7292	c.7063G>A	c.(7063-7065)GCC>ACC	p.A2355T		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	2355					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)														---	---	---	---
RP1L1	94137	broad.mit.edu	37	8	10480258	10480258	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10480258G>A	uc003wtc.2	-	2	683	c.454C>T	c.(454-456)CGG>TGG	p.R152W		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	152					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)														---	---	---	---
RP1L1	94137	broad.mit.edu	37	8	10480525	10480525	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10480525C>T	uc003wtc.2	-	2	416	c.187G>A	c.(187-189)GCC>ACC	p.A63T		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	63					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)														---	---	---	---
XKR6	286046	broad.mit.edu	37	8	10755900	10755900	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10755900G>A	uc003wtk.1	-	3	1515	c.1488C>T	c.(1486-1488)GGC>GGT	p.G496G		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	496						integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)														---	---	---	---
MTMR9	66036	broad.mit.edu	37	8	11180276	11180276	+	Silent	SNP	C	T	T	rs148685240		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11180276C>T	uc003wtm.2	+	10	2027	c.1629C>T	c.(1627-1629)GAC>GAT	p.D543D	MTMR9_uc010lrx.2_Silent_p.D436D|MTMR9_uc011kxa.1_Silent_p.D458D|uc003wtn.1_5'Flank|uc003wto.1_Intron	NM_015458	NP_056273	Q96QG7	MTMR9_HUMAN	myotubularin related protein 9	543						cytoplasm	phosphatase activity|protein binding				0			STAD - Stomach adenocarcinoma(15;0.215)	COAD - Colon adenocarcinoma(149;0.0678)														---	---	---	---
AMAC1L2	83650	broad.mit.edu	37	8	11188883	11188883	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11188883C>T	uc003wtp.1	+	1	389	c.268C>T	c.(268-270)CGT>TGT	p.R90C		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	90	DUF6 1.					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)														---	---	---	---
FAM167A	83648	broad.mit.edu	37	8	11301681	11301681	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11301681C>T	uc010lry.1	-	2	860	c.240G>A	c.(238-240)GAG>GAA	p.E80E	FAM167A_uc003wtw.2_Silent_p.E80E	NM_053279	NP_444509	Q96KS9	F167A_HUMAN	hypothetical protein LOC83648	80											0																		---	---	---	---
GATA4	2626	broad.mit.edu	37	8	11615827	11615827	+	Missense_Mutation	SNP	G	A	A	rs147093296		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11615827G>A	uc003wuc.2	+	7	1726	c.1172G>A	c.(1171-1173)GGC>GAC	p.G391D	GATA4_uc003wub.1_Missense_Mutation_p.G185D|GATA4_uc011kxc.1_Missense_Mutation_p.G392D|uc003wud.1_5'Flank	NM_002052	NP_002043	P43694	GATA4_HUMAN	GATA binding protein 4	391					atrial septum primum morphogenesis|atrial septum secundum morphogenesis|blood coagulation|cardiac right ventricle morphogenesis|cell-cell signaling|embryonic foregut morphogenesis|embryonic heart tube anterior/posterior pattern formation|endocardial cushion development|endoderm development|heart looping|intestinal epithelial cell differentiation|male gonad development|positive regulation of angiogenesis|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|response to drug|transcription from RNA polymerase II promoter|ventricular septum development	nucleoplasm	activating transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(15;0.0839)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.199)														---	---	---	---
USP17L2	377630	broad.mit.edu	37	8	11996191	11996191	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11996191C>T	uc003wvc.1	-	1	79	c.79G>A	c.(79-81)GCA>ACA	p.A27T	FAM66D_uc011kxp.1_Intron|FAM66D_uc011kxo.1_Intron	NM_201402	NP_958804	Q6R6M4	U17L2_HUMAN	deubiquitinating enzyme 3	27					apoptosis|cell cycle|G2/M transition checkpoint|mitotic cell cycle G1/S transition checkpoint|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)	3																		---	---	---	---
TUSC3	7991	broad.mit.edu	37	8	15398081	15398081	+	Intron	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:15398081G>T	uc003wwt.2	+						TUSC3_uc003wwr.2_Intron|TUSC3_uc003wws.2_Intron|TUSC3_uc003wwu.2_Intron|TUSC3_uc003wwv.2_Intron|TUSC3_uc003www.2_Intron|TUSC3_uc003wwx.2_Intron|TUSC3_uc003wwy.2_Intron	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)														---	---	---	---
TUSC3	7991	broad.mit.edu	37	8	15508247	15508247	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:15508247G>A	uc003wwt.2	+	3	560	c.350G>A	c.(349-351)CGC>CAC	p.R117H	TUSC3_uc003wwr.2_Missense_Mutation_p.R117H|TUSC3_uc003wws.2_Missense_Mutation_p.R117H|TUSC3_uc003wwu.2_Missense_Mutation_p.R117H|TUSC3_uc003wwv.2_Missense_Mutation_p.R117H|TUSC3_uc003www.2_Missense_Mutation_p.R117H|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Missense_Mutation_p.R117H	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	117					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)														---	---	---	---
CNOT7	29883	broad.mit.edu	37	8	17092325	17092325	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17092325T>C	uc003wxf.1	-	5	686	c.518A>G	c.(517-519)AAC>AGC	p.N173S	CNOT7_uc003wxg.1_Missense_Mutation_p.N173S|CNOT7_uc003wxh.1_Missense_Mutation_p.N173S	NM_013354	NP_037486	Q9UIV1	CNOT7_HUMAN	CCR4-NOT transcription complex, subunit 7	173					carbohydrate metabolic process|nuclear-transcribed mRNA poly(A) tail shortening	CCR4-NOT complex|cytoplasmic mRNA processing body|cytosol	nucleic acid binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(1)	1				Colorectal(111;0.0523)|COAD - Colon adenocarcinoma(73;0.209)														---	---	---	---
PCM1	5108	broad.mit.edu	37	8	17824576	17824576	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17824576G>A	uc003wyi.3	+	21	3731	c.3309G>A	c.(3307-3309)TCG>TCA	p.S1103S	PCM1_uc011kyh.1_Silent_p.S1103S|PCM1_uc003wyj.3_Silent_p.S1104S	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	1103					centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)				T	RET|JAK2	papillary thyroid|CML|MPD								---	---	---	---
PSD3	23362	broad.mit.edu	37	8	18541410	18541410	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:18541410G>A	uc003wza.2	-						PSD3_uc003wyx.3_Silent_p.S11S|PSD3_uc003wyy.2_Intron|PSD3_uc003wyz.2_Intron	NM_015310	NP_056125			ADP-ribosylation factor guanine nucleotide						regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)														---	---	---	---
PSD3	23362	broad.mit.edu	37	8	18725364	18725364	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:18725364C>T	uc003wza.2	-	4	1557	c.1454G>A	c.(1453-1455)CGC>CAC	p.R485H		NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	485					regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)														---	---	---	---
CSGALNACT1	55790	broad.mit.edu	37	8	19263549	19263549	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:19263549G>A	uc011kyn.1	-	10	2405	c.1341C>T	c.(1339-1341)GGC>GGT	p.G447G	CSGALNACT1_uc011kyo.1_Silent_p.G447G|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Silent_p.G446G	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	447	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)														---	---	---	---
CSGALNACT1	55790	broad.mit.edu	37	8	19362852	19362852	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:19362852C>T	uc011kyn.1	-	4	1558	c.494G>A	c.(493-495)CGC>CAC	p.R165H	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.R165H|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.R164H|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	165	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)														---	---	---	---
SLC18A1	6570	broad.mit.edu	37	8	20008198	20008198	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:20008198A>G	uc011kyq.1	-	12	1544	c.1073T>C	c.(1072-1074)GTG>GCG	p.V358A	SLC18A1_uc003wzl.2_Missense_Mutation_p.V145A|SLC18A1_uc003wzm.2_Missense_Mutation_p.V358A|SLC18A1_uc011kyr.1_Missense_Mutation_p.V358A|SLC18A1_uc003wzn.2_Missense_Mutation_p.V326A|SLC18A1_uc010ltf.2_RNA|SLC18A1_uc003wzo.2_Missense_Mutation_p.V326A	NM_001135691	NP_001129163	P54219	VMAT1_HUMAN	solute carrier family 18 (vesicular monoamine),	358	Helical; (Potential).				neurotransmitter transport	clathrin sculpted monoamine transport vesicle membrane|integral to membrane|membrane fraction	drug transmembrane transporter activity|monoamine transmembrane transporter activity			ovary(2)	2				Colorectal(74;0.0747)														---	---	---	---
LZTS1	11178	broad.mit.edu	37	8	20107710	20107710	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:20107710G>A	uc003wzr.2	-	3	1425	c.1314C>T	c.(1312-1314)GGC>GGT	p.G438G	LZTS1_uc010ltg.1_Silent_p.G438G	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	438					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)														---	---	---	---
HR	55806	broad.mit.edu	37	8	21986447	21986447	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21986447C>A	uc003xas.2	-	2	902	c.237G>T	c.(235-237)GAG>GAT	p.E79D	HR_uc003xat.2_Missense_Mutation_p.E79D|HR_uc010lts.2_Missense_Mutation_p.E79D	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	79							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)														---	---	---	---
BMP1	649	broad.mit.edu	37	8	22053019	22053019	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:22053019C>T	uc003xbg.2	+	13	1928	c.1684C>T	c.(1684-1686)CGG>TGG	p.R562W	BMP1_uc003xba.2_Missense_Mutation_p.R562W|BMP1_uc003xbb.2_Missense_Mutation_p.R562W|BMP1_uc003xbe.2_RNA|BMP1_uc003xbc.2_Missense_Mutation_p.R311W|BMP1_uc003xbd.2_RNA|BMP1_uc003xbf.2_Missense_Mutation_p.R311W|BMP1_uc011kzc.1_Missense_Mutation_p.R311W|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	562	EGF-like 1; calcium-binding (Potential).				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)														---	---	---	---
SORBS3	10174	broad.mit.edu	37	8	22426797	22426797	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:22426797C>T	uc003xbv.2	+						SORBS3_uc003xbw.3_Intron	NM_005775	NP_005766			sorbin and SH3 domain containing 3 isoform 1						muscle contraction|positive regulation of stress fiber assembly	cytoskeleton|cytosol|nucleus	protein binding|structural constituent of cytoskeleton|vinculin binding				0		Prostate(55;0.0421)|Breast(100;0.102)		BRCA - Breast invasive adenocarcinoma(99;0.00566)|Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)														---	---	---	---
ENTPD4	9583	broad.mit.edu	37	8	23294525	23294525	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:23294525G>A	uc003xdl.2	-	10	1460	c.1296C>T	c.(1294-1296)TCC>TCT	p.S432S	ENTPD4_uc011kzu.1_Silent_p.S424S|ENTPD4_uc003xdm.2_Silent_p.S424S|ENTPD4_uc011kzv.1_Silent_p.S432S	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	432	Lumenal (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)														---	---	---	---
ENTPD4	9583	broad.mit.edu	37	8	23299095	23299095	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:23299095G>A	uc003xdl.2	-	8	1033	c.869C>T	c.(868-870)GCG>GTG	p.A290V	ENTPD4_uc011kzu.1_Intron|ENTPD4_uc003xdm.2_Intron|ENTPD4_uc011kzv.1_Missense_Mutation_p.A290V	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	290	Lumenal (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)														---	---	---	---
STC1	6781	broad.mit.edu	37	8	23702305	23702305	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:23702305C>T	uc003xdw.1	-	4	1006	c.722G>A	c.(721-723)CGC>CAC	p.R241H		NM_003155	NP_003146	P52823	STC1_HUMAN	stanniocalcin 1 precursor	241					cell surface receptor linked signaling pathway|cell-cell signaling|cellular calcium ion homeostasis		hormone activity			skin(3)|upper_aerodigestive_tract(1)	4		Prostate(55;0.055)|Breast(100;0.116)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)														---	---	---	---
ADAM28	10863	broad.mit.edu	37	8	24211298	24211298	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:24211298G>A	uc003xdy.2	+	22	2343	c.2260G>A	c.(2260-2262)GCA>ACA	p.A754T	ADAM28_uc011laa.1_RNA|ADAM28_uc010lua.2_Intron	NM_014265	NP_055080	Q9UKQ2	ADA28_HUMAN	ADAM metallopeptidase domain 28 isoform 1	754	Cytoplasmic (Potential).				proteolysis|spermatogenesis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|lung(1)|central_nervous_system(1)	5		Prostate(55;0.0959)		Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0434)|BRCA - Breast invasive adenocarcinoma(99;0.175)														---	---	---	---
ADAM7	8756	broad.mit.edu	37	8	24339818	24339818	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:24339818T>C	uc003xeb.2	+	9	982	c.869T>C	c.(868-870)TTA>TCA	p.L290S	ADAM7_uc003xec.2_Missense_Mutation_p.L62S	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	290	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)														---	---	---	---
NEFM	4741	broad.mit.edu	37	8	24771638	24771638	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:24771638G>A	uc003xed.3	+	1	365	c.332G>A	c.(331-333)CGC>CAC	p.R111H	NEFM_uc011lac.1_Missense_Mutation_p.R111H|NEFM_uc010lue.2_5'Flank|uc010luc.1_3'UTR	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	111	Rod.|Coil 1A.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)														---	---	---	---
NEFM	4741	broad.mit.edu	37	8	24771747	24771747	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:24771747C>T	uc003xed.3	+	1	474	c.441C>T	c.(439-441)GGC>GGT	p.G147G	NEFM_uc011lac.1_Silent_p.G147G|NEFM_uc010lue.2_5'Flank|uc010luc.1_3'UTR	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	147	Linker 1.|Rod.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)														---	---	---	---
EBF2	64641	broad.mit.edu	37	8	25708132	25708132	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:25708132G>A	uc003xes.1	-	15	1691	c.1674C>T	c.(1672-1674)AGC>AGT	p.S558S	PPP2R2A_uc003xek.2_Intron|EBF2_uc010lug.1_RNA	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	558					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)														---	---	---	---
ADRA1A	148	broad.mit.edu	37	8	26722237	26722237	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26722237C>T	uc003xfh.1	-	1	686	c.250G>A	c.(250-252)GCC>ACC	p.A84T	ADRA1A_uc003xfc.1_Missense_Mutation_p.A84T|ADRA1A_uc010lul.1_Missense_Mutation_p.A84T|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Missense_Mutation_p.A84T|ADRA1A_uc010lum.1_Missense_Mutation_p.A84T|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Missense_Mutation_p.A84T	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	84	Helical; Name=2; (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)													---	---	---	---
ADRA1A	148	broad.mit.edu	37	8	26722276	26722276	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26722276C>T	uc003xfh.1	-	1	647	c.211G>A	c.(211-213)GCC>ACC	p.A71T	ADRA1A_uc003xfc.1_Missense_Mutation_p.A71T|ADRA1A_uc010lul.1_Missense_Mutation_p.A71T|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Missense_Mutation_p.A71T|ADRA1A_uc010lum.1_Missense_Mutation_p.A71T|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Missense_Mutation_p.A71T	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	71	Helical; Name=2; (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)													---	---	---	---
C8orf80	389643	broad.mit.edu	37	8	27922179	27922179	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27922179C>T	uc003xgm.3	-	7	924	c.781G>A	c.(781-783)GCT>ACT	p.A261T		NM_001010906	NP_001010906	Q68CJ6	SLIP_HUMAN	speckled-like pattern in the germinal center	261						nucleus	GTP binding|GTPase activity			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.126)|Kidney(114;0.15)|Colorectal(74;0.181)														---	---	---	---
ZNF395	55893	broad.mit.edu	37	8	28214286	28214286	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28214286C>T	uc003xgq.2	-	4	572	c.484G>A	c.(484-486)GCA>ACA	p.A162T	ZNF395_uc003xgt.2_Missense_Mutation_p.A162T|ZNF395_uc003xgr.2_Missense_Mutation_p.A162T|ZNF395_uc003xgs.2_Missense_Mutation_p.A162T	NM_018660	NP_061130	Q9H8N7	ZN395_HUMAN	zinc finger protein 395	162					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding				0		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.102)|Kidney(114;0.123)|Colorectal(74;0.142)														---	---	---	---
FZD3	7976	broad.mit.edu	37	8	28385115	28385115	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28385115G>T	uc003xgx.2	+	5	1316	c.838G>T	c.(838-840)GGA>TGA	p.G280*	FZD3_uc010lvb.2_Nonsense_Mutation_p.G280*	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	280	Extracellular (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)														---	---	---	---
FZD3	7976	broad.mit.edu	37	8	28385354	28385354	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28385354C>T	uc003xgx.2	+	5	1555	c.1077C>T	c.(1075-1077)GGC>GGT	p.G359G	FZD3_uc010lvb.2_Silent_p.G359G	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	359	Extracellular (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)														---	---	---	---
EXTL3	2137	broad.mit.edu	37	8	28575031	28575031	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28575031G>A	uc003xgz.1	+	3	2048	c.1455G>A	c.(1453-1455)GTG>GTA	p.V485V		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	485	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)														---	---	---	---
EXTL3	2137	broad.mit.edu	37	8	28600685	28600685	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28600685C>T	uc003xgz.1	+	6	3097	c.2504C>T	c.(2503-2505)GCC>GTC	p.A835V		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	835	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)														---	---	---	---
HMBOX1	79618	broad.mit.edu	37	8	28876412	28876412	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28876412G>A	uc003xhd.3	+	6	1175	c.833G>A	c.(832-834)TGC>TAC	p.C278Y	HMBOX1_uc010lvd.2_Missense_Mutation_p.C278Y|HMBOX1_uc003xhc.3_Missense_Mutation_p.C278Y|HMBOX1_uc010lve.2_RNA|HMBOX1_uc003xhe.2_Missense_Mutation_p.C278Y|HMBOX1_uc011lay.1_Missense_Mutation_p.C278Y|HMBOX1_uc003xhf.2_Missense_Mutation_p.C266Y|HMBOX1_uc003xhg.2_Missense_Mutation_p.C266Y	NM_001135726	NP_001129198	Q6NT76	HMBX1_HUMAN	homeobox containing 1	278	Homeobox.				negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(32;0.0192)		KIRC - Kidney renal clear cell carcinoma(542;0.135)|Kidney(114;0.161)														---	---	---	---
KIF13B	23303	broad.mit.edu	37	8	28967445	28967445	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28967445C>T	uc003xhh.3	-	33	4132	c.4073G>A	c.(4072-4074)CGT>CAT	p.R1358H	uc003xhi.1_5'Flank	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1358					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)														---	---	---	---
GSR	2936	broad.mit.edu	37	8	30565642	30565642	+	Missense_Mutation	SNP	G	A	A	rs150594097		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30565642G>A	uc003xih.1	-	4	530	c.439C>T	c.(439-441)CGG>TGG	p.R147W		NM_000637	NP_000628	P00390	GSHR_HUMAN	glutathione reductase precursor	147					cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)													---	---	---	---
PPP2CB	5516	broad.mit.edu	37	8	30651531	30651531	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30651531G>A	uc003xik.2	-	6	875	c.640C>T	c.(640-642)CGT>TGT	p.R214C		NM_004156	NP_004147	P62714	PP2AB_HUMAN	protein phosphatase 2, catalytic subunit, beta	214					protein dephosphorylation	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex|spindle pole	metal ion binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.095)|Kidney(114;0.114)	Vitamin E(DB00163)													---	---	---	---
UNC5D	137970	broad.mit.edu	37	8	35544118	35544118	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:35544118A>G	uc003xjr.1	+	7	1303	c.975A>G	c.(973-975)GAA>GAG	p.E325E	UNC5D_uc003xjs.1_Silent_p.E320E|UNC5D_uc003xjt.1_Silent_p.E94E	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	325	Extracellular (Potential).|TSP type-1 2.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)														---	---	---	---
KCNU1	157855	broad.mit.edu	37	8	36780102	36780102	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:36780102G>A	uc010lvw.2	+	24	2778	c.2691G>A	c.(2689-2691)ACG>ACA	p.T897T	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	897	Segment S10.|Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)														---	---	---	---
RAB11FIP1	80223	broad.mit.edu	37	8	37730004	37730004	+	Silent	SNP	C	T	T	rs148197928	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37730004C>T	uc003xkm.1	-	4	2360	c.2316G>A	c.(2314-2316)GCG>GCA	p.A772A	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Silent_p.A101A|RAB11FIP1_uc003xko.1_Silent_p.A101A|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	772					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)															---	---	---	---
EIF4EBP1	1978	broad.mit.edu	37	8	37914773	37914773	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37914773C>T	uc003xks.2	+	2	392	c.320C>T	c.(319-321)GCG>GTG	p.A107V		NM_004095	NP_004086	Q13541	4EBP1_HUMAN	eukaryotic translation initiation factor 4E	107					G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|positive regulation of mitotic cell cycle|TOR signaling cascade|translation	cytosol					0	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)																---	---	---	---
FGFR1	2260	broad.mit.edu	37	8	38271528	38271528	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38271528G>A	uc003xlp.2	-	18	3142	c.2200C>T	c.(2200-2202)CGG>TGG	p.R734W	FGFR1_uc010lwf.2_RNA|FGFR1_uc011lbo.1_Missense_Mutation_p.R732W|FGFR1_uc011lbp.1_Missense_Mutation_p.R645W|FGFR1_uc011lbq.1_Missense_Mutation_p.R643W|FGFR1_uc010lwk.2_Missense_Mutation_p.R724W	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	734	Cytoplasmic (Potential).|Protein kinase.				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						---	---	---	---
C8orf86	389649	broad.mit.edu	37	8	38386081	38386081	+	Silent	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38386081A>C	uc003xlx.1	-	1	100	c.75T>G	c.(73-75)CTT>CTG	p.L25L		NM_207412	NP_997295	Q6ZUL3	CH086_HUMAN	hypothetical protein LOC389649	25											0																		---	---	---	---
TACC1	6867	broad.mit.edu	37	8	38677330	38677330	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38677330G>A	uc010lwp.2	+	3	947	c.568G>A	c.(568-570)GCC>ACC	p.A190T	TACC1_uc011lby.1_5'UTR|TACC1_uc003xma.2_Intron|TACC1_uc003xlz.2_5'UTR|TACC1_uc003xmc.3_5'UTR|TACC1_uc011lbz.1_Missense_Mutation_p.A206T|TACC1_uc003xmb.3_Missense_Mutation_p.A145T|TACC1_uc003xme.1_Intron|TACC1_uc003xmd.1_Intron|TACC1_uc010lwo.1_Intron|TACC1_uc003xmf.3_Intron|TACC1_uc011lca.1_Missense_Mutation_p.A190T|TACC1_uc011lcb.1_5'UTR|TACC1_uc011lcc.1_5'UTR|TACC1_uc011lcd.1_RNA|TACC1_uc003xmh.3_5'UTR|TACC1_uc010lwq.2_5'UTR	NM_006283	NP_006274	O75410	TACC1_HUMAN	transforming, acidic coiled-coil containing	190	Interaction with TDRD7.				cell cycle|cell division	intermediate filament cytoskeleton|microtubule organizing center|nucleus	protein binding			ovary(1)	1		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.065)	LUSC - Lung squamous cell carcinoma(45;1.7e-09)|COAD - Colon adenocarcinoma(9;0.235)															---	---	---	---
PLEKHA2	59339	broad.mit.edu	37	8	38810831	38810831	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38810831G>A	uc003xmi.3	+	9	953	c.719G>A	c.(718-720)CGC>CAC	p.R240H	PLEKHA2_uc011lce.1_Missense_Mutation_p.R190H	NM_021623	NP_067636	Q9HB19	PKHA2_HUMAN	pleckstrin homology domain containing, family A	240	PH 2.				positive regulation of cell-matrix adhesion	cytoplasm|nucleus|plasma membrane|protein complex	fibronectin binding|laminin binding				0		all_lung(54;0.0413)|Lung NSC(58;0.115)|Hepatocellular(245;0.152)	LUSC - Lung squamous cell carcinoma(45;4.68e-08)|COAD - Colon adenocarcinoma(9;0.235)															---	---	---	---
HTRA4	203100	broad.mit.edu	37	8	38832617	38832617	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38832617G>A	uc003xmj.2	+	2	649	c.534G>A	c.(532-534)GCG>GCA	p.A178A		NM_153692	NP_710159	P83105	HTRA4_HUMAN	HtrA serine peptidase 4 precursor	178					proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_lung(54;0.0344)|Hepatocellular(245;0.0512)|Lung NSC(58;0.0955)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)															---	---	---	---
HTRA4	203100	broad.mit.edu	37	8	38839212	38839212	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38839212A>G	uc003xmj.2	+	6	1155	c.1040A>G	c.(1039-1041)GAT>GGT	p.D347G		NM_153692	NP_710159	P83105	HTRA4_HUMAN	HtrA serine peptidase 4 precursor	347	Serine protease.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_lung(54;0.0344)|Hepatocellular(245;0.0512)|Lung NSC(58;0.0955)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)															---	---	---	---
ANK1	286	broad.mit.edu	37	8	41551549	41551549	+	Silent	SNP	G	A	A	rs117516263	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41551549G>A	uc003xok.2	-	29	3483	c.3399C>T	c.(3397-3399)ACC>ACT	p.T1133T	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Silent_p.T449T|ANK1_uc003xoi.2_Silent_p.T1133T|ANK1_uc003xoj.2_Silent_p.T1133T|ANK1_uc003xol.2_Silent_p.T1133T|ANK1_uc003xom.2_Silent_p.T1174T	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1133					axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)															---	---	---	---
ANK1	286	broad.mit.edu	37	8	41553956	41553956	+	Missense_Mutation	SNP	G	A	A	rs140978700		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41553956G>A	uc003xok.2	-	26	2969	c.2885C>T	c.(2884-2886)CCG>CTG	p.P962L	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Missense_Mutation_p.P278L|ANK1_uc003xoi.2_Missense_Mutation_p.P962L|ANK1_uc003xoj.2_Missense_Mutation_p.P962L|ANK1_uc003xol.2_Missense_Mutation_p.P962L|ANK1_uc003xom.2_Missense_Mutation_p.P1003L	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	962	ZU5.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)															---	---	---	---
MYST3	7994	broad.mit.edu	37	8	41790423	41790423	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41790423C>T	uc010lxb.2	-	18	5859	c.5315G>A	c.(5314-5316)AGC>AAC	p.S1772N	MYST3_uc010lxc.2_Missense_Mutation_p.S1772N|MYST3_uc003xon.3_Missense_Mutation_p.S1772N	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1772					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)															---	---	---	---
MYST3	7994	broad.mit.edu	37	8	41791549	41791549	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41791549C>T	uc010lxb.2	-	18	4733	c.4189G>A	c.(4189-4191)GAA>AAA	p.E1397K	MYST3_uc010lxc.2_Missense_Mutation_p.E1397K|MYST3_uc003xon.3_Missense_Mutation_p.E1397K	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1397					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)															---	---	---	---
PLAT	5327	broad.mit.edu	37	8	42038027	42038027	+	Missense_Mutation	SNP	C	T	T	rs140012141		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42038027C>T	uc003xos.2	-	10	1275	c.1066G>A	c.(1066-1068)GCC>ACC	p.A356T	PLAT_uc010lxf.1_Missense_Mutation_p.A273T|PLAT_uc010lxg.1_Missense_Mutation_p.A181T|PLAT_uc003xot.2_Missense_Mutation_p.A310T|PLAT_uc011lcm.1_Missense_Mutation_p.A267T|PLAT_uc011lcn.1_Missense_Mutation_p.A230T	NM_000930	NP_000921	P00750	TPA_HUMAN	plasminogen activator, tissue isoform 1	356	Peptidase S1.				blood coagulation|fibrinolysis|negative regulation of proteolysis|protein modification process|proteolysis	cell surface|cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			breast(1)|skin(1)	2	all_cancers(6;3.84e-26)|all_epithelial(6;9.61e-28)|all_lung(13;7.2e-13)|Lung NSC(13;1.18e-11)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000378)|Lung NSC(58;0.00145)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00135)|Colorectal(10;0.00165)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)		Alteplase(DB00009)|Aminocaproic Acid(DB00513)|Anistreplase(DB00029)|Iloprost(DB01088)|Reteplase(DB00015)|Tenecteplase(DB00031)|Tranexamic Acid(DB00302)|Urokinase(DB00013)													---	---	---	---
CHRNB3	1142	broad.mit.edu	37	8	42587066	42587066	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42587066G>A	uc003xpi.1	+	5	744	c.616G>A	c.(616-618)GCA>ACA	p.A206T		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	206	Extracellular (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)															---	---	---	---
CHRNB3	1142	broad.mit.edu	37	8	42587142	42587142	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42587142G>A	uc003xpi.1	+	5	820	c.692G>A	c.(691-693)CGC>CAC	p.R231H		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	231	Extracellular (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)															---	---	---	---
SGK196	84197	broad.mit.edu	37	8	42958728	42958728	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42958728G>A	uc003xpw.2	+	4	296	c.37G>A	c.(37-39)GCC>ACC	p.A13T		NM_032237	NP_115613	Q9H5K3	SG196_HUMAN	protein kinase-like protein SgK196	13						integral to membrane	ATP binding|protein kinase activity				0																		---	---	---	---
POTEA	340441	broad.mit.edu	37	8	43147674	43147674	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:43147674A>C	uc003xpz.1	+	1	90	c.47A>C	c.(46-48)AAG>ACG	p.K16T	POTEA_uc003xqa.1_Missense_Mutation_p.K16T	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	16										ovary(1)	1																		---	---	---	---
PRKDC	5591	broad.mit.edu	37	8	48772316	48772316	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48772316A>G	uc003xqi.2	-	47	6120	c.6063T>C	c.(6061-6063)GGT>GGC	p.G2021G	PRKDC_uc003xqj.2_Silent_p.G2021G|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2021		Cleavage; by caspase-3 (Probable).			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					---	---	---	---
EFCAB1	79645	broad.mit.edu	37	8	49643974	49643974	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:49643974A>T	uc003xqo.2	-	2	307	c.147T>A	c.(145-147)GAT>GAA	p.D49E	EFCAB1_uc003xqn.3_Intron|EFCAB1_uc011ldj.1_Intron|EFCAB1_uc010lxx.2_Intron|EFCAB1_uc011ldk.1_Intron	NM_024593	NP_078869	Q9HAE3	EFCB1_HUMAN	EF-hand calcium binding domain 1 isoform a	49							calcium ion binding				0		all_epithelial(80;0.0134)|Lung NSC(129;0.0207)|all_lung(136;0.0464)																---	---	---	---
SNAI2	6591	broad.mit.edu	37	8	49833817	49833817	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:49833817C>T	uc003xqp.2	-	1	172	c.8G>A	c.(7-9)CGC>CAC	p.R3H		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	3					canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)																---	---	---	---
PXDNL	137902	broad.mit.edu	37	8	52359707	52359707	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52359707A>G	uc003xqu.3	-	12	1483	c.1382T>C	c.(1381-1383)GTG>GCG	p.V461A		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	461	Ig-like C2-type 3.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)																---	---	---	---
ATP6V1H	51606	broad.mit.edu	37	8	54628573	54628573	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:54628573C>T	uc003xrl.2	-	14	1555	c.1403G>A	c.(1402-1404)GGC>GAC	p.G468D	ATP6V1H_uc003xrk.2_Missense_Mutation_p.G428D|ATP6V1H_uc003xrm.2_Missense_Mutation_p.G468D|ATP6V1H_uc003xrn.2_Missense_Mutation_p.G450D|ATP6V1H_uc011ldv.1_Missense_Mutation_p.G388D|ATP6V1H_uc010lyd.2_Missense_Mutation_p.G404D	NM_213620	NP_998785	Q9UI12	VATH_HUMAN	ATPase, H+ transporting, lysosomal 50/57kDa, V1	468					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|endocytosis|insulin receptor signaling pathway|interspecies interaction between organisms|regulation of defense response to virus by virus|transferrin transport|vacuolar acidification|viral reproduction	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase, V1 domain	enzyme regulator activity|protein binding|proton-transporting ATPase activity, rotational mechanism				0		all_epithelial(80;0.0487)|Lung NSC(129;0.109)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;2.79e-06)|Epithelial(17;0.000629)|all cancers(17;0.00359)															---	---	---	---
RP1	6101	broad.mit.edu	37	8	55541823	55541823	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:55541823G>A	uc003xsd.1	+	4	5529	c.5381G>A	c.(5380-5382)GGC>GAC	p.G1794D	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1794					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)															---	---	---	---
XKR4	114786	broad.mit.edu	37	8	56436092	56436092	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:56436092A>G	uc003xsf.2	+	3	1291	c.1259A>G	c.(1258-1260)GAG>GGG	p.E420G		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	420						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)															---	---	---	---
PLAG1	5324	broad.mit.edu	37	8	57078977	57078977	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:57078977C>T	uc003xsq.3	-	3	1779	c.1328G>A	c.(1327-1329)AGC>AAC	p.S443N	PLAG1_uc003xsr.3_Missense_Mutation_p.S443N|PLAG1_uc010lyi.2_Missense_Mutation_p.S443N|PLAG1_uc010lyj.2_Missense_Mutation_p.S361N	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	443	Activates transcription; Inhibition of nuclear import due to lack of NLS and KPNA2 interaction.|Massively activates transcription.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)					T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								---	---	---	---
PLAG1	5324	broad.mit.edu	37	8	57079635	57079635	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:57079635G>A	uc003xsq.3	-	3	1121	c.670C>T	c.(670-672)CGA>TGA	p.R224*	PLAG1_uc003xsr.3_Nonsense_Mutation_p.R224*|PLAG1_uc010lyi.2_Nonsense_Mutation_p.R224*|PLAG1_uc010lyj.2_Nonsense_Mutation_p.R142*	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	224	Decreased nuclear import with localization in the nucleus but also in the cytoplasm.|C2H2-type 7.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)					T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								---	---	---	---
FAM110B	90362	broad.mit.edu	37	8	59058997	59058997	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:59058997G>A	uc003xtj.1	+	5	1088	c.208G>A	c.(208-210)GCC>ACC	p.A70T		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	70						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)																---	---	---	---
CYP7A1	1581	broad.mit.edu	37	8	59409213	59409213	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:59409213C>T	uc003xtm.3	-	3	921	c.858G>A	c.(856-858)TCG>TCA	p.S286S		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	286					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)												Neonatal_Giant_Cell_Hepatitis				---	---	---	---
NSMAF	8439	broad.mit.edu	37	8	59555553	59555553	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:59555553G>A	uc003xtt.2	-	2	353	c.139C>T	c.(139-141)CAC>TAC	p.H47Y	NSMAF_uc011lee.1_Missense_Mutation_p.H78Y|NSMAF_uc003xtu.2_Missense_Mutation_p.H47Y	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	47					ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)																---	---	---	---
TOX	9760	broad.mit.edu	37	8	59728227	59728227	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:59728227C>T	uc003xtw.1	-	7	1283	c.1062G>A	c.(1060-1062)TCG>TCA	p.S354S		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	354						nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)																---	---	---	---
CHD7	55636	broad.mit.edu	37	8	61743054	61743054	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:61743054C>T	uc003xue.2	+	15	4173	c.3696C>T	c.(3694-3696)GGC>GGT	p.G1232G		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1232					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			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)															---	---	---	---
CHD7	55636	broad.mit.edu	37	8	61777937	61777937	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:61777937C>T	uc003xue.2	+	38	8916	c.8439C>T	c.(8437-8439)GGC>GGT	p.G2813G		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2813					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			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)															---	---	---	---
GGH	8836	broad.mit.edu	37	8	63948266	63948266	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:63948266G>A	uc003xuw.2	-	2	456	c.173C>T	c.(172-174)GCG>GTG	p.A58V		NM_003878	NP_003869	Q92820	GGH_HUMAN	gamma-glutamyl hydrolase precursor	58	Gamma-glutamyl hydrolase.				glutamine metabolic process	extracellular space|lysosome|melanosome	gamma-glutamyl-peptidase activity				0	Breast(64;0.0716)	all_cancers(86;0.189)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.131)			Folic Acid(DB00158)|L-Glutamic Acid(DB00142)													---	---	---	---
YTHDF3	253943	broad.mit.edu	37	8	64099768	64099768	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:64099768C>A	uc003xuy.2	+	5	1515	c.1199C>A	c.(1198-1200)GCC>GAC	p.A400D	YTHDF3_uc010lys.2_Missense_Mutation_p.A344D|YTHDF3_uc003xuz.2_Missense_Mutation_p.A344D|YTHDF3_uc003xva.2_Missense_Mutation_p.A344D|YTHDF3_uc011len.1_Missense_Mutation_p.A344D	NM_152758	NP_689971	Q7Z739	YTHD3_HUMAN	YTH domain family, member 3	400											0	Breast(64;0.0716)	all_cancers(86;0.169)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.146)	BRCA - Breast invasive adenocarcinoma(89;0.161)															---	---	---	---
PDE7A	5150	broad.mit.edu	37	8	66639514	66639514	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:66639514C>A	uc003xvq.2	-	8	731	c.719G>T	c.(718-720)TGG>TTG	p.W240L	PDE7A_uc003xvr.2_Missense_Mutation_p.W240L|PDE7A_uc003xvp.2_Missense_Mutation_p.W214L	NM_002604	NP_002595	Q13946	PDE7A_HUMAN	phosphodiesterase 7A isoform b	240	Catalytic (By similarity).					cell fraction|cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding				0			Epithelial(68;0.0509)|BRCA - Breast invasive adenocarcinoma(89;0.111)|all cancers(69;0.168)|OV - Ovarian serous cystadenocarcinoma(28;0.238)		Dyphylline(DB00651)|Ketotifen(DB00920)													---	---	---	---
TRIM55	84675	broad.mit.edu	37	8	67061935	67061935	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67061935G>A	uc003xvv.2	+	5	885	c.659G>A	c.(658-660)GGC>GAC	p.G220D	TRIM55_uc003xvu.2_Missense_Mutation_p.G220D|TRIM55_uc003xvw.2_Missense_Mutation_p.G220D|TRIM55_uc003xvx.2_Intron	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	220	Potential.					cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)															---	---	---	---
SGK3	23678	broad.mit.edu	37	8	67734620	67734620	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67734620G>T	uc003xwr.2	+	6	642	c.343G>T	c.(343-345)GCA>TCA	p.A115S	SGK3_uc003xwp.2_Missense_Mutation_p.A109S|SGK3_uc003xwt.2_Missense_Mutation_p.A115S|SGK3_uc003xwu.2_Missense_Mutation_p.A115S	NM_001033578	NP_001028750	Q96BR1	SGK3_HUMAN	serum/glucocorticoid regulated kinase 3 isoform	115	PX.				cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)															---	---	---	---
LRRC67	286187	broad.mit.edu	37	8	67926653	67926653	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67926653G>A	uc003xxc.2	-							NM_001013626	NP_001013648			leucine rich repeat containing 67												0																		---	---	---	---
ARFGEF1	10565	broad.mit.edu	37	8	68169965	68169965	+	Splice_Site	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68169965A>G	uc003xxo.1	-	17	2916	c.2526_splice	c.e17+1	p.Q842_splice	ARFGEF1_uc003xxl.1_Splice_Site_p.Q296_splice	NM_006421	NP_006412			brefeldin A-inhibited guanine						exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)															---	---	---	---
PREX2	80243	broad.mit.edu	37	8	68982130	68982130	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68982130T>C	uc003xxv.1	+						PREX2_uc003xxu.1_Intron|PREX2_uc011lez.1_Intron	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																		---	---	---	---
PREX2	80243	broad.mit.edu	37	8	69009329	69009329	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:69009329C>A	uc003xxv.1	+	22	2473	c.2446C>A	c.(2446-2448)CAC>AAC	p.H816N	PREX2_uc003xxu.1_Missense_Mutation_p.H816N|PREX2_uc011lez.1_Missense_Mutation_p.H751N	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	816					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																		---	---	---	---
PREX2	80243	broad.mit.edu	37	8	69021701	69021701	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:69021701G>A	uc003xxv.1	+	25	3016	c.2989G>A	c.(2989-2991)GCC>ACC	p.A997T	PREX2_uc011lez.1_Missense_Mutation_p.A932T	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	997					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																		---	---	---	---
SLCO5A1	81796	broad.mit.edu	37	8	70585449	70585449	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:70585449A>G	uc003xyl.2	-	10	2909	c.2202T>C	c.(2200-2202)TTT>TTC	p.F734F	SLCO5A1_uc010lzb.2_Silent_p.F679F|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_3'UTR	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	734	Extracellular (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)															---	---	---	---
TRPA1	8989	broad.mit.edu	37	8	72968043	72968043	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:72968043A>G	uc003xza.2	-	11	1417	c.1242T>C	c.(1240-1242)TGT>TGC	p.C414C		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	414	ANK 10.|Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)													---	---	---	---
TRPA1	8989	broad.mit.edu	37	8	72987551	72987551	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:72987551A>C	uc003xza.2	-	1	269	c.94T>G	c.(94-96)TTC>GTC	p.F32V		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	32	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)													---	---	---	---
ZFHX4	79776	broad.mit.edu	37	8	77763549	77763549	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77763549C>T	uc003yav.2	+	10	4644	c.4257C>T	c.(4255-4257)CCC>CCT	p.P1419P	ZFHX4_uc003yau.1_Silent_p.P1464P|ZFHX4_uc003yaw.1_Silent_p.P1419P	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1419						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)			---	---	---	---
ZFHX4	79776	broad.mit.edu	37	8	77763597	77763597	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77763597C>A	uc003yav.2	+	10	4692	c.4305C>A	c.(4303-4305)GAC>GAA	p.D1435E	ZFHX4_uc003yau.1_Missense_Mutation_p.D1480E|ZFHX4_uc003yaw.1_Missense_Mutation_p.D1435E	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1435						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)			---	---	---	---
ZFHX4	79776	broad.mit.edu	37	8	77766285	77766285	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77766285T>C	uc003yav.2	+	10	7380	c.6993T>C	c.(6991-6993)GCT>GCC	p.A2331A	ZFHX4_uc003yau.1_Silent_p.A2376A|ZFHX4_uc003yaw.1_Silent_p.A2331A	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2331						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)			---	---	---	---
ZFHX4	79776	broad.mit.edu	37	8	77766752	77766752	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77766752C>T	uc003yav.2	+	10	7847	c.7460C>T	c.(7459-7461)CCC>CTC	p.P2487L	ZFHX4_uc003yau.1_Missense_Mutation_p.P2532L|ZFHX4_uc003yaw.1_Missense_Mutation_p.P2487L	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2487						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)			---	---	---	---
PKIA	5569	broad.mit.edu	37	8	79514053	79514053	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:79514053C>T	uc003yba.2	+	4	752	c.228C>T	c.(226-228)AGC>AGT	p.S76S	PKIA_uc003ybb.2_Silent_p.S76S|PKIA_uc010lzo.2_Silent_p.S76S	NM_006823	NP_006814	P61925	IPKA_HUMAN	cAMP-dependent protein kinase inhibitor alpha	76							cAMP-dependent protein kinase inhibitor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3																		---	---	---	---
ZNF704	619279	broad.mit.edu	37	8	81577073	81577073	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81577073C>T	uc003yby.1	-	6	1136	c.904G>A	c.(904-906)GTG>ATG	p.V302M		NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	zinc finger protein 704	302						intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)															---	---	---	---
PAG1	55824	broad.mit.edu	37	8	81897005	81897005	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81897005G>A	uc003ybz.2	-							NM_018440	NP_060910			phosphoprotein associated with glycosphingolipid						epidermal growth factor receptor signaling pathway|intracellular signal transduction|T cell receptor signaling pathway	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding|SH3/SH2 adaptor activity				0	Lung NSC(7;5.76e-06)|all_lung(9;2e-05)		BRCA - Breast invasive adenocarcinoma(6;0.0567)|Epithelial(68;0.0634)|all cancers(69;0.197)															---	---	---	---
FABP5	2171	broad.mit.edu	37	8	82195629	82195629	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:82195629C>T	uc003yca.1	+	2	156	c.108C>T	c.(106-108)GGC>GGT	p.G36G		NM_001444	NP_001435	Q01469	FABP5_HUMAN	fatty acid binding protein 5	36					epidermis development	cytoplasm	fatty acid binding|protein binding|transporter activity				0	Lung NSC(7;3.57e-05)|all_lung(9;0.00011)		Epithelial(68;0.102)															---	---	---	---
CA3	761	broad.mit.edu	37	8	86357402	86357402	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:86357402C>T	uc003ydj.2	+	5	545	c.462C>T	c.(460-462)GGC>GGT	p.G154G	CA3_uc011lfv.1_RNA	NM_005181	NP_005172	P07451	CAH3_HUMAN	carbonic anhydrase III	154					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0																		---	---	---	---
WWP1	11059	broad.mit.edu	37	8	87393781	87393781	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:87393781G>A	uc003ydt.2	+	5	537	c.257G>A	c.(256-258)CGC>CAC	p.R86H	WWP1_uc010mai.2_5'UTR	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	86	C2.				central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2																		---	---	---	---
WWP1	11059	broad.mit.edu	37	8	87447904	87447904	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:87447904C>T	uc003ydt.2	+	16	2000	c.1720C>T	c.(1720-1722)CAG>TAG	p.Q574*	WWP1_uc010mai.2_Nonsense_Mutation_p.Q350*	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	574					central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2																		---	---	---	---
MMP16	4325	broad.mit.edu	37	8	89339294	89339294	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:89339294G>A	uc003yeb.3	-						MMP16_uc003yec.2_Intron	NM_005941	NP_005932			matrix metalloproteinase 16 isoform 1						collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8																		---	---	---	---
OSGIN2	734	broad.mit.edu	37	8	90937134	90937134	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:90937134C>T	uc003yeg.2	+	6	1238	c.892C>T	c.(892-894)CGT>TGT	p.R298C	OSGIN2_uc003yeh.2_Missense_Mutation_p.R342C	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	298					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)															---	---	---	---
SLC26A7	115111	broad.mit.edu	37	8	92301427	92301427	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:92301427C>A	uc003yex.2	+	4	535	c.257C>A	c.(256-258)CCT>CAT	p.P86H	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Missense_Mutation_p.P86H|SLC26A7_uc003yfa.2_Missense_Mutation_p.P86H	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	86	Helical; (Potential).					basolateral plasma membrane|integral to membrane|recycling endosome membrane	anion:anion antiporter activity|bicarbonate transmembrane transporter activity|chloride channel activity|oxalate transmembrane transporter activity|sulfate transmembrane transporter activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.00802)															---	---	---	---
RUNX1T1	862	broad.mit.edu	37	8	92998493	92998493	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:92998493G>A	uc003yfd.2	-	8	1222	c.1138C>T	c.(1138-1140)CGG>TGG	p.R380W	RUNX1T1_uc003yfc.1_Missense_Mutation_p.R353W|RUNX1T1_uc003yfe.1_Missense_Mutation_p.R343W|RUNX1T1_uc010mao.2_Missense_Mutation_p.R353W|RUNX1T1_uc011lgi.1_Missense_Mutation_p.R391W|RUNX1T1_uc010man.1_5'UTR|RUNX1T1_uc003yfb.1_Missense_Mutation_p.R343W	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	380	Important for oligomerization.				generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)															---	---	---	---
RUNX1T1	862	broad.mit.edu	37	8	93017525	93017525	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:93017525C>T	uc003yfd.2	-	5	643	c.559G>A	c.(559-561)GCC>ACC	p.A187T	RUNX1T1_uc003yfc.1_Missense_Mutation_p.A160T|RUNX1T1_uc003yfe.1_Missense_Mutation_p.A150T|RUNX1T1_uc010mao.2_Missense_Mutation_p.A160T|RUNX1T1_uc011lgi.1_Missense_Mutation_p.A198T|RUNX1T1_uc003yfb.1_Missense_Mutation_p.A150T|RUNX1T1_uc003yff.1_Missense_Mutation_p.A150T	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	187	TAFH.				generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)															---	---	---	---
CDH17	1015	broad.mit.edu	37	8	95189851	95189851	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95189851G>T	uc003ygh.2	-	4	374	c.249C>A	c.(247-249)GCC>GCA	p.A83A	CDH17_uc011lgo.1_Silent_p.A83A|CDH17_uc011lgp.1_Silent_p.A83A	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	83	Extracellular (Potential).|Cadherin 1.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)															---	---	---	---
RAD54B	25788	broad.mit.edu	37	8	95423510	95423510	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95423510T>C	uc003ygk.2	-	4	436	c.338A>G	c.(337-339)AAG>AGG	p.K113R	RAD54B_uc010may.1_5'UTR|RAD54B_uc003ygl.1_RNA	NM_012415	NP_036547	O95073	FSBP_HUMAN	RAD54 homolog B	Error:Variant_position_missing_in_O95073_after_alignment					double-strand break repair via homologous recombination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA translocase activity|protein binding			kidney(2)|lung(1)|skin(1)	4	Breast(36;4.5e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00217)										Direct_reversal_of_damage|Homologous_recombination					---	---	---	---
KIAA1429	25962	broad.mit.edu	37	8	95523709	95523709	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95523709G>A	uc003ygo.1	-	13	3107	c.3094C>T	c.(3094-3096)CGT>TGT	p.R1032C	KIAA1429_uc003ygp.2_Missense_Mutation_p.R1032C|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	1032					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)															---	---	---	---
ESRP1	54845	broad.mit.edu	37	8	95680362	95680362	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95680362G>A	uc003ygq.3	+	10	1300	c.1117G>A	c.(1117-1119)GCT>ACT	p.A373T	ESRP1_uc003ygr.3_Missense_Mutation_p.A373T|ESRP1_uc003ygs.3_Missense_Mutation_p.A373T|ESRP1_uc003ygt.3_Missense_Mutation_p.A373T|ESRP1_uc003ygu.3_Missense_Mutation_p.A373T|ESRP1_uc003ygv.2_Missense_Mutation_p.A213T|ESRP1_uc003ygw.2_Missense_Mutation_p.A213T	NM_017697	NP_060167	Q6NXG1	ESRP1_HUMAN	RNA binding motif protein 35A isoform 1	373	RRM 2.				mRNA processing|regulation of RNA splicing|RNA splicing	nucleus|plasma membrane	mRNA binding|nucleotide binding		ESRP1/RAF1(4)	prostate(4)	4																		---	---	---	---
DPY19L4	286148	broad.mit.edu	37	8	95751765	95751765	+	Intron	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95751765A>T	uc003ygx.2	+						DPY19L4_uc003ygy.2_Intron	NM_181787	NP_861452			dpy-19-like 4							integral to membrane				ovary(2)	2	Breast(36;3.85e-06)																	---	---	---	---
DPY19L4	286148	broad.mit.edu	37	8	95796036	95796036	+	Intron	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95796036A>T	uc003ygx.2	+							NM_181787	NP_861452			dpy-19-like 4							integral to membrane				ovary(2)	2	Breast(36;3.85e-06)																	---	---	---	---
INTS8	55656	broad.mit.edu	37	8	95886789	95886789	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95886789C>T	uc003yhb.2	+	23	2773	c.2647C>T	c.(2647-2649)CGA>TGA	p.R883*	INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Intron	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	883					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)																	---	---	---	---
PLEKHF2	79666	broad.mit.edu	37	8	96166313	96166313	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:96166313G>A	uc003yhn.1	+	2	288	c.41G>A	c.(40-42)CGT>CAT	p.R14H		NM_024613	NP_078889	Q9H8W4	PKHF2_HUMAN	phafin 2	14						transport vesicle	metal ion binding|protein binding			ovary(2)	2	Breast(36;3.18e-05)																	---	---	---	---
GDF6	392255	broad.mit.edu	37	8	97157065	97157065	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:97157065T>C	uc003yhp.2	-	2	1194	c.1094A>G	c.(1093-1095)GAG>GGG	p.E365G		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	365					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)																	---	---	---	---
GDF6	392255	broad.mit.edu	37	8	97157131	97157131	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:97157131C>T	uc003yhp.2	-	2	1128	c.1028G>A	c.(1027-1029)GGC>GAC	p.G343D		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	343					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)																	---	---	---	---
LAPTM4B	55353	broad.mit.edu	37	8	98827574	98827574	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98827574C>T	uc003yia.2	+	3	659	c.503C>T	c.(502-504)GCG>GTG	p.A168V	LAPTM4B_uc010mbg.2_Intron	NM_018407	NP_060877	Q86VI4	LAP4B_HUMAN	lysosomal associated transmembrane protein 4	221	Helical; (Potential).				transport	endomembrane system|integral to membrane	protein binding			skin(1)	1	Breast(36;1.59e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.149)															---	---	---	---
MATN2	4147	broad.mit.edu	37	8	98954133	98954133	+	Intron	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98954133A>T	uc003yic.2	+						MATN2_uc003yib.1_Intron|MATN2_uc010mbh.1_Intron|MATN2_uc003yid.2_Intron|MATN2_uc003yie.1_Intron|MATN2_uc010mbi.1_Intron	NM_002380	NP_002371			matrilin 2 isoform a precursor							proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)															---	---	---	---
VPS13B	157680	broad.mit.edu	37	8	100866085	100866085	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:100866085A>G	uc003yiv.2	+	56	10654	c.10543A>G	c.(10543-10545)ATC>GTC	p.I3515V	VPS13B_uc003yiw.2_Missense_Mutation_p.I3490V	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3515					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)															---	---	---	---
RGS22	26166	broad.mit.edu	37	8	101018332	101018332	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101018332C>T	uc003yjb.1	-	16	2562	c.2367G>A	c.(2365-2367)GAG>GAA	p.E789E	RGS22_uc003yja.1_Silent_p.E608E|RGS22_uc003yjc.1_Silent_p.E777E|RGS22_uc011lgz.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	789					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)															---	---	---	---
FBXO43	286151	broad.mit.edu	37	8	101153265	101153265	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101153265T>C	uc003yjd.2	-	2	1930	c.1217A>G	c.(1216-1218)GAC>GGC	p.D406G	FBXO43_uc003yje.2_Missense_Mutation_p.D372G|FBXO43_uc010mbp.1_Missense_Mutation_p.D406G	NM_001029860	NP_001025031	Q4G163	FBX43_HUMAN	F-box protein 43 isoform b	406					meiosis		zinc ion binding			kidney(1)|skin(1)	2	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.17e-09)|all cancers(13;1.34e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)															---	---	---	---
POLR2K	5440	broad.mit.edu	37	8	101165527	101165527	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101165527G>A	uc003yjf.2	+	4	268	c.160G>A	c.(160-162)GTT>ATT	p.V54I		NM_005034	NP_005025	P53803	RPAB4_HUMAN	DNA directed RNA polymerase II polypeptide K	54					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription elongation from RNA polymerase III promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|zinc ion binding				0	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.59e-09)|all cancers(13;1.74e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)															---	---	---	---
SPAG1	6674	broad.mit.edu	37	8	101232554	101232554	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101232554C>T	uc003yjh.1	+	13	1669	c.1583C>T	c.(1582-1584)GCG>GTG	p.A528V	SPAG1_uc003yji.1_Missense_Mutation_p.A528V	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	528	TPR 6.				single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)														---	---	---	---
RNF19A	25897	broad.mit.edu	37	8	101271043	101271043	+	Missense_Mutation	SNP	C	T	T	rs34606154		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101271043C>T	uc003yjj.1	-	11	2575	c.2258G>A	c.(2257-2259)CGC>CAC	p.R753H	RNF19A_uc003yjk.1_Missense_Mutation_p.R753H	NM_015435	NP_056250	Q9NV58	RN19A_HUMAN	ring finger protein 19	753	Interaction with CASR.				microtubule cytoskeleton organization|protein modification process	centrosome|integral to membrane	ligase activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(14;3.5e-05)|all_epithelial(15;8.91e-08)|Lung NSC(17;0.000615)|all_lung(17;0.00166)		Epithelial(11;3.06e-11)|all cancers(13;5.78e-09)|OV - Ovarian serous cystadenocarcinoma(57;2.24e-05)|STAD - Stomach adenocarcinoma(118;0.0525)															---	---	---	---
RNF19A	25897	broad.mit.edu	37	8	101277003	101277003	+	Missense_Mutation	SNP	C	T	T	rs138968684	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:101277003C>T	uc003yjj.1	-	7	1519	c.1202G>A	c.(1201-1203)CGC>CAC	p.R401H	RNF19A_uc003yjk.1_Missense_Mutation_p.R401H	NM_015435	NP_056250	Q9NV58	RN19A_HUMAN	ring finger protein 19	401					microtubule cytoskeleton organization|protein modification process	centrosome|integral to membrane	ligase activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(14;3.5e-05)|all_epithelial(15;8.91e-08)|Lung NSC(17;0.000615)|all_lung(17;0.00166)		Epithelial(11;3.06e-11)|all cancers(13;5.78e-09)|OV - Ovarian serous cystadenocarcinoma(57;2.24e-05)|STAD - Stomach adenocarcinoma(118;0.0525)															---	---	---	---
GRHL2	79977	broad.mit.edu	37	8	102570814	102570814	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:102570814C>A	uc010mbu.2	+	4	782	c.452C>A	c.(451-453)CCG>CAG	p.P151Q	GRHL2_uc011lhi.1_Missense_Mutation_p.P151Q	NM_024915	NP_079191	Q6ISB3	GRHL2_HUMAN	transcription factor CP2-like 3	151						cytoplasm|nucleus	DNA binding			ovary(2)|skin(1)	3	all_cancers(14;4.39e-08)|all_epithelial(15;4.09e-10)|Lung NSC(17;7.11e-06)|all_lung(17;1.44e-05)		Epithelial(11;5.81e-09)|all cancers(13;3.81e-07)|OV - Ovarian serous cystadenocarcinoma(57;0.000213)															---	---	---	---
NCALD	83988	broad.mit.edu	37	8	102731525	102731525	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:102731525G>A	uc003yke.2	-	2	702	c.333C>T	c.(331-333)GAC>GAT	p.D111D	NCALD_uc003ykf.2_Silent_p.D111D|NCALD_uc003ykg.2_Silent_p.D111D|NCALD_uc003ykh.2_Silent_p.D111D|NCALD_uc003yki.2_Silent_p.D111D|NCALD_uc003ykj.2_Silent_p.D111D|NCALD_uc003ykk.2_Silent_p.D111D|NCALD_uc003ykl.2_Silent_p.D111D	NM_032041	NP_114430	P61601	NCALD_HUMAN	neurocalcin delta	111	EF-hand 3.|2 (Potential).				synaptic transmission|vesicle-mediated transport	clathrin coat of trans-Golgi network vesicle|cytosol	actin binding|calcium ion binding|clathrin binding|tubulin binding				0	all_cancers(14;8.94e-08)|all_epithelial(15;7.03e-10)|Lung NSC(17;1.36e-05)|all_lung(17;2.7e-05)		all cancers(13;1.09e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000699)															---	---	---	---
NCALD	83988	broad.mit.edu	37	8	102731596	102731596	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:102731596C>T	uc003yke.2	-	2	631	c.262G>A	c.(262-264)GCC>ACC	p.A88T	NCALD_uc003ykf.2_Missense_Mutation_p.A88T|NCALD_uc003ykg.2_Missense_Mutation_p.A88T|NCALD_uc003ykh.2_Missense_Mutation_p.A88T|NCALD_uc003yki.2_Missense_Mutation_p.A88T|NCALD_uc003ykj.2_Missense_Mutation_p.A88T|NCALD_uc003ykk.2_Missense_Mutation_p.A88T|NCALD_uc003ykl.2_Missense_Mutation_p.A88T	NM_032041	NP_114430	P61601	NCALD_HUMAN	neurocalcin delta	88	EF-hand 2.				synaptic transmission|vesicle-mediated transport	clathrin coat of trans-Golgi network vesicle|cytosol	actin binding|calcium ion binding|clathrin binding|tubulin binding				0	all_cancers(14;8.94e-08)|all_epithelial(15;7.03e-10)|Lung NSC(17;1.36e-05)|all_lung(17;2.7e-05)		all cancers(13;1.09e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000699)															---	---	---	---
UBR5	51366	broad.mit.edu	37	8	103281197	103281197	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:103281197A>G	uc003ykr.1	-						UBR5_uc003yks.1_Intron|UBR5_uc003ykq.2_5'Flank	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)															---	---	---	---
FZD6	8323	broad.mit.edu	37	8	104312465	104312465	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:104312465A>G	uc003ylh.2	+	2	414	c.130A>G	c.(130-132)AAT>GAT	p.N44D	FZD6_uc003yli.2_Missense_Mutation_p.N44D|FZD6_uc003ylj.2_Missense_Mutation_p.N44D|FZD6_uc011lhn.1_Missense_Mutation_p.N10D|FZD6_uc011lho.1_5'UTR|FZD6_uc011lhp.1_5'UTR	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	44	FZ.|Extracellular (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)															---	---	---	---
FZD6	8323	broad.mit.edu	37	8	104340603	104340603	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:104340603C>T	uc003ylh.2	+	5	1784	c.1500C>T	c.(1498-1500)TGC>TGT	p.C500C	FZD6_uc003yli.2_Silent_p.C500C|FZD6_uc003ylj.2_Silent_p.C500C|FZD6_uc011lhn.1_Silent_p.C466C|FZD6_uc011lho.1_Silent_p.C195C|FZD6_uc011lhp.1_Silent_p.C445C	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	500	Lys-Thr-X-X-X-Trp motif, mediates interaction with the PDZ domain of Dvl family members (By similarity).|Cytoplasmic (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)															---	---	---	---
CTHRC1	115908	broad.mit.edu	37	8	104390323	104390323	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:104390323A>G	uc003ylk.2	+	3	540	c.441A>G	c.(439-441)CTA>CTG	p.L147L		NM_138455	NP_612464	Q96CG8	CTHR1_HUMAN	collagen triple helix repeat containing 1	147						collagen				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(57;2.79e-06)|STAD - Stomach adenocarcinoma(118;0.197)															---	---	---	---
LRP12	29967	broad.mit.edu	37	8	105509882	105509882	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:105509882G>A	uc003yma.2	-	5	993	c.898C>T	c.(898-900)CGC>TGC	p.R300C	LRP12_uc003ymb.2_Missense_Mutation_p.R281C|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	300	Extracellular (Potential).|CUB 2.				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)															---	---	---	---
ANGPT1	284	broad.mit.edu	37	8	108264151	108264151	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:108264151G>A	uc003ymn.2	-	9	1897	c.1429C>T	c.(1429-1431)CAC>TAC	p.H477Y	ANGPT1_uc011lhv.1_Missense_Mutation_p.H277Y|ANGPT1_uc003ymo.2_Missense_Mutation_p.H476Y	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	477	Fibrinogen C-terminal.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)															---	---	---	---
ANGPT1	284	broad.mit.edu	37	8	108296925	108296925	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:108296925T>C	uc003ymn.2	-	7	1658	c.1190A>G	c.(1189-1191)GAA>GGA	p.E397G	ANGPT1_uc011lhv.1_Missense_Mutation_p.E197G|ANGPT1_uc003ymo.2_Missense_Mutation_p.E396G|ANGPT1_uc003ymp.3_Missense_Mutation_p.E196G	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	397	Fibrinogen C-terminal.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)															---	---	---	---
RSPO2	340419	broad.mit.edu	37	8	108972962	108972962	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:108972962G>A	uc003yms.2	-	4	1025	c.367C>T	c.(367-369)CGT>TGT	p.R123C	RSPO2_uc003ymq.2_Missense_Mutation_p.R56C|RSPO2_uc003ymr.2_Missense_Mutation_p.R60C	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	123	FU.				Wnt receptor signaling pathway	extracellular region	heparin binding			skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)															---	---	---	---
CSMD3	114788	broad.mit.edu	37	8	113253974	113253974	+	Silent	SNP	C	A	A	rs149077281	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113253974C>A	uc003ynu.2	-	66	10602	c.10443G>T	c.(10441-10443)CTG>CTT	p.L3481L	CSMD3_uc003yns.2_Silent_p.L2683L|CSMD3_uc003ynt.2_Silent_p.L3441L|CSMD3_uc011lhx.1_Silent_p.L3312L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3481	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63															HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			---	---	---	---
CSMD3	114788	broad.mit.edu	37	8	113293565	113293565	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113293565T>A	uc003ynu.2	-	59	9505	c.9346A>T	c.(9346-9348)AAC>TAC	p.N3116Y	CSMD3_uc003yns.2_Missense_Mutation_p.N2318Y|CSMD3_uc003ynt.2_Missense_Mutation_p.N3076Y|CSMD3_uc011lhx.1_Missense_Mutation_p.N2947Y	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3116	Extracellular (Potential).|Sushi 23.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63															HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			---	---	---	---
CSMD3	114788	broad.mit.edu	37	8	113299389	113299389	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113299389G>A	uc003ynu.2	-	58	9394	c.9235C>T	c.(9235-9237)CGT>TGT	p.R3079C	CSMD3_uc003yns.2_Missense_Mutation_p.R2281C|CSMD3_uc003ynt.2_Missense_Mutation_p.R3039C|CSMD3_uc011lhx.1_Missense_Mutation_p.R2910C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3079	Extracellular (Potential).|Sushi 22.		R -> H (in a colorectal cancer sample; somatic mutation).			integral to membrane|plasma membrane		p.R3079H(1)		ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63															HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			---	---	---	---
CSMD3	114788	broad.mit.edu	37	8	113966981	113966981	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113966981G>A	uc003ynu.2	-	8	1511	c.1352C>T	c.(1351-1353)GCC>GTC	p.A451V	CSMD3_uc003ynt.2_Missense_Mutation_p.A411V|CSMD3_uc011lhx.1_Missense_Mutation_p.A347V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	451	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63															HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			---	---	---	---
TRPS1	7227	broad.mit.edu	37	8	116632282	116632282	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:116632282C>T	uc003ynz.2	-	2	463	c.4G>A	c.(4-6)GTC>ATC	p.V2I	TRPS1_uc011lhy.1_Missense_Mutation_p.V6I|TRPS1_uc003yny.2_Missense_Mutation_p.V15I|TRPS1_uc010mcy.2_Missense_Mutation_p.V2I	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	2					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)											Langer-Giedion_syndrome				---	---	---	---
TNFRSF11B	4982	broad.mit.edu	37	8	119945383	119945383	+	Missense_Mutation	SNP	C	T	T	rs116321565	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:119945383C>T	uc003yon.3	-	2	510	c.187G>A	c.(187-189)GCC>ACC	p.A63T	TNFRSF11B_uc010mdc.1_RNA	NM_002546	NP_002537	O00300	TR11B_HUMAN	osteoprotegerin precursor	63					apoptosis|skeletal system development		cytokine activity|receptor activity			central_nervous_system(2)	2	all_cancers(13;3.71e-26)|Lung NSC(37;1.69e-07)|Ovarian(258;0.018)|all_neural(195;0.0592)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00193)															---	---	---	---
ENPP2	5168	broad.mit.edu	37	8	120638800	120638800	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:120638800C>T	uc003yot.1	-						ENPP2_uc003yos.1_Intron|ENPP2_uc010mdd.1_Intron	NM_001040092	NP_001035181			autotaxin isoform 2 preproprotein						cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)															---	---	---	---
DEPDC6	64798	broad.mit.edu	37	8	121013832	121013832	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:121013832C>T	uc003yow.3	+	5	860	c.673C>T	c.(673-675)CGA>TGA	p.R225*	DEPDC6_uc011lid.1_Nonsense_Mutation_p.R124*	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	225	Poly-Arg.				intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)															---	---	---	---
COL14A1	7373	broad.mit.edu	37	8	121228677	121228677	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:121228677T>C	uc003yox.2	+	14	1950	c.1685T>C	c.(1684-1686)ATC>ACC	p.I562T	COL14A1_uc003yoy.2_Missense_Mutation_p.I240T|COL14A1_uc010mde.1_Missense_Mutation_p.I240T	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	562	Fibronectin type-III 4.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)															---	---	---	---
COL14A1	7373	broad.mit.edu	37	8	121259909	121259909	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:121259909G>A	uc003yox.2	+	21	2802	c.2537G>A	c.(2536-2538)CGC>CAC	p.R846H	COL14A1_uc003yoy.2_Missense_Mutation_p.R524H	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	846	Fibronectin type-III 7.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)															---	---	---	---
HAS2	3037	broad.mit.edu	37	8	122641065	122641065	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:122641065C>T	uc003yph.2	-	2	1054	c.516G>A	c.(514-516)ACG>ACA	p.T172T		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	172	Cytoplasmic (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)															---	---	---	---
ZHX2	22882	broad.mit.edu	37	8	123964440	123964440	+	Silent	SNP	C	T	T	rs142739771		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:123964440C>T	uc003ypk.1	+	3	1257	c.690C>T	c.(688-690)GGC>GGT	p.G230G		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	230	Required for homodimerization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)															---	---	---	---
WDYHV1	55093	broad.mit.edu	37	8	124453601	124453601	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124453601C>T	uc003yqn.1	+	6	689	c.564C>T	c.(562-564)GGC>GGT	p.G188G	WDYHV1_uc011lij.1_Silent_p.G128G|WDYHV1_uc003yqo.1_RNA	NM_018024	NP_060494	Q96HA8	NTAQ1_HUMAN	WDYHV motif containing 1	188					protein modification process	cytosol|nucleus	protein binding|protein N-terminal glutamine amidohydrolase activity			ovary(1)|skin(1)	2																		---	---	---	---
NDUFB9	4715	broad.mit.edu	37	8	125555399	125555399	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125555399C>T	uc003yrg.3	+	2	258	c.173C>T	c.(172-174)GCG>GTG	p.A58V	NDUFB9_uc011lim.1_Missense_Mutation_p.A58V	NM_005005	NP_004996	Q9Y6M9	NDUB9_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	58					mitochondrial electron transport, NADH to ubiquinone|sensory perception of sound|transport	mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			ovary(1)|skin(1)	2	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)		NADH(DB00157)													---	---	---	---
MTSS1	9788	broad.mit.edu	37	8	125565387	125565387	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125565387G>A	uc003yrk.2	-	14	2648	c.2114C>T	c.(2113-2115)GCC>GTC	p.A705V	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_Missense_Mutation_p.A354V|MTSS1_uc011lin.1_Missense_Mutation_p.A479V|MTSS1_uc011lio.1_Missense_Mutation_p.A595V|MTSS1_uc003yri.2_Missense_Mutation_p.A423V|MTSS1_uc003yrj.2_Missense_Mutation_p.A680V|MTSS1_uc003yrl.2_Missense_Mutation_p.A709V	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	705	Pro-rich.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)															---	---	---	---
MTSS1	9788	broad.mit.edu	37	8	125568594	125568594	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125568594C>T	uc003yrk.2	-	12	1817	c.1283G>A	c.(1282-1284)CGC>CAC	p.R428H	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_5'UTR|MTSS1_uc011lin.1_Missense_Mutation_p.R202H|MTSS1_uc011lio.1_Missense_Mutation_p.R318H|MTSS1_uc003yri.2_Missense_Mutation_p.R146H|MTSS1_uc003yrj.2_Missense_Mutation_p.R403H|MTSS1_uc003yrl.2_Missense_Mutation_p.R432H	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	428					actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)															---	---	---	---
MTSS1	9788	broad.mit.edu	37	8	125603485	125603485	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125603485G>A	uc003yrk.2	-						MTSS1_uc003yrj.2_Intron|MTSS1_uc003yrl.2_Intron	NM_014751	NP_055566			metastasis suppressor 1						actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)															---	---	---	---
SQLE	6713	broad.mit.edu	37	8	126021249	126021249	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:126021249C>T	uc011liq.1	+	5	1785	c.859C>T	c.(859-861)CTT>TTT	p.L287F		NM_003129	NP_003120	Q14534	ERG1_HUMAN	squalene epoxidase	287					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome	flavin adenine dinucleotide binding|squalene monooxygenase activity			ovary(1)|breast(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)		Butenafine(DB01091)|Naftifine(DB00735)|Terbinafine(DB00857)													---	---	---	---
KIAA0196	9897	broad.mit.edu	37	8	126040911	126040911	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:126040911G>A	uc003yrt.2	-	28	3703	c.3374C>T	c.(3373-3375)GCC>GTC	p.A1125V	KIAA0196_uc011lir.1_Missense_Mutation_p.A977V|KIAA0196_uc003yru.1_Missense_Mutation_p.P648S	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	1125					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)															---	---	---	---
KIAA0196	9897	broad.mit.edu	37	8	126056869	126056869	+	Missense_Mutation	SNP	C	T	T	rs142078144	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:126056869C>T	uc003yrt.2	-	21	2905	c.2576G>A	c.(2575-2577)CGC>CAC	p.R859H	KIAA0196_uc011lir.1_Missense_Mutation_p.R711H|KIAA0196_uc003yru.1_Missense_Mutation_p.R433H	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	859					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)															---	---	---	---
MIR1206	100302170	broad.mit.edu	37	8	129021199	129021199	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:129021199G>A	hsa-mir-1206|MI0006339	+			c.56G>A			PVT1_uc010mdq.2_Intron|PVT1_uc003ysl.2_Intron																	0																		---	---	---	---
GSDMC	56169	broad.mit.edu	37	8	130789633	130789633	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:130789633C>A	uc003ysr.2	-	2	1083	c.201G>T	c.(199-201)GAG>GAT	p.E67D		NM_031415	NP_113603	Q9BYG8	GSDMC_HUMAN	melanoma-derived leucine zipper, extra-nuclear	67						mitochondrion				ovary(2)|skin(1)	3																		---	---	---	---
ASAP1	50807	broad.mit.edu	37	8	131070228	131070228	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131070228A>G	uc003yta.1	-	28	3315	c.3287T>C	c.(3286-3288)GTC>GCC	p.V1096A	ASAP1_uc003ysz.1_Missense_Mutation_p.V907A|ASAP1_uc011liw.1_Missense_Mutation_p.V1089A	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	1096	SH3.				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																		---	---	---	---
ASAP1	50807	broad.mit.edu	37	8	131092151	131092151	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131092151G>A	uc003yta.1	-	25	2667	c.2639C>T	c.(2638-2640)TCG>TTG	p.S880L	ASAP1_uc003ysz.1_Missense_Mutation_p.S691L|ASAP1_uc011liw.1_Missense_Mutation_p.S873L	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	880	Pro-rich.				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																		---	---	---	---
ASAP1	50807	broad.mit.edu	37	8	131104379	131104379	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131104379G>A	uc003yta.1	-	24	2440	c.2412C>T	c.(2410-2412)GGC>GGT	p.G804G	ASAP1_uc003ysz.1_Silent_p.G615G|ASAP1_uc011liw.1_Silent_p.G797G	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	804	Pro-rich.				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																		---	---	---	---
EFR3A	23167	broad.mit.edu	37	8	133014887	133014887	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133014887G>A	uc003yte.2	+	21	2445	c.2244G>A	c.(2242-2244)AGG>AGA	p.R748R		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	748						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)															---	---	---	---
PHF20L1	51105	broad.mit.edu	37	8	133806768	133806768	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133806768C>T	uc003ytt.2	+	3	521	c.196C>T	c.(196-198)CGA>TGA	p.R66*	PHF20L1_uc003ytr.2_Nonsense_Mutation_p.R66*|PHF20L1_uc010mdv.2_Nonsense_Mutation_p.R66*|PHF20L1_uc003yts.2_Nonsense_Mutation_p.R66*|PHF20L1_uc011lja.1_Nonsense_Mutation_p.R66*|PHF20L1_uc003ytu.1_RNA|PHF20L1_uc003ytq.2_Nonsense_Mutation_p.R66*	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	66	Tudor 1.						nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)															---	---	---	---
PHF20L1	51105	broad.mit.edu	37	8	133829268	133829268	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133829268G>A	uc003ytt.2	+	11	1644	c.1319G>A	c.(1318-1320)GGG>GAG	p.G440E	PHF20L1_uc003yts.2_Missense_Mutation_p.G440E|PHF20L1_uc011lja.1_Missense_Mutation_p.G414E|PHF20L1_uc003ytu.1_Intron	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	440							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)															---	---	---	---
PHF20L1	51105	broad.mit.edu	37	8	133848857	133848857	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133848857A>G	uc003ytt.2	+	16	2307	c.1982A>G	c.(1981-1983)CAG>CGG	p.Q661R	PHF20L1_uc011lja.1_Missense_Mutation_p.Q635R	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	661							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)															---	---	---	---
TG	7038	broad.mit.edu	37	8	133898950	133898950	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133898950C>T	uc003ytw.2	+	9	1374	c.1333C>T	c.(1333-1335)CGA>TGA	p.R445*		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	445					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)														---	---	---	---
TG	7038	broad.mit.edu	37	8	133931753	133931753	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133931753C>A	uc003ytw.2	+	21	4552	c.4511C>A	c.(4510-4512)GCT>GAT	p.A1504D	TG_uc010mdw.2_Missense_Mutation_p.A263D|TG_uc011ljb.1_5'UTR|TG_uc003ytx.1_RNA	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1504					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)														---	---	---	---
TG	7038	broad.mit.edu	37	8	133961096	133961096	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133961096A>G	uc003ytw.2	+	27	5350	c.5309A>G	c.(5308-5310)GAA>GGA	p.E1770G	TG_uc010mdw.2_Missense_Mutation_p.E529G|TG_uc011ljb.1_Missense_Mutation_p.E139G	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1770	Type IIIB.				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)														---	---	---	---
WISP1	8840	broad.mit.edu	37	8	134232921	134232921	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:134232921C>T	uc003yub.2	+	3	523	c.447C>T	c.(445-447)GGC>GGT	p.G149G	WISP1_uc003yuc.2_Intron|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	149	VWFC.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)															---	---	---	---
WISP1	8840	broad.mit.edu	37	8	134237815	134237815	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:134237815A>G	uc003yub.2	+	4	869	c.793A>G	c.(793-795)ACA>GCA	p.T265A	WISP1_uc003yuc.2_Missense_Mutation_p.T178A|WISP1_uc010meb.2_Missense_Mutation_p.T93A|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	265					cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)															---	---	---	---
NDRG1	10397	broad.mit.edu	37	8	134276800	134276800	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:134276800G>T	uc003yuh.2	-	4	781	c.195C>A	c.(193-195)ATC>ATA	p.I65I	NDRG1_uc003yug.2_Silent_p.I65I|NDRG1_uc010mee.2_Intron|NDRG1_uc010mef.2_5'UTR|NDRG1_uc011ljh.1_5'UTR|NDRG1_uc011lji.1_Intron	NM_001135242	NP_001128714	Q92597	NDRG1_HUMAN	N-myc downstream regulated 1	65					cellular response to hypoxia|response to metal ion	cytoplasm|microtubule cytoskeleton|nucleus|plasma membrane	protein binding			ovary(4)	4	all_epithelial(106;4.26e-24)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)															---	---	---	---
ZFAT	57623	broad.mit.edu	37	8	135524778	135524778	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:135524778C>T	uc003yup.2	-	14	3476	c.3301G>A	c.(3301-3303)GTT>ATT	p.V1101I	ZFAT_uc011ljj.1_Missense_Mutation_p.V220I|ZFAT_uc003yun.2_Missense_Mutation_p.V1089I|ZFAT_uc003yuo.2_Missense_Mutation_p.V1089I|ZFAT_uc010meh.2_Intron|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.V1089I|ZFAT_uc010mej.2_Missense_Mutation_p.V1039I	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	1101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)															---	---	---	---
ZFAT	57623	broad.mit.edu	37	8	135614866	135614866	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:135614866C>T	uc003yup.2	-	6	1271	c.1096G>A	c.(1096-1098)GTC>ATC	p.V366I	ZFAT_uc003yun.2_Missense_Mutation_p.V354I|ZFAT_uc003yuo.2_Missense_Mutation_p.V354I|ZFAT_uc010meh.2_Missense_Mutation_p.V354I|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.V354I|ZFAT_uc010mej.2_Missense_Mutation_p.V304I|ZFAT_uc003yur.2_Missense_Mutation_p.V354I	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	366	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)															---	---	---	---
COL22A1	169044	broad.mit.edu	37	8	139668133	139668133	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139668133C>A	uc003yvd.2	-						COL22A1_uc011ljo.1_Intron	NM_152888	NP_690848			collagen, type XXII, alpha 1						cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)												HNSCC(7;0.00092)			---	---	---	---
COL22A1	169044	broad.mit.edu	37	8	139668154	139668154	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139668154T>C	uc003yvd.2	-	45	3766	c.3319A>G	c.(3319-3321)AAT>GAT	p.N1107D	COL22A1_uc011ljo.1_Missense_Mutation_p.N387D	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1107	Pro-rich.|Gly-rich.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)												HNSCC(7;0.00092)			---	---	---	---
COL22A1	169044	broad.mit.edu	37	8	139696666	139696666	+	Splice_Site	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139696666A>G	uc003yvd.2	-	39	3459	c.3012_splice	c.e39+1	p.K1004_splice	COL22A1_uc011ljo.1_Splice_Site_p.K304_splice	NM_152888	NP_690848			collagen, type XXII, alpha 1						cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)												HNSCC(7;0.00092)			---	---	---	---
COL22A1	169044	broad.mit.edu	37	8	139833507	139833507	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139833507C>T	uc003yvd.2	-	7	1564	c.1117G>A	c.(1117-1119)GCC>ACC	p.A373T		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	373	TSP N-terminal.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)												HNSCC(7;0.00092)			---	---	---	---
TRAPPC9	83696	broad.mit.edu	37	8	141321405	141321405	+	Missense_Mutation	SNP	C	T	T	rs148453804	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:141321405C>T	uc003yvj.2	-	10	1698	c.1564G>A	c.(1564-1566)GCC>ACC	p.A522T	TRAPPC9_uc003yvh.2_Missense_Mutation_p.A620T|TRAPPC9_uc003yvi.1_Missense_Mutation_p.A513T	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	522					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2																		---	---	---	---
EIF2C2	27161	broad.mit.edu	37	8	141570572	141570572	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:141570572C>T	uc003yvn.2	-	5	596	c.556G>A	c.(556-558)GAA>AAA	p.E186K	EIF2C2_uc010men.2_Missense_Mutation_p.E109K|EIF2C2_uc010meo.2_Missense_Mutation_p.E186K	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	186					mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)															---	---	---	---
DENND3	22898	broad.mit.edu	37	8	142151331	142151331	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142151331G>A	uc003yvy.2	+	4	569	c.291G>A	c.(289-291)ACG>ACA	p.T97T	DENND3_uc003yvw.1_Silent_p.T110T|DENND3_uc003yvx.2_Missense_Mutation_p.R176H|DENND3_uc010mep.2_Silent_p.T110T	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	97										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)															---	---	---	---
DENND3	22898	broad.mit.edu	37	8	142202560	142202560	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142202560G>A	uc003yvy.2	+						DENND3_uc010mep.2_Intron|DENND3_uc003ywa.1_Intron|DENND3_uc003ywb.2_Intron	NM_014957	NP_055772			DENN/MADD domain containing 3											ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)															---	---	---	---
PTP4A3	11156	broad.mit.edu	37	8	142432393	142432393	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142432393G>A	uc003ywg.1	+	1	387	c.53G>A	c.(52-54)CGC>CAC	p.R18H	PTP4A3_uc003ywh.1_Missense_Mutation_p.R18H|PTP4A3_uc010met.1_Missense_Mutation_p.R18H	NM_032611	NP_116000	O75365	TP4A3_HUMAN	protein tyrosine phosphatase type IVA, member 3	18						early endosome|plasma membrane	identical protein binding|prenylated protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0	all_cancers(97;2.55e-15)|all_epithelial(106;1.39e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0474)															---	---	---	---
TSNARE1	203062	broad.mit.edu	37	8	143396392	143396392	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:143396392G>A	uc003ywk.2	-	8	1164	c.1046C>T	c.(1045-1047)GCC>GTC	p.A349V	TSNARE1_uc011lju.1_Missense_Mutation_p.A348V|TSNARE1_uc003ywj.2_Missense_Mutation_p.A349V|TSNARE1_uc003ywl.3_Missense_Mutation_p.A129V	NM_145003	NP_659440	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1	349					vesicle-mediated transport	integral to membrane					0	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)																	---	---	---	---
GLI4	2738	broad.mit.edu	37	8	144358659	144358659	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144358659C>T	uc003yxx.2	+	4	901	c.816C>T	c.(814-816)TGC>TGT	p.C272C	ZFP41_uc003yxv.2_RNA	NM_138465	NP_612474	P10075	GLI4_HUMAN	GLI-Kruppel family member GLI4	272	C2H2-type 4.					nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)															---	---	---	---
TOP1MT	116447	broad.mit.edu	37	8	144413484	144413484	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144413484C>A	uc003yxz.2	-	2	167	c.148G>T	c.(148-150)GGG>TGG	p.G50W	TOP1MT_uc011lkd.1_5'UTR|TOP1MT_uc011lke.1_5'UTR|TOP1MT_uc010mfb.2_5'UTR|TOP1MT_uc010mfd.1_5'UTR	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	50					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)													---	---	---	---
EEF1D	1936	broad.mit.edu	37	8	144663239	144663239	+	Silent	SNP	C	T	T	rs138645618		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144663239C>T	uc011lki.1	-	5	644	c.375G>A	c.(373-375)ACG>ACA	p.T125T	NAPRT1_uc003yym.3_5'Flank|NAPRT1_uc003yyn.3_5'Flank|NAPRT1_uc011lkh.1_5'Flank|NAPRT1_uc003yyo.3_5'Flank|EEF1D_uc003yyp.1_Silent_p.T467T|EEF1D_uc003yyq.1_Silent_p.T541T|EEF1D_uc011lkj.1_Silent_p.T490T|EEF1D_uc003yyr.2_Silent_p.T491T|EEF1D_uc003yyt.2_Silent_p.T491T|EEF1D_uc011lkk.1_Silent_p.T125T|EEF1D_uc003yys.2_Silent_p.T125T|EEF1D_uc003yyv.2_Silent_p.T101T|EEF1D_uc003yyu.2_Silent_p.T125T|EEF1D_uc011lkl.1_Silent_p.T106T	NM_001130057	NP_001123529	P29692	EF1D_HUMAN	eukaryotic translation elongation factor 1 delta	125					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)															---	---	---	---
EPPK1	83481	broad.mit.edu	37	8	144945091	144945091	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144945091C>T	uc003zaa.1	-	1	2344	c.2331G>A	c.(2329-2331)ACG>ACA	p.T777T		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	777	Plectin 15.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)															---	---	---	---
PARP10	84875	broad.mit.edu	37	8	145059646	145059646	+	Missense_Mutation	SNP	G	C	C	rs34804171		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145059646G>C	uc003zal.3	-	4	715	c.607C>G	c.(607-609)CCC>GCC	p.P203A	PARP10_uc003zak.3_5'Flank|PARP10_uc011lku.1_Missense_Mutation_p.P215A|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Missense_Mutation_p.P203A|PARP10_uc010mfn.1_Missense_Mutation_p.P118A|PARP10_uc010mfo.1_Silent_p.G95G	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	203						Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)															---	---	---	---
MAF1	84232	broad.mit.edu	37	8	145161285	145161285	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145161285C>T	uc003zbc.1	+	5	919	c.418C>T	c.(418-420)CGG>TGG	p.R140W	SHARPIN_uc003zba.2_5'Flank|SHARPIN_uc003zbb.2_5'Flank|KIAA1875_uc003zbd.3_5'Flank|KIAA1875_uc011lky.1_5'Flank	NM_032272	NP_115648	Q9H063	MAF1_HUMAN	MAF1 protein	140					negative regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	cytoplasm|nucleus					0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.1e-42)|Epithelial(56;1.23e-40)|all cancers(56;4.84e-36)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)															---	---	---	---
RECQL4	9401	broad.mit.edu	37	8	145739054	145739054	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145739054C>T	uc003zdj.2	-	13	2133	c.2101G>A	c.(2101-2103)GAT>AAT	p.D701N		NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	701	Helicase C-terminal.				DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	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)					N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				---	---	---	---
ARHGAP39	80728	broad.mit.edu	37	8	145770858	145770858	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145770858C>T	uc003zdt.1	-	7	2851	c.2296G>A	c.(2296-2298)GTG>ATG	p.V766M	ARHGAP39_uc011llk.1_Missense_Mutation_p.V766M|ARHGAP39_uc003zds.1_Missense_Mutation_p.V766M	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	766	MyTH4.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0																		---	---	---	---
C8orf33	65265	broad.mit.edu	37	8	146278539	146278539	+	Intron	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:146278539G>T	uc003zfc.3	+						C8orf33_uc003zfd.2_Intron	NM_023080	NP_075568			hypothetical protein LOC65265												0	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;9.1e-38)|all cancers(56;7.37e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.243)														---	---	---	---
DOCK8	81704	broad.mit.edu	37	9	418150	418150	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:418150G>T	uc003zgf.2	+	30	3895	c.3783G>T	c.(3781-3783)CTG>CTT	p.L1261L	DOCK8_uc010mgu.2_Silent_p.L563L|DOCK8_uc010mgv.2_Silent_p.L1161L|DOCK8_uc003zgk.2_Silent_p.L719L	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	1261					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)														---	---	---	---
SMARCA2	6595	broad.mit.edu	37	9	2058432	2058432	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:2058432C>T	uc003zhc.2	+	8	1588	c.1489C>T	c.(1489-1491)CGG>TGG	p.R497W	SMARCA2_uc003zhd.2_Missense_Mutation_p.R497W|SMARCA2_uc010mha.2_Missense_Mutation_p.R488W	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	497	HSA.				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)														---	---	---	---
SMARCA2	6595	broad.mit.edu	37	9	2115922	2115922	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:2115922C>T	uc003zhc.2	+	25	3656	c.3557C>T	c.(3556-3558)GCG>GTG	p.A1186V	SMARCA2_uc003zhd.2_Missense_Mutation_p.A1186V|SMARCA2_uc010mha.2_Missense_Mutation_p.A1119V	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1186	Helicase C-terminal.				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)														---	---	---	---
KCNV2	169522	broad.mit.edu	37	9	2719001	2719001	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:2719001G>A	uc003zho.1	+	1	1476	c.1262G>A	c.(1261-1263)GGC>GAC	p.G421D		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	421	Helical; Name=Segment S5; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)														---	---	---	---
KIAA0020	9933	broad.mit.edu	37	9	2811408	2811408	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:2811408C>T	uc003zhp.1	-	15	1684	c.1588G>A	c.(1588-1590)GCC>ACC	p.A530T	KIAA0020_uc010mhc.1_Missense_Mutation_p.A529T|KIAA0020_uc003zhq.1_Missense_Mutation_p.A529T	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	530						endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)														---	---	---	---
KIAA0020	9933	broad.mit.edu	37	9	2824797	2824797	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:2824797G>A	uc003zhp.1	-	11	1150	c.1054C>T	c.(1054-1056)CGC>TGC	p.R352C	KIAA0020_uc010mhc.1_Missense_Mutation_p.R351C|KIAA0020_uc003zhq.1_Missense_Mutation_p.R351C	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	352	Pumilio 4.|PUM-HD.					endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)														---	---	---	---
KIAA0020	9933	broad.mit.edu	37	9	2829854	2829854	+	Missense_Mutation	SNP	C	T	T	rs62534389		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:2829854C>T	uc003zhp.1	-	8	868	c.772G>A	c.(772-774)GCA>ACA	p.A258T	KIAA0020_uc010mhc.1_Missense_Mutation_p.A257T|KIAA0020_uc003zhq.1_Missense_Mutation_p.A257T	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	258	Pumilio 3.|PUM-HD.					endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)														---	---	---	---
C9orf68	55064	broad.mit.edu	37	9	4625438	4625438	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:4625438C>T	uc011llz.1	-	5	622	c.384G>A	c.(382-384)GCG>GCA	p.A128A	C9orf68_uc003zik.2_RNA|C9orf68_uc003zil.2_RNA|C9orf68_uc010mhj.2_Silent_p.A186A|C9orf68_uc011lly.1_Silent_p.A63A	NM_001039395	NP_001034484	B4DIY4	B4DIY4_HUMAN	hypothetical protein LOC55064	128											0		Breast(48;0.0456)		GBM - Glioblastoma multiforme(50;0.0222)														---	---	---	---
AK3	50808	broad.mit.edu	37	9	4718478	4718478	+	Silent	SNP	C	T	T	rs141049546		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:4718478C>T	uc003ziq.1	-	4	644	c.504G>A	c.(502-504)ACG>ACA	p.T168T	AK3_uc003zip.1_RNA|AK3_uc011lma.1_Silent_p.T128T|AK3_uc003zir.1_Silent_p.T98T	NM_016282	NP_057366	Q9UIJ7	KAD3_HUMAN	adenylate kinase 3	168					blood coagulation	mitochondrial matrix	ATP binding|GTP binding|nucleoside triphosphate adenylate kinase activity			ovary(2)	2	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.0302)														---	---	---	---
RCL1	10171	broad.mit.edu	37	9	4844593	4844593	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:4844593C>T	uc003zis.2	+	7	1037	c.779C>T	c.(778-780)GCC>GTC	p.A260V	RCL1_uc003zit.2_Missense_Mutation_p.A102V|RCL1_uc010mhk.1_Missense_Mutation_p.A102V|RCL1_uc010mhl.1_Missense_Mutation_p.A74V	NM_005772	NP_005763	Q9Y2P8	RCL1_HUMAN	RNA terminal phosphate cyclase-like 1	260					ribosome biogenesis|RNA processing	nucleolus	RNA-3'-phosphate cyclase activity				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0206)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0244)														---	---	---	---
KIAA2026	158358	broad.mit.edu	37	9	5922824	5922824	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:5922824T>C	uc003zjq.3	-	8	3388	c.3172A>G	c.(3172-3174)ACA>GCA	p.T1058A	KIAA2026_uc010mht.2_Missense_Mutation_p.T233A	NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	1058										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)														---	---	---	---
UHRF2	115426	broad.mit.edu	37	9	6504628	6504628	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:6504628C>T	uc003zjy.2	+	15	2539	c.2199C>T	c.(2197-2199)TGC>TGT	p.C733C	UHRF2_uc003zjz.2_RNA|UHRF2_uc003zkb.2_RNA	NM_152896	NP_690856	Q96PU4	UHRF2_HUMAN	ubiquitin-like with PHD and ring finger domains	733	RING-type.				cell cycle|cell differentiation|cell proliferation|protein autoubiquitination|regulation of cell cycle|ubiquitin-dependent protein catabolic process	nucleus	DNA binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0392)|Lung(218;0.129)														---	---	---	---
NFIB	4781	broad.mit.edu	37	9	14150263	14150263	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:14150263C>T	uc003zle.2	-	5	1122	c.687G>A	c.(685-687)ACG>ACA	p.T229T	NFIB_uc003zld.2_5'UTR|NFIB_uc003zlf.2_Silent_p.T229T|NFIB_uc011lmo.1_Silent_p.T229T	NM_005596	NP_005587	O00712	NFIB_HUMAN	nuclear factor I/B	229					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								---	---	---	---
FREM1	158326	broad.mit.edu	37	9	14775838	14775838	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:14775838G>A	uc003zlm.2	-	25	5396	c.4806C>T	c.(4804-4806)GGC>GGT	p.G1602G	FREM1_uc010mic.2_Intron|FREM1_uc003zlk.2_5'Flank|FREM1_uc003zll.2_Silent_p.G138G	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1602	CSPG 11.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)														---	---	---	---
PSIP1	11168	broad.mit.edu	37	9	15472661	15472661	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15472661G>A	uc003zlv.3	-	10	1276	c.946C>T	c.(946-948)CGC>TGC	p.R316C	PSIP1_uc003zlw.3_Missense_Mutation_p.R316C|PSIP1_uc003zlz.3_Missense_Mutation_p.R316C|PSIP1_uc003zma.3_Missense_Mutation_p.R307C|PSIP1_uc003zly.2_Missense_Mutation_p.R316C	NM_033222	NP_150091	O75475	PSIP1_HUMAN	PC4 and SFRS1 interacting protein 1 isoform 2	316	Potential.				initiation of viral infection|interspecies interaction between organisms|nuclear mRNA 5'-splice site recognition|provirus integration|regulation of transcription, DNA-dependent|response to heat|response to oxidative stress|transcription, DNA-dependent	cytosol|nuclear heterochromatin|nuclear periphery|nucleoplasm|nucleoplasm|transcriptionally active chromatin	activating transcription factor binding|chromatin binding|DNA secondary structure binding|RNA polymerase II transcription coactivator activity			breast(1)	1				GBM - Glioblastoma multiforme(50;2.38e-06)														---	---	---	---
C9orf93	203238	broad.mit.edu	37	9	15777674	15777674	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15777674T>C	uc003zmd.2	+	19	3063	c.2748T>C	c.(2746-2748)ATT>ATC	p.I916I	C9orf93_uc003zme.2_Silent_p.I831I|C9orf93_uc011lmu.1_Silent_p.I924I|C9orf93_uc003zmf.1_Silent_p.I224I	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	916											0				GBM - Glioblastoma multiforme(50;4.84e-07)														---	---	---	---
C9orf93	203238	broad.mit.edu	37	9	15874641	15874641	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15874641C>T	uc003zmd.2	+	24	3895	c.3580C>T	c.(3580-3582)CCA>TCA	p.P1194S	C9orf93_uc003zme.2_Missense_Mutation_p.P1109S|C9orf93_uc011lmu.1_Missense_Mutation_p.P1202S|C9orf93_uc003zmf.1_Missense_Mutation_p.P502S	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	1194											0				GBM - Glioblastoma multiforme(50;4.84e-07)														---	---	---	---
BNC2	54796	broad.mit.edu	37	9	16552745	16552745	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:16552745G>A	uc003zml.2	-	5	592	c.452C>T	c.(451-453)ACG>ATG	p.T151M	BNC2_uc011lmw.1_Missense_Mutation_p.T56M|BNC2_uc003zmm.2_Missense_Mutation_p.T109M|BNC2_uc003zmq.1_Missense_Mutation_p.T165M|BNC2_uc003zmr.1_Missense_Mutation_p.T188M|BNC2_uc003zmp.1_Missense_Mutation_p.T179M|BNC2_uc010mij.1_Missense_Mutation_p.T73M|BNC2_uc011lmv.1_Translation_Start_Site|BNC2_uc003zmo.1_Missense_Mutation_p.T73M	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)														---	---	---	---
BNC2	54796	broad.mit.edu	37	9	16738415	16738415	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:16738415T>G	uc003zml.2	-	2	212	c.72A>C	c.(70-72)CAA>CAC	p.Q24H	BNC2_uc011lmw.1_Intron|BNC2_uc003zmm.2_Intron|BNC2_uc003zmq.1_Missense_Mutation_p.Q38H|BNC2_uc003zmr.1_Missense_Mutation_p.Q24H|BNC2_uc003zmp.1_Missense_Mutation_p.Q24H|BNC2_uc010mij.1_Intron|BNC2_uc003zmu.1_RNA|BNC2_uc010mim.1_Intron|BNC2_uc010min.1_Intron	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	24					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)														---	---	---	---
ADAMTSL1	92949	broad.mit.edu	37	9	18681926	18681926	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:18681926C>T	uc003zne.3	+	12	1585	c.1458C>T	c.(1456-1458)TGC>TGT	p.C486C	ADAMTSL1_uc003znc.3_Silent_p.C486C	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	486	TSP type-1 3.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)														---	---	---	---
ADAMTSL1	92949	broad.mit.edu	37	9	18706803	18706803	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:18706803C>T	uc003zne.3	+	14	1760	c.1633C>T	c.(1633-1635)CGA>TGA	p.R545*		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	545	TSP type-1 4.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)														---	---	---	---
ADAMTSL1	92949	broad.mit.edu	37	9	18770654	18770654	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:18770654C>T	uc003zne.3	+	17	2399	c.2272C>T	c.(2272-2274)CGC>TGC	p.R758C		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	758						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)														---	---	---	---
HAUS6	54801	broad.mit.edu	37	9	19058813	19058813	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19058813G>A	uc003znk.2	-	16	2205	c.1952C>T	c.(1951-1953)TCT>TTT	p.S651F	HAUS6_uc011lmz.1_Missense_Mutation_p.S371F|HAUS6_uc003znl.1_Missense_Mutation_p.S515F	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	651					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2																		---	---	---	---
DENND4C	55667	broad.mit.edu	37	9	19346603	19346603	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19346603G>A	uc003znq.2	+	18	3014	c.2981G>A	c.(2980-2982)CGT>CAT	p.R994H	DENND4C_uc011lnc.1_Missense_Mutation_p.R324H|DENND4C_uc011lnd.1_Missense_Mutation_p.R282H|DENND4C_uc003znr.2_Missense_Mutation_p.R282H|DENND4C_uc003zns.2_Missense_Mutation_p.R176H|DENND4C_uc003znt.2_Missense_Mutation_p.R176H	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	994						integral to membrane				ovary(1)|skin(1)	2																		---	---	---	---
RPS6	6194	broad.mit.edu	37	9	19379526	19379526	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19379526C>T	uc003znv.1	-	2	139	c.97G>A	c.(97-99)GCC>ACC	p.A33T	RPS6_uc003znu.1_Missense_Mutation_p.A2T|RPS6_uc003znw.1_Missense_Mutation_p.A2T	NM_001010	NP_001001	P62753	RS6_HUMAN	ribosomal protein S6	33					endocrine pancreas development|glucose homeostasis|insulin receptor signaling pathway|positive regulation of apoptosis|rRNA processing|TOR signaling cascade|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding			ovary(1)	1		Colorectal(97;3.46e-05)|Myeloproliferative disorder(762;0.0255)		Lung(42;0.161)|LUSC - Lung squamous cell carcinoma(42;0.234)														---	---	---	---
MLLT3	4300	broad.mit.edu	37	9	20448143	20448143	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:20448143C>T	uc003zoe.2	-	4	657	c.398G>A	c.(397-399)AGA>AAA	p.R133K	MLLT3_uc011lne.1_Missense_Mutation_p.R101K|MLLT3_uc011lnf.1_Missense_Mutation_p.R130K|MLLT3_uc003zof.2_Intron|MLLT3_uc011lng.1_Missense_Mutation_p.R101K	NM_004529	NP_004520	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	133					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)				T	MLL	ALL								---	---	---	---
IFNB1	3456	broad.mit.edu	37	9	21077640	21077640	+	Missense_Mutation	SNP	C	T	T	rs146710785	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:21077640C>T	uc003zok.2	-	1	304	c.229G>A	c.(229-231)GCA>ACA	p.A77T		NM_002176	NP_002167	P01574	IFNB_HUMAN	interferon, beta 1, fibroblast precursor	77					activation of caspase activity|B cell proliferation|blood coagulation|cellular response to exogenous dsRNA|defense response to virus|induction of apoptosis|natural killer cell activation|negative regulation of cell proliferation|negative regulation of T cell differentiation|negative regulation of T-helper 2 cell cytokine production|negative regulation of viral genome replication|negative regulation of viral transcription|negative regulation of virion penetration into host cell|positive regulation of innate immune response|positive regulation of transcription from RNA polymerase II promoter|regulation of MHC class I biosynthetic process|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding|transcription corepressor activity			ovary(1)|breast(1)|kidney(1)	3				GBM - Glioblastoma multiforme(5;7.45e-142)|Lung(24;2.42e-17)|LUSC - Lung squamous cell carcinoma(38;7.17e-11)	Interferon beta-1a(DB00060)|Interferon beta-1b(DB00068)													---	---	---	---
IFNA16	3449	broad.mit.edu	37	9	21217077	21217077	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:21217077G>T	uc003zor.1	-	1	234	c.228C>A	c.(226-228)GCC>GCA	p.A76A	IFNA14_uc003zoo.1_Intron	NM_002173	NP_002164	P05015	IFN16_HUMAN	interferon, alpha 16 precursor	76					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			skin(1)	1				Lung(24;2.12e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)														---	---	---	---
KLHL9	55958	broad.mit.edu	37	9	21333437	21333437	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:21333437C>T	uc003zoy.2	-	1	1993	c.1422G>A	c.(1420-1422)ATG>ATA	p.M474I	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	474	Kelch 4.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody				ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)														---	---	---	---
PLAA	9373	broad.mit.edu	37	9	26920219	26920219	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:26920219A>G	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)														---	---	---	---
LRRC19	64922	broad.mit.edu	37	9	26997741	26997741	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:26997741A>T	uc003zqh.2	-	3	691	c.580T>A	c.(580-582)TCA>ACA	p.S194T	IFT74_uc010mja.2_Intron|IFT74_uc010mjb.2_Intron|IFT74_uc003zqf.3_Intron|IFT74_uc003zqg.3_Intron	NM_022901	NP_075052	Q9H756	LRC19_HUMAN	leucine rich repeat containing 19 precursor	194	Extracellular (Potential).|LRRCT.					integral to membrane					0		all_neural(11;1.81e-09)		Lung(218;1.06e-05)|LUSC - Lung squamous cell carcinoma(38;0.0001)														---	---	---	---
UBAP1	51271	broad.mit.edu	37	9	34241362	34241362	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:34241362G>A	uc003ztx.2	+	4	574	c.339G>A	c.(337-339)ATG>ATA	p.M113I	UBAP1_uc010mka.1_Missense_Mutation_p.M149I|UBAP1_uc003zty.2_Missense_Mutation_p.M113I|UBAP1_uc011loi.1_Missense_Mutation_p.M149I|UBAP1_uc011loj.1_Missense_Mutation_p.M177I|KIF24_uc010mkb.2_Intron|UBAP1_uc003ztz.2_Missense_Mutation_p.M113I	NM_016525	NP_057609	Q9NZ09	UBAP1_HUMAN	ubiquitin associated protein 1	113						cytoplasm					0			LUSC - Lung squamous cell carcinoma(29;0.00272)															---	---	---	---
KIAA1161	57462	broad.mit.edu	37	9	34371727	34371727	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:34371727G>A	uc003zue.3	-	3	1382	c.1215C>T	c.(1213-1215)GGC>GGT	p.G405G		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	405	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)														---	---	---	---
DNAI1	27019	broad.mit.edu	37	9	34514714	34514714	+	Missense_Mutation	SNP	G	A	A	rs145483542		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:34514714G>A	uc003zum.2	+	18	1988	c.1795G>A	c.(1795-1797)GCA>ACA	p.A599T		NM_012144	NP_036276	Q9UI46	DNAI1_HUMAN	dynein, axonemal, intermediate chain 1	599	WD 4.				cell projection organization	cilium axoneme|cytoplasm|dynein complex|microtubule	motor activity				0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)|STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.0222)										Kartagener_syndrome				---	---	---	---
C9orf131	138724	broad.mit.edu	37	9	35045333	35045333	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35045333C>A	uc003zvw.2	+	2	2736	c.2707C>A	c.(2707-2709)CCA>ACA	p.P903T	C9orf131_uc003zvu.2_Missense_Mutation_p.P855T|C9orf131_uc003zvv.2_Missense_Mutation_p.P830T|C9orf131_uc003zvx.2_Missense_Mutation_p.P868T	NM_203299	NP_976044	Q5VYM1	CI131_HUMAN	hypothetical protein LOC138724 isoform A	903											0	all_epithelial(49;0.22)		LUSC - Lung squamous cell carcinoma(32;0.00117)|Lung(28;0.00309)															---	---	---	---
KIAA1539	80256	broad.mit.edu	37	9	35107927	35107927	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35107927G>A	uc003zwl.2	-	3	670	c.345C>T	c.(343-345)AGC>AGT	p.S115S	KIAA1539_uc003zwm.2_Silent_p.S115S|KIAA1539_uc003zwn.2_Intron|KIAA1539_uc003zwo.2_Silent_p.S115S|KIAA1539_uc003zwp.1_Silent_p.S115S|KIAA1539_uc010mkk.1_Intron	NM_025182	NP_079458	Q7L5A3	K1539_HUMAN	hypothetical protein LOC80256	115						nucleus				ovary(2)	2	all_epithelial(49;0.217)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)															---	---	---	---
CREB3	10488	broad.mit.edu	37	9	35736398	35736398	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35736398G>A	uc003zxv.2	+	9	1244	c.791G>A	c.(790-792)CGC>CAC	p.R264H	CREB3_uc010mla.2_Missense_Mutation_p.R183H	NM_006368	NP_006359	O43889	CREB3_HUMAN	cAMP responsive element binding protein 3	288	Lumenal (Potential).				chemotaxis|induction of positive chemotaxis|interspecies interaction between organisms|negative regulation of cell cycle|positive regulation of calcium ion transport|positive regulation of cell migration|positive regulation of transcription, DNA-dependent|reactivation of latent virus|regulation of cell proliferation	cytosol|endoplasmic reticulum|endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|integral to membrane|nucleus|nucleus	cAMP response element binding protein binding|CCR1 chemokine receptor binding|DNA binding|protein dimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity				0	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)	GBM - Glioblastoma multiforme(74;0.0285)												OREG0019176	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
NPR2	4882	broad.mit.edu	37	9	35799719	35799719	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35799719C>T	uc003zyd.2	+	3	978	c.978C>T	c.(976-978)GGC>GGT	p.G326G	NPR2_uc010mlb.2_Silent_p.G326G	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	326	Extracellular (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)													---	---	---	---
MCART1	92014	broad.mit.edu	37	9	37888210	37888210	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:37888210A>G	uc004aau.2	-	3	1082	c.338T>C	c.(337-339)GTC>GCC	p.V113A	MCART1_uc004aar.1_Intron|MCART1_uc004aaq.1_Intron|uc004aat.1_5'Flank|MCART1_uc004aav.2_Missense_Mutation_p.V113A	NM_033412	NP_219480	Q9H1U9	MCAR1_HUMAN	mitochondrial carrier triple repeat 1	113					transport	integral to membrane|mitochondrial inner membrane				ovary(2)|breast(1)	3				GBM - Glioblastoma multiforme(29;0.00559)|Lung(182;0.0422)														---	---	---	---
CBWD6	644019	broad.mit.edu	37	9	69247573	69247573	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:69247573C>T	uc004afj.3	-	5	545	c.439G>A	c.(439-441)GCT>ACT	p.A147T	CBWD6_uc004afk.3_Intron|CBWD6_uc011lrf.1_Intron	NM_001085457	NP_001078926	Q4V339	CBWD6_HUMAN	COBW domain containing 6	147							ATP binding				0																		---	---	---	---
APBA1	320	broad.mit.edu	37	9	72131639	72131639	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:72131639G>A	uc004ahh.2	-	2	764	c.488C>T	c.(487-489)GCG>GTG	p.A163V		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	163					axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1																		---	---	---	---
SMC5	23137	broad.mit.edu	37	9	72933542	72933542	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:72933542C>T	uc004ahr.2	+	14	2036	c.1919C>T	c.(1918-1920)GCG>GTG	p.A640V	uc004ahs.1_5'Flank	NM_015110	NP_055925	Q8IY18	SMC5_HUMAN	SMC5 protein	640	Flexible hinge.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
TRPM3	80036	broad.mit.edu	37	9	73151051	73151051	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:73151051C>T	uc004aid.2	-	25	5186	c.4942G>A	c.(4942-4944)GCA>ACA	p.A1648T	TRPM3_uc004ahu.2_Missense_Mutation_p.A1490T|TRPM3_uc004ahv.2_Missense_Mutation_p.A1450T|TRPM3_uc004ahw.2_Missense_Mutation_p.A1520T|TRPM3_uc004ahx.2_Missense_Mutation_p.A1507T|TRPM3_uc004ahy.2_Missense_Mutation_p.A1510T|TRPM3_uc004ahz.2_Missense_Mutation_p.A1497T|TRPM3_uc004aia.2_Missense_Mutation_p.A1495T|TRPM3_uc004aib.2_Missense_Mutation_p.A1485T|TRPM3_uc004aic.2_Intron	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1673	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9																		---	---	---	---
RORB	6096	broad.mit.edu	37	9	77286710	77286710	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:77286710G>A	uc004aji.2	+	9	1199	c.1150G>A	c.(1150-1152)GCC>ACC	p.A384T	RORB_uc004ajh.2_Missense_Mutation_p.A373T	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	384	Ligand-binding (Potential).				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4																		---	---	---	---
PCSK5	5125	broad.mit.edu	37	9	78686647	78686647	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:78686647C>T	uc004ajz.2	+	7	1265	c.727C>T	c.(727-729)CGA>TGA	p.R243*	PCSK5_uc004ajy.2_Nonsense_Mutation_p.R243*|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	243	Catalytic.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	78969113	78969113	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:78969113C>T	uc004akc.1	+	9	1627	c.1407C>T	c.(1405-1407)TGC>TGT	p.C469C						Homo sapiens cDNA FLJ16215 fis, clone CTONG2025610, moderately similar to PC6B.																														---	---	---	---
PRUNE2	158471	broad.mit.edu	37	9	79325763	79325763	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79325763G>A	uc010mpk.2	-	8	1551	c.1427C>T	c.(1426-1428)GCG>GTG	p.A476V		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	476					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0																		---	---	---	---
VPS13A	23230	broad.mit.edu	37	9	79910752	79910752	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79910752C>T	uc004akr.2	+	33	4062	c.3802C>T	c.(3802-3804)CGA>TGA	p.R1268*	VPS13A_uc004akp.3_Nonsense_Mutation_p.R1268*|VPS13A_uc004akq.3_Nonsense_Mutation_p.R1268*|VPS13A_uc004aks.2_Nonsense_Mutation_p.R1229*|VPS13A_uc010mpo.1_5'UTR	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1268	TPR 4.				Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10																		---	---	---	---
TLE4	7091	broad.mit.edu	37	9	82227576	82227576	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:82227576G>T	uc004ald.2	+	5	1086	c.237G>T	c.(235-237)GAG>GAT	p.E79D	TLE4_uc004alc.2_Missense_Mutation_p.E86D|TLE4_uc010mpr.2_5'UTR|TLE4_uc004ale.2_5'UTR|TLE4_uc011lsq.1_Missense_Mutation_p.E79D|TLE4_uc010mps.2_Missense_Mutation_p.E79D|TLE4_uc004alf.2_Missense_Mutation_p.E24D	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5																		---	---	---	---
UBQLN1	29979	broad.mit.edu	37	9	86276800	86276800	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86276800C>T	uc004amv.2	-	11	2246	c.1672G>A	c.(1672-1674)GGA>AGA	p.G558R	UBQLN1_uc004amw.2_Missense_Mutation_p.G530R	NM_013438	NP_038466	Q9UMX0	UBQL1_HUMAN	ubiquilin 1 isoform 1	558	UBA.				apoptosis|regulation of protein ubiquitination|response to hypoxia	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm|proteasome complex	kinase binding				0																		---	---	---	---
HNRNPK	3190	broad.mit.edu	37	9	86585141	86585141	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86585141G>A	uc004ang.3	-	16	1521	c.1297C>T	c.(1297-1299)CGG>TGG	p.R433W	HNRNPK_uc011lsw.1_Missense_Mutation_p.R193W|HNRNPK_uc004and.3_Missense_Mutation_p.R193W|HNRNPK_uc004ank.3_Missense_Mutation_p.R432W|HNRNPK_uc004anf.3_Missense_Mutation_p.R433W|HNRNPK_uc004anh.3_Missense_Mutation_p.R409W|HNRNPK_uc011lsx.1_Missense_Mutation_p.R409W|HNRNPK_uc004ani.3_Missense_Mutation_p.R432W|HNRNPK_uc004anj.3_Missense_Mutation_p.R432W|HNRNPK_uc004ann.3_Missense_Mutation_p.R408W|HNRNPK_uc004anl.3_Missense_Mutation_p.R433W|HNRNPK_uc004anm.3_Missense_Mutation_p.R433W|uc004ano.1_5'Flank|MIR7-1_hsa-mir-7-1|MI0000263_5'Flank	NM_031262	NP_112552	P61978	HNRPK_HUMAN	heterogeneous nuclear ribonucleoprotein K	433	KH 3.				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																		---	---	---	---
NTRK2	4915	broad.mit.edu	37	9	87486727	87486727	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:87486727G>A	uc004aoa.1	+						NTRK2_uc004any.1_Intron|NTRK2_uc004anz.1_Intron|NTRK2_uc011lsz.1_Missense_Mutation_p.A553T|NTRK2_uc011lta.1_Missense_Mutation_p.A537T|NTRK2_uc004aoc.2_Missense_Mutation_p.A88T	NM_001018064	NP_001018074			neurotrophic tyrosine kinase, receptor, type 2						activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development	integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein tyrosine kinase activity			lung(11)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|liver(1)	16															TSP Lung(25;0.17)			---	---	---	---
DAPK1	1612	broad.mit.edu	37	9	90255318	90255318	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90255318T>C	uc004apc.2	+	8	873	c.735T>C	c.(733-735)AGT>AGC	p.S245S	DAPK1_uc004ape.2_Silent_p.S245S|DAPK1_uc004apd.2_Silent_p.S245S|DAPK1_uc011ltg.1_Silent_p.S245S|DAPK1_uc011lth.1_5'UTR	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	245	Protein kinase.				apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2														Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				---	---	---	---
C9orf79	286234	broad.mit.edu	37	9	90502104	90502104	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90502104A>T	uc004app.3	+	4	2737	c.2702A>T	c.(2701-2703)AAT>ATT	p.N901I	C9orf79_uc004apo.1_Missense_Mutation_p.N713I	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	901				N -> S (in Ref. 1; BAC86315).		integral to membrane				ovary(3)	3																		---	---	---	---
CDK20	23552	broad.mit.edu	37	9	90585726	90585726	+	Silent	SNP	G	A	A	rs150818250	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90585726G>A	uc004apr.2	-	4	771	c.465C>T	c.(463-465)GAC>GAT	p.D155D	CDK20_uc004aps.2_Silent_p.D155D|CDK20_uc004apt.2_Silent_p.D168D|CDK20_uc004apu.2_Silent_p.D155D	NM_001039803	NP_001034892	Q8IZL9	CDK20_HUMAN	cell cycle related kinase isoform 3	155	Protein kinase.				cell division|multicellular organismal development	cilium|mitochondrion|nucleus	ATP binding|cyclin-dependent protein kinase activity			skin(1)	1																		---	---	---	---
SHC3	53358	broad.mit.edu	37	9	91628425	91628425	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:91628425G>A	uc004aqg.2	-	12	2029	c.1722C>T	c.(1720-1722)AGC>AGT	p.S574S		NM_016848	NP_058544	Q92529	SHC3_HUMAN	src homology 2 domain-containing transforming	574	SH2.				central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4																		---	---	---	---
AUH	549	broad.mit.edu	37	9	93983211	93983211	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:93983211G>A	uc004arf.3	-	7	754	c.719C>T	c.(718-720)GCG>GTG	p.A240V	AUH_uc004arg.3_Missense_Mutation_p.A211V	NM_001698	NP_001689	Q13825	AUHM_HUMAN	AU RNA binding protein/enoyl-Coenzyme A	240			A -> V (in MGA1).		branched chain family amino acid catabolic process|mRNA catabolic process	mitochondrial matrix	enoyl-CoA hydratase activity|methylglutaconyl-CoA hydratase activity|mRNA 3'-UTR binding				0																		---	---	---	---
ROR2	4920	broad.mit.edu	37	9	94487389	94487389	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:94487389C>T	uc004arj.1	-	9	1586	c.1387G>A	c.(1387-1389)GCC>ACC	p.A463T	ROR2_uc004ari.1_Missense_Mutation_p.A323T	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	463	Cytoplasmic (Potential).				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20																		---	---	---	---
IARS	3376	broad.mit.edu	37	9	95007334	95007334	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95007334G>A	uc004art.1	-	27	3068	c.2811C>T	c.(2809-2811)GGC>GGT	p.G937G	IARS_uc004ars.1_Silent_p.G782G|IARS_uc004aru.3_Silent_p.G937G|IARS_uc010mqr.2_Silent_p.G827G|IARS_uc010mqt.2_Silent_p.G160G	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	937					isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)													---	---	---	---
CENPP	401541	broad.mit.edu	37	9	95142122	95142122	+	Missense_Mutation	SNP	G	A	A	rs112987350		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95142122G>A	uc004arz.2	+	5	1085	c.545G>A	c.(544-546)CGC>CAC	p.R182H	CENPP_uc010mqx.2_Missense_Mutation_p.R70H|CENPP_uc004ary.1_Missense_Mutation_p.R182H	NM_001012267	NP_001012267	Q6IPU0	CENPP_HUMAN	centromere protein P	182					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	chromosome, centromeric region|cytosol|nucleoplasm				ovary(2)	2																		---	---	---	---
BICD2	23299	broad.mit.edu	37	9	95481525	95481525	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95481525C>T	uc004aso.1	-	5	1459	c.1402G>A	c.(1402-1404)GCC>ACC	p.A468T	BICD2_uc004asp.1_Missense_Mutation_p.A468T	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	468	Potential.				microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1																		---	---	---	---
ZNF484	83744	broad.mit.edu	37	9	95610226	95610226	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95610226G>A	uc004asu.1	-	5	992	c.843C>T	c.(841-843)TGC>TGT	p.C281C	ANKRD19_uc004asr.3_Intron|ZNF484_uc011lub.1_Silent_p.C283C|ZNF484_uc010mrb.1_Silent_p.C245C|ZNF484_uc004asv.1_Silent_p.C245C	NM_031486	NP_113674	Q5JVG2	ZN484_HUMAN	zinc finger protein 484 isoform a	281	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
WNK2	65268	broad.mit.edu	37	9	96009888	96009888	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96009888G>A	uc004ati.1	+	7	1606	c.1606G>A	c.(1606-1608)GTG>ATG	p.V536M	WNK2_uc011lud.1_Missense_Mutation_p.V536M|WNK2_uc004atj.2_Missense_Mutation_p.V536M|WNK2_uc004atk.2_Missense_Mutation_p.V173M|WNK2_uc010mrc.1_Missense_Mutation_p.V536M|WNK2_uc010mrd.1_Missense_Mutation_p.V173M	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	536					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12																		---	---	---	---
WNK2	65268	broad.mit.edu	37	9	96021599	96021599	+	Silent	SNP	C	T	T	rs147646744	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96021599C>T	uc004ati.1	+	11	2769	c.2769C>T	c.(2767-2769)GAC>GAT	p.D923D	WNK2_uc011lud.1_Silent_p.D923D|WNK2_uc004atj.2_Silent_p.D923D|WNK2_uc004atk.2_Silent_p.D560D|WNK2_uc010mrc.1_Silent_p.D871D	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	923					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12																		---	---	---	---
C9orf129	445577	broad.mit.edu	37	9	96081439	96081439	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96081439C>T	uc010mre.2	-	4	747	c.383G>A	c.(382-384)GGA>GAA	p.G128E	WNK2_uc011lud.1_3'UTR|WNK2_uc004atj.2_Intron|WNK2_uc004atk.2_3'UTR	NM_001098808	NP_001092278	Q5T035	CI129_HUMAN	hypothetical protein LOC445577	128										ovary(1)	1																		---	---	---	---
FAM120A	23196	broad.mit.edu	37	9	96324555	96324555	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96324555G>A	uc004atw.2	+	17	3039	c.3014G>A	c.(3013-3015)GGC>GAC	p.G1005D	FAM120A_uc004aty.2_Missense_Mutation_p.G786D|FAM120A_uc004atz.2_Missense_Mutation_p.G653D|FAM120A_uc010mrg.2_Missense_Mutation_p.G272D|FAM120A_uc004aua.1_5'Flank	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	1005	RNA binding.					cytoplasm|plasma membrane	RNA binding				0																		---	---	---	---
PHF2	5253	broad.mit.edu	37	9	96415473	96415473	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96415473C>T	uc004aub.2	+	6	762	c.615C>T	c.(613-615)TTC>TTT	p.F205F	PHF2_uc011lug.1_Silent_p.F88F	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	205	JmjC.				liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)														---	---	---	---
PHF2	5253	broad.mit.edu	37	9	96439858	96439858	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96439858C>T	uc004aub.2	+						PHF2_uc004auc.2_Intron	NM_005392	NP_005383			PHD finger protein 2						liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)														---	---	---	---
PTCH1	5727	broad.mit.edu	37	9	98221873	98221873	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:98221873G>A	uc004avk.3	-						PTCH1_uc010mro.2_Intron|PTCH1_uc010mrp.2_Intron|PTCH1_uc010mrq.2_Intron|PTCH1_uc004avl.3_Intron|PTCH1_uc010mrr.2_Intron|PTCH1_uc004avm.3_Intron	NM_000264	NP_000255			patched isoform L						embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)												Basal_Cell_Nevus_syndrome				---	---	---	---
ZNF510	22869	broad.mit.edu	37	9	99522503	99522503	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:99522503G>A	uc004awn.1	-	6	798	c.609C>T	c.(607-609)TGC>TGT	p.C203C	ZNF510_uc004awo.1_Silent_p.C203C	NM_014930	NP_055745	Q9Y2H8	ZN510_HUMAN	zinc finger protein 510	203					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)																---	---	---	---
ZNF322B	387328	broad.mit.edu	37	9	99961412	99961412	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:99961412T>C	uc004axd.1	-	1	499	c.382A>G	c.(382-384)ACA>GCA	p.T128A	uc004axb.2_5'Flank|ZNF322B_uc004axc.1_5'Flank|uc010msl.1_Intron	NM_199005	NP_945356			zinc finger protein 322B												0		Acute lymphoblastic leukemia(62;0.158)																---	---	---	---
TDRD7	23424	broad.mit.edu	37	9	100201522	100201522	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100201522C>A	uc004axj.2	+						TDRD7_uc011lux.1_Intron	NM_014290	NP_055105			tudor domain containing 7						lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			ovary(2)|pancreas(1)	3		Acute lymphoblastic leukemia(62;0.158)																---	---	---	---
TDRD7	23424	broad.mit.edu	37	9	100245401	100245401	+	Missense_Mutation	SNP	G	A	A	rs142868591		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100245401G>A	uc004axj.2	+	15	2908	c.2683G>A	c.(2683-2685)GCT>ACT	p.A895T	TDRD7_uc011lux.1_Missense_Mutation_p.A821T|TDRD7_uc010msp.1_Missense_Mutation_p.A147T|TDRD7_uc011luy.1_Missense_Mutation_p.A215T	NM_014290	NP_055105	Q8NHU6	TDRD7_HUMAN	tudor domain containing 7	895	Interacts with CDK17 (By similarity).|Interacts with CABLES1 (By similarity).				lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			ovary(2)|pancreas(1)	3		Acute lymphoblastic leukemia(62;0.158)																---	---	---	---
TMOD1	7111	broad.mit.edu	37	9	100325113	100325113	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100325113C>T	uc004axk.1	+						TMOD1_uc004axl.1_Intron	NM_003275	NP_003266			tropomodulin 1						muscle filament sliding	cytosol	actin binding				0		Acute lymphoblastic leukemia(62;0.154)		STAD - Stomach adenocarcinoma(157;0.105)														---	---	---	---
TSTD2	158427	broad.mit.edu	37	9	100365028	100365028	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100365028C>T	uc004axn.2	-	10	1762	c.1274G>A	c.(1273-1275)CGC>CAC	p.R425H	TSTD2_uc004axo.2_Missense_Mutation_p.R199H	NM_139246	NP_640339	Q5T7W7	TSTD2_HUMAN	thiosulfate sulfurtransferase (rhodanese)-like	425										ovary(2)	2																		---	---	---	---
NCBP1	4686	broad.mit.edu	37	9	100420938	100420938	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100420938C>T	uc004axq.2	+	15	1849	c.1390C>T	c.(1390-1392)CGT>TGT	p.R464C		NM_002486	NP_002477	Q09161	NCBP1_HUMAN	nuclear cap binding protein subunit 1, 80kDa	464					gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA cleavage|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of mRNA 3'-end processing|positive regulation of viral transcription|regulation of translational initiation|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm|ribonucleoprotein complex	protein binding|RNA cap binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.158)																---	---	---	---
NCBP1	4686	broad.mit.edu	37	9	100431913	100431913	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100431913C>T	uc004axq.2	+	22	2643	c.2184C>T	c.(2182-2184)TGC>TGT	p.C728C		NM_002486	NP_002477	Q09161	NCBP1_HUMAN	nuclear cap binding protein subunit 1, 80kDa	728					gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA cleavage|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of mRNA 3'-end processing|positive regulation of viral transcription|regulation of translational initiation|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm|ribonucleoprotein complex	protein binding|RNA cap binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.158)																---	---	---	---
C9orf156	51531	broad.mit.edu	37	9	100672390	100672390	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100672390C>T	uc004axv.1	-	4	995	c.918G>A	c.(916-918)CAG>CAA	p.Q306Q	C9orf156_uc004axw.1_Silent_p.Q203Q|C9orf156_uc004axx.1_Silent_p.Q160Q|C9orf156_uc010msq.1_Silent_p.Q203Q	NM_016481	NP_057565	Q9BU70	NAP1_HUMAN	Nef associated protein 1	306					interspecies interaction between organisms		hydrolase activity				0		Acute lymphoblastic leukemia(62;0.158)																---	---	---	---
GABBR2	9568	broad.mit.edu	37	9	101340263	101340263	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:101340263A>G	uc004ays.2	-	2	569	c.413T>C	c.(412-414)GTC>GCC	p.V138A		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	138	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)													---	---	---	---
INVS	27130	broad.mit.edu	37	9	103054969	103054969	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:103054969C>T	uc004bap.1	+	14	2642	c.2430C>T	c.(2428-2430)CGC>CGT	p.R810R	INVS_uc011lve.1_Silent_p.R714R|INVS_uc004bao.1_Intron|INVS_uc004baq.1_Intron|INVS_uc004bar.1_Silent_p.R714R|INVS_uc010mtb.1_Silent_p.R484R	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	810					negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)																---	---	---	---
TEX10	54881	broad.mit.edu	37	9	103082626	103082626	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:103082626A>G	uc004bas.2	-	11	2338	c.2123T>C	c.(2122-2124)GTC>GCC	p.V708A	TEX10_uc011lvf.1_Missense_Mutation_p.V547A|TEX10_uc011lvg.1_Missense_Mutation_p.V711A	NM_017746	NP_060216	Q9NXF1	TEX10_HUMAN	testis expressed 10 isoform 1	708						integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)														---	---	---	---
LPPR1	54886	broad.mit.edu	37	9	104079735	104079735	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:104079735C>A	uc004bbb.2	+	7	1301	c.902C>A	c.(901-903)GCT>GAT	p.A301D	LPPR1_uc011lvi.1_Missense_Mutation_p.A277D|LPPR1_uc004bbc.2_Missense_Mutation_p.A301D|LPPR1_uc010mtc.2_Missense_Mutation_p.A285D	NM_207299	NP_997182	Q8TBJ4	LPPR1_HUMAN	plasticity related gene 3	301						integral to membrane	catalytic activity				0																		---	---	---	---
RNF20	56254	broad.mit.edu	37	9	104302555	104302555	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:104302555C>T	uc004bbn.2	+	3	290	c.200C>T	c.(199-201)GCC>GTC	p.A67V		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	67	Potential.				histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)														---	---	---	---
ABCA1	19	broad.mit.edu	37	9	107573078	107573078	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:107573078T>C	uc004bcl.2	-							NM_005502	NP_005493			ATP-binding cassette, sub-family A member 1						Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)													---	---	---	---
TMEM38B	55151	broad.mit.edu	37	9	108457045	108457045	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:108457045G>A	uc004bcu.1	+	1	221	c.104G>A	c.(103-105)CGT>CAT	p.R35H	TMEM38B_uc010mtn.1_Missense_Mutation_p.R35H	NM_018112	NP_060582	Q9NVV0	TM38B_HUMAN	transmembrane protein 38B	35	Lumenal (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			ovary(1)|skin(1)	2																		---	---	---	---
ZNF462	58499	broad.mit.edu	37	9	109691644	109691644	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:109691644G>A	uc004bcz.2	+	3	5740	c.5451G>A	c.(5449-5451)AAG>AAA	p.K1817K	ZNF462_uc010mto.2_Silent_p.K1665K|ZNF462_uc004bda.2_Silent_p.K1665K	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1817					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5																		---	---	---	---
IKBKAP	8518	broad.mit.edu	37	9	111659242	111659242	+	Missense_Mutation	SNP	C	T	T	rs137983175		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:111659242C>T	uc004bdm.3	-	24	3098	c.2578G>A	c.(2578-2580)GAG>AAG	p.E860K	IKBKAP_uc004bdl.2_Missense_Mutation_p.E511K|IKBKAP_uc011lwc.1_Missense_Mutation_p.E746K|IKBKAP_uc010mtq.2_Missense_Mutation_p.E511K	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	860					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7																		---	---	---	---
EPB41L4B	54566	broad.mit.edu	37	9	111947811	111947811	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:111947811C>A	uc004bdz.1	-	23	2671	c.2376G>T	c.(2374-2376)GAG>GAT	p.E792D		NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	792						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
EPB41L4B	54566	broad.mit.edu	37	9	112042125	112042125	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112042125A>C	uc004bdz.1	-	2	678	c.383T>G	c.(382-384)CTC>CGC	p.L128R	EPB41L4B_uc004bea.2_Missense_Mutation_p.L128R	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	128	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
PALM2-AKAP2	445815	broad.mit.edu	37	9	112898615	112898615	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112898615C>A	uc004bei.2	+	9	1679	c.1487C>A	c.(1486-1488)CCG>CAG	p.P496Q	PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.P264Q|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.P264Q|PALM2-AKAP2_uc004bel.1_Missense_Mutation_p.P74Q|AKAP2_uc011lwi.1_Missense_Mutation_p.P122Q|AKAP2_uc004bem.2_Missense_Mutation_p.P122Q|PALM2-AKAP2_uc010mtw.1_Missense_Mutation_p.P82Q|AKAP2_uc011lwj.1_Missense_Mutation_p.P33Q|PALM2-AKAP2_uc004ben.2_Missense_Mutation_p.P33Q	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	33							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6																		---	---	---	---
PALM2-AKAP2	445815	broad.mit.edu	37	9	112899061	112899061	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112899061C>T	uc004bei.2	+	9	2125	c.1933C>T	c.(1933-1935)CGT>TGT	p.R645C	PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.R413C|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.R413C|PALM2-AKAP2_uc004bel.1_Missense_Mutation_p.R223C|AKAP2_uc011lwi.1_Missense_Mutation_p.R271C|AKAP2_uc004bem.2_Missense_Mutation_p.R271C|PALM2-AKAP2_uc010mtw.1_Missense_Mutation_p.R231C|AKAP2_uc011lwj.1_Missense_Mutation_p.R182C|PALM2-AKAP2_uc004ben.2_Missense_Mutation_p.R182C	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	182							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6																		---	---	---	---
SVEP1	79987	broad.mit.edu	37	9	113168502	113168502	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:113168502C>T	uc010mtz.2	-	38	9715	c.9378G>A	c.(9376-9378)CCG>CCA	p.P3126P	SVEP1_uc010mty.2_Silent_p.P1052P	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	3126	Sushi 29.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7																		---	---	---	---
SVEP1	79987	broad.mit.edu	37	9	113261516	113261516	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:113261516G>A	uc010mtz.2	-	7	1823	c.1486C>T	c.(1486-1488)CGC>TGC	p.R496C	SVEP1_uc010mua.1_Missense_Mutation_p.R496C|SVEP1_uc004beu.2_Missense_Mutation_p.R496C	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	496	Sushi 3.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7																		---	---	---	---
LPAR1	1902	broad.mit.edu	37	9	113637839	113637839	+	Silent	SNP	G	A	A	rs61753623	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:113637839G>A	uc004bfa.2	-	5	1212	c.957C>T	c.(955-957)AGC>AGT	p.S319S	LPAR1_uc011lwm.1_Silent_p.S320S|LPAR1_uc004bfb.2_Silent_p.S319S|LPAR1_uc004bfc.2_Silent_p.S319S|LPAR1_uc011lwn.1_Silent_p.S301S|LPAR1_uc011lwo.1_Silent_p.S320S|LPAR1_uc010mub.2_Silent_p.S319S	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	319	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2																		---	---	---	---
LPAR1	1902	broad.mit.edu	37	9	113704425	113704425	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:113704425C>A	uc004bfa.2	-	4	324	c.69G>T	c.(67-69)CAG>CAT	p.Q23H	LPAR1_uc011lwm.1_Missense_Mutation_p.Q24H|LPAR1_uc004bfb.2_Missense_Mutation_p.Q23H|LPAR1_uc004bfc.2_Missense_Mutation_p.Q23H|LPAR1_uc011lwn.1_Missense_Mutation_p.Q5H|LPAR1_uc011lwo.1_Missense_Mutation_p.Q24H|LPAR1_uc010mub.2_Missense_Mutation_p.Q23H	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	23	Extracellular (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2																		---	---	---	---
KIAA1958	158405	broad.mit.edu	37	9	115336875	115336875	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:115336875G>A	uc004bgf.1	+	2	690	c.515G>A	c.(514-516)CGC>CAC	p.R172H	KIAA1958_uc011lwx.1_Missense_Mutation_p.R172H	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	172										skin(1)	1																		---	---	---	---
PRPF4	9128	broad.mit.edu	37	9	116053015	116053015	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116053015G>T	uc004bgx.2	+	12	1234	c.1184G>T	c.(1183-1185)CGC>CTC	p.R395L	PRPF4_uc004bgy.2_Missense_Mutation_p.R394L	NM_004697	NP_004688	O43172	PRP4_HUMAN	PRP4 pre-mRNA processing factor 4 homolog	395	WD 4.					Cajal body|nuclear speck|spliceosomal complex|U4/U6 snRNP	protein binding			ovary(2)|pancreas(1)	3																		---	---	---	---
WDR31	114987	broad.mit.edu	37	9	116080824	116080824	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116080824C>T	uc004bhe.2	-	10	1126	c.874G>A	c.(874-876)GCC>ACC	p.A292T	uc004bhb.2_5'Flank|WDR31_uc004bhc.2_Missense_Mutation_p.A291T|WDR31_uc004bhd.2_Missense_Mutation_p.A167T|WDR31_uc004bhf.2_RNA	NM_001012361	NP_001012361	Q8NA23	WDR31_HUMAN	WD repeat domain 31 isoform 1	292	WD 5.										0																		---	---	---	---
BSPRY	54836	broad.mit.edu	37	9	116130628	116130628	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116130628A>G	uc004bhg.3	+	5	695	c.647A>G	c.(646-648)CAA>CGA	p.Q216R	BSPRY_uc010muw.2_Intron	NM_017688	NP_060158	Q5W0U4	BSPRY_HUMAN	B-box and SPRY domain containing	216	B30.2/SPRY.				calcium ion transport	cytoplasm|membrane	zinc ion binding			breast(1)	1																		---	---	---	---
ZNF618	114991	broad.mit.edu	37	9	116812207	116812207	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116812207C>T	uc004bid.2	+	15	2724	c.2625C>T	c.(2623-2625)TAC>TAT	p.Y875Y	ZNF618_uc004bic.2_Silent_p.Y782Y|ZNF618_uc011lxi.1_Silent_p.Y842Y|ZNF618_uc011lxj.1_Silent_p.Y843Y|ZNF618_uc010mvb.2_Silent_p.Y465Y	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	875					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
COL27A1	85301	broad.mit.edu	37	9	116930298	116930298	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116930298C>T	uc011lxl.1	+	3	463	c.463C>T	c.(463-465)CGC>TGC	p.R155C	COL27A1_uc004bii.2_RNA|COL27A1_uc010mvd.1_Missense_Mutation_p.R5C	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	155	Laminin G-like.|TSP N-terminal.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4																		---	---	---	---
COL27A1	85301	broad.mit.edu	37	9	117070050	117070050	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117070050G>A	uc011lxl.1	+	59	5209	c.5209G>A	c.(5209-5211)GCC>ACC	p.A1737T	COL27A1_uc004bii.2_RNA|COL27A1_uc011lxn.1_Missense_Mutation_p.A52T	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	1737	Fibrillar collagen NC1.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4																		---	---	---	---
DFNB31	25861	broad.mit.edu	37	9	117188608	117188608	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117188608C>T	uc004biz.3	-	4	1698	c.1049G>A	c.(1048-1050)CGG>CAG	p.R350Q	DFNB31_uc004bix.2_5'Flank|DFNB31_uc004biy.3_5'UTR|DFNB31_uc004bja.3_Missense_Mutation_p.R350Q	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	350	PDZ 2.				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																		---	---	---	---
TNC	3371	broad.mit.edu	37	9	117804613	117804613	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117804613G>A	uc004bjj.3	-	18	5495	c.5133C>T	c.(5131-5133)GGC>GGT	p.G1711G	TNC_uc010mvf.2_Silent_p.G1438G	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1711	Fibronectin type-III 13.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7																		---	---	---	---
TNC	3371	broad.mit.edu	37	9	117848668	117848668	+	Missense_Mutation	SNP	G	A	A	rs145086096	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117848668G>A	uc004bjj.3	-	3	1704	c.1342C>T	c.(1342-1344)CGC>TGC	p.R448C	TNC_uc010mvf.2_Missense_Mutation_p.R448C	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	448	EGF-like 10.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7																		---	---	---	---
PAPPA	5069	broad.mit.edu	37	9	119124887	119124887	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:119124887T>C	uc004bjn.2	+	18	4745	c.4364T>C	c.(4363-4365)GTC>GCC	p.V1455A	PAPPA_uc011lxq.1_Missense_Mutation_p.V830A	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1455	Sushi 4.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9																		---	---	---	---
ASTN2	23245	broad.mit.edu	37	9	119976705	119976705	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:119976705C>T	uc004bjs.1	-	3	1048	c.947G>A	c.(946-948)AGC>AAC	p.S316N	ASTN2_uc004bjr.1_Missense_Mutation_p.S316N|ASTN2_uc004bjt.1_Missense_Mutation_p.S316N	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	316	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9																		---	---	---	---
TLR4	7099	broad.mit.edu	37	9	120476537	120476537	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:120476537G>T	uc004bjz.2	+	3	2422	c.2131G>T	c.(2131-2133)GAC>TAC	p.D711Y	TLR4_uc004bka.2_Missense_Mutation_p.D671Y|TLR4_uc004bkb.2_Missense_Mutation_p.D511Y	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	711	Cytoplasmic (Potential).|TIR.			D->K: Abolishes LPS-response.	activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16																		---	---	---	---
DBC1	1620	broad.mit.edu	37	9	121929360	121929360	+	3'UTR	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:121929360G>C	uc004bkc.2	-	8						NM_014618	NP_055433			deleted in bladder cancer 1 precursor						cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8																		---	---	---	---
CDK5RAP2	55755	broad.mit.edu	37	9	123220813	123220813	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:123220813C>T	uc004bkf.2	-	20	2471	c.2290G>A	c.(2290-2292)GCA>ACA	p.A764T	CDK5RAP2_uc004bke.2_Missense_Mutation_p.A49T|CDK5RAP2_uc004bkg.2_Missense_Mutation_p.A764T|CDK5RAP2_uc011lxw.1_Missense_Mutation_p.A29T|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Missense_Mutation_p.A29T|CDK5RAP2_uc011lya.1_Missense_Mutation_p.A29T|CDK5RAP2_uc004bkh.1_Intron|CDK5RAP2_uc004bki.2_Missense_Mutation_p.A531T	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	764					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4																		---	---	---	---
CDK5RAP2	55755	broad.mit.edu	37	9	123308012	123308012	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:123308012C>A	uc004bkf.2	-	5	544	c.363G>T	c.(361-363)GAG>GAT	p.E121D	CDK5RAP2_uc004bkg.2_Missense_Mutation_p.E121D|CDK5RAP2_uc011lxw.1_5'UTR|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_5'UTR|CDK5RAP2_uc011lya.1_5'UTR|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.E121D	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	121					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4																		---	---	---	---
C5	727	broad.mit.edu	37	9	123769199	123769199	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:123769199A>C	uc004bkv.2	-	19	2435	c.2405T>G	c.(2404-2406)GTT>GGT	p.V802G	C5_uc010mvm.1_Missense_Mutation_p.V802G	NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	802					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)													---	---	---	---
RAB14	51552	broad.mit.edu	37	9	123952946	123952946	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:123952946C>T	uc004blc.2	-	4	626	c.170G>A	c.(169-171)GGC>GAC	p.G57D		NM_016322	NP_057406	P61106	RAB14_HUMAN	GTPase Rab14	57					embryo development|fibroblast growth factor receptor signaling pathway|Golgi to endosome transport|neurotransmitter secretion|protein transport|small GTPase mediated signal transduction	cytosol|early endosome membrane|Golgi membrane|Golgi stack|late endosome|lysosome|membrane fraction|nuclear outer membrane-endoplasmic reticulum membrane network|perinuclear region of cytoplasm|rough endoplasmic reticulum|trans-Golgi network transport vesicle	GDP binding|GTP binding|GTPase activity				0																		---	---	---	---
GSN	2934	broad.mit.edu	37	9	124064372	124064372	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:124064372C>T	uc004blf.1	+	2	337	c.276C>T	c.(274-276)GGC>GGT	p.G92G	GSN_uc004bld.1_Silent_p.G41G|GSN_uc010mvq.1_Silent_p.G52G|GSN_uc010mvr.1_Silent_p.G52G|GSN_uc010mvu.1_Silent_p.G41G|GSN_uc010mvt.1_Silent_p.G41G|GSN_uc010mvs.1_Silent_p.G41G|GSN_uc004ble.1_Silent_p.G41G|GSN_uc010mvv.1_Silent_p.G41G|GSN_uc011lyh.1_Silent_p.G58G|GSN_uc011lyi.1_Silent_p.G41G|GSN_uc011lyj.1_Silent_p.G65G	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor	92	Actin-severing (Potential).|Gelsolin-like 1.				actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3																		---	---	---	---
DAB2IP	153090	broad.mit.edu	37	9	124522353	124522353	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:124522353C>T	uc004bln.2	+	6	790	c.721C>T	c.(721-723)CGC>TGC	p.R241C	DAB2IP_uc004blo.2_Missense_Mutation_p.R145C	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	269	C2.				activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
DAB2IP	153090	broad.mit.edu	37	9	124522722	124522722	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:124522722C>T	uc004bln.2	+						DAB2IP_uc004blo.2_Intron	NM_032552	NP_115941			disabled homolog 2 interacting protein isoform						activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
DAB2IP	153090	broad.mit.edu	37	9	124526054	124526054	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:124526054C>T	uc004bln.2	+	8	1341	c.1272C>T	c.(1270-1272)TGC>TGT	p.C424C	DAB2IP_uc004blo.2_Silent_p.C328C	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	452	Ras-GAP.				activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
DAB2IP	153090	broad.mit.edu	37	9	124528868	124528868	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:124528868C>T	uc004bln.2	+	9	1541	c.1472C>T	c.(1471-1473)GCC>GTC	p.A491V	DAB2IP_uc004blo.2_Missense_Mutation_p.A395V|DAB2IP_uc004blp.2_5'Flank	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	519	Ras-GAP.				activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
LHX6	26468	broad.mit.edu	37	9	124975917	124975917	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:124975917G>A	uc010mvw.2	-	7	1044	c.935C>T	c.(934-936)GCG>GTG	p.A312V	LHX6_uc004blx.3_Missense_Mutation_p.A341V|LHX6_uc004bly.3_Missense_Mutation_p.A341V	NM_014368	NP_055183	Q9UPM6	LHX6_HUMAN	LIM homeobox protein 6 isoform 1	312					cell maturation|cerebral cortex GABAergic interneuron migration|cerebral cortex radially oriented cell migration|cerebral cortex tangential migration	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0																		---	---	---	---
PTGS1	5742	broad.mit.edu	37	9	125140215	125140215	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125140215C>A	uc004bmg.1	+	3	267	c.132C>A	c.(130-132)GGC>GGA	p.G44G	PTGS1_uc011lys.1_Silent_p.G19G|PTGS1_uc010mwb.1_5'UTR|PTGS1_uc004bmf.1_Silent_p.G44G|PTGS1_uc004bmh.1_5'UTR|PTGS1_uc011lyt.1_5'UTR	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	44	EGF-like.				cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)													---	---	---	---
PTGS1	5742	broad.mit.edu	37	9	125143979	125143979	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125143979C>T	uc004bmg.1	+	7	850	c.715C>T	c.(715-717)CGT>TGT	p.R239C	PTGS1_uc011lys.1_Missense_Mutation_p.R214C|PTGS1_uc010mwb.1_Missense_Mutation_p.R130C|PTGS1_uc004bmf.1_Missense_Mutation_p.R239C|PTGS1_uc004bmh.1_Missense_Mutation_p.R130C|PTGS1_uc011lyt.1_Missense_Mutation_p.R130C	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	239					cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)													---	---	---	---
OR1J1	347168	broad.mit.edu	37	9	125240110	125240110	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125240110C>A	uc011lyu.1	-	1	96	c.96G>T	c.(94-96)CTG>CTT	p.L32L	OR1J2_uc004bmj.1_Intron	NM_001004451	NP_001004451	Q8NGS3	OR1J1_HUMAN	olfactory receptor, family 1, subfamily J,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2																		---	---	---	---
OR1L1	26737	broad.mit.edu	37	9	125424697	125424697	+	Missense_Mutation	SNP	C	T	T	rs78370954		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125424697C>T	uc011lza.1	+	1	853	c.853C>T	c.(853-855)CGT>TGT	p.R285C		NM_001005236	NP_001005236	Q8NH94	OR1L1_HUMAN	olfactory receptor, family 1, subfamily L,	285	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4																		---	---	---	---
ZBTB26	57684	broad.mit.edu	37	9	125681251	125681251	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125681251G>A	uc004bnj.2	-	2	1175	c.963C>T	c.(961-963)GCC>GCT	p.A321A	ZBTB26_uc004bnk.2_Silent_p.A321A	NM_020924	NP_065975	Q9HCK0	ZBT26_HUMAN	zinc finger and BTB domain containing 26	321					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
STRBP	55342	broad.mit.edu	37	9	125898431	125898431	+	Silent	SNP	G	A	A	rs141839908		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125898431G>A	uc004bns.2	-	16	2092	c.1662C>T	c.(1660-1662)GGC>GGT	p.G554G	STRBP_uc004bnt.2_Silent_p.G372G|STRBP_uc004bnu.2_Silent_p.G540G|STRBP_uc004bnv.2_Silent_p.G554G|STRBP_uc004bnr.2_Silent_p.G113G	NM_018387	NP_060857	Q96SI9	STRBP_HUMAN	spermatid perinuclear RNA binding protein	554	DRBM 2.				multicellular organismal development	cytoplasm|nucleus	DNA binding			breast(1)|skin(1)	2																		---	---	---	---
STRBP	55342	broad.mit.edu	37	9	125941475	125941475	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125941475C>T	uc004bns.2	-	4	465	c.35G>A	c.(34-36)CGC>CAC	p.R12H	STRBP_uc004bnt.2_5'UTR|STRBP_uc004bnu.2_5'UTR|STRBP_uc004bnv.2_Missense_Mutation_p.R12H	NM_018387	NP_060857	Q96SI9	STRBP_HUMAN	spermatid perinuclear RNA binding protein	12					multicellular organismal development	cytoplasm|nucleus	DNA binding			breast(1)|skin(1)	2																		---	---	---	---
CRB2	286204	broad.mit.edu	37	9	126132504	126132504	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:126132504G>A	uc004bnx.1	+	7	1264	c.1172G>A	c.(1171-1173)CGC>CAC	p.R391H	CRB2_uc004bnw.1_Missense_Mutation_p.R391H	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	391	Extracellular (Potential).|EGF-like 8; calcium-binding (Potential).					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1																		---	---	---	---
CRB2	286204	broad.mit.edu	37	9	126132729	126132729	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:126132729G>A	uc004bnx.1	+	7	1489	c.1397G>A	c.(1396-1398)CGC>CAC	p.R466H	CRB2_uc004bnw.1_Missense_Mutation_p.R466H	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	466	Extracellular (Potential).|Laminin G-like 1.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1																		---	---	---	---
CRB2	286204	broad.mit.edu	37	9	126133829	126133829	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:126133829C>T	uc004bnx.1	+	8	2500	c.2408C>T	c.(2407-2409)GCG>GTG	p.A803V	CRB2_uc004bnw.1_Missense_Mutation_p.A803V	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	803	Extracellular (Potential).|Laminin G-like 2.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1																		---	---	---	---
LHX2	9355	broad.mit.edu	37	9	126777465	126777465	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:126777465C>T	uc004boe.1	+	3	1127	c.388C>T	c.(388-390)CGC>TGC	p.R130C	LHX2_uc010mwi.1_Missense_Mutation_p.R138C	NM_004789	NP_004780	P50458	LHX2_HUMAN	LIM homeobox protein 2	130	LIM zinc-binding 2.					nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0																		---	---	---	---
OLFML2A	169611	broad.mit.edu	37	9	127572560	127572560	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:127572560G>A	uc004bov.2	+	8	1941	c.1828G>A	c.(1828-1830)GCA>ACA	p.A610T	OLFML2A_uc004bow.2_Missense_Mutation_p.A396T	NM_182487	NP_872293	Q68BL7	OLM2A_HUMAN	olfactomedin-like 2A precursor	610	Olfactomedin-like.										0																		---	---	---	---
MAPKAP1	79109	broad.mit.edu	37	9	128434766	128434766	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:128434766C>T	uc004bpv.2	-	2	421	c.88G>A	c.(88-90)GTT>ATT	p.V30I	MAPKAP1_uc004bpw.2_Intron|MAPKAP1_uc004bpx.2_Intron|MAPKAP1_uc004bpy.2_Missense_Mutation_p.V30I|MAPKAP1_uc004bpz.2_Missense_Mutation_p.V30I|MAPKAP1_uc010mxa.2_RNA|MAPKAP1_uc004bqa.2_Missense_Mutation_p.V30I	NM_001006617	NP_001006618	Q9BPZ7	SIN1_HUMAN	mitogen-activated protein kinase associated	30	Interaction with MAP3K2.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|response to stress|T cell costimulation	cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	Ras GTPase binding			ovary(2)|lung(2)	4																		---	---	---	---
RPL12	6136	broad.mit.edu	37	9	130210010	130210010	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130210010G>A	uc004bqy.1	-						RPL12_uc004bqx.1_Intron|RPL12_uc004bqz.1_Intron	NM_000976	NP_000967			ribosomal protein L12						endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|ribosome	RNA binding|structural constituent of ribosome				0																		---	---	---	---
STXBP1	6812	broad.mit.edu	37	9	130430453	130430453	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130430453G>A	uc004brl.2	+	10	1086	c.889G>A	c.(889-891)GCA>ACA	p.A297T	STXBP1_uc004brk.2_Missense_Mutation_p.A297T	NM_001032221	NP_001027392	P61764	STXB1_HUMAN	syntaxin binding protein 1 isoform b	297					axon target recognition|energy reserve metabolic process|glutamate secretion|negative regulation of synaptic transmission, GABAergic|neurotransmitter secretion|platelet aggregation|platelet degranulation|protein transport|regulation of insulin secretion|regulation of synaptic vesicle priming|synaptic vesicle maturation|vesicle docking involved in exocytosis	cytosol|mitochondrion|plasma membrane|platelet alpha granule|protein complex	identical protein binding|syntaxin-1 binding|syntaxin-2 binding			skin(1)	1																		---	---	---	---
ST6GALNAC6	30815	broad.mit.edu	37	9	130656785	130656785	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130656785C>T	uc004bso.1	-						ST6GALNAC6_uc004bsn.1_Intron|ST6GALNAC6_uc011man.1_Intron|ST6GALNAC6_uc004bsp.1_Intron|ST6GALNAC6_uc004bsq.1_Intron|ST6GALNAC6_uc004bsr.2_Intron|ST6GALNAC6_uc010mxp.1_Intron	NM_013443	NP_038471			sialytransferase 7F						protein glycosylation	integral to Golgi membrane|plasma membrane					0																		---	---	---	---
ODF2	4957	broad.mit.edu	37	9	131262457	131262457	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131262457G>A	uc011mbd.1	+	21	2724	c.2413G>A	c.(2413-2415)GCC>ACC	p.A805T	ODF2_uc004bvb.2_Missense_Mutation_p.A781T|ODF2_uc011mbe.1_Missense_Mutation_p.A800T|ODF2_uc004bvc.2_Missense_Mutation_p.A781T|ODF2_uc004bvd.3_Missense_Mutation_p.A805T|ODF2_uc004bvh.2_Missense_Mutation_p.A211T	NM_002540	NP_002531	Q5BJF6	ODFP2_HUMAN	outer dense fiber of sperm tails 2 isoform 1	805					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centriole|cilium|cytosol|microtubule|spindle pole	protein binding|structural molecule activity			ovary(1)	1																		---	---	---	---
PKN3	29941	broad.mit.edu	37	9	131475831	131475831	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131475831C>T	uc004bvw.2	+	9	1539	c.1146C>T	c.(1144-1146)GGC>GGT	p.G382G	PKN3_uc010myh.2_Silent_p.G382G|PKN3_uc011mbk.1_5'UTR	NM_013355	NP_037487	Q6P5Z2	PKN3_HUMAN	protein kinase PKNbeta	382					signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein binding|protein kinase C activity			stomach(2)|lung(2)	4																		---	---	---	---
PKN3	29941	broad.mit.edu	37	9	131476578	131476578	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131476578G>C	uc004bvw.2	+	11	1808	c.1415G>C	c.(1414-1416)AGC>ACC	p.S472T	PKN3_uc010myh.2_Missense_Mutation_p.S472T|PKN3_uc011mbk.1_Missense_Mutation_p.S22T	NM_013355	NP_037487	Q6P5Z2	PKN3_HUMAN	protein kinase PKNbeta	472	Pro-rich.				signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein binding|protein kinase C activity			stomach(2)|lung(2)	4																		---	---	---	---
TBC1D13	54662	broad.mit.edu	37	9	131568288	131568288	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131568288G>A	uc010myj.2	+	10	1192	c.1069G>A	c.(1069-1071)GCC>ACC	p.A357T	TBC1D13_uc010myk.2_Missense_Mutation_p.A232T|TBC1D13_uc010myl.2_Missense_Mutation_p.A176T	NM_018201	NP_060671	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	357						intracellular	Rab GTPase activator activity				0																		---	---	---	---
LRRC8A	56262	broad.mit.edu	37	9	131671260	131671260	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131671260T>A	uc004bwl.3	+	3	2071	c.1817T>A	c.(1816-1818)ATC>AAC	p.I606N	LRRC8A_uc010myp.2_Missense_Mutation_p.I606N|LRRC8A_uc010myq.2_Missense_Mutation_p.I606N	NM_019594	NP_062540	Q8IWT6	LRC8A_HUMAN	leucine rich repeat containing 8 family, member	606	LRR 10.				pre-B cell differentiation	integral to membrane					0																		---	---	---	---
NUP188	23511	broad.mit.edu	37	9	131760467	131760467	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131760467G>A	uc004bws.1	+	31	3411	c.3389G>A	c.(3388-3390)CGC>CAC	p.R1130H	NUP188_uc004bwu.2_Missense_Mutation_p.R473H	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1130					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7																		---	---	---	---
SH3GLB2	56904	broad.mit.edu	37	9	131777084	131777084	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131777084C>T	uc004bwv.2	-	4	580	c.434G>A	c.(433-435)CGC>CAC	p.R145H	SH3GLB2_uc004bww.2_Missense_Mutation_p.R145H|SH3GLB2_uc004bwx.1_Missense_Mutation_p.R145H|SH3GLB2_uc011mbm.1_Missense_Mutation_p.R145H	NM_020145	NP_064530	Q9NR46	SHLB2_HUMAN	SH3-domain GRB2-like endophilin B2	145	BAR.				filopodium assembly|signal transduction	cytoplasm|nucleus	cytoskeletal adaptor activity|SH3 domain binding				0																		---	---	---	---
USP20	10868	broad.mit.edu	37	9	132636952	132636952	+	Missense_Mutation	SNP	G	A	A	rs142714756	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:132636952G>A	uc004bys.2	+	18	2049	c.1838G>A	c.(1837-1839)CGC>CAC	p.R613H	USP20_uc004byr.2_Missense_Mutation_p.R613H|USP20_uc004byt.1_Missense_Mutation_p.R613H	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	613					endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)																---	---	---	---
ASS1	445	broad.mit.edu	37	9	133339508	133339508	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:133339508A>G	uc004bzm.2	+	6	730	c.374A>G	c.(373-375)CAG>CGG	p.Q125R	ASS1_uc004bzn.2_Missense_Mutation_p.Q125R|ASS1_uc010mza.2_Missense_Mutation_p.Q201R|ASS1_uc004bzo.2_Intron|ASS1_uc010mzb.2_Missense_Mutation_p.Q163R|ASS1_uc004bzp.2_Missense_Mutation_p.Q125R|ASS1_uc010mzc.2_Missense_Mutation_p.Q125R	NM_000050	NP_000041	P00966	ASSY_HUMAN	argininosuccinate synthetase 1	125					arginine biosynthetic process|urea cycle	cytosol	argininosuccinate synthase activity|ATP binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000514)	Adenosine triphosphate(DB00171)|L-Arginine(DB00125)|L-Aspartic Acid(DB00128)|L-Citrulline(DB00155)													---	---	---	---
ABL1	25	broad.mit.edu	37	9	133738377	133738377	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:133738377C>T	uc004bzw.2	+	4	780	c.777C>T	c.(775-777)GGC>GGT	p.G259G	ABL1_uc004bzv.2_Silent_p.G278G|uc004bzx.1_5'Flank	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	259	Protein kinase.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								---	---	---	---
ABL1	25	broad.mit.edu	37	9	133759406	133759406	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:133759406C>T	uc004bzw.2	+	11	1732	c.1729C>T	c.(1729-1731)CGA>TGA	p.R577*	ABL1_uc004bzv.2_Nonsense_Mutation_p.R596*	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	577					actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								---	---	---	---
ABL1	25	broad.mit.edu	37	9	133760767	133760767	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:133760767C>T	uc004bzw.2	+	11	3093	c.3090C>T	c.(3088-3090)GGC>GGT	p.G1030G	ABL1_uc004bzv.2_Silent_p.G1049G	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	1030	F-actin-binding.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								---	---	---	---
LAMC3	10319	broad.mit.edu	37	9	133946996	133946996	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:133946996C>T	uc004caa.1	+	18	3293	c.3195C>T	c.(3193-3195)GGC>GGT	p.G1065G		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	1065	Domain II and I.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)														---	---	---	---
NUP214	8021	broad.mit.edu	37	9	134002952	134002952	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:134002952C>A	uc004cag.2	+	2	198	c.87C>A	c.(85-87)GAC>GAA	p.D29E	NUP214_uc004cah.2_Missense_Mutation_p.D29E|NUP214_uc004caf.1_Missense_Mutation_p.D29E	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	29					carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)				T	DEK|SET|ABL1	AML|T-ALL								---	---	---	---
NUP214	8021	broad.mit.edu	37	9	134004682	134004682	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:134004682G>A	uc004cag.2	+	4	521	c.410G>A	c.(409-411)CGC>CAC	p.R137H	NUP214_uc004cah.2_Missense_Mutation_p.R137H|NUP214_uc004caf.1_Missense_Mutation_p.R137H	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	137					carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)				T	DEK|SET|ABL1	AML|T-ALL								---	---	---	---
NUP214	8021	broad.mit.edu	37	9	134019919	134019919	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:134019919G>A	uc004cag.2	+	12	1658	c.1547G>A	c.(1546-1548)GGC>GAC	p.G516D	NUP214_uc004cah.2_Missense_Mutation_p.G516D|NUP214_uc004cai.2_5'UTR|NUP214_uc004caf.1_Missense_Mutation_p.G516D|NUP214_uc010mzf.2_5'UTR	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	516	11 X 5 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)				T	DEK|SET|ABL1	AML|T-ALL								---	---	---	---
BAT2L1	84726	broad.mit.edu	37	9	134330540	134330540	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:134330540G>A	uc004can.3	+	9	1253	c.1198G>A	c.(1198-1200)GGC>AGC	p.G400S	BAT2L1_uc010mzj.1_5'UTR	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	400							protein binding				0																		---	---	---	---
BAT2L1	84726	broad.mit.edu	37	9	134351424	134351424	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:134351424G>A	uc004can.3	+	15	3963	c.3908G>A	c.(3907-3909)CGC>CAC	p.R1303H	BAT2L1_uc010mzj.1_Missense_Mutation_p.R886H|BAT2L1_uc004cao.3_Missense_Mutation_p.R661H	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1303							protein binding				0																OREG0019561	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
BAT2L1	84726	broad.mit.edu	37	9	134371165	134371165	+	Silent	SNP	C	A	A	rs41296113	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:134371165C>A	uc004can.3	+	31	6649	c.6594C>A	c.(6592-6594)GCC>GCA	p.A2198A	BAT2L1_uc004cao.3_Missense_Mutation_p.P1528Q|BAT2L1_uc004cap.3_Silent_p.A344A|BAT2L1_uc011mch.1_Silent_p.A121A	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	2198							protein binding				0																		---	---	---	---
NTNG2	84628	broad.mit.edu	37	9	135114555	135114555	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135114555C>T	uc004cbh.2	+	6	1895	c.1119C>T	c.(1117-1119)TGC>TGT	p.C373C		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	373	Laminin EGF-like 2.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)														---	---	---	---
SETX	23064	broad.mit.edu	37	9	135139621	135139621	+	3'UTR	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135139621C>A	uc004cbk.2	-	26					SETX_uc004cbj.2_3'UTR|SETX_uc010mzt.2_3'UTR	NM_015046	NP_055861			senataxin						cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)														---	---	---	---
SETX	23064	broad.mit.edu	37	9	135203175	135203175	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135203175C>T	uc004cbk.2	-	10	3993	c.3810G>A	c.(3808-3810)CCG>CCA	p.P1270P	SETX_uc004cbj.2_Silent_p.P889P|SETX_uc010mzt.2_Silent_p.P889P	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1270					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)														---	---	---	---
TTF1	7270	broad.mit.edu	37	9	135275547	135275547	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135275547G>A	uc004cbl.2	-	3	1518	c.1466C>T	c.(1465-1467)GCG>GTG	p.A489V	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_5'UTR	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	489					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)														---	---	---	---
TSC1	7248	broad.mit.edu	37	9	135797351	135797351	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135797351G>A	uc004cca.2	-	7	752	c.518C>T	c.(517-519)GCG>GTG	p.A173V	TSC1_uc004ccb.3_Missense_Mutation_p.A173V|TSC1_uc011mcq.1_Missense_Mutation_p.A122V|TSC1_uc011mcr.1_Missense_Mutation_p.A52V|TSC1_uc011mcs.1_Missense_Mutation_p.A52V|TSC1_uc004ccc.1_Missense_Mutation_p.A173V|TSC1_uc004ccd.2_Missense_Mutation_p.A173V|TSC1_uc004cce.1_Missense_Mutation_p.A173V	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	173					activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding			lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)				D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				---	---	---	---
GTF3C5	9328	broad.mit.edu	37	9	135931464	135931464	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135931464C>T	uc004cci.3	+	9	1570	c.1233C>T	c.(1231-1233)TGC>TGT	p.C411C	GTF3C5_uc004ccj.3_Silent_p.C418C	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5	411						transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)														---	---	---	---
RALGDS	5900	broad.mit.edu	37	9	135982604	135982604	+	Silent	SNP	C	T	T	rs139454388		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135982604C>T	uc004cco.2	-	7	1301	c.1281G>A	c.(1279-1281)GCG>GCA	p.A427A	RALGDS_uc004ccp.2_RNA|RALGDS_uc004ccq.2_Silent_p.A415A|RALGDS_uc004ccr.2_Silent_p.A426A|RALGDS_uc011mcv.1_Silent_p.A398A|RALGDS_uc004ccs.2_Silent_p.A372A|RALGDS_uc011mcw.1_Silent_p.A498A|RALGDS_uc004ccv.1_Silent_p.A196A|RALGDS_uc004ccu.1_Silent_p.A196A	NM_006266	NP_006257	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator	427	Ras-GEF.				nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)				T	CIITA	PMBL|Hodgkin Lymphona|								---	---	---	---
SURF6	6838	broad.mit.edu	37	9	136199188	136199188	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136199188G>A	uc004cdb.3	-							NM_006753	NP_006744			surfeit 6							granular component	DNA binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.16e-06)|Epithelial(140;8.34e-06)|all cancers(34;7.08e-05)														---	---	---	---
C9orf96	169436	broad.mit.edu	37	9	136256456	136256456	+	Splice_Site	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136256456G>T	uc004cdk.2	+	7	529	c.468_splice	c.e7-1	p.R156_splice	C9orf96_uc004cdl.2_Intron	NM_153710	NP_714921			hypothetical protein LOC169436								ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)														---	---	---	---
ADAMTS13	11093	broad.mit.edu	37	9	136319700	136319700	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136319700G>A	uc004cdv.3	+	24	3652	c.3208G>A	c.(3208-3210)GCC>ACC	p.A1070T	ADAMTS13_uc004cdp.3_Missense_Mutation_p.A297T|ADAMTS13_uc004cdt.1_Missense_Mutation_p.A1070T|ADAMTS13_uc004cdu.1_Missense_Mutation_p.A1039T|ADAMTS13_uc004cdw.3_Missense_Mutation_p.A1070T|ADAMTS13_uc004cdx.3_Missense_Mutation_p.A1039T|ADAMTS13_uc004cdz.3_Missense_Mutation_p.A740T|ADAMTS13_uc004cea.1_5'Flank|ADAMTS13_uc004ceb.3_5'Flank	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1070					cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)														---	---	---	---
DBH	1621	broad.mit.edu	37	9	136508675	136508675	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136508675C>T	uc004cel.2	+	4	894	c.885C>T	c.(883-885)TGC>TGT	p.C295C		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	295	Intragranular (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)													---	---	---	---
DBH	1621	broad.mit.edu	37	9	136521780	136521780	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136521780C>T	uc004cel.2	+						uc010nao.1_Intron	NM_000787	NP_000778			dopamine beta hydroxylase precursor						hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)													---	---	---	---
VAV2	7410	broad.mit.edu	37	9	136643996	136643996	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136643996G>A	uc004ces.2	-	22	1824	c.1778C>T	c.(1777-1779)GCC>GTC	p.A593V	VAV2_uc004cer.2_Missense_Mutation_p.A583V|VAV2_uc004cet.1_Missense_Mutation_p.A132V	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	593	SH3 1.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)														---	---	---	---
VAV2	7410	broad.mit.edu	37	9	136677305	136677305	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136677305G>A	uc004ces.2	-	5	529	c.483C>T	c.(481-483)TGC>TGT	p.C161C	VAV2_uc004cer.2_Silent_p.C161C	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	161					angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)														---	---	---	---
BRD3	8019	broad.mit.edu	37	9	136913403	136913403	+	Silent	SNP	G	A	A	rs141698176	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136913403G>A	uc004cew.2	-	6	1076	c.888C>T	c.(886-888)GGC>GGT	p.G296G	BRD3_uc004cex.2_Silent_p.G296G	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	296						nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)				T	NUT|C15orf55	lethal midline carcinoma of young people								---	---	---	---
RXRA	6256	broad.mit.edu	37	9	137300846	137300846	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137300846G>A	uc004cfb.2	+	4	653	c.491G>A	c.(490-492)CGC>CAC	p.R164H	RXRA_uc004cfc.1_Missense_Mutation_p.R67H	NM_002957	NP_002948	P19793	RXRA_HUMAN	retinoid X receptor, alpha	164	Nuclear receptor.				cellular lipid metabolic process|cholesterol metabolic process|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid|vitamin metabolic process	nuclear chromatin|nucleoplasm	enzyme binding|ligand-regulated transcription factor activity|protein heterodimerization activity|retinoic acid-responsive element binding|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|transcription coactivator activity|vitamin D receptor binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(145;4.66e-08)|Epithelial(140;6.72e-08)|all cancers(34;2.22e-07)	Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)													---	---	---	---
COL5A1	1289	broad.mit.edu	37	9	137707473	137707473	+	Missense_Mutation	SNP	G	A	A	rs147868179	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137707473G>A	uc004cfe.2	+	51	4448	c.4066G>A	c.(4066-4068)GCG>ACG	p.A1356T		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1356	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)														---	---	---	---
KIAA0649	9858	broad.mit.edu	37	9	138376878	138376878	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138376878G>A	uc004cfr.1	+	4	1071	c.522G>A	c.(520-522)CCG>CCA	p.P174P		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	174						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)														---	---	---	---
KIAA0649	9858	broad.mit.edu	37	9	138379962	138379962	+	Silent	SNP	C	T	T	rs139604299	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138379962C>T	uc004cfr.1	+	4	4155	c.3606C>T	c.(3604-3606)GGC>GGT	p.G1202G		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	1202						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)														---	---	---	---
LCN9	392399	broad.mit.edu	37	9	138557549	138557549	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138557549C>T	uc004cgk.1	+	5	426	c.426C>T	c.(424-426)TGC>TGT	p.C142C		NM_001001676	NP_001001676	Q8WX39	LCN9_HUMAN	lipocalin 9	142						extracellular region	pheromone binding|transporter activity			large_intestine(2)	2		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;3.43e-07)|Epithelial(140;1.97e-06)|all cancers(34;6.1e-05)														---	---	---	---
CAMSAP1	157922	broad.mit.edu	37	9	138714394	138714394	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138714394C>G	uc004cgr.3	-	11	2113	c.2113G>C	c.(2113-2115)GGC>CGC	p.G705R	CAMSAP1_uc004cgq.3_Missense_Mutation_p.G595R|CAMSAP1_uc010nbg.2_Missense_Mutation_p.G427R	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	705						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)														---	---	---	---
QSOX2	169714	broad.mit.edu	37	9	139113754	139113754	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139113754C>T	uc010nbi.2	-	6	747	c.709G>A	c.(709-711)GTG>ATG	p.V237M		NM_181701	NP_859052	Q6ZRP7	QSOX2_HUMAN	quiescin Q6 sulfhydryl oxidase 2 precursor	237					cell redox homeostasis	extracellular region|integral to membrane|nuclear membrane|plasma membrane	thiol oxidase activity			ovary(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;7.78e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.55e-07)														---	---	---	---
SDCCAG3	10807	broad.mit.edu	37	9	139302298	139302298	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139302298C>T	uc004chi.2	-	4	587	c.382G>A	c.(382-384)GCC>ACC	p.A128T	SDCCAG3_uc004chj.2_Missense_Mutation_p.A105T|SDCCAG3_uc004chk.2_Missense_Mutation_p.A55T|PMPCA_uc011mdy.1_5'Flank|PMPCA_uc010nbk.2_5'Flank|PMPCA_uc004chl.2_5'Flank|PMPCA_uc010nbl.2_5'Flank|PMPCA_uc011mdz.1_5'Flank	NM_001039707	NP_001034796	Q96C92	SDCG3_HUMAN	serologically defined colon cancer antigen 3	128						cytoplasm					0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.18e-06)|Epithelial(140;9.31e-06)														---	---	---	---
PMPCA	23203	broad.mit.edu	37	9	139311661	139311661	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139311661G>A	uc004chl.2	+	7	897	c.892G>A	c.(892-894)GCC>ACC	p.A298T	PMPCA_uc010nbl.2_Missense_Mutation_p.A198T|PMPCA_uc011mdz.1_Missense_Mutation_p.A167T|PMPCA_uc004chm.1_Missense_Mutation_p.A48T|PMPCA_uc004chn.1_5'Flank	NM_015160	NP_055975	Q10713	MPPA_HUMAN	peptidase (mitochondrial processing) alpha	298					proteolysis	mitochondrial inner membrane|mitochondrial matrix	metalloendopeptidase activity|zinc ion binding				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;9.3e-06)|Epithelial(140;1.15e-05)														---	---	---	---
SEC16A	9919	broad.mit.edu	37	9	139358156	139358156	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139358156G>A	uc004chx.2	-	10	4792	c.4483C>T	c.(4483-4485)CGG>TGG	p.R1495W	SEC16A_uc004chv.3_Missense_Mutation_p.R885W|SEC16A_uc004chw.2_Missense_Mutation_p.R1495W|SEC16A_uc010nbn.2_Missense_Mutation_p.R1495W	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1317					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)														---	---	---	---
NOTCH1	4851	broad.mit.edu	37	9	139391176	139391176	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139391176C>T	uc004chz.2	-	34	7015	c.7015G>A	c.(7015-7017)GCC>ACC	p.A2339T		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2339	Cytoplasmic (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)			---	---	---	---
NOTCH1	4851	broad.mit.edu	37	9	139407576	139407576	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139407576G>A	uc004chz.2	-	15	2364	c.2364C>T	c.(2362-2364)TGC>TGT	p.C788C	NOTCH1_uc004cia.1_Silent_p.C18C	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	788	Extracellular (Potential).|EGF-like 20.				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)			---	---	---	---
NOTCH1	4851	broad.mit.edu	37	9	139412321	139412321	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139412321G>A	uc004chz.2	-	8	1324	c.1324C>T	c.(1324-1326)CAG>TAG	p.Q442*		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	442	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)			---	---	---	---
PHPT1	29085	broad.mit.edu	37	9	139744537	139744537	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139744537G>A	uc004cjp.2	+	3	855	c.233G>A	c.(232-234)CGC>CAC	p.R78H	PHPT1_uc011mei.1_Missense_Mutation_p.R78H|PHPT1_uc004cjq.3_Missense_Mutation_p.R78H|MAMDC4_uc004cjs.2_5'Flank|MAMDC4_uc011mej.1_5'Flank	NM_014172	NP_054891	Q9NRX4	PHP14_HUMAN	phosphohistidine phosphatase 1 isoform 3	78				R->A: Decreased affinity for substrate and reduced catalytic activity.		cytosol	phosphohistidine phosphatase activity|phosphoprotein phosphatase activity				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)														---	---	---	---
ABCA2	20	broad.mit.edu	37	9	139912013	139912013	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139912013G>A	uc011mem.1	-	16	2488	c.2340C>T	c.(2338-2340)AGC>AGT	p.S780S	ABCA2_uc011mel.1_Silent_p.S781S|ABCA2_uc004ckl.1_Silent_p.S711S|ABCA2_uc004ckm.1_Silent_p.S811S|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	780					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)														---	---	---	---
MAN1B1	11253	broad.mit.edu	37	9	139996028	139996028	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139996028G>A	uc004cld.2	+	8	1193	c.1158G>A	c.(1156-1158)CCG>CCA	p.P386P	MAN1B1_uc004clc.2_Silent_p.P287P|MAN1B1_uc011meo.1_Silent_p.P287P|MAN1B1_uc011mep.1_Silent_p.P386P|MAN1B1_uc010ncc.2_RNA|MAN1B1_uc004clf.1_5'Flank	NM_016219	NP_057303	Q9UKM7	MA1B1_HUMAN	alpha 1,2-mannosidase	386	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|endoplasmic reticulum quality control compartment|integral to membrane	alpha-mannosidase activity|calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)														---	---	---	---
MAN1B1	11253	broad.mit.edu	37	9	140002935	140002935	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140002935G>A	uc004cld.2	+	13	2027	c.1992G>A	c.(1990-1992)ACG>ACA	p.T664T	MAN1B1_uc011mep.1_3'UTR|MAN1B1_uc010ncc.2_RNA|MAN1B1_uc004clf.1_Silent_p.T337T|MAN1B1_uc004clg.1_RNA	NM_016219	NP_057303	Q9UKM7	MA1B1_HUMAN	alpha 1,2-mannosidase	664	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|endoplasmic reticulum quality control compartment|integral to membrane	alpha-mannosidase activity|calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)														---	---	---	---
EXD3	54932	broad.mit.edu	37	9	140242513	140242513	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140242513G>A	uc004cmp.2	-						C9orf167_uc011mew.1_Intron|EXD3_uc010ncf.1_Intron|EXD3_uc004cmq.1_Intron	NM_017820	NP_060290			exonuclease 3'-5' domain containing 3						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0																		---	---	---	---
ZMYND19	116225	broad.mit.edu	37	9	140481457	140481457	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140481457G>A	uc004cno.1	-	4	543	c.321C>T	c.(319-321)GGC>GGT	p.G107G		NM_138462	NP_612471	Q96E35	ZMY19_HUMAN	zinc finger, MYND domain containing 19	107						Golgi apparatus|plasma membrane	zinc ion binding			skin(1)	1	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000275)|Epithelial(140;0.00047)														---	---	---	---
EHMT1	79813	broad.mit.edu	37	9	140672491	140672491	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140672491G>A	uc011mfc.1	+	13	2213	c.2176G>A	c.(2176-2178)GCC>ACC	p.A726T	EHMT1_uc004coa.2_Missense_Mutation_p.A726T|EHMT1_uc004cob.1_Missense_Mutation_p.A695T	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	726					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)														---	---	---	---
DIP2C	22982	broad.mit.edu	37	10	430000	430000	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:430000G>A	uc001ifp.2	-	16	1933	c.1843C>T	c.(1843-1845)CGA>TGA	p.R615*	DIP2C_uc009xhj.1_Nonsense_Mutation_p.R311*	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	615						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)														---	---	---	---
GTPBP4	23560	broad.mit.edu	37	10	1043150	1043150	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1043150C>T	uc001ift.2	+	5	534	c.463C>T	c.(463-465)CGT>TGT	p.R155C	GTPBP4_uc010qac.1_5'UTR|GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_Missense_Mutation_p.R39C|GTPBP4_uc010qae.1_Missense_Mutation_p.R108C	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	155					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)														---	---	---	---
PFKP	5214	broad.mit.edu	37	10	3124630	3124630	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:3124630G>A	uc001igp.2	+	2	199	c.163G>A	c.(163-165)GCC>ACC	p.A55T	PFKP_uc001igq.2_Missense_Mutation_p.G20D|PFKP_uc009xhr.2_Missense_Mutation_p.A17T	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	55					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)														---	---	---	---
PFKP	5214	broad.mit.edu	37	10	3154433	3154433	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:3154433C>T	uc001igp.2	+	11	1145	c.1109C>T	c.(1108-1110)GCG>GTG	p.A370V	PFKP_uc001igq.2_Missense_Mutation_p.A362V|PFKP_uc009xhr.2_Missense_Mutation_p.A332V|PFKP_uc009xhs.1_Missense_Mutation_p.A154V|PFKP_uc009xht.2_Missense_Mutation_p.A108V|PFKP_uc009xhu.2_5'Flank	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	370					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)														---	---	---	---
TUBAL3	79861	broad.mit.edu	37	10	5435974	5435974	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5435974C>T	uc001ihy.2	-	4	887	c.847G>A	c.(847-849)GTC>ATC	p.V283I	TUBAL3_uc001ihz.2_Missense_Mutation_p.V243I	NM_024803	NP_079079	A6NHL2	TBAL3_HUMAN	tubulin, alpha-like 3	283					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1																		---	---	---	---
C10orf18	54906	broad.mit.edu	37	10	5772453	5772453	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5772453T>C	uc001iij.2	+	11	1116	c.491T>C	c.(490-492)GTG>GCG	p.V164A	C10orf18_uc001iik.2_5'Flank	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	164										ovary(1)|central_nervous_system(1)	2																		---	---	---	---
C10orf18	54906	broad.mit.edu	37	10	5788414	5788414	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5788414G>A	uc001iij.2	+	15	3655	c.3030G>A	c.(3028-3030)GTG>GTA	p.V1010V	C10orf18_uc001iik.2_Intron	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	1010										ovary(1)|central_nervous_system(1)	2																		---	---	---	---
SFMBT2	57713	broad.mit.edu	37	10	7247845	7247845	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7247845A>T	uc009xio.1	-	12	1467	c.1376T>A	c.(1375-1377)ATG>AAG	p.M459K	SFMBT2_uc001ijn.1_Missense_Mutation_p.M459K|SFMBT2_uc010qay.1_Intron	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	459	MBT 4.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8																		---	---	---	---
SFMBT2	57713	broad.mit.edu	37	10	7409677	7409677	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7409677C>G	uc009xio.1	-	4	461	c.370G>C	c.(370-372)GTC>CTC	p.V124L	SFMBT2_uc001ijn.1_Missense_Mutation_p.V124L|SFMBT2_uc010qay.1_Missense_Mutation_p.V124L|SFMBT2_uc001ijo.1_Missense_Mutation_p.V124L	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	124	MBT 1.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8																		---	---	---	---
ITIH5	80760	broad.mit.edu	37	10	7605039	7605039	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7605039C>T	uc001ijq.2	-	14	2915	c.2836G>A	c.(2836-2838)GCA>ACA	p.A946T	ITIH5_uc001ijp.2_Missense_Mutation_p.A732T	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	Error:Variant_position_missing_in_Q86UX2_after_alignment					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4																		---	---	---	---
DHTKD1	55526	broad.mit.edu	37	10	12136162	12136162	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:12136162G>A	uc001ild.3	+	7	1349	c.1250G>A	c.(1249-1251)CGC>CAC	p.R417H		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	417					glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)															---	---	---	---
CAMK1D	57118	broad.mit.edu	37	10	12833171	12833171	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:12833171G>A	uc001ilo.2	+	6	815	c.580G>A	c.(580-582)GCC>ACC	p.A194T	CAMK1D_uc001iln.2_Missense_Mutation_p.A194T	NM_153498	NP_705718	Q8IU85	KCC1D_HUMAN	calcium/calmodulin-dependent protein kinase ID	194	Protein kinase.					calcium- and calmodulin-dependent protein kinase complex|cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)|stomach(1)	2				GBM - Glioblastoma multiforme(1;3.16e-05)														---	---	---	---
MCM10	55388	broad.mit.edu	37	10	13213246	13213246	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:13213246C>T	uc001ima.2	+	3	433	c.332C>T	c.(331-333)ACG>ATG	p.T111M	MCM10_uc001imb.2_Missense_Mutation_p.T111M|MCM10_uc001imc.2_Missense_Mutation_p.T111M	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	111					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
FAM188A	80013	broad.mit.edu	37	10	15838155	15838155	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:15838155G>A	uc001iod.1	-	11	1120	c.899C>T	c.(898-900)GCC>GTC	p.A300V	FAM188A_uc001ioe.1_Missense_Mutation_p.A127V|FAM188A_uc001iof.1_Missense_Mutation_p.A300V	NM_024948	NP_079224	Q9H8M7	F188A_HUMAN	chromosome 10 open reading frame 97	300					apoptosis	nucleus	calcium ion binding			ovary(1)	1																		---	---	---	---
CUBN	8029	broad.mit.edu	37	10	16970170	16970170	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:16970170G>A	uc001ioo.2	-	41	6309	c.6257C>T	c.(6256-6258)GCA>GTA	p.A2086V		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2086	CUB 14.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)													---	---	---	---
VIM	7431	broad.mit.edu	37	10	17277251	17277251	+	Silent	SNP	C	T	T	rs116696668	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17277251C>T	uc001iou.2	+	7	1505	c.1092C>T	c.(1090-1092)CGC>CGT	p.R364R	VIM_uc001iov.1_Silent_p.R364R|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Silent_p.R364R|VIM_uc001ioy.1_Intron|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Silent_p.R322R|VIM_uc001ipc.1_Silent_p.R364R	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	364	Rod.|Coil 2.				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																		---	---	---	---
CACNB2	783	broad.mit.edu	37	10	18816561	18816561	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18816561G>A	uc001ipr.2	+	10	1049	c.989G>A	c.(988-990)CGC>CAC	p.R330H	CACNB2_uc009xjz.1_Intron|CACNB2_uc001ips.2_Missense_Mutation_p.R306H|CACNB2_uc001ipt.2_Missense_Mutation_p.R292H|CACNB2_uc010qcl.1_RNA|CACNB2_uc001ipu.2_Missense_Mutation_p.R302H|CACNB2_uc001ipv.2_Missense_Mutation_p.R278H|CACNB2_uc009xka.1_Missense_Mutation_p.R264H|CACNB2_uc001ipw.2_Missense_Mutation_p.R237H|CACNB2_uc001ipx.2_Missense_Mutation_p.R275H|CACNB2_uc001ipz.2_Missense_Mutation_p.R252H|CACNB2_uc001ipy.2_Missense_Mutation_p.R276H|CACNB2_uc010qco.1_Missense_Mutation_p.R244H|CACNB2_uc001iqa.2_Missense_Mutation_p.R282H|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	330					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)													---	---	---	---
CACNB2	783	broad.mit.edu	37	10	18822994	18822994	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18822994G>A	uc001ipr.2	+						CACNB2_uc009xjz.1_Intron|CACNB2_uc001ips.2_Intron|CACNB2_uc001ipt.2_Intron|CACNB2_uc001ipu.2_Intron|CACNB2_uc001ipv.2_Intron|CACNB2_uc009xka.1_Intron|CACNB2_uc001ipw.2_Intron|CACNB2_uc001ipx.2_Intron|CACNB2_uc001ipz.2_Intron|CACNB2_uc001ipy.2_Intron|CACNB2_uc010qco.1_Intron|CACNB2_uc001iqa.2_Intron|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890			calcium channel, voltage-dependent, beta 2						axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)													---	---	---	---
ARL5B	221079	broad.mit.edu	37	10	18957477	18957477	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18957477T>C	uc001iqd.1	+	3	380	c.126T>C	c.(124-126)GTT>GTC	p.V42V		NM_178815	NP_848930	Q96KC2	ARL5B_HUMAN	ADP-ribosylation factor-like 8	42					small GTPase mediated signal transduction	intracellular	GTP binding			ovary(1)	1																		---	---	---	---
C10orf114	399726	broad.mit.edu	37	10	21785730	21785730	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:21785730T>A	uc001iqn.3	-	1	484	c.14A>T	c.(13-15)GAG>GTG	p.E5V	MIR1915_hsa-mir-1915|MI0008336_5'Flank	NM_001010911	NP_001010911	Q5T4H9	CJ114_HUMAN	hypothetical protein LOC399726	5											0																		---	---	---	---
BMI1	648	broad.mit.edu	37	10	22606821	22606821	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:22606821G>T	uc009xkg.2	+	2	196	c.148G>T	c.(148-150)GAC>TAC	p.D50Y	COMMD3_uc001ire.2_Missense_Mutation_p.D50Y|COMMD3_uc001irf.2_Missense_Mutation_p.D50Y|COMMD3_uc001irg.2_RNA	NM_005180	NP_005171	P35226	BMI1_HUMAN	BMI1 polycomb ring finger oncogene	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					hemopoiesis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fibroblast proliferation|positive regulation of ubiquitin-protein ligase activity|segment specification|transcription, DNA-dependent	cytoplasm|nucleolus|PcG protein complex|ubiquitin ligase complex	RING-like zinc finger domain binding|zinc ion binding			ovary(1)|skin(1)	2																		---	---	---	---
PIP4K2A	5305	broad.mit.edu	37	10	22898568	22898568	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:22898568C>T	uc001irl.3	-	2	471	c.223G>A	c.(223-225)GAC>AAC	p.D75N		NM_005028	NP_005019	P48426	PI42A_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	75	PIPK.						1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding			ovary(1)|skin(1)	2																		---	---	---	---
KIAA1217	56243	broad.mit.edu	37	10	24669946	24669946	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:24669946C>T	uc001iru.3	+	3	906	c.503C>T	c.(502-504)GCG>GTG	p.A168V	KIAA1217_uc001irs.2_Missense_Mutation_p.A88V|KIAA1217_uc001irt.3_Missense_Mutation_p.A168V|KIAA1217_uc010qcy.1_Missense_Mutation_p.A168V|KIAA1217_uc010qcz.1_Missense_Mutation_p.A168V|KIAA1217_uc001irv.1_Missense_Mutation_p.A18V|KIAA1217_uc010qda.1_RNA	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	168					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7																		---	---	---	---
KIAA1217	56243	broad.mit.edu	37	10	24727368	24727368	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:24727368C>T	uc001iru.3	+	5	1209	c.806C>T	c.(805-807)GCG>GTG	p.A269V	KIAA1217_uc001irs.2_Missense_Mutation_p.A189V|KIAA1217_uc001irt.3_Missense_Mutation_p.A269V|KIAA1217_uc010qcy.1_Missense_Mutation_p.A269V|KIAA1217_uc010qcz.1_Missense_Mutation_p.A269V|KIAA1217_uc001irv.1_Missense_Mutation_p.A119V|KIAA1217_uc010qda.1_RNA	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	269					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7																		---	---	---	---
KIAA1217	56243	broad.mit.edu	37	10	24816953	24816953	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:24816953C>T	uc001iru.3	+	14	3390	c.2987C>T	c.(2986-2988)GCC>GTC	p.A996V	KIAA1217_uc001irs.2_Missense_Mutation_p.A916V|KIAA1217_uc001irt.3_Missense_Mutation_p.A961V|KIAA1217_uc010qcy.1_Missense_Mutation_p.A961V|KIAA1217_uc010qcz.1_Missense_Mutation_p.A961V|KIAA1217_uc010qda.1_RNA|KIAA1217_uc001irw.2_Missense_Mutation_p.A679V|KIAA1217_uc001irz.2_Missense_Mutation_p.A679V|KIAA1217_uc001irx.2_Missense_Mutation_p.A679V|KIAA1217_uc001iry.2_Missense_Mutation_p.A679V	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	996					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7																		---	---	---	---
GPR158	57512	broad.mit.edu	37	10	25887280	25887280	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:25887280G>A	uc001isj.2	+	11	2785	c.2725G>A	c.(2725-2727)GCC>ACC	p.A909T	GPR158_uc001isk.2_Missense_Mutation_p.A284T	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	909	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8																		---	---	---	---
GPR158	57512	broad.mit.edu	37	10	25888009	25888009	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:25888009C>T	uc001isj.2	+	11	3514	c.3454C>T	c.(3454-3456)CGT>TGT	p.R1152C	GPR158_uc001isk.2_Missense_Mutation_p.R527C	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1152	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8																		---	---	---	---
PDSS1	23590	broad.mit.edu	37	10	26998655	26998655	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:26998655C>T	uc001isv.2	+	5	471	c.425C>T	c.(424-426)GCG>GTG	p.A142V	PDSS1_uc001isw.2_Missense_Mutation_p.A142V	NM_014317	NP_055132	Q5T2R2	DPS1_HUMAN	prenyl diphosphate synthase, subunit 1	142				A -> V (in Ref. 1; AAD28559).	isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrion	metal ion binding|protein heterodimerization activity				0																		---	---	---	---
ANKRD26	22852	broad.mit.edu	37	10	27301829	27301829	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:27301829C>T	uc001ith.2	-	32	5104	c.4932G>A	c.(4930-4932)ATG>ATA	p.M1644I	ANKRD26_uc001itg.2_Missense_Mutation_p.M1331I|ANKRD26_uc009xku.1_Missense_Mutation_p.M1645I	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1644						centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4																		---	---	---	---
YME1L1	10730	broad.mit.edu	37	10	27412471	27412471	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:27412471C>T	uc001iti.2	-						YME1L1_uc001itj.2_Intron|YME1L1_uc010qdl.1_Intron|YME1L1_uc009xkv.2_Intron	NM_139312	NP_647473			YME1-like 1 isoform 1						protein catabolic process|proteolysis	membrane|mitochondrion	ATP binding|metal ion binding|metalloendopeptidase activity|nucleoside-triphosphatase activity			ovary(1)	1																		---	---	---	---
MASTL	84930	broad.mit.edu	37	10	27458870	27458870	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:27458870T>C	uc001itm.2	+						MASTL_uc001itl.2_Intron|MASTL_uc009xkw.1_Intron|MASTL_uc009xkx.1_Intron	NM_032844	NP_116233			microtubule associated serine/threonine						cell division|G2/M transition of mitotic cell cycle|mitosis|negative regulation of protein phosphatase type 2A activity|regulation of cell cycle|response to DNA damage stimulus	centrosome|cleavage furrow|nucleus	ATP binding|protein phosphatase 2A binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3																		---	---	---	---
PTCHD3	374308	broad.mit.edu	37	10	27702400	27702400	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:27702400C>T	uc001itu.2	-	1	898	c.780G>A	c.(778-780)GCG>GCA	p.A260A		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	260					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
PTCHD3	374308	broad.mit.edu	37	10	27702950	27702950	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:27702950C>T	uc001itu.2	-	1	348	c.230G>A	c.(229-231)CGG>CAG	p.R77Q		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	77					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
MPP7	143098	broad.mit.edu	37	10	28358714	28358714	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:28358714G>A	uc001iua.1	-	15	1595	c.1191C>T	c.(1189-1191)GGC>GGT	p.G397G	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Silent_p.G397G|MPP7_uc009xla.2_Silent_p.G397G|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	397	Guanylate kinase-like.				establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1																		---	---	---	---
LYZL1	84569	broad.mit.edu	37	10	29580930	29580930	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:29580930G>A	uc001iul.2	+	2	329	c.272G>A	c.(271-273)GGA>GAA	p.G91E		NM_032517	NP_115906	Q6UWQ5	LYZL1_HUMAN	lysozyme-like 1	45					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0		Breast(68;0.203)																---	---	---	---
MAP3K8	1326	broad.mit.edu	37	10	30748327	30748327	+	Silent	SNP	G	A	A	rs141896473		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:30748327G>A	uc001ivi.1	+	8	1866	c.1170G>A	c.(1168-1170)CCG>CCA	p.P390P	MAP3K8_uc009xlf.1_Silent_p.P390P|MAP3K8_uc001ivj.1_Silent_p.P390P	NM_005204	NP_005195	P41279	M3K8_HUMAN	mitogen-activated protein kinase kinase kinase	390					cell cycle|T cell costimulation	cytosol	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			breast(3)|central_nervous_system(1)	4		Prostate(175;0.151)																---	---	---	---
ZNF438	220929	broad.mit.edu	37	10	31137485	31137485	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:31137485G>A	uc010qdz.1	-	7	2284	c.1849C>T	c.(1849-1851)CGA>TGA	p.R617*	ZNF438_uc001ivn.2_Nonsense_Mutation_p.R568*|ZNF438_uc010qdy.1_Nonsense_Mutation_p.R607*|ZNF438_uc001ivo.3_Nonsense_Mutation_p.R181*|ZNF438_uc009xlg.2_Nonsense_Mutation_p.R617*|ZNF438_uc001ivp.3_Nonsense_Mutation_p.R607*|ZNF438_uc010qea.1_Nonsense_Mutation_p.R617*|ZNF438_uc010qeb.1_Nonsense_Mutation_p.R617*|ZNF438_uc010qec.1_Nonsense_Mutation_p.R181*	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	617					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)																---	---	---	---
NRP1	8829	broad.mit.edu	37	10	33496560	33496560	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:33496560C>T	uc001iwx.3	-	10	2222	c.1699G>A	c.(1699-1701)GAG>AAG	p.E567K	NRP1_uc001iwv.3_Missense_Mutation_p.E567K|NRP1_uc009xlz.2_Missense_Mutation_p.E567K|NRP1_uc001iww.3_Missense_Mutation_p.E386K|NRP1_uc001iwy.3_Missense_Mutation_p.E567K|NRP1_uc001iwz.2_Missense_Mutation_p.E567K|NRP1_uc001ixa.2_Missense_Mutation_p.E567K|NRP1_uc001ixb.1_Missense_Mutation_p.E567K	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	567	Extracellular (Potential).|F5/8 type C 2.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)													---	---	---	---
PARD3	56288	broad.mit.edu	37	10	34626277	34626277	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34626277C>T	uc010qej.1	-	17	2495	c.2495G>A	c.(2494-2496)CGC>CAC	p.R832H	PARD3_uc010qek.1_Missense_Mutation_p.R829H|PARD3_uc010qel.1_Missense_Mutation_p.R832H|PARD3_uc010qem.1_Missense_Mutation_p.R816H|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Missense_Mutation_p.R772H|PARD3_uc001ixo.1_Missense_Mutation_p.R546H|PARD3_uc001ixp.1_Intron|PARD3_uc001ixq.1_Intron|PARD3_uc001ixr.1_Missense_Mutation_p.R829H|PARD3_uc001ixt.1_Missense_Mutation_p.R650H|PARD3_uc001ixu.1_Missense_Mutation_p.R775H|PARD3_uc001ixs.1_Intron	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	832	Interacts with PRKCZ (By similarity).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)																---	---	---	---
CUL2	8453	broad.mit.edu	37	10	35317808	35317808	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:35317808G>T	uc001ixv.2	-	16	1757	c.1547C>A	c.(1546-1548)GCG>GAG	p.A516E	CUL2_uc009xma.2_Missense_Mutation_p.A385E|CUL2_uc010qer.1_Missense_Mutation_p.A535E|CUL2_uc001ixw.2_Missense_Mutation_p.A516E|CUL2_uc010qes.1_Missense_Mutation_p.A453E	NM_003591	NP_003582	Q13617	CUL2_HUMAN	cullin 2	516					cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding			ovary(3)	3																		---	---	---	---
CCNY	219771	broad.mit.edu	37	10	35842076	35842076	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:35842076T>C	uc001iyw.3	+	8	889	c.709T>C	c.(709-711)TAC>CAC	p.Y237H	CCNY_uc001iyu.3_Missense_Mutation_p.Y183H|CCNY_uc001iyv.3_Missense_Mutation_p.Y183H|CCNY_uc001iyx.3_Missense_Mutation_p.Y183H|CCNY_uc009xmb.2_Missense_Mutation_p.Y212H|CCNY_uc010qet.1_Missense_Mutation_p.Y104H	NM_145012	NP_659449	Q8ND76	CCNY_HUMAN	cyclin Y isoform 1	237	Cyclin N-terminal.				cell division|G2/M transition of mitotic cell cycle|positive regulation of cyclin-dependent protein kinase activity|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	cyclin-dependent protein kinase regulator activity|protein kinase binding				0																		---	---	---	---
ANKRD30A	91074	broad.mit.edu	37	10	37419221	37419221	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:37419221C>A	uc001iza.1	+	3	356	c.257C>A	c.(256-258)GCT>GAT	p.A86D		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	142	ANK 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9																		---	---	---	---
BMS1	9790	broad.mit.edu	37	10	43325879	43325879	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:43325879G>A	uc001jaj.2	+							NM_014753	NP_055568			BMS1-like, ribosome assembly protein						ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3																		---	---	---	---
RET	5979	broad.mit.edu	37	10	43606686	43606686	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:43606686C>T	uc001jal.2	+	7	1485	c.1295C>T	c.(1294-1296)GCA>GTA	p.A432V	RET_uc001jak.1_Missense_Mutation_p.A432V|RET_uc010qez.1_Missense_Mutation_p.A178V	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	432	Extracellular (Potential).		A -> E (in CCHS).		homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				---	---	---	---
ZNF485	220992	broad.mit.edu	37	10	44111987	44111987	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:44111987G>A	uc010qfc.1	+	5	690	c.496G>A	c.(496-498)GCC>ACC	p.A166T	ZNF485_uc010qfd.1_Missense_Mutation_p.A75T	NM_145312	NP_660355	Q8NCK3	ZN485_HUMAN	zinc finger protein 485	166	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
RASSF4	83937	broad.mit.edu	37	10	45480314	45480314	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:45480314G>A	uc001jbo.2	+	6	561	c.427G>A	c.(427-429)GCC>ACC	p.A143T	RASSF4_uc001jbp.2_Missense_Mutation_p.A174T|RASSF4_uc009xmn.2_Missense_Mutation_p.A73T|RASSF4_uc001jbq.2_Missense_Mutation_p.A40T|RASSF4_uc001jbt.2_Missense_Mutation_p.A100T	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	143					cell cycle|signal transduction		protein binding			large_intestine(1)	1																		---	---	---	---
RASSF4	83937	broad.mit.edu	37	10	45486467	45486467	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:45486467G>A	uc001jbo.2	+	9	891	c.757G>A	c.(757-759)GCC>ACC	p.A253T	RASSF4_uc001jbp.2_Missense_Mutation_p.A284T|RASSF4_uc009xmn.2_Missense_Mutation_p.A183T|RASSF4_uc001jbq.2_Missense_Mutation_p.A150T|RASSF4_uc001jbt.2_Missense_Mutation_p.A210T	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	253	Ras-associating.				cell cycle|signal transduction		protein binding			large_intestine(1)	1																		---	---	---	---
FAM21C	253725	broad.mit.edu	37	10	46224380	46224380	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:46224380A>G	uc001jcu.2	+	3	296	c.197A>G	c.(196-198)GAC>GGC	p.D66G	FAM21C_uc001jcs.1_Intron|FAM21C_uc001jct.2_Missense_Mutation_p.D66G|FAM21C_uc010qfi.1_Missense_Mutation_p.D66G	NM_015262	NP_056077	A8K5W5	A8K5W5_HUMAN	hypothetical protein LOC253725	66										ovary(1)	1																		---	---	---	---
GPRIN2	9721	broad.mit.edu	37	10	46999760	46999760	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:46999760G>A	uc001jec.2	+	3	1015	c.880G>A	c.(880-882)GCC>ACC	p.A294T	GPRIN2_uc010qfq.1_Missense_Mutation_p.A57T	NM_014696	NP_055511	O60269	GRIN2_HUMAN	G protein-regulated inducer of neurite outgrowth	294											0																		---	---	---	---
PPYR1	5540	broad.mit.edu	37	10	47086901	47086901	+	Missense_Mutation	SNP	G	A	A	rs148605550	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47086901G>A	uc001jee.2	+	3	537	c.118G>A	c.(118-120)GTG>ATG	p.V40M	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.V40M	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	40	Helical; Name=1; (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2																		---	---	---	---
PPYR1	5540	broad.mit.edu	37	10	47087502	47087502	+	Missense_Mutation	SNP	G	A	A	rs139014994		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47087502G>A	uc001jee.2	+	3	1138	c.719G>A	c.(718-720)CGC>CAC	p.R240H	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.R240H	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	240	Cytoplasmic (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2																		---	---	---	---
RBP3	5949	broad.mit.edu	37	10	48389508	48389508	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:48389508G>A	uc001jez.2	-	1	1484	c.1370C>T	c.(1369-1371)GCC>GTC	p.A457V		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	457	4 X approximate tandem repeats.|2.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)													---	---	---	---
GDF2	2658	broad.mit.edu	37	10	48414241	48414241	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:48414241G>A	uc001jfa.1	-	2	790	c.627C>T	c.(625-627)AGC>AGT	p.S209S		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	209					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3																		---	---	---	---
ARHGAP22	58504	broad.mit.edu	37	10	49654532	49654532	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:49654532C>G	uc001jgt.2	-	10	2296	c.1999G>C	c.(1999-2001)GAG>CAG	p.E667Q	ARHGAP22_uc001jgs.2_Missense_Mutation_p.E577Q|ARHGAP22_uc001jgu.2_Missense_Mutation_p.E683Q|ARHGAP22_uc010qgl.1_Missense_Mutation_p.E624Q|ARHGAP22_uc010qgm.1_Missense_Mutation_p.E673Q|ARHGAP22_uc001jgv.2_Missense_Mutation_p.E365Q|ARHGAP22_uc001jgr.2_Missense_Mutation_p.E384Q	NM_021226	NP_067049	Q7Z5H3	RHG22_HUMAN	Rho GTPase activating protein 2	667	Potential.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol|nucleus	GTPase activator activity	p.E667Q(1)		ovary(1)	1																		---	---	---	---
ERCC6	2074	broad.mit.edu	37	10	50701183	50701183	+	Missense_Mutation	SNP	C	T	T	rs138758064	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50701183C>T	uc001jhs.3	-	8	1955	c.1801G>A	c.(1801-1803)GGT>AGT	p.G601S	ERCC6_uc010qgr.1_Intron|ERCC6_uc001jhr.3_5'UTR	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	601	Helicase ATP-binding.				base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16													Direct_reversal_of_damage|NER					---	---	---	---
PGBD3	267004	broad.mit.edu	37	10	50723521	50723521	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50723521C>T	uc001jht.2	-	2	1895	c.1640G>A	c.(1639-1641)CGT>CAT	p.R547H	ERCC6_uc001jhs.3_Intron|PGBD3_uc009xoe.2_Missense_Mutation_p.R1015H|PGBD3_uc001jhu.2_Missense_Mutation_p.R1015H	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004	547										pancreas(1)|breast(1)|skin(1)	3																		---	---	---	---
SLC18A3	6572	broad.mit.edu	37	10	50819068	50819068	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50819068G>A	uc001jhw.2	+	1	722	c.282G>A	c.(280-282)ACG>ACA	p.T94T	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	94	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2																		---	---	---	---
SLC18A3	6572	broad.mit.edu	37	10	50819793	50819793	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50819793T>C	uc001jhw.2	+	1	1447	c.1007T>C	c.(1006-1008)GTG>GCG	p.V336A	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	336	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2																		---	---	---	---
A1CF	29974	broad.mit.edu	37	10	52575861	52575861	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:52575861G>A	uc001jjj.2	-	9	1234	c.1046C>T	c.(1045-1047)GCC>GTC	p.A349V	A1CF_uc010qhn.1_Missense_Mutation_p.A357V|A1CF_uc001jji.2_Missense_Mutation_p.A349V|A1CF_uc001jjh.2_Missense_Mutation_p.A357V|A1CF_uc010qho.1_Missense_Mutation_p.A357V|A1CF_uc009xov.2_Missense_Mutation_p.A349V	NM_138932	NP_620310	Q9NQ94	A1CF_HUMAN	apobec-1 complementation factor isoform 2	349					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																		---	---	---	---
PCDH15	65217	broad.mit.edu	37	10	55582282	55582282	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:55582282G>A	uc001jju.1	-	33	5599	c.5204C>T	c.(5203-5205)GCC>GTC	p.A1735V	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.A1732V|PCDH15_uc010qhw.1_Missense_Mutation_p.A1695V|PCDH15_uc010qhx.1_Missense_Mutation_p.A1666V|PCDH15_uc010qhy.1_Missense_Mutation_p.A1742V|PCDH15_uc010qhz.1_Missense_Mutation_p.A1737V|PCDH15_uc010qia.1_Missense_Mutation_p.A1715V|PCDH15_uc010qib.1_Missense_Mutation_p.A1712V	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1735	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)													HNSCC(58;0.16)			---	---	---	---
CCDC6	8030	broad.mit.edu	37	10	61552443	61552443	+	3'UTR	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:61552443T>C	uc001jks.3	-	9						NM_005436	NP_005427			coiled-coil domain containing 6							cytoplasm|cytoskeleton	SH3 domain binding|structural constituent of cytoskeleton			ovary(3)|breast(1)	4				Kidney(211;0.0597)														---	---	---	---
ANK3	288	broad.mit.edu	37	10	61844960	61844960	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:61844960G>A	uc001jky.2	-	31	3992	c.3800C>T	c.(3799-3801)ACG>ATG	p.T1267M	ANK3_uc001jkw.2_Missense_Mutation_p.T401M|ANK3_uc009xpa.2_Missense_Mutation_p.T401M|ANK3_uc001jkx.2_Missense_Mutation_p.T445M|ANK3_uc010qih.1_Missense_Mutation_p.T1268M|ANK3_uc001jkz.3_Missense_Mutation_p.T1261M|ANK3_uc001jla.1_Missense_Mutation_p.T333M|ANK3_uc001jlb.1_Missense_Mutation_p.T785M|ANK3_uc001jkv.2_5'Flank	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1267					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	64136647	64136647	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:64136647T>C	uc001jmc.2	+	2	1010	c.695T>C	c.(694-696)CTG>CCG	p.L232P	ZNF365_uc001jly.3_Missense_Mutation_p.L247P|ZNF365_uc001jmb.3_Missense_Mutation_p.L232P|ZNF365_uc001jlz.3_Missense_Mutation_p.L232P|ZNF365_uc001jma.3_Intron	NM_199451	NP_955523	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform C	Error:Variant_position_missing_in_Q70YC4_after_alignment										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)																	---	---	---	---
EGR2	1959	broad.mit.edu	37	10	64575694	64575694	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:64575694G>A	uc010qim.1	-	2	250	c.96C>T	c.(94-96)GCC>GCT	p.A32A	EGR2_uc010qin.1_5'UTR|EGR2_uc001jmi.2_Silent_p.A32A|EGR2_uc010qio.1_Silent_p.A45A|EGR2_uc009xph.2_Silent_p.A32A	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	32					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)																	---	---	---	---
JMJD1C	221037	broad.mit.edu	37	10	64979728	64979728	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:64979728G>A	uc001jmn.2	-	4	763	c.463C>T	c.(463-465)CTA>TTA	p.L155L	JMJD1C_uc001jml.2_Intron|JMJD1C_uc001jmm.2_5'UTR|JMJD1C_uc010qiq.1_5'UTR|JMJD1C_uc009xpi.2_5'UTR|JMJD1C_uc009xpj.1_Intron|JMJD1C_uc001jmp.1_Intron	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	155					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)																	---	---	---	---
TET1	80312	broad.mit.edu	37	10	70446141	70446141	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:70446141G>A	uc001jok.3	+	11	5586	c.5081G>A	c.(5080-5082)CGC>CAC	p.R1694H		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1694					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9																		---	---	---	---
STOX1	219736	broad.mit.edu	37	10	70644170	70644170	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:70644170G>A	uc001jos.2	+	3	705	c.618G>A	c.(616-618)CTG>CTA	p.L206L	STOX1_uc001jor.2_Silent_p.L206L|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Silent_p.L96L	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	206						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2																		---	---	---	---
STOX1	219736	broad.mit.edu	37	10	70644504	70644504	+	Missense_Mutation	SNP	C	T	T	rs149218532	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:70644504C>T	uc001jos.2	+	3	1039	c.952C>T	c.(952-954)CGC>TGC	p.R318C	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Missense_Mutation_p.R208C	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	318						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2																		---	---	---	---
HKDC1	80201	broad.mit.edu	37	10	71017128	71017128	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:71017128A>G	uc001jpf.3	+	14	2111	c.1978A>G	c.(1978-1980)ACC>GCC	p.T660A	HKDC1_uc010qje.1_Missense_Mutation_p.T523A|HKDC1_uc009xqb.2_RNA	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1	660					glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5																		---	---	---	---
TSPAN15	23555	broad.mit.edu	37	10	71265925	71265925	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:71265925G>A	uc001jpo.1	+	7	789	c.664G>A	c.(664-666)GCC>ACC	p.A222T		NM_012339	NP_036471	O95858	TSN15_HUMAN	transmembrane 4 superfamily member 15	222	Extracellular (Potential).					integral to plasma membrane|membrane fraction					0																		---	---	---	---
NODAL	4838	broad.mit.edu	37	10	72195099	72195099	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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																		---	---	---	---
KIAA1274	27143	broad.mit.edu	37	10	72293683	72293683	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:72293683C>A	uc001jrd.3	+	8	1157	c.876C>A	c.(874-876)ACC>ACA	p.T292T		NM_014431	NP_055246	Q9ULE6	PALD_HUMAN	KIAA1274	292										ovary(2)|central_nervous_system(1)	3																		---	---	---	---
ADAMTS14	140766	broad.mit.edu	37	10	72492004	72492004	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:72492004C>T	uc001jrh.2	+						ADAMTS14_uc001jrg.2_Intron|ADAMTS14_uc001jri.1_5'Flank	NM_080722	NP_542453			ADAM metallopeptidase with thrombospondin type 1						collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6																		---	---	---	---
CCDC109A	90550	broad.mit.edu	37	10	74628488	74628488	+	Missense_Mutation	SNP	C	T	T	rs140182415		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:74628488C>T	uc001jtc.2	+	5	545	c.524C>T	c.(523-525)ACG>ATG	p.T175M	CCDC109A_uc009xqp.1_RNA|CCDC109A_uc009xqq.1_RNA|CCDC109A_uc010qjy.1_RNA|CCDC109A_uc009xqr.2_Intron|CCDC109A_uc001jtd.2_Missense_Mutation_p.T126M	NM_138357	NP_612366	Q8NE86	MCU_HUMAN	coiled-coil domain containing 109A	175	Mitochondrial matrix (Potential).				elevation of mitochondrial calcium ion concentration|mitochondrial calcium ion transport|protein complex oligomerization	integral to membrane|mitochondrial inner membrane	protein binding				0	Prostate(51;0.0198)																	---	---	---	---
CCDC109A	90550	broad.mit.edu	37	10	74631233	74631233	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:74631233G>A	uc001jtc.2	+	6	777	c.756G>A	c.(754-756)CGG>CGA	p.R252R	CCDC109A_uc009xqp.1_RNA|CCDC109A_uc009xqq.1_RNA|CCDC109A_uc010qjy.1_RNA|CCDC109A_uc009xqr.2_Silent_p.R231R|CCDC109A_uc001jtd.2_Silent_p.R203R	NM_138357	NP_612366	Q8NE86	MCU_HUMAN	coiled-coil domain containing 109A	252	Helical; (Potential).				elevation of mitochondrial calcium ion concentration|mitochondrial calcium ion transport|protein complex oligomerization	integral to membrane|mitochondrial inner membrane	protein binding				0	Prostate(51;0.0198)																	---	---	---	---
ECD	11319	broad.mit.edu	37	10	74899444	74899444	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:74899444T>C	uc001jtn.2	-	10	1422	c.1179A>G	c.(1177-1179)ATA>ATG	p.I393M	ECD_uc009xqx.2_Missense_Mutation_p.I426M|ECD_uc009xqy.2_Missense_Mutation_p.I350M|ECD_uc001jto.2_Missense_Mutation_p.I92M	NM_007265	NP_009196	O95905	SGT1_HUMAN	suppressor of S. cerevisiae gcr2 isoform 1	393					regulation of glycolysis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	transcription coactivator activity			pancreas(1)	1	Prostate(51;0.0119)																	---	---	---	---
ECD	11319	broad.mit.edu	37	10	74916042	74916042	+	Missense_Mutation	SNP	C	T	T	rs149473721		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:74916042C>T	uc001jtn.2	-	5	824	c.581G>A	c.(580-582)CGC>CAC	p.R194H	ECD_uc009xqx.2_Missense_Mutation_p.R194H|ECD_uc009xqy.2_Missense_Mutation_p.R194H|ECD_uc001jto.2_5'UTR	NM_007265	NP_009196	O95905	SGT1_HUMAN	suppressor of S. cerevisiae gcr2 isoform 1	194					regulation of glycolysis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	transcription coactivator activity			pancreas(1)	1	Prostate(51;0.0119)																	---	---	---	---
TTC18	118491	broad.mit.edu	37	10	75071669	75071669	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75071669C>T	uc009xrc.2	-	12	1418	c.1297G>A	c.(1297-1299)GCA>ACA	p.A433T	TTC18_uc001jty.2_Missense_Mutation_p.A433T|TTC18_uc009xrd.1_Missense_Mutation_p.A241T	NM_145170	NP_660153	Q5T0N1	TTC18_HUMAN	tetratricopeptide repeat domain 18	433							binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)																	---	---	---	---
USP54	159195	broad.mit.edu	37	10	75290490	75290490	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75290490C>T	uc001juo.2	-	11	1436	c.1419G>A	c.(1417-1419)GAG>GAA	p.E473E	USP54_uc001juk.2_5'UTR|USP54_uc001jul.2_5'UTR|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA|USP54_uc001jup.2_Silent_p.E473E|USP54_uc010qkl.1_Silent_p.E473E	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	473					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)																	---	---	---	---
SEC24C	9632	broad.mit.edu	37	10	75529777	75529777	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75529777C>T	uc001juw.2	+						SEC24C_uc001jux.2_Intron|SEC24C_uc010qko.1_Intron|SEC24C_uc010qkp.1_Intron|SEC24C_uc010qkq.1_Intron|FUT11_uc001juy.1_5'Flank|FUT11_uc001juz.1_5'Flank|FUT11_uc001jva.2_5'Flank	NM_004922	NP_004913			SEC24-related protein C						COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|zinc ion binding			skin(2)|central_nervous_system(1)	3	Prostate(51;0.0112)																	---	---	---	---
KCNMA1	3778	broad.mit.edu	37	10	78647147	78647147	+	Silent	SNP	C	T	T	rs75138661		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:78647147C>T	uc001jxn.2	-	28	3765	c.3588G>A	c.(3586-3588)TCG>TCA	p.S1196S	KCNMA1_uc001jxj.2_Silent_p.S1142S|KCNMA1_uc001jxk.1_Silent_p.S814S|KCNMA1_uc009xrt.1_Silent_p.S987S|KCNMA1_uc001jxl.1_Silent_p.S821S|KCNMA1_uc001jxo.2_Silent_p.S1179S|KCNMA1_uc001jxm.2_Silent_p.S1138S|KCNMA1_uc001jxq.2_Silent_p.S1168S|uc001jxp.2_5'Flank	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	1196	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)													---	---	---	---
KCNMA1	3778	broad.mit.edu	37	10	78709065	78709065	+	Silent	SNP	G	A	A	rs139475681		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:78709065G>A	uc001jxn.2	-	22	2721	c.2544C>T	c.(2542-2544)GGC>GGT	p.G848G	KCNMA1_uc001jxj.2_Silent_p.G794G|KCNMA1_uc001jxk.1_Silent_p.G466G|KCNMA1_uc009xrt.1_Silent_p.G639G|KCNMA1_uc001jxl.1_Silent_p.G473G|KCNMA1_uc001jxo.2_Silent_p.G831G|KCNMA1_uc001jxm.2_Silent_p.G790G|KCNMA1_uc001jxq.2_Silent_p.G793G	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	848	Segment S9.|Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)													---	---	---	---
DLG5	9231	broad.mit.edu	37	10	79554687	79554687	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:79554687C>T	uc001jzk.2	-	30	5536	c.5466G>A	c.(5464-5466)CCG>CCA	p.P1822P	DLG5_uc001jzi.2_Silent_p.P577P|DLG5_uc001jzj.2_Silent_p.P1237P	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1822	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)															---	---	---	---
TSPAN14	81619	broad.mit.edu	37	10	82267138	82267138	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:82267138G>A	uc001kcj.3	+						TSPAN14_uc009xss.2_Intron|TSPAN14_uc001kci.3_Intron	NM_030927	NP_112189			tetraspanin 14 isoform 1							integral to membrane				ovary(1)|central_nervous_system(1)	2			Colorectal(32;0.229)															---	---	---	---
NRG3	10718	broad.mit.edu	37	10	83635649	83635649	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:83635649C>T	uc001kco.2	+	1	580	c.553C>T	c.(553-555)CGG>TGG	p.R185W	NRG3_uc010qlz.1_Missense_Mutation_p.R185W|NRG3_uc001kcp.2_5'Flank|NRG3_uc001kcq.2_5'Flank	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	185	Ser/Thr-rich.|Extracellular (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity	p.R185W(1)		lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)														---	---	---	---
NRG3	10718	broad.mit.edu	37	10	84745044	84745044	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:84745044A>G	uc001kco.2	+	9	1801	c.1774A>G	c.(1774-1776)ATT>GTT	p.I592V	NRG3_uc010qlz.1_Missense_Mutation_p.I591V|NRG3_uc001kcp.2_Missense_Mutation_p.I395V|NRG3_uc001kcq.2_Missense_Mutation_p.I242V|NRG3_uc001kcr.2_Missense_Mutation_p.I266V	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	616	Cytoplasmic (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)														---	---	---	---
LRIT1	26103	broad.mit.edu	37	10	86001151	86001151	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:86001151C>T	uc001kcz.1	-	1	67	c.45G>A	c.(43-45)TGG>TGA	p.W15*		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	15						integral to endoplasmic reticulum membrane					0																		---	---	---	---
OPN4	94233	broad.mit.edu	37	10	88416037	88416037	+	Silent	SNP	G	A	A	rs150600156		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:88416037G>A	uc001kdq.2	+	2	497	c.270G>A	c.(268-270)ACG>ACA	p.T90T	OPN4_uc001kdp.2_Silent_p.T90T|OPN4_uc010qmk.1_Silent_p.T90T	NM_033282	NP_150598	Q9UHM6	OPN4_HUMAN	opsin 4 isoform 1	90	Helical; Name=1; (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|rhythmic process|visual perception	integral to membrane|plasma membrane	11-cis retinal binding|G-protein coupled photoreceptor activity			ovary(1)	1																		---	---	---	---
PTEN	5728	broad.mit.edu	37	10	89717713	89717713	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:89717713G>A	uc001kfb.2	+	8	1769	c.738G>A	c.(736-738)CCG>CCA	p.P246P		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	246	C2 tensin-type.		P -> L (in CD and BZS).		activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.P246L(6)|p.R55fs*1(4)|p.P246fs*10(3)|p.L247fs*10(2)|p.N212fs*1(2)|p.Y27fs*1(2)|p.L247fs*11(1)|p.L247fs*12(1)|p.G165_*404del(1)|p.?(1)|p.F243fs*9(1)|p.L247fs*8(1)|p.P246fs*11(1)|p.P246_L247insGP(1)|p.G165_K342del(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)			31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			---	---	---	---
LIPJ	142910	broad.mit.edu	37	10	90354523	90354523	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:90354523T>C	uc001kff.2	+	6	743	c.429T>C	c.(427-429)GGT>GGC	p.G143G		NM_001010939	NP_001010939	Q5W064	LIPJ_HUMAN	lipase, family member J	143					lipid catabolic process		hydrolase activity			ovary(1)	1		all_cancers(4;2.79e-10)|Prostate(4;1.68e-15)|all_epithelial(4;1.43e-09)|Colorectal(252;0.0381)|Breast(4;0.141)|Melanoma(5;0.2)|all_hematologic(4;0.222)		Colorectal(12;1.02e-05)|COAD - Colon adenocarcinoma(12;1.54e-05)														---	---	---	---
LIPJ	142910	broad.mit.edu	37	10	90366675	90366675	+	3'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:90366675C>T	uc001kff.2	+	11						NM_001010939	NP_001010939			lipase, family member J						lipid catabolic process		hydrolase activity			ovary(1)	1		all_cancers(4;2.79e-10)|Prostate(4;1.68e-15)|all_epithelial(4;1.43e-09)|Colorectal(252;0.0381)|Breast(4;0.141)|Melanoma(5;0.2)|all_hematologic(4;0.222)		Colorectal(12;1.02e-05)|COAD - Colon adenocarcinoma(12;1.54e-05)														---	---	---	---
PCGF5	84333	broad.mit.edu	37	10	93024260	93024260	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93024260C>T	uc001khh.2	+	8	893	c.646C>T	c.(646-648)CGA>TGA	p.R216*	PCGF5_uc010qnk.1_Nonsense_Mutation_p.R216*|PCGF5_uc001khi.2_Nonsense_Mutation_p.R216*	NM_032373	NP_115749	Q86SE9	PCGF5_HUMAN	polycomb group ring finger 5	216					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|PcG protein complex	zinc ion binding			lung(1)	1																		---	---	---	---
TNKS2	80351	broad.mit.edu	37	10	93593792	93593792	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93593792C>T	uc001khp.2	+							NM_025235	NP_079511			tankyrase, TRF1-interacting ankyrin-related						positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)																---	---	---	---
TNKS2	80351	broad.mit.edu	37	10	93600363	93600363	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93600363C>T	uc001khp.2	+	14	1870	c.1573C>T	c.(1573-1575)CGT>TGT	p.R525C		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	525	ANK 10.				positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)																---	---	---	---
BTAF1	9044	broad.mit.edu	37	10	93726433	93726433	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93726433G>A	uc001khr.2	+	14	1667	c.1569G>A	c.(1567-1569)TGG>TGA	p.W523*	BTAF1_uc001khs.1_Nonsense_Mutation_p.W193*|BTAF1_uc001kht.1_5'UTR	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	523	HEAT 3.				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	95119595	95119595	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:95119595C>T	uc001kin.2	-	29	3238	c.3115G>A	c.(3115-3117)GCA>ACA	p.A1039T	MYOF_uc001kio.2_Missense_Mutation_p.A1026T|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1039	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																		---	---	---	---
PLCE1	51196	broad.mit.edu	37	10	96005833	96005833	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96005833C>T	uc001kjk.2	+	8	3185	c.2551C>T	c.(2551-2553)CTG>TTG	p.L851L	PLCE1_uc010qnx.1_Silent_p.L851L|PLCE1_uc001kjm.2_Silent_p.L543L	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	851					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)																---	---	---	---
CYP2C18	1562	broad.mit.edu	37	10	96447543	96447543	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96447543G>A	uc001kjv.3	+	2	511	c.185G>A	c.(184-186)GGC>GAC	p.G62D	CYP2C18_uc001kjw.3_Missense_Mutation_p.G62D|CYP2C19_uc009xus.1_5'Flank|CYP2C19_uc010qny.1_5'Flank	NM_000772	NP_000763	P33260	CP2CI_HUMAN	cytochrome P450 family 2 subfamily C polypeptide	62					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(3)|lung(1)|skin(1)	5		Colorectal(252;0.09)		all cancers(201;2.8e-06)|KIRC - Kidney renal clear cell carcinoma(50;0.0646)|Kidney(138;0.0805)														---	---	---	---
CYP2C18	1562	broad.mit.edu	37	10	96495057	96495057	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96495057G>T	uc001kjv.3	+	9	1655	c.1329G>T	c.(1327-1329)ATG>ATT	p.M443I	CYP2C18_uc001kjw.3_Missense_Mutation_p.M384I|CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Intron	NM_000772	NP_000763	P33260	CP2CI_HUMAN	cytochrome P450 family 2 subfamily C polypeptide	443					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(3)|lung(1)|skin(1)	5		Colorectal(252;0.09)		all cancers(201;2.8e-06)|KIRC - Kidney renal clear cell carcinoma(50;0.0646)|Kidney(138;0.0805)														---	---	---	---
CYP2C19	1557	broad.mit.edu	37	10	96540303	96540303	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96540303G>A	uc010qnz.1	+	4	529	c.529G>A	c.(529-531)GTG>ATG	p.V177M	CYP2C19_uc009xus.1_Missense_Mutation_p.V42M|CYP2C19_uc010qny.1_Missense_Mutation_p.V155M	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	177					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)													---	---	---	---
CYP2C19	1557	broad.mit.edu	37	10	96602642	96602642	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96602642C>A	uc010qnz.1	+	7	1010	c.1010C>A	c.(1009-1011)CCC>CAC	p.P337H	CYP2C19_uc010qny.1_Missense_Mutation_p.P315H	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	337					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)													---	---	---	---
ALDH18A1	5832	broad.mit.edu	37	10	97371048	97371048	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:97371048C>T	uc001kkz.2	-	16	2317	c.2075G>A	c.(2074-2076)GGC>GAC	p.G692D	ALDH18A1_uc001kky.2_Missense_Mutation_p.G690D|ALDH18A1_uc010qog.1_Missense_Mutation_p.G581D|ALDH18A1_uc010qoh.1_Missense_Mutation_p.G480D	NM_002860	NP_002851	P54886	P5CS_HUMAN	pyrroline-5-carboxylate synthetase isoform 1	692	Gamma-glutamyl phosphate reductase.				proline biosynthetic process	mitochondrial inner membrane	ATP binding|glutamate 5-kinase activity|glutamate-5-semialdehyde dehydrogenase activity			pancreas(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0402)		Epithelial(162;9.1e-07)|all cancers(201;2.55e-05)	L-Glutamic Acid(DB00142)													---	---	---	---
ENTPD1	953	broad.mit.edu	37	10	97605259	97605259	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:97605259G>A	uc001klh.3	+	6	1043	c.719G>A	c.(718-720)CGC>CAC	p.R240H	ENTPD1_uc001kle.1_Missense_Mutation_p.R247H|ENTPD1_uc001kli.3_Missense_Mutation_p.R247H|uc001klg.1_Intron|ENTPD1_uc010qoj.1_Missense_Mutation_p.R252H|ENTPD1_uc010qok.1_Missense_Mutation_p.R132H|ENTPD1_uc010qol.1_Missense_Mutation_p.R132H|ENTPD1_uc010qom.1_Missense_Mutation_p.R240H|ENTPD1_uc010qon.1_Missense_Mutation_p.R102H|ENTPD1_uc009xva.2_Missense_Mutation_p.R102H|ENTPD1_uc009xuz.2_RNA	NM_001776	NP_001767	P49961	ENTP1_HUMAN	ectonucleoside triphosphate diphosphohydrolase 1	240	Extracellular (Potential).				cell adhesion	integral to plasma membrane	ATP binding			ovary(3)	3		Colorectal(252;0.0821)		Epithelial(162;1.31e-07)|all cancers(201;5.33e-06)														---	---	---	---
CCNJ	54619	broad.mit.edu	37	10	97816981	97816981	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:97816981G>A	uc001klm.2	+	5	1043	c.684G>A	c.(682-684)GTG>GTA	p.V228V	uc001klg.1_Intron|uc001klj.1_Intron|uc009xvb.1_Intron|CCNJ_uc010qoq.1_Silent_p.V239V|CCNJ_uc001kln.2_Silent_p.V227V	NM_019084	NP_061957	Q5T5M9	CCNJ_HUMAN	cyclin J isoform 2	228						nucleus				ovary(1)	1				Epithelial(162;6.1e-08)|all cancers(201;2.32e-06)														---	---	---	---
TLL2	7093	broad.mit.edu	37	10	98138803	98138803	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:98138803G>A	uc001kml.1	-	17	2467	c.2241C>T	c.(2239-2241)TGC>TGT	p.C747C		NM_012465	NP_036597	Q9Y6L7	TLL2_HUMAN	tolloid-like 2 precursor	747	EGF-like 2; calcium-binding (Potential).				cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)														---	---	---	---
C10orf12	26148	broad.mit.edu	37	10	98742563	98742563	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:98742563C>A	uc001kmv.2	+	1	1523	c.1416C>A	c.(1414-1416)TGC>TGA	p.C472*	C10orf12_uc009xvg.1_Nonsense_Mutation_p.C782*	NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	472										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)														---	---	---	---
ARHGAP19	84986	broad.mit.edu	37	10	99019239	99019239	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:99019239C>T	uc001knb.2	-	5	789	c.760G>A	c.(760-762)GCA>ACA	p.A254T	ARHGAP19_uc001kmy.2_RNA|ARHGAP19_uc001kna.2_Missense_Mutation_p.A245T|ARHGAP19_uc009xvi.2_RNA|ARHGAP19_uc009xvj.2_Missense_Mutation_p.A254T|ARHGAP19_uc009xvk.2_Missense_Mutation_p.A48T	NM_032900	NP_116289	Q14CB8	RHG19_HUMAN	Rho GTPase activating protein 19	254	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	GTPase activator activity				0		Colorectal(252;0.0854)		Epithelial(162;7.65e-09)|all cancers(201;4.49e-07)														---	---	---	---
RRP12	23223	broad.mit.edu	37	10	99120296	99120296	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:99120296G>A	uc001knf.2	-						RRP12_uc001kne.2_Intron|RRP12_uc009xvl.2_Intron|RRP12_uc009xvm.2_Intron|RRP12_uc010qou.1_Intron|RRP12_uc009xvn.2_Intron	NM_015179	NP_055994			ribosomal RNA processing 12 homolog isoform 1							integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)														---	---	---	---
RRP12	23223	broad.mit.edu	37	10	99120319	99120319	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:99120319T>C	uc001knf.2	-	31	3763	c.3624A>G	c.(3622-3624)ATA>ATG	p.I1208M	RRP12_uc001kne.2_Missense_Mutation_p.I223M|RRP12_uc009xvl.2_Missense_Mutation_p.I325M|RRP12_uc009xvm.2_Missense_Mutation_p.I926M|RRP12_uc010qou.1_Missense_Mutation_p.I1147M|RRP12_uc009xvn.2_Missense_Mutation_p.I1108M	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	1208						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)														---	---	---	---
EXOSC1	51013	broad.mit.edu	37	10	99200984	99200984	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:99200984T>C	uc001kni.2	-	4	281	c.255A>G	c.(253-255)GTA>GTG	p.V85V	EXOSC1_uc009xvp.1_RNA	NM_016046	NP_057130	Q9Y3B2	EXOS1_HUMAN	exosomal core protein CSL4	85	S1 motif.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	protein binding|RNA binding				0		Renal(717;0.000147)|Colorectal(252;0.00205)|Ovarian(717;0.00965)		all cancers(201;8.29e-42)|Epithelial(162;5.7e-33)|BRCA - Breast invasive adenocarcinoma(275;0.000315)|Kidney(138;0.000832)|KIRC - Kidney renal clear cell carcinoma(50;0.00269)|STAD - Stomach adenocarcinoma(243;0.202)														---	---	---	---
LOXL4	84171	broad.mit.edu	37	10	100021879	100021879	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:100021879A>G	uc001kpa.1	-	3	520	c.369T>C	c.(367-369)AGT>AGC	p.S123S		NM_032211	NP_115587	Q96JB6	LOXL4_HUMAN	lysyl oxidase-like 4 precursor	123	SRCR 1.					extracellular space|membrane	copper ion binding|protein binding|scavenger receptor activity			ovary(3)|breast(1)|skin(1)	5		Colorectal(252;0.234)		Epithelial(162;2.14e-11)|all cancers(201;2.49e-09)														---	---	---	---
PYROXD2	84795	broad.mit.edu	37	10	100155209	100155209	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:100155209C>T	uc001kpc.2	-	7	712	c.626G>A	c.(625-627)GGC>GAC	p.G209D	PYROXD2_uc001kpb.2_RNA|PYROXD2_uc001kpd.2_RNA|PYROXD2_uc010qpe.1_Missense_Mutation_p.G209D|MIR1287_hsa-mir-1287|MI0006349_5'Flank	NM_032709	NP_116098	Q8N2H3	PYRD2_HUMAN	pyridine nucleotide-disulphide oxidoreductase	209							oxidoreductase activity			central_nervous_system(1)	1																		---	---	---	---
GOT1	2805	broad.mit.edu	37	10	101157412	101157412	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:101157412C>T	uc001kpr.2	-	9	1342	c.1134G>A	c.(1132-1134)AAG>AAA	p.K378K	GOT1_uc009xwh.2_RNA|GOT1_uc001kpq.1_Silent_p.K91K	NM_002079	NP_002070	P17174	AATC_HUMAN	aspartate aminotransferase 1	378					aspartate catabolic process|cellular response to insulin stimulus|gluconeogenesis|response to glucocorticoid stimulus	cytosol	L-aspartate:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding				0		Ovarian(717;0.028)|Colorectal(252;0.234)		Epithelial(162;4.76e-10)|all cancers(201;3.84e-08)	L-Aspartic Acid(DB00128)|L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)													---	---	---	---
ABCC2	1244	broad.mit.edu	37	10	101560202	101560202	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:101560202C>T	uc001kqf.2	+	9	1230	c.1091C>T	c.(1090-1092)GCA>GTA	p.A364V		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	364	ABC transmembrane type-1 1.|Helical; Name=7; (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)													---	---	---	---
DNMBP	23268	broad.mit.edu	37	10	101639731	101639731	+	Missense_Mutation	SNP	G	A	A	rs147752816	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:101639731G>A	uc001kqj.2	-	16	4477	c.4385C>T	c.(4384-4386)ACG>ATG	p.T1462M	DNMBP_uc010qpl.1_Missense_Mutation_p.T398M|DNMBP_uc001kqg.2_Missense_Mutation_p.T750M|DNMBP_uc001kqh.2_Missense_Mutation_p.T1094M	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	1462					intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)														---	---	---	---
PKD2L1	9033	broad.mit.edu	37	10	102054822	102054822	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102054822C>T	uc001kqx.1	-	8	1798	c.1415G>A	c.(1414-1416)CGC>CAC	p.R472H	PKD2L1_uc009xwm.1_Missense_Mutation_p.R425H	NM_016112	NP_057196	Q9P0L9	PK2L1_HUMAN	polycystic kidney disease 2-like 1	472	Cytoplasmic (Potential).				signal transduction	integral to membrane	calcium activated cation channel activity|calcium ion binding|cytoskeletal protein binding			ovary(4)	4		Colorectal(252;0.117)		Epithelial(162;6.15e-10)|all cancers(201;5.14e-08)														---	---	---	---
NDUFB8	4714	broad.mit.edu	37	10	102283617	102283617	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102283617G>A	uc001kri.1	-	5	566	c.538C>T	c.(538-540)CGG>TGG	p.R180W	SEC31B_uc009xwo.1_Intron|SEC31B_uc010qpq.1_Intron|SEC31B_uc010qpr.1_Intron	NM_005004	NP_004995	O95169	NDUB8_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	180					mitochondrial electron transport, NADH to ubiquinone|transport	endoplasmic reticulum|integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0		Colorectal(252;0.234)		Epithelial(162;5.68e-10)|all cancers(201;4.05e-08)	NADH(DB00157)													---	---	---	---
TLX1	3195	broad.mit.edu	37	10	102896498	102896498	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102896498T>C	uc001ksw.2	+	3	1059	c.821T>C	c.(820-822)ATC>ACC	p.I274T		NM_005521	NP_005512	P31314	TLX1_HUMAN	T-cell leukemia homeobox 1	274						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1				Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)				T	TRB@|TRD@	T-ALL								---	---	---	---
BTRC	8945	broad.mit.edu	37	10	103294488	103294488	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:103294488C>T	uc001kta.2	+	10	1281	c.1168C>T	c.(1168-1170)CGT>TGT	p.R390C	BTRC_uc001ktb.2_Missense_Mutation_p.R354C|BTRC_uc001ktc.2_Missense_Mutation_p.R364C	NM_033637	NP_378663	Q9Y297	FBW1A_HUMAN	beta-transducin repeat containing protein	390	WD 3.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|positive regulation of proteolysis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|viral reproduction|Wnt receptor signaling pathway	cytosol|nucleus|SCF ubiquitin ligase complex				ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;1.05e-08)|all cancers(201;6.59e-07)														---	---	---	---
PPRC1	23082	broad.mit.edu	37	10	103899333	103899333	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:103899333C>T	uc001kum.2	+	5	1107	c.1068C>T	c.(1066-1068)GGC>GGT	p.G356G	PPRC1_uc001kun.2_Silent_p.G236G|PPRC1_uc010qqj.1_Silent_p.G356G|PPRC1_uc009xxa.2_RNA	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	356					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)														---	---	---	---
GBF1	8729	broad.mit.edu	37	10	104119942	104119942	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104119942C>T	uc001kux.1	+	12	1419	c.1179C>T	c.(1177-1179)GGC>GGT	p.G393G	GBF1_uc001kuw.2_3'UTR|GBF1_uc001kuy.1_Silent_p.G393G|GBF1_uc001kuz.1_Silent_p.G394G	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	393					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)														---	---	---	---
GBF1	8729	broad.mit.edu	37	10	104141801	104141801	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104141801C>T	uc001kux.1	+						GBF1_uc001kuy.1_Intron|GBF1_uc001kuz.1_Intron	NM_004193	NP_004184			golgi-specific brefeldin A resistant guanine						COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)														---	---	---	---
C10orf26	54838	broad.mit.edu	37	10	104569818	104569818	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104569818A>G	uc001kwe.3	+						C10orf26_uc001kwf.3_Intron|C10orf26_uc009xxg.1_Intron	NM_017787	NP_060257			hypothetical protein LOC54838 isoform 2							integral to membrane				central_nervous_system(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;6.14e-09)|all cancers(201;1.66e-07)|BRCA - Breast invasive adenocarcinoma(275;0.224)														---	---	---	---
TAF5	6877	broad.mit.edu	37	10	105147784	105147784	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105147784G>A	uc001kwv.2	+	11	2230	c.2207G>A	c.(2206-2208)CGA>CAA	p.R736Q	TAF5_uc010qqq.1_Missense_Mutation_p.R681Q	NM_006951	NP_008882	Q15542	TAF5_HUMAN	TBP-associated factor 5	736	WD 6.				histone acetylation|interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	actin cytoskeleton|transcription factor TFIID complex|transcription factor TFTC complex	protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;1.83e-09)|all cancers(201;1.4e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)														---	---	---	---
CALHM2	51063	broad.mit.edu	37	10	105209370	105209370	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105209370G>A	uc001kwz.2	-	2	715	c.329C>T	c.(328-330)GCG>GTG	p.A110V	CALHM2_uc001kxa.2_Missense_Mutation_p.A110V|CALHM2_uc001kxc.2_Missense_Mutation_p.A110V|CALHM2_uc001kxb.2_Missense_Mutation_p.A110V|CALHM2_uc001kxd.1_Missense_Mutation_p.A110V	NM_015916	NP_057000	Q9HA72	CAHM2_HUMAN	calcium homeostasis modulator 2	110	Helical; (Potential).					integral to membrane				skin(1)	1																		---	---	---	---
NEURL	9148	broad.mit.edu	37	10	105331403	105331403	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105331403C>T	uc001kxh.2	+	3	883	c.473C>T	c.(472-474)CCT>CTT	p.P158L		NM_004210	NP_004201	O76050	NEU1A_HUMAN	neuralized-like	158	NHR 1.				nervous system development	perinuclear region of cytoplasm	zinc ion binding				0				Epithelial(162;2.12e-09)|all cancers(201;6.99e-08)|BRCA - Breast invasive adenocarcinoma(275;0.125)														---	---	---	---
C10orf79	80217	broad.mit.edu	37	10	105967430	105967430	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105967430C>T	uc001kxw.2	-	6	1004	c.888G>A	c.(886-888)TCG>TCA	p.S296S	C10orf79_uc001kxx.3_Silent_p.S296S|C10orf79_uc001kxy.1_Silent_p.S296S|C10orf79_uc001kxz.2_Silent_p.S296S	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	296											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)														---	---	---	---
CCDC147	159686	broad.mit.edu	37	10	106130764	106130764	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:106130764G>A	uc001kyh.2	+	7	1176	c.1042G>A	c.(1042-1044)GAA>AAA	p.E348K		NM_001008723	NP_001008723	Q5T655	CC147_HUMAN	coiled-coil domain containing 147	348	Potential.									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)														---	---	---	---
SORCS3	22986	broad.mit.edu	37	10	106960891	106960891	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:106960891T>C	uc001kyi.1	+	16	2368	c.2141T>C	c.(2140-2142)GTC>GCC	p.V714A	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	714	Lumenal (Potential).					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)														---	---	---	---
SORCS3	22986	broad.mit.edu	37	10	107012607	107012607	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:107012607T>C	uc001kyi.1	+	23	3407	c.3180T>C	c.(3178-3180)ATT>ATC	p.I1060I	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	1060	Lumenal (Potential).					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)														---	---	---	---
SORCS1	114815	broad.mit.edu	37	10	108339122	108339122	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:108339122C>T	uc001kym.2	-						SORCS1_uc001kyl.2_Intron|SORCS1_uc009xxs.2_Intron|SORCS1_uc001kyn.1_Intron|SORCS1_uc001kyo.2_Missense_Mutation_p.V1126M	NM_052918	NP_443150			SORCS receptor 1 isoform a							integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)														---	---	---	---
SORCS1	114815	broad.mit.edu	37	10	108339123	108339123	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:108339123G>A	uc001kym.2	-						SORCS1_uc001kyl.2_Intron|SORCS1_uc009xxs.2_Intron|SORCS1_uc001kyn.1_Intron|SORCS1_uc001kyo.2_Silent_p.C1125C	NM_052918	NP_443150			SORCS receptor 1 isoform a							integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)														---	---	---	---
ACSL5	51703	broad.mit.edu	37	10	114173039	114173039	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:114173039C>T	uc001kzs.2	+	12	1198	c.1057C>T	c.(1057-1059)CGA>TGA	p.R353*	ACSL5_uc001kzt.2_Nonsense_Mutation_p.R353*|ACSL5_uc001kzu.2_Nonsense_Mutation_p.R409*|ACSL5_uc009xxz.2_Nonsense_Mutation_p.R353*|ACSL5_uc010qrj.1_Nonsense_Mutation_p.R135*	NM_203379	NP_976313	Q9ULC5	ACSL5_HUMAN	acyl-CoA synthetase long-chain family member 5	353	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(2)|skin(1)	3		Colorectal(252;0.117)|Breast(234;0.222)		Epithelial(162;0.0343)|all cancers(201;0.137)														---	---	---	---
HABP2	3026	broad.mit.edu	37	10	115334090	115334090	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:115334090A>C	uc001lai.3	+	3	252	c.149A>C	c.(148-150)AAT>ACT	p.N50T	HABP2_uc010qrz.1_RNA|HABP2_uc010qry.1_Missense_Mutation_p.I39L	NM_004132	NP_004123	Q14520	HABP2_HUMAN	hyaluronan binding protein 2 preproprotein	50					cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)														---	---	---	---
VWA2	340706	broad.mit.edu	37	10	116045881	116045881	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:116045881C>T	uc001lbl.1	+	11	1502	c.1181C>T	c.(1180-1182)GCG>GTG	p.A394V	VWA2_uc001lbk.1_Missense_Mutation_p.A394V|VWA2_uc009xyf.1_Missense_Mutation_p.A90V	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	394	VWFA 2.					extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)														---	---	---	---
ATRNL1	26033	broad.mit.edu	37	10	117075167	117075167	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:117075167G>A	uc001lcg.2	+	18	3344	c.2958G>A	c.(2956-2958)ATG>ATA	p.M986I	ATRNL1_uc010qsm.1_Missense_Mutation_p.M161I|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	986	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)														---	---	---	---
PNLIPRP3	119548	broad.mit.edu	37	10	118215275	118215275	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:118215275C>T	uc001lcl.3	+	5	599	c.498C>T	c.(496-498)GGC>GGT	p.G166G		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	166					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)														---	---	---	---
PNLIPRP3	119548	broad.mit.edu	37	10	118228829	118228829	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:118228829C>T	uc001lcl.3	+	9	1161	c.1060C>T	c.(1060-1062)CGT>TGT	p.R354C		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	354					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)														---	---	---	---
PDZD8	118987	broad.mit.edu	37	10	119043322	119043322	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:119043322C>T	uc001lde.1	-	5	3121	c.2922G>A	c.(2920-2922)ACG>ACA	p.T974T		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	974					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)														---	---	---	---
EIF3A	8661	broad.mit.edu	37	10	120809334	120809334	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:120809334G>A	uc001ldu.2	-	17	2783	c.2637C>T	c.(2635-2637)GGC>GGT	p.G879G	EIF3A_uc010qsu.1_Silent_p.G845G|EIF3A_uc009xzg.1_5'UTR	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	879					formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)														---	---	---	---
EIF3A	8661	broad.mit.edu	37	10	120832428	120832428	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:120832428C>T	uc001ldu.2	-	4	661	c.515G>A	c.(514-516)CGC>CAC	p.R172H	EIF3A_uc010qsu.1_Missense_Mutation_p.R138H	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	172					formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)														---	---	---	---
RGS10	6001	broad.mit.edu	37	10	121275054	121275054	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:121275054C>T	uc001lee.2	-	3	342	c.342G>A	c.(340-342)CCG>CCA	p.P114P	RGS10_uc001lef.2_Silent_p.P108P|RGS10_uc001leg.2_Silent_p.P122P	NM_002925	NP_002916	O43665	RGS10_HUMAN	regulator of G-protein signaling 10 isoform b	114	RGS.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|protein binding|signal transducer activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00105)|GBM - Glioblastoma multiforme(135;0.195)														---	---	---	---
RGS10	6001	broad.mit.edu	37	10	121286870	121286870	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:121286870G>A	uc001lee.2	-	1	92	c.92C>T	c.(91-93)GCG>GTG	p.A31V	RGS10_uc001lef.2_Missense_Mutation_p.A25V|RGS10_uc001leg.2_Missense_Mutation_p.A39V	NM_002925	NP_002916	O43665	RGS10_HUMAN	regulator of G-protein signaling 10 isoform b	31					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|protein binding|signal transducer activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00105)|GBM - Glioblastoma multiforme(135;0.195)														---	---	---	---
C10orf119	79892	broad.mit.edu	37	10	121591566	121591566	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:121591566C>T	uc001ler.2	-	15	2058	c.1760G>A	c.(1759-1761)AGC>AAC	p.S587N	C10orf119_uc001leq.1_Missense_Mutation_p.S412N|C10orf119_uc001les.1_Missense_Mutation_p.S412N	NM_024834	NP_079110	Q9BTE3	MCMBP_HUMAN	chromosome 10 open reading frame 119	587					cell division|DNA-dependent DNA replication|mitosis|S phase of mitotic cell cycle|sister chromatid cohesion	nucleus	chromatin binding				0		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.0044)														---	---	---	---
C10orf119	79892	broad.mit.edu	37	10	121612620	121612620	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:121612620G>A	uc001ler.2	-	6	814	c.516C>T	c.(514-516)GAC>GAT	p.D172D	C10orf119_uc001leq.1_Translation_Start_Site|C10orf119_uc001les.1_Translation_Start_Site|C10orf119_uc001let.1_Translation_Start_Site	NM_024834	NP_079110	Q9BTE3	MCMBP_HUMAN	chromosome 10 open reading frame 119	172					cell division|DNA-dependent DNA replication|mitosis|S phase of mitotic cell cycle|sister chromatid cohesion	nucleus	chromatin binding				0		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.0044)														---	---	---	---
SEC23IP	11196	broad.mit.edu	37	10	121658326	121658326	+	Missense_Mutation	SNP	G	A	A	rs139897837		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:121658326G>A	uc001leu.1	+	2	623	c.551G>A	c.(550-552)CGC>CAC	p.R184H	SEC23IP_uc010qtc.1_Intron	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	184	Interaction with SEC23A.|Pro-rich.				Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)														---	---	---	---
TACC2	10579	broad.mit.edu	37	10	123846012	123846012	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:123846012C>T	uc001lfv.2	+	4	4357	c.3997C>T	c.(3997-3999)CCA>TCA	p.P1333S	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Missense_Mutation_p.P1333S|TACC2_uc010qtv.1_Missense_Mutation_p.P1333S	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	1333						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)																---	---	---	---
HTRA1	5654	broad.mit.edu	37	10	124268280	124268280	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:124268280G>A	uc001lgj.2	+	6	1242	c.1114G>A	c.(1114-1116)GCC>ACC	p.A372T		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	372	PDZ.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)																---	---	---	---
ACADSB	36	broad.mit.edu	37	10	124800157	124800157	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:124800157C>T	uc001lhb.2	+	4	596	c.479C>T	c.(478-480)GCC>GTC	p.A160V	ACADSB_uc010qub.1_Missense_Mutation_p.A58V	NM_001609	NP_001600	P45954	ACDSB_HUMAN	acyl-Coenzyme A dehydrogenase, short/branched	160					branched chain family amino acid catabolic process|fatty acid metabolic process	mitochondrial matrix	flavin adenine dinucleotide binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.0811)|COAD - Colon adenocarcinoma(40;0.0835)	L-Isoleucine(DB00167)													---	---	---	---
CPXM2	119587	broad.mit.edu	37	10	125528124	125528124	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:125528124C>T	uc001lhk.1	-	9	1542	c.1217G>A	c.(1216-1218)CGC>CAC	p.R406H	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	406					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)														---	---	---	---
CHST15	51363	broad.mit.edu	37	10	125780848	125780848	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:125780848T>C	uc001lhl.2	-	5	1784	c.1271A>G	c.(1270-1272)CAG>CGG	p.Q424R	CHST15_uc001lhm.2_Missense_Mutation_p.Q424R|CHST15_uc001lhn.2_Missense_Mutation_p.Q424R|CHST15_uc010que.1_Missense_Mutation_p.Q424R|CHST15_uc001lho.2_Missense_Mutation_p.Q424R	NM_015892	NP_056976	Q7LFX5	CHSTF_HUMAN	B cell RAG associated protein	424	Lumenal (Potential).				hexose biosynthetic process	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase activity			ovary(1)	1																		---	---	---	---
LHPP	64077	broad.mit.edu	37	10	126205744	126205744	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:126205744G>A	uc001lhs.1	+						LHPP_uc001lht.1_Intron|LHPP_uc009yai.1_Intron	NM_022126	NP_071409			phospholysine phosphohistidine inorganic						protein dephosphorylation	cytosol|nucleus	inorganic diphosphatase activity|magnesium ion binding|phosphohistidine phosphatase activity|protein homodimerization activity				0		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;0.163)|Colorectal(40;0.187)														---	---	---	---
ZRANB1	54764	broad.mit.edu	37	10	126631374	126631374	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:126631374T>C	uc001lic.2	+	1	683	c.312T>C	c.(310-312)TGT>TGC	p.C104C	ZRANB1_uc010qug.1_Silent_p.C130C	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	104	RanBP2-type 2.				positive regulation of Wnt receptor signaling pathway|protein K63-linked deubiquitination|Wnt receptor signaling pathway	aggresome|centrosome|intermediate filament cytoskeleton|nucleolus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)														---	---	---	---
ZRANB1	54764	broad.mit.edu	37	10	126671767	126671767	+	Silent	SNP	G	A	A	rs75293113	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:126671767G>A	uc001lic.2	+	7	1943	c.1572G>A	c.(1570-1572)ACG>ACA	p.T524T	ZRANB1_uc010qug.1_Silent_p.T550T	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	524	OTU.|TRAF-binding.				positive regulation of Wnt receptor signaling pathway|protein K63-linked deubiquitination|Wnt receptor signaling pathway	aggresome|centrosome|intermediate filament cytoskeleton|nucleolus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)														---	---	---	---
CTBP2	1488	broad.mit.edu	37	10	126691653	126691653	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:126691653G>A	uc009yak.2	-	5	521	c.234C>T	c.(232-234)GGC>GGT	p.G78G	CTBP2_uc009yal.2_Silent_p.G78G|CTBP2_uc001lif.3_Silent_p.G78G|CTBP2_uc001lih.3_Silent_p.G78G|CTBP2_uc001lid.3_Silent_p.G146G|CTBP2_uc001lie.3_Silent_p.G618G	NM_001329	NP_001320	P56545	CTBP2_HUMAN	C-terminal binding protein 2 isoform 1	78					negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent|viral genome replication|white fat cell differentiation	cell junction|synapse|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding				0		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.173)		Colorectal(40;0.00572)|COAD - Colon adenocarcinoma(40;0.0127)|GBM - Glioblastoma multiforme(135;0.147)														---	---	---	---
CTBP2	1488	broad.mit.edu	37	10	126715433	126715433	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:126715433G>A	uc009yak.2	-						CTBP2_uc009yal.2_Intron|CTBP2_uc001lif.3_Intron|CTBP2_uc001lih.3_Intron|CTBP2_uc001lie.3_Missense_Mutation_p.A299V	NM_001329	NP_001320			C-terminal binding protein 2 isoform 1						negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent|viral genome replication|white fat cell differentiation	cell junction|synapse|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding				0		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.173)		Colorectal(40;0.00572)|COAD - Colon adenocarcinoma(40;0.0127)|GBM - Glioblastoma multiforme(135;0.147)														---	---	---	---
C10orf137	26098	broad.mit.edu	37	10	127414270	127414270	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127414270G>A	uc001liq.1	+	6	948	c.655G>A	c.(655-657)GCT>ACT	p.A219T	C10orf137_uc001lin.2_Missense_Mutation_p.A219T|C10orf137_uc001lio.1_Missense_Mutation_p.A219T|C10orf137_uc001lip.1_5'UTR	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	219					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)																---	---	---	---
C10orf137	26098	broad.mit.edu	37	10	127424342	127424342	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127424342C>T	uc001liq.1	+	13	1920	c.1627C>T	c.(1627-1629)CCC>TCC	p.P543S	C10orf137_uc001lin.2_Missense_Mutation_p.P509S|C10orf137_uc001lio.1_Missense_Mutation_p.P509S|C10orf137_uc001lip.1_Missense_Mutation_p.P247S|C10orf137_uc001lir.2_Missense_Mutation_p.P37S	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	543					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)																---	---	---	---
DHX32	55760	broad.mit.edu	37	10	127540971	127540971	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127540971C>T	uc001ljf.1	-	6	1733	c.1242G>A	c.(1240-1242)ACG>ACA	p.T414T	BCCIP_uc001ljd.3_Intron|DHX32_uc001lje.1_Silent_p.T38T|DHX32_uc001ljg.1_Silent_p.T414T|DHX32_uc009yam.1_Silent_p.T169T	NM_018180	NP_060650	Q7L7V1	DHX32_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 32	414						mitochondrion|nucleus	ATP binding|helicase activity			breast(2)|ovary(1)|lung(1)	4		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)																---	---	---	---
FANK1	92565	broad.mit.edu	37	10	127697110	127697110	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127697110G>A	uc001ljh.3	+	8	944	c.840G>A	c.(838-840)ACG>ACA	p.T280T	FANK1_uc009yan.2_Silent_p.T306T|FANK1_uc001lji.2_Silent_p.T274T	NM_145235	NP_660278	Q8TC84	FANK1_HUMAN	fibronectin type III and ankyrin repeat domains	280	ANK 6.					cytoplasm|nucleus				ovary(1)	1		all_lung(145;0.00752)|Lung NSC(174;0.0115)|Colorectal(57;0.0847)|all_neural(114;0.0936)																---	---	---	---
ADAM12	8038	broad.mit.edu	37	10	127753462	127753462	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127753462C>A	uc001ljk.2	-	14	1944	c.1531G>T	c.(1531-1533)GGG>TGG	p.G511W	ADAM12_uc010qul.1_Missense_Mutation_p.G462W|ADAM12_uc001ljm.2_Missense_Mutation_p.G511W|ADAM12_uc001ljn.2_Missense_Mutation_p.G508W|ADAM12_uc001ljl.3_Missense_Mutation_p.G508W	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	511	Extracellular (Potential).				cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)														---	---	---	---
FAM196A	642938	broad.mit.edu	37	10	128973888	128973888	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:128973888C>T	uc001lju.1	-	1	813	c.772G>A	c.(772-774)GCA>ACA	p.A258T	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Missense_Mutation_p.A258T|FAM196A_uc001ljv.1_Missense_Mutation_p.A258T|FAM196A_uc009yap.1_Missense_Mutation_p.A258T	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	258										ovary(2)	2																		---	---	---	---
MKI67	4288	broad.mit.edu	37	10	129905990	129905990	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:129905990G>A	uc001lke.2	-	13	4309	c.4114C>T	c.(4114-4116)CCC>TCC	p.P1372S	MKI67_uc001lkf.2_Missense_Mutation_p.P1012S|MKI67_uc009yav.1_Missense_Mutation_p.P947S|MKI67_uc009yaw.1_Missense_Mutation_p.P522S	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1372	16 X 122 AA approximate repeats.|4.				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)																---	---	---	---
EBF3	253738	broad.mit.edu	37	10	131757275	131757275	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:131757275C>T	uc001lki.1	-							NM_001005463	NP_001005463			early B-cell factor 3						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)														---	---	---	---
EBF3	253738	broad.mit.edu	37	10	131761280	131761280	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:131761280C>T	uc001lki.1	-						EBF3_uc010qur.1_3'UTR	NM_001005463	NP_001005463			early B-cell factor 3						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)														---	---	---	---
GLRX3	10539	broad.mit.edu	37	10	131973264	131973264	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:131973264C>T	uc001lkm.1	+	10	890	c.868C>T	c.(868-870)CGG>TGG	p.R290W	GLRX3_uc001lkn.1_Missense_Mutation_p.R290W|GLRX3_uc001lko.2_RNA	NM_006541	NP_006532	O76003	GLRX3_HUMAN	glutaredoxin 3	290	Glutaredoxin 2.				cell redox homeostasis|negative regulation of cardiac muscle hypertrophy|regulation of the force of heart contraction	cell cortex	electron carrier activity|iron-sulfur cluster binding|metal ion binding|protein disulfide oxidoreductase activity				0		all_cancers(35;9.59e-07)|all_epithelial(44;1.48e-06)|Lung NSC(174;0.00566)|all_lung(145;0.00949)|Colorectal(57;0.142)|all_neural(114;0.16)|Breast(234;0.173)|Glioma(114;0.222)		OV - Ovarian serous cystadenocarcinoma(35;0.00218)														---	---	---	---
TCERG1L	256536	broad.mit.edu	37	10	132944908	132944908	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:132944908C>T	uc001lkp.2	-	7	1136	c.1050G>A	c.(1048-1050)ACG>ACA	p.T350T	TCERG1L_uc009yax.1_RNA	NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	350	WW 2.									large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)														---	---	---	---
BNIP3	664	broad.mit.edu	37	10	133784260	133784260	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:133784260C>T	uc001lkv.1	-	5	547	c.421G>A	c.(421-423)GCC>ACC	p.A141T	BNIP3_uc001lku.1_5'Flank|BNIP3_uc010qut.1_Missense_Mutation_p.A141T	NM_004052	NP_004043	Q12983	BNIP3_HUMAN	BCL2/adenovirus E1B 19kD-interacting protein 3	141					cellular response to cobalt ion|cellular response to hypoxia|cellular response to mechanical stimulus|chromatin remodeling|defense response to virus|DNA fragmentation involved in apoptotic nuclear change|induction of apoptosis|interspecies interaction between organisms|mitochondrial fragmentation involved in apoptosis|negative regulation of membrane potential|negative regulation of mitochondrial fusion|negative regulation of survival gene product expression|neuron apoptosis|positive regulation of mitochondrial fission|positive regulation of protein complex disassembly|positive regulation of release of cytochrome c from mitochondria|reactive oxygen species metabolic process|regulation of mitochondrial membrane permeability	dendrite|integral to mitochondrial outer membrane|nuclear envelope|nucleoplasm	GTPase binding|protein heterodimerization activity|protein homodimerization activity			lung(1)|skin(1)	2		all_cancers(35;4e-11)|all_epithelial(44;5.07e-08)|Ovarian(717;2.61e-05)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Breast(234;0.023)|all_neural(114;0.0299)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)		Epithelial(32;1.59e-12)|all cancers(32;3.75e-11)|OV - Ovarian serous cystadenocarcinoma(35;2.57e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)														---	---	---	---
JAKMIP3	282973	broad.mit.edu	37	10	133930823	133930823	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:133930823C>T	uc001lkx.3	+	2	378	c.378C>T	c.(376-378)GGC>GGT	p.G126G		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)														---	---	---	---
JAKMIP3	282973	broad.mit.edu	37	10	133954021	133954021	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:133954021G>A	uc001lkx.3	+	9	1411	c.1411G>A	c.(1411-1413)GTC>ATC	p.V471I		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)														---	---	---	---
LRRC27	80313	broad.mit.edu	37	10	134165170	134165170	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:134165170C>T	uc010quw.1	+	7	1181	c.986C>T	c.(985-987)GCG>GTG	p.A329V	LRRC27_uc001llf.2_Nonsense_Mutation_p.R361*|LRRC27_uc010quv.1_Missense_Mutation_p.A329V|LRRC27_uc001llg.2_RNA|LRRC27_uc001lli.2_Missense_Mutation_p.A329V|LRRC27_uc001llj.2_Missense_Mutation_p.A267V|LRRC27_uc001llk.3_Missense_Mutation_p.A202V	NM_030626	NP_085129	Q9C0I9	LRC27_HUMAN	leucine rich repeat containing 27 isoform a	329	Potential.									ovary(1)	1		all_cancers(35;6.28e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;9.12e-05)|Epithelial(32;0.000116)|all cancers(32;0.000145)|BRCA - Breast invasive adenocarcinoma(275;0.218)														---	---	---	---
INPP5A	3632	broad.mit.edu	37	10	134463965	134463965	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:134463965C>T	uc001llp.2	+	4	510	c.262C>T	c.(262-264)CGA>TGA	p.R88*	INPP5A_uc001llo.1_Nonsense_Mutation_p.R88*|INPP5A_uc001llq.2_Nonsense_Mutation_p.R40*	NM_005539	NP_005530	Q14642	I5P1_HUMAN	inositol polyphosphate-5-phosphatase A	88					cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	134623955	134623955	+	Missense_Mutation	SNP	G	A	A	rs143790683		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:134623955G>A	uc010qux.1	-	49	6800	c.6800C>T	c.(6799-6801)GCG>GTG	p.A2267V		NM_017609	NP_060079			Homo sapiens cDNA, FLJ17989.																														---	---	---	---
Unknown	0	broad.mit.edu	37	10	134648190	134648190	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:134648190C>T	uc010qux.1	-	40	6012	c.6012G>A	c.(6010-6012)CCG>CCA	p.P2004P		NM_017609	NP_060079			Homo sapiens cDNA, FLJ17989.																														---	---	---	---
KNDC1	85442	broad.mit.edu	37	10	135010567	135010567	+	Silent	SNP	C	T	T	rs142706564	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135010567C>T	uc001llz.1	+	11	1741	c.1740C>T	c.(1738-1740)TGC>TGT	p.C580C	KNDC1_uc001lma.1_Silent_p.C515C|KNDC1_uc001lmb.1_5'UTR	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	580	KIND 2.				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)														---	---	---	---
KNDC1	85442	broad.mit.edu	37	10	135038246	135038246	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135038246A>G	uc001llz.1	+	30	5103	c.5102A>G	c.(5101-5103)TAC>TGC	p.Y1701C		NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1701	Ras-GEF.				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)														---	---	---	---
FRG2B	441581	broad.mit.edu	37	10	135439043	135439043	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135439043G>A	uc010qvg.1	-	4	450	c.397C>T	c.(397-399)CAC>TAC	p.H133Y		NM_001080998	NP_001074467	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	133						nucleus					0		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)														---	---	---	---
EPS8L2	64787	broad.mit.edu	37	11	722405	722405	+	Missense_Mutation	SNP	T	C	C	rs142316225		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:722405T>C	uc001lqt.2	+	13	1311	c.1064T>C	c.(1063-1065)GTC>GCC	p.V355A	EPS8L2_uc001lqu.2_Missense_Mutation_p.V355A|EPS8L2_uc010qwk.1_Missense_Mutation_p.V371A|EPS8L2_uc001lqv.2_Missense_Mutation_p.V310A|EPS8L2_uc001lqw.2_5'UTR|EPS8L2_uc001lqx.2_5'UTR|EPS8L2_uc001lqy.2_5'Flank	NM_022772	NP_073609	Q9H6S3	ES8L2_HUMAN	epidermal growth factor receptor pathway	355						cytoplasm				pancreas(1)	1		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;4.37e-27)|Epithelial(43;2.81e-26)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-20)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)														---	---	---	---
TSPAN4	7106	broad.mit.edu	37	11	865745	865745	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:865745G>A	uc001lsd.1	+	7	693	c.484G>A	c.(484-486)GCC>ACC	p.A162T	TSPAN4_uc001lse.1_Missense_Mutation_p.A98T|TSPAN4_uc001lsf.1_Missense_Mutation_p.A162T|TSPAN4_uc001lsg.1_Missense_Mutation_p.A162T|TSPAN4_uc001lsh.1_Missense_Mutation_p.A162T|TSPAN4_uc001lsi.1_Missense_Mutation_p.A162T|TSPAN4_uc001lsj.1_Missense_Mutation_p.A162T	NM_003271	NP_003262	O14817	TSN4_HUMAN	tetraspanin 4 isoform a	162	Extracellular (Potential).				protein complex assembly	integral to plasma membrane				breast(1)	1		all_cancers(49;2.64e-08)|all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)|all_lung(207;0.24)		all cancers(45;4.32e-25)|Epithelial(43;3.29e-24)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)														---	---	---	---
MUC5B	727897	broad.mit.edu	37	11	1281031	1281031	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1281031G>A	uc009ycr.1	+	67	17896	c.17770G>A	c.(17770-17772)GTC>ATC	p.V5924I	MUC5B_uc001ltb.2_Missense_Mutation_p.V5590I	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5587	VWFC 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)														---	---	---	---
KRTAP5-6	440023	broad.mit.edu	37	11	1718528	1718528	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1718528G>A	uc001lua.2	+	1	104	c.53G>A	c.(52-54)GGC>GAC	p.G18D		NM_001012416	NP_001012416	Q6L8G9	KRA56_HUMAN	keratin associated protein 5-6	18						keratin filament					0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)														---	---	---	---
ART5	116969	broad.mit.edu	37	11	3660999	3660999	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3660999G>A	uc001lyb.1	-	2	1053	c.660C>T	c.(658-660)CGC>CGT	p.R220R	ART5_uc001lyc.1_Silent_p.R220R|ART5_uc001lyd.2_Intron|ART5_uc009yea.2_Intron	NM_053017	NP_443750	Q96L15	NAR5_HUMAN	ADP-ribosyltransferase 5 precursor	220						extracellular region	NAD(P)+-protein-arginine ADP-ribosyltransferase activity			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0336)|LUSC - Lung squamous cell carcinoma(625;0.19)														---	---	---	---
ART1	417	broad.mit.edu	37	11	3681123	3681123	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3681123G>T	uc001lye.1	+	3	475	c.374G>T	c.(373-375)AGC>ATC	p.S125I	ART1_uc009yeb.1_Missense_Mutation_p.S125I	NM_004314	NP_004305	P52961	NAR1_HUMAN	ADP-ribosyltransferase 1 precursor	125					protein ADP-ribosylation	anchored to membrane|integral to plasma membrane|sarcoplasmic reticulum membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity				0		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0351)|LUSC - Lung squamous cell carcinoma(625;0.195)	Becaplermin(DB00102)													---	---	---	---
PGAP2	27315	broad.mit.edu	37	11	3845179	3845179	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3845179C>T	uc001lys.2	+	4	541	c.415C>T	c.(415-417)CGT>TGT	p.R139C	PGAP2_uc001lyl.2_Missense_Mutation_p.R96C|PGAP2_uc010qxw.1_Missense_Mutation_p.R196C|PGAP2_uc010qxx.1_Missense_Mutation_p.A119V|PGAP2_uc001lyp.3_Intron|PGAP2_uc010qxy.1_Missense_Mutation_p.R135C|PGAP2_uc010qxz.1_Missense_Mutation_p.R135C|PGAP2_uc001lyn.3_Missense_Mutation_p.A31V|PGAP2_uc010qya.1_RNA|PGAP2_uc001lyr.2_Missense_Mutation_p.R78C|PGAP2_uc010qyb.1_Missense_Mutation_p.A81V|PGAP2_uc001lyt.2_5'UTR	NM_014489	NP_055304	Q9UHJ9	PGAP2_HUMAN	FGF receptor activating protein 1 isoform 1	139					GPI anchor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein transporter activity				0																		---	---	---	---
OR52B4	143496	broad.mit.edu	37	11	4389392	4389392	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4389392C>T	uc010qye.1	-	1	134	c.134G>A	c.(133-135)AGC>AAC	p.S45N		NM_001005161	NP_001005161	Q8NGK2	O52B4_HUMAN	olfactory receptor, family 52, subfamily B,	45	Helical; Name=1; (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)														---	---	---	---
OR52I2	143502	broad.mit.edu	37	11	4608901	4608901	+	Missense_Mutation	SNP	G	A	A	rs150458035	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4608901G>A	uc010qyh.1	+	1	859	c.859G>A	c.(859-861)GCA>ACA	p.A287T		NM_001005170	NP_001005170	Q8NH67	O52I2_HUMAN	olfactory receptor, family 52, subfamily I,	287	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)														---	---	---	---
OR51D1	390038	broad.mit.edu	37	11	4661818	4661818	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4661818A>G	uc010qyk.1	+	1	798	c.798A>G	c.(796-798)GTA>GTG	p.V266V		NM_001004751	NP_001004751	Q8NGF3	O51D1_HUMAN	olfactory receptor, family 51, subfamily D,	266	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;2.74e-13)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|GBM - Glioblastoma multiforme(2;0.0841)|LUSC - Lung squamous cell carcinoma(625;0.19)														---	---	---	---
OR51E1	143503	broad.mit.edu	37	11	4674699	4674699	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4674699G>A	uc001lzi.3	+	2	1087	c.943G>A	c.(943-945)GCT>ACT	p.A315T		NM_152430	NP_689643	Q8TCB6	O51E1_HUMAN	olfactory receptor, family 51, subfamily E,	314	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(3)|pancreas(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;7.37e-14)|GBM - Glioblastoma multiforme(2;2.85e-05)|BRCA - Breast invasive adenocarcinoma(625;0.00222)|LUSC - Lung squamous cell carcinoma(625;0.19)														---	---	---	---
OR51A4	401666	broad.mit.edu	37	11	4967774	4967774	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4967774A>G	uc010qys.1	-	1	557	c.557T>C	c.(556-558)GTC>GCC	p.V186A		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	186	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)														---	---	---	---
OR52A4	390053	broad.mit.edu	37	11	5141901	5141901	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5141901G>A	uc001lzz.1	-	1	908	c.908C>T	c.(907-909)ACA>ATA	p.T303I		NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)														---	---	---	---
OR52A4	390053	broad.mit.edu	37	11	5142071	5142071	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5142071A>G	uc001lzz.1	-	1	738	c.738T>C	c.(736-738)TGT>TGC	p.C246C		NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)														---	---	---	---
OR51B6	390058	broad.mit.edu	37	11	5373588	5373588	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5373588T>C	uc010qzb.1	+	1	851	c.851T>C	c.(850-852)TTT>TCT	p.F284S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)														---	---	---	---
OR51Q1	390061	broad.mit.edu	37	11	5443682	5443682	+	Missense_Mutation	SNP	G	T	T	rs151161477	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5443682G>T	uc010qzd.1	+	1	252	c.252G>T	c.(250-252)ATG>ATT	p.M84I	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004757	NP_001004757	Q8NH59	O51Q1_HUMAN	olfactory receptor, family 51, subfamily Q,	84	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.18e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)														---	---	---	---
OR51Q1	390061	broad.mit.edu	37	11	5444163	5444163	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5444163T>A	uc010qzd.1	+	1	733	c.733T>A	c.(733-735)TCC>ACC	p.S245T	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004757	NP_001004757	Q8NH59	O51Q1_HUMAN	olfactory receptor, family 51, subfamily Q,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.18e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)														---	---	---	---
OR52H1	390067	broad.mit.edu	37	11	5566215	5566215	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5566215C>T	uc010qzh.1	-	1	539	c.539G>A	c.(538-540)CGC>CAC	p.R180H	HBG2_uc001mak.1_Intron	NM_001005289	NP_001005289	Q8NGJ2	O52H1_HUMAN	olfactory receptor, family 52, subfamily H,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;5.33e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)														---	---	---	---
TRIM6-TRIM34	445372	broad.mit.edu	37	11	5653757	5653757	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5653757G>T	uc001mbf.2	+	8	1502	c.1258G>T	c.(1258-1260)GAA>TAA	p.E420*	HBG2_uc001mak.1_Intron|TRIM34_uc001mbh.2_Nonsense_Mutation_p.E66*|TRIM34_uc009yeq.2_5'UTR|TRIM34_uc001mbi.2_Nonsense_Mutation_p.E66*|TRIM34_uc001mbj.2_Nonsense_Mutation_p.E66*	NM_001003819	NP_001003819	B2RNG4	B2RNG4_HUMAN	tripartite motif-containing 6 and tripartite	420						intracellular	zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;1.01e-08)|BRCA - Breast invasive adenocarcinoma(625;0.145)														---	---	---	---
TRIM22	10346	broad.mit.edu	37	11	5730360	5730360	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5730360C>T	uc001mbr.2	+	8	1256	c.979C>T	c.(979-981)CGC>TGC	p.R327C	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|TRIM22_uc009yes.2_Missense_Mutation_p.R323C|TRIM22_uc010qzm.1_Missense_Mutation_p.R155C|TRIM22_uc009yeu.2_Missense_Mutation_p.R138C|OR56B1_uc001mbs.1_Intron|OR56B1_uc009yev.1_Intron	NM_006074	NP_006065	Q8IYM9	TRI22_HUMAN	tripartite motif-containing 22	327	B30.2/SPRY.				immune response|interspecies interaction between organisms|protein trimerization|response to virus	Cajal body|Golgi apparatus|nuclear speck	ligase activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding				0		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;7.54e-09)|BRCA - Breast invasive adenocarcinoma(625;0.14)														---	---	---	---
OR56A3	390083	broad.mit.edu	37	11	5969245	5969245	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5969245C>T	uc010qzt.1	+	1	669	c.669C>T	c.(667-669)ACC>ACT	p.T223T		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	223	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)														---	---	---	---
OR52W1	120787	broad.mit.edu	37	11	6220850	6220850	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6220850C>T	uc010qzz.1	+	1	397	c.397C>T	c.(397-399)CGT>TGT	p.R133C		NM_001005178	NP_001005178	Q6IF63	O52W1_HUMAN	olfactory receptor, family 52, subfamily W,	133	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;2.13e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)														---	---	---	---
CNGA4	1262	broad.mit.edu	37	11	6261008	6261008	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6261008C>T	uc001mco.2	+	3	366	c.259C>T	c.(259-261)CGC>TGC	p.R87C	CNGA4_uc010raa.1_Missense_Mutation_p.R47C|CNGA4_uc001mcn.2_Missense_Mutation_p.R47C	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	87	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)														---	---	---	---
CNGA4	1262	broad.mit.edu	37	11	6261854	6261854	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6261854C>T	uc001mco.2	+	4	937	c.830C>T	c.(829-831)GCG>GTG	p.A277V	CNGA4_uc010raa.1_Intron|CNGA4_uc001mcn.2_Missense_Mutation_p.A237V	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	277	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)														---	---	---	---
CNGA4	1262	broad.mit.edu	37	11	6262731	6262731	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6262731C>T	uc001mco.2	+	5	1095	c.988C>T	c.(988-990)CTG>TTG	p.L330L	CNGA4_uc010raa.1_Silent_p.L99L|CNGA4_uc001mcn.2_Silent_p.L290L	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	330	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)														---	---	---	---
CCKBR	887	broad.mit.edu	37	11	6291549	6291549	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6291549C>T	uc001mcp.2	+	3	828	c.635C>T	c.(634-636)GCG>GTG	p.A212V	CCKBR_uc001mcq.2_Missense_Mutation_p.A140V|CCKBR_uc001mcr.2_Missense_Mutation_p.A212V|CCKBR_uc001mcs.2_Missense_Mutation_p.A212V|CCKBR_uc001mct.1_5'Flank	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	212	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)													---	---	---	---
SMPD1	6609	broad.mit.edu	37	11	6413036	6413036	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6413036C>T	uc001mcw.2	+	2	915	c.741C>T	c.(739-741)GGC>GGT	p.G247G	SMPD1_uc001mcv.1_Intron|SMPD1_uc009yex.2_RNA|SMPD1_uc001mcx.2_Silent_p.G247G|SMPD1_uc009yew.2_Silent_p.G246G	NM_000543	NP_000534	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid	245			G -> S (in NPDA and NPDB).		cell death|ceramide biosynthetic process|negative regulation of MAP kinase activity|nervous system development|positive regulation of protein dephosphorylation|signal transduction|sphingomyelin catabolic process|termination of signal transduction	lysosome	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Desipramine(DB01151)													---	---	---	---
HPX	3263	broad.mit.edu	37	11	6452540	6452540	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6452540A>G	uc001mdg.2	-	10	1351	c.1290T>C	c.(1288-1290)GGT>GGC	p.G430G	HPX_uc001mdf.2_Silent_p.G176G|HPX_uc009yfc.2_RNA	NM_000613	NP_000604	P02790	HEMO_HUMAN	hemopexin precursor	430					cellular iron ion homeostasis|interspecies interaction between organisms	extracellular space	heme transporter activity|metal ion binding|protein binding				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;5.46e-08)|BRCA - Breast invasive adenocarcinoma(625;0.19)														---	---	---	---
TRIM3	10612	broad.mit.edu	37	11	6472626	6472626	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6472626G>A	uc001mdh.2	-	9	1963	c.1576C>T	c.(1576-1578)CGA>TGA	p.R526*	TRIM3_uc001mdi.2_Nonsense_Mutation_p.R526*|TRIM3_uc010raj.1_Nonsense_Mutation_p.R407*|TRIM3_uc009yfd.2_Nonsense_Mutation_p.R526*|TRIM3_uc010rak.1_Nonsense_Mutation_p.R526*	NM_006458	NP_006449	O75382	TRIM3_HUMAN	tripartite motif-containing 3	526	NHL 2.				nervous system development|protein transport	early endosome	protein C-terminus binding|zinc ion binding	p.R526*(1)		central_nervous_system(2)|large_intestine(1)|ovary(1)|skin(1)	5		all_lung(207;9.97e-06)|Lung NSC(207;1.74e-05)|Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;9.34e-10)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.133)|BRCA - Breast invasive adenocarcinoma(625;0.135)														---	---	---	---
DCHS1	8642	broad.mit.edu	37	11	6654194	6654194	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6654194C>T	uc001mem.1	-	6	2959	c.2549G>A	c.(2548-2550)CGC>CAC	p.R850H		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	850	Cadherin 8.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)														---	---	---	---
DCHS1	8642	broad.mit.edu	37	11	6661150	6661150	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6661150G>A	uc001mem.1	-	2	2105	c.1695C>T	c.(1693-1695)AGC>AGT	p.S565S		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	565	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)														---	---	---	---
OR10A5	144124	broad.mit.edu	37	11	6867086	6867086	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6867086G>T	uc001met.1	+	1	173	c.173G>T	c.(172-174)AGC>ATC	p.S58I		NM_178168	NP_835462	Q9H207	O10A5_HUMAN	olfactory receptor, family 10, subfamily A,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)														---	---	---	---
OR2D2	120776	broad.mit.edu	37	11	6913396	6913396	+	Silent	SNP	G	A	A	rs140944764		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6913396G>A	uc010rau.1	-	1	336	c.336C>T	c.(334-336)TGC>TGT	p.C112C		NM_003700	NP_003691	Q9H210	OR2D2_HUMAN	olfactory receptor, family 2, subfamily D,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)														---	---	---	---
OR2D3	120775	broad.mit.edu	37	11	6942872	6942872	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6942872G>A	uc010rav.1	+	1	640	c.640G>A	c.(640-642)GCC>ACC	p.A214T		NM_001004684	NP_001004684	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D,	214	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)														---	---	---	---
RBMXL2	27288	broad.mit.edu	37	11	7111248	7111248	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7111248G>A	uc001mfc.2	+	1	1084	c.897G>A	c.(895-897)CCG>CCA	p.P299P		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	299	Arg/Gly/Pro-rich.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)														---	---	---	---
OLFML1	283298	broad.mit.edu	37	11	7509587	7509587	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7509587C>T	uc001mfi.2	+	2	711	c.359C>T	c.(358-360)GCA>GTA	p.A120V	uc001mff.1_Intron|OLFML1_uc001mfh.1_Missense_Mutation_p.A120V|OLFML1_uc010raz.1_Intron|OLFML1_uc010rba.1_Missense_Mutation_p.A120V	NM_198474	NP_940876	Q6UWY5	OLFL1_HUMAN	olfactomedin-like 1 precursor	120	Potential.					extracellular region				ovary(2)	2				Epithelial(150;6.96e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)														---	---	---	---
OR5P3	120066	broad.mit.edu	37	11	7846790	7846790	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7846790G>T	uc010rbg.1	-	1	730	c.730C>A	c.(730-732)CAC>AAC	p.H244N		NM_153445	NP_703146	Q8WZ94	OR5P3_HUMAN	olfactory receptor, family 5, subfamily P,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)														---	---	---	---
OR5P3	120066	broad.mit.edu	37	11	7847232	7847232	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7847232A>G	uc010rbg.1	-	1	288	c.288T>C	c.(286-288)GGT>GGC	p.G96G		NM_153445	NP_703146	Q8WZ94	OR5P3_HUMAN	olfactory receptor, family 5, subfamily P,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)														---	---	---	---
NLRP10	338322	broad.mit.edu	37	11	7982197	7982197	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7982197G>A	uc001mfv.1	-	2	979	c.962C>T	c.(961-963)GCG>GTG	p.A321V		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	321	NACHT.						ATP binding	p.A321A(1)		lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)														---	---	---	---
TUB	7275	broad.mit.edu	37	11	8119372	8119372	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:8119372C>T	uc001mga.2	+	8	1146	c.997C>T	c.(997-999)CGG>TGG	p.R333W	TUB_uc010rbk.1_Missense_Mutation_p.R339W|TUB_uc001mfy.2_Missense_Mutation_p.R388W	NM_177972	NP_813977	P50607	TUB_HUMAN	tubby isoform b	333					phagocytosis|positive regulation of phagocytosis|response to stimulus	cytoplasm|extracellular region|nucleus|plasma membrane				ovary(1)	1		all_lung(207;6.91e-20)|Lung NSC(207;3.36e-17)		Epithelial(150;1.69e-62)|BRCA - Breast invasive adenocarcinoma(625;8.54e-06)|LUSC - Lung squamous cell carcinoma(625;0.000184)														---	---	---	---
LMO1	4004	broad.mit.edu	37	11	8248580	8248580	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:8248580G>A	uc001mgg.1	-	3	804	c.307C>T	c.(307-309)CGG>TGG	p.R103W	LMO1_uc009yfo.1_RNA|LMO1_uc001mgh.1_Missense_Mutation_p.R102W	NM_002315	NP_002306	P25800	RBTN1_HUMAN	LIM domain only 1	103	LIM zinc-binding 2.				cell proliferation|multicellular organismal development|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;1.59e-07)|BRCA - Breast invasive adenocarcinoma(625;0.203)				T|A	TRD@	T-ALL|neuroblastoma	neuroblastoma							---	---	---	---
LMO1	4004	broad.mit.edu	37	11	8248591	8248591	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:8248591T>C	uc001mgg.1	-	3	793	c.296A>G	c.(295-297)GAG>GGG	p.E99G	LMO1_uc009yfo.1_RNA|LMO1_uc001mgh.1_Missense_Mutation_p.E98G	NM_002315	NP_002306	P25800	RBTN1_HUMAN	LIM domain only 1	99	LIM zinc-binding 2.				cell proliferation|multicellular organismal development|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;1.59e-07)|BRCA - Breast invasive adenocarcinoma(625;0.203)				T|A	TRD@	T-ALL|neuroblastoma	neuroblastoma							---	---	---	---
IPO7	10527	broad.mit.edu	37	11	9457899	9457899	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:9457899C>T	uc001mho.2	+	20	2396	c.2254C>T	c.(2254-2256)CGT>TGT	p.R752C		NM_006391	NP_006382	O95373	IPO7_HUMAN	importin 7	752					interspecies interaction between organisms|signal transduction	Golgi apparatus|nuclear pore|soluble fraction	protein transporter activity|Ran GTPase binding|small GTPase regulator activity			lung(1)|breast(1)	2				all cancers(16;8.29e-09)|Epithelial(150;4.76e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0217)														---	---	---	---
WEE1	7465	broad.mit.edu	37	11	9607038	9607038	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:9607038C>T	uc001mhs.2	+	8	1687	c.1434C>T	c.(1432-1434)GGC>GGT	p.G478G	WEE1_uc001mht.2_Silent_p.G264G	NM_003390	NP_003381	P30291	WEE1_HUMAN	WEE1 tyrosine kinase isoform 1	478	Protein kinase.				blood coagulation|cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|S phase of mitotic cell cycle	nucleoplasm	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	5				all cancers(16;4.59e-09)|Epithelial(150;3.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0484)														---	---	---	---
SBF2	81846	broad.mit.edu	37	11	9806818	9806818	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:9806818T>C	uc001mib.2	-	37	5223	c.5085A>G	c.(5083-5085)CTA>CTG	p.L1695L	uc001mhz.1_Intron|SBF2_uc001mid.2_Silent_p.L339L|SBF2_uc001mic.2_5'UTR|uc001mie.3_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1695					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)														---	---	---	---
SBF2	81846	broad.mit.edu	37	11	9838554	9838554	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:9838554G>A	uc001mib.2	-	29	3949	c.3811C>T	c.(3811-3813)CGC>TGC	p.R1271C	SBF2_uc001mid.2_5'UTR	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1271	Myotubularin phosphatase.				myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)														---	---	---	---
AMPD3	272	broad.mit.edu	37	11	10524314	10524314	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10524314C>T	uc001mio.1	+	13	2224	c.1889C>T	c.(1888-1890)GCC>GTC	p.A630V	AMPD3_uc010rbz.1_Missense_Mutation_p.A471V|AMPD3_uc001min.1_Missense_Mutation_p.A639V|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.A637V|AMPD3_uc009yfy.2_Missense_Mutation_p.A630V	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	630					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)														---	---	---	---
AMPD3	272	broad.mit.edu	37	11	10524420	10524420	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10524420C>A	uc001mio.1	+	13	2330	c.1995C>A	c.(1993-1995)CCC>CCA	p.P665P	AMPD3_uc010rbz.1_Silent_p.P506P|AMPD3_uc001min.1_Silent_p.P674P|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Silent_p.P672P|AMPD3_uc009yfy.2_Silent_p.P665P	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	665	Substrate binding (By similarity).				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)														---	---	---	---
AMPD3	272	broad.mit.edu	37	11	10527345	10527345	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10527345G>A	uc001mio.1	+	15	2553	c.2218G>A	c.(2218-2220)GCA>ACA	p.A740T	AMPD3_uc010rbz.1_Missense_Mutation_p.A581T|AMPD3_uc001min.1_Missense_Mutation_p.A749T|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.A747T|AMPD3_uc009yfy.2_Missense_Mutation_p.A740T	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	740					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)														---	---	---	---
EIF4G2	1982	broad.mit.edu	37	11	10823131	10823131	+	Intron	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10823131G>T	uc001mjc.2	-						EIF4G2_uc001mjb.2_Intron|EIF4G2_uc009ygf.2_Intron|EIF4G2_uc001mjd.2_Intron|EIF4G2_uc001mjf.1_Intron|SNORD97_uc009yge.2_RNA	NM_001418	NP_001409			eukaryotic translation initiation factor 4						cell cycle arrest|cell death|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2				all cancers(16;2.8e-07)|Epithelial(150;4.18e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)														---	---	---	---
ARNTL	406	broad.mit.edu	37	11	13402723	13402723	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:13402723G>A	uc001mkr.2	+	18	1947	c.1539G>A	c.(1537-1539)TCG>TCA	p.S513S	ARNTL_uc001mko.2_Silent_p.S469S|ARNTL_uc001mkp.2_Silent_p.S512S|ARNTL_uc001mkq.2_Silent_p.S512S|ARNTL_uc001mks.2_Silent_p.S470S|ARNTL_uc001mkt.2_Silent_p.S513S|ARNTL_uc001mku.2_RNA|ARNTL_uc001mkw.2_Silent_p.S470S|ARNTL_uc001mkx.2_Silent_p.S511S|ARNTL_uc001mky.2_Silent_p.S51S	NM_001178	NP_001169	O00327	BMAL1_HUMAN	aryl hydrocarbon receptor nuclear	513				SP -> LR (in Ref. 2; AAC51213).	circadian rhythm|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	aryl hydrocarbon receptor binding|DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0				Epithelial(150;0.0243)														---	---	---	---
SPON1	10418	broad.mit.edu	37	11	14276113	14276113	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:14276113G>A	uc001mle.2	+	9	1468	c.930G>A	c.(928-930)ACG>ACA	p.T310T		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	310	Spondin.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)														---	---	---	---
PLEKHA7	144100	broad.mit.edu	37	11	16837748	16837748	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:16837748C>T	uc001mmo.2	-	12	1945	c.1930G>A	c.(1930-1932)GCT>ACT	p.A644T	PLEKHA7_uc010rcu.1_Missense_Mutation_p.A644T|PLEKHA7_uc010rcv.1_Missense_Mutation_p.A218T|PLEKHA7_uc001mmn.2_Missense_Mutation_p.A352T	NM_175058	NP_778228	Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A	644	Interaction with CTNND1.				epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			skin(2)|central_nervous_system(1)	3																		---	---	---	---
PLEKHA7	144100	broad.mit.edu	37	11	16892710	16892710	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:16892710C>T	uc001mmo.2	-	4	256	c.241G>A	c.(241-243)GCA>ACA	p.A81T	PLEKHA7_uc010rcu.1_Missense_Mutation_p.A81T	NM_175058	NP_778228	Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A	81	WW 2.				epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			skin(2)|central_nervous_system(1)	3																		---	---	---	---
TPH1	7166	broad.mit.edu	37	11	18048170	18048170	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18048170G>A	uc001mnp.2	-	6	696	c.670C>T	c.(670-672)CGT>TGT	p.R224C	TPH1_uc009yhe.2_RNA	NM_004179	NP_004170	P17752	TPH1_HUMAN	tryptophan hydroxylase 1	224					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity				0					L-Tryptophan(DB00150)|Tetrahydrobiopterin(DB00360)													---	---	---	---
TMEM86A	144110	broad.mit.edu	37	11	18722705	18722705	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18722705G>A	uc001moz.1	+	2	330	c.247G>A	c.(247-249)GCC>ACC	p.A83T		NM_153347	NP_699178	Q8N2M4	TM86A_HUMAN	transmembrane protein 86A	83	Helical; (Potential).					integral to membrane				ovary(1)	1																		---	---	---	---
MPPED2	744	broad.mit.edu	37	11	30601840	30601840	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:30601840C>T	uc001msr.2	-	1	201	c.81G>A	c.(79-81)ACG>ACA	p.T27T	MPPED2_uc001msq.3_Silent_p.T27T|MPPED2_uc009yji.2_5'UTR	NM_001584	NP_001575	Q15777	MPPD2_HUMAN	metallophosphoesterase domain containing 2	27					nervous system development		hydrolase activity|metal ion binding			skin(1)	1																		---	---	---	---
EIF3M	10480	broad.mit.edu	37	11	32615446	32615446	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32615446G>A	uc001mtu.2	+	6	611	c.568G>A	c.(568-570)GGA>AGA	p.G190R	EIF3M_uc010ref.1_Missense_Mutation_p.G58R	NM_006360	NP_006351	Q7L2H7	EIF3M_HUMAN	eukaryotic translation initiation factor 3,	190						eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)|breast(1)|skin(1)	3	Breast(20;0.109)																	---	---	---	---
QSER1	79832	broad.mit.edu	37	11	32975681	32975681	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32975681C>T	uc001mty.2	+	5	4336	c.4069C>T	c.(4069-4071)CGT>TGT	p.R1357C	QSER1_uc001mtz.1_Missense_Mutation_p.R1118C|QSER1_uc001mua.2_Missense_Mutation_p.R862C	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	1357										ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)																	---	---	---	---
CSTF3	1479	broad.mit.edu	37	11	33120306	33120306	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:33120306C>T	uc001muh.2	-	13	1224	c.1058G>A	c.(1057-1059)CGC>CAC	p.R353H	TCP11L1_uc001muf.1_Intron	NM_001326	NP_001317	Q12996	CSTF3_HUMAN	cleavage stimulation factor subunit 3 isoform 1	353					mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding				0																		---	---	---	---
C11orf41	25758	broad.mit.edu	37	11	33565790	33565790	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:33565790A>G	uc001mup.3	+	1	1914	c.1790A>G	c.(1789-1791)CAC>CGC	p.H597R	C11orf41_uc001mun.1_Missense_Mutation_p.H597R	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	597						integral to membrane				ovary(2)	2																		---	---	---	---
LMO2	4005	broad.mit.edu	37	11	33881013	33881013	+	Silent	SNP	G	A	A	rs150885335		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:33881013G>A	uc001mve.2	-	3	805	c.366C>T	c.(364-366)TGC>TGT	p.C122C	LMO2_uc001mvc.2_Silent_p.C115C|LMO2_uc001mvd.2_Silent_p.C115C|LMO2_uc010rel.1_Silent_p.C122C|LMO2_uc010rem.1_Silent_p.C191C	NM_001142316	NP_001135788	P25791	RBTN2_HUMAN	LIM domain only 2 isoform 2	122	LIM zinc-binding 2.				multicellular organismal development	nucleus	protein binding|zinc ion binding			lung(1)	1								T	TRD@	T-ALL								---	---	---	---
ABTB2	25841	broad.mit.edu	37	11	34218942	34218942	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34218942G>A	uc001mvl.1	-	3	846	c.616C>T	c.(616-618)CGG>TGG	p.R206W		NM_145804	NP_665803	Q8N961	ABTB2_HUMAN	ankyrin repeat and BTB (POZ) domain containing	206							DNA binding			central_nervous_system(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(20;0.0691)																---	---	---	---
ELF5	2001	broad.mit.edu	37	11	34515211	34515211	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34515211C>T	uc001mvo.1	-	3	430	c.200G>A	c.(199-201)CGC>CAC	p.R67H	ELF5_uc001mvp.1_Missense_Mutation_p.R57H|ELF5_uc009ykd.1_Intron|ELF5_uc001mvq.1_Missense_Mutation_p.R57H	NM_198381	NP_938195	Q9UKW6	ELF5_HUMAN	E74-like factor 5 ESE-2a	67	PNT.				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)														OREG0020879	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
EHF	26298	broad.mit.edu	37	11	34680177	34680177	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34680177C>T	uc001mvr.1	+	8	816	c.705C>T	c.(703-705)GGC>GGT	p.G235G	EHF_uc009yke.1_Silent_p.G212G|EHF_uc009ykf.1_Silent_p.G238G	NM_012153	NP_036285	Q9NZC4	EHF_HUMAN	ets homologous factor	235	ETS.				cell proliferation|epithelial cell differentiation|multicellular organismal development|positive regulation of transcription, DNA-dependent		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(20;0.117)	Epithelial(1;0.055)|all cancers(1;0.137)|STAD - Stomach adenocarcinoma(6;0.235)															---	---	---	---
PDHX	8050	broad.mit.edu	37	11	34988196	34988196	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34988196C>A	uc001mvt.2	+	6	1177	c.651C>A	c.(649-651)CTC>CTA	p.L217L	PDHX_uc010rep.1_Silent_p.L202L|PDHX_uc010req.1_Intron	NM_003477	NP_003468	O00330	ODPX_HUMAN	pyruvate dehydrogenase complex, component X	217					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	acyltransferase activity			kidney(1)	1	all_epithelial(35;0.115)|Lung NSC(22;0.218)|all_lung(20;0.242)	all_hematologic(20;0.124)	STAD - Stomach adenocarcinoma(6;0.00113)															---	---	---	---
PDHX	8050	broad.mit.edu	37	11	34988232	34988232	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34988232C>T	uc001mvt.2	+	6	1213	c.687C>T	c.(685-687)ACC>ACT	p.T229T	PDHX_uc010rep.1_Silent_p.T214T|PDHX_uc010req.1_Intron	NM_003477	NP_003468	O00330	ODPX_HUMAN	pyruvate dehydrogenase complex, component X	229					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	acyltransferase activity			kidney(1)	1	all_epithelial(35;0.115)|Lung NSC(22;0.218)|all_lung(20;0.242)	all_hematologic(20;0.124)	STAD - Stomach adenocarcinoma(6;0.00113)															---	---	---	---
LDLRAD3	143458	broad.mit.edu	37	11	36250736	36250736	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:36250736C>T	uc001mwk.1	+	6	864	c.827C>T	c.(826-828)CCG>CTG	p.P276L	LDLRAD3_uc010rey.1_Missense_Mutation_p.P227L|LDLRAD3_uc010rez.1_Missense_Mutation_p.P155L|LDLRAD3_uc010rfa.1_RNA	NM_174902	NP_777562	Q86YD5	LRAD3_HUMAN	low density lipoprotein receptor class A domain	276	Poly-Pro.|Cytoplasmic (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1	all_lung(20;0.089)|Lung NSC(22;0.175)|all_epithelial(35;0.177)	all_hematologic(20;0.124)																---	---	---	---
LDLRAD3	143458	broad.mit.edu	37	11	36250849	36250849	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:36250849G>A	uc001mwk.1	+	6	977	c.940G>A	c.(940-942)GTG>ATG	p.V314M	LDLRAD3_uc010rey.1_Missense_Mutation_p.V265M|LDLRAD3_uc010rez.1_Missense_Mutation_p.V193M|LDLRAD3_uc010rfa.1_RNA	NM_174902	NP_777562	Q86YD5	LRAD3_HUMAN	low density lipoprotein receptor class A domain	314	Cytoplasmic (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1	all_lung(20;0.089)|Lung NSC(22;0.175)|all_epithelial(35;0.177)	all_hematologic(20;0.124)																---	---	---	---
COMMD9	29099	broad.mit.edu	37	11	36300147	36300147	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:36300147C>T	uc001mwn.3	-	3	234	c.197G>A	c.(196-198)CGC>CAC	p.R66H	COMMD9_uc009ykj.2_Missense_Mutation_p.R24H|COMMD9_uc010rfb.1_Missense_Mutation_p.R66H	NM_014186	NP_054905	Q9P000	COMD9_HUMAN	COMM domain containing 9 isoform 1	66										ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)																---	---	---	---
RAG1	5896	broad.mit.edu	37	11	36595270	36595270	+	Missense_Mutation	SNP	G	A	A	rs140648865		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:36595270G>A	uc001mwu.3	+	2	540	c.416G>A	c.(415-417)GGC>GAC	p.G139D	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	139	Interaction with importin alpha-1.				histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)												Familial_Hemophagocytic_Lymphohistiocytosis				---	---	---	---
LRRC4C	57689	broad.mit.edu	37	11	40136706	40136706	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:40136706T>C	uc001mxa.1	-	2	3101	c.1137A>G	c.(1135-1137)ACA>ACG	p.T379T	LRRC4C_uc001mxc.1_Silent_p.T375T|LRRC4C_uc001mxd.1_Silent_p.T375T|LRRC4C_uc001mxb.1_Silent_p.T375T	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	379	Ig-like C2-type.				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)																---	---	---	---
TTC17	55761	broad.mit.edu	37	11	43513699	43513699	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:43513699G>A	uc001mxi.2	+	23	3294	c.3280G>A	c.(3280-3282)GTC>ATC	p.V1094I	TTC17_uc010rfj.1_Missense_Mutation_p.V1094I|TTC17_uc001mxl.2_Missense_Mutation_p.V150I|TTC17_uc001mxm.2_Missense_Mutation_p.V75I	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	1094	TPR 6.						binding			ovary(5)	5																		---	---	---	---
ACCS	84680	broad.mit.edu	37	11	44099449	44099449	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:44099449G>A	uc009yks.1	+	8	853	c.709G>A	c.(709-711)GCC>ACC	p.A237T	EXT2_uc010rfo.1_Intron|ACCS_uc010rfm.1_3'UTR|ACCS_uc001mxx.2_Missense_Mutation_p.A237T	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	237							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4																		---	---	---	---
TSPAN18	90139	broad.mit.edu	37	11	44931414	44931414	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:44931414C>T	uc001mye.3	+	3	383	c.222C>T	c.(220-222)TGC>TGT	p.C74C	TP53I11_uc001myf.1_Intron|TSPAN18_uc001myg.2_Silent_p.C74C	NM_130783	NP_570139	Q96SJ8	TSN18_HUMAN	tetraspanin 18 isoform 2	74	Cytoplasmic (Potential).					integral to membrane					0																		---	---	---	---
MAPK8IP1	9479	broad.mit.edu	37	11	45925641	45925641	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:45925641G>A	uc001nbr.2	+	7	1765	c.1595G>A	c.(1594-1596)CGC>CAC	p.R532H		NM_005456	NP_005447	Q9UQF2	JIP1_HUMAN	mitogen-activated protein kinase 8 interacting	532	SH3.				vesicle-mediated transport	nucleus|perinuclear region of cytoplasm	kinesin binding|MAP-kinase scaffold activity|protein kinase inhibitor activity			ovary(2)|breast(1)|skin(1)	4				GBM - Glioblastoma multiforme(35;0.231)														---	---	---	---
PEX16	9409	broad.mit.edu	37	11	45931824	45931824	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:45931824T>C	uc001nbu.2	-	11	1304	c.992A>G	c.(991-993)TAC>TGC	p.Y331C	C11orf94_uc001nbs.3_5'Flank|PEX16_uc001nbt.2_Intron	NM_004813	NP_004804	Q9Y5Y5	PEX16_HUMAN	peroxisomal biogenesis factor 16 isoform 1	331	Interaction with PEX19.|Cytoplasmic (Potential).				ER-dependent peroxisome organization|peroxisome membrane biogenesis|protein import into peroxisome matrix|protein import into peroxisome membrane	endoplasmic reticulum membrane|integral to peroxisomal membrane	protein C-terminus binding			ovary(2)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.223)														---	---	---	---
PHF21A	51317	broad.mit.edu	37	11	45959804	45959804	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:45959804G>A	uc001ncc.3	-	15	2133	c.1509C>T	c.(1507-1509)TGC>TGT	p.C503C	PHF21A_uc001ncb.3_Silent_p.C457C|PHF21A_uc009ykx.2_Silent_p.C457C|PHF21A_uc001nca.1_Silent_p.C239C	NM_001101802	NP_001095272	Q96BD5	PF21A_HUMAN	BRAF35/HDAC2 complex isoform a	503	Required for transcriptional repression.|PHD-type.				blood coagulation|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2																		---	---	---	---
CHRM4	1132	broad.mit.edu	37	11	46408103	46408103	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46408103G>A	uc001nct.1	-	1	5	c.5C>T	c.(4-6)GCC>GTC	p.A2V		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	2	Extracellular (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)													---	---	---	---
AMBRA1	55626	broad.mit.edu	37	11	46419227	46419227	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46419227G>A	uc010rgu.1	-	18	4030	c.3670C>T	c.(3670-3672)CGA>TGA	p.R1224*	AMBRA1_uc010rgt.1_3'UTR|AMBRA1_uc009ylc.1_Nonsense_Mutation_p.R1195*|AMBRA1_uc001ncu.1_Nonsense_Mutation_p.R1134*|AMBRA1_uc001ncv.2_Nonsense_Mutation_p.R1227*|AMBRA1_uc001ncw.2_Nonsense_Mutation_p.R1105*|AMBRA1_uc001ncx.2_Nonsense_Mutation_p.R1164*	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	1224					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)														---	---	---	---
HARBI1	283254	broad.mit.edu	37	11	46637365	46637365	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46637365C>T	uc001ncy.2	-	2	671	c.423G>A	c.(421-423)ATG>ATA	p.M141I	KIAA0652_uc009yld.2_5'Flank|KIAA0652_uc001nda.2_5'Flank|KIAA0652_uc001ndb.2_5'Flank|KIAA0652_uc001ncz.2_5'Flank|KIAA0652_uc001ndc.2_5'Flank|KIAA0652_uc010rgv.1_5'Flank	NM_173811	NP_776172	Q96MB7	HARB1_HUMAN	harbinger transposase derived 1	141						cytoplasm|nucleus	metal ion binding|nuclease activity				0																		---	---	---	---
CKAP5	9793	broad.mit.edu	37	11	46797803	46797803	+	Splice_Site	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46797803A>G	uc001ndi.1	-	24	3101	c.2991_splice	c.e24+1	p.E997_splice	CKAP5_uc009ylg.1_Splice_Site_p.E883_splice|CKAP5_uc001ndj.1_Splice_Site_p.E997_splice	NM_001008938	NP_001008938			colonic and hepatic tumor over-expressed protein						cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2																		---	---	---	---
LRP4	4038	broad.mit.edu	37	11	46880599	46880599	+	Nonsense_Mutation	SNP	G	A	A	rs147138337		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46880599G>A	uc001ndn.3	-	38	5799	c.5653C>T	c.(5653-5655)CGA>TGA	p.R1885*	uc001ndl.2_Intron|LRP4_uc001ndm.3_Nonsense_Mutation_p.R127*	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1885	Cytoplasmic (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)														---	---	---	---
LRP4	4038	broad.mit.edu	37	11	46916311	46916311	+	Missense_Mutation	SNP	G	A	A	rs148856658		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46916311G>A	uc001ndn.3	-	12	1515	c.1369C>T	c.(1369-1371)CGC>TGC	p.R457C		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	457	Extracellular (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)														---	---	---	---
ARFGAP2	84364	broad.mit.edu	37	11	47188378	47188378	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47188378C>T	uc001ndt.2	-	13	1280	c.1265G>A	c.(1264-1266)CGT>CAT	p.R422H	ARFGAP2_uc010rha.1_Missense_Mutation_p.R153H|ARFGAP2_uc010rhb.1_Missense_Mutation_p.R394H|ARFGAP2_uc001ndu.2_Missense_Mutation_p.R286H|ARFGAP2_uc010rhc.1_Missense_Mutation_p.R153H	NM_032389	NP_115765	Q8N6H7	ARFG2_HUMAN	ADP-ribosylation factor GTPase activating	422	Required for interaction with coatomer.				protein transport|regulation of ARF GTPase activity|vesicle-mediated transport	Golgi membrane|nucleolus|plasma membrane	ARF GTPase activator activity|zinc ion binding			ovary(1)	1																		---	---	---	---
NR1H3	10062	broad.mit.edu	37	11	47282972	47282972	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47282972G>A	uc009ylm.2	+	5	901	c.680G>A	c.(679-681)CGC>CAC	p.R227H	NR1H3_uc009yll.1_Missense_Mutation_p.R233H|NR1H3_uc010rhk.1_Missense_Mutation_p.R233H|NR1H3_uc001nek.2_Missense_Mutation_p.R182H|NR1H3_uc001nej.2_Missense_Mutation_p.R227H|NR1H3_uc001nel.2_Missense_Mutation_p.R182H|NR1H3_uc001nen.3_Missense_Mutation_p.R227H|NR1H3_uc001nem.2_Missense_Mutation_p.R227H|NR1H3_uc001nep.2_Missense_Mutation_p.R136H	NM_005693	NP_005684	Q13133	NR1H3_HUMAN	nuclear receptor subfamily 1, group H, member 3	227	Ligand-binding (Potential).				apoptotic cell clearance|cellular response to lipopolysaccharide|cholesterol homeostasis|negative regulation of cholesterol storage|negative regulation of inflammatory response|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of macrophage activation|negative regulation of pancreatic juice secretion|negative regulation of pinocytosis|negative regulation of secretion of lysosomal enzymes|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of cholesterol homeostasis|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor biosynthetic process|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of circadian rhythm|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to progesterone stimulus|triglyceride homeostasis	nuclear chromatin|nucleoplasm	cholesterol binding|steroid hormone receptor activity|sterol response element binding|transcription coactivator activity|zinc ion binding			ovary(2)|lung(1)	3																		---	---	---	---
MYBPC3	4607	broad.mit.edu	37	11	47367812	47367812	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47367812G>A	uc001nfa.3	-	12	1091	c.1036C>T	c.(1036-1038)CGC>TGC	p.R346C		NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	346					cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)														---	---	---	---
PTPRJ	5795	broad.mit.edu	37	11	48145282	48145282	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48145282G>A	uc001ngp.3	+	5	1089	c.734G>A	c.(733-735)AGC>AAC	p.S245N	PTPRJ_uc001ngo.3_Missense_Mutation_p.S245N	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	245	Extracellular (Potential).|Fibronectin type-III 2.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8																		---	---	---	---
TRIM48	79097	broad.mit.edu	37	11	55035844	55035844	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55035844T>C	uc010rid.1	+	4	660	c.574T>C	c.(574-576)TAC>CAC	p.Y192H		NM_024114	NP_077019	Q8IWZ4	TRI48_HUMAN	tripartite motif-containing 48	176						intracellular	zinc ion binding				0																		---	---	---	---
OR4A16	81327	broad.mit.edu	37	11	55110982	55110982	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55110982A>C	uc010rie.1	+	1	306	c.306A>C	c.(304-306)GAA>GAC	p.E102D		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	102	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3																		---	---	---	---
OR4A15	81328	broad.mit.edu	37	11	55136066	55136066	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55136066C>T	uc010rif.1	+	1	707	c.707C>T	c.(706-708)GCT>GTT	p.A236V		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	236	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2																		---	---	---	---
OR4C16	219428	broad.mit.edu	37	11	55339888	55339888	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55339888C>T	uc010rih.1	+	1	285	c.285C>T	c.(283-285)TGC>TGT	p.C95C		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	95	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)																---	---	---	---
OR10AG1	282770	broad.mit.edu	37	11	55735774	55735774	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55735774T>G	uc010rit.1	-	1	166	c.166A>C	c.(166-168)AAT>CAT	p.N56H		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)																	---	---	---	---
OR10AG1	282770	broad.mit.edu	37	11	55735781	55735781	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55735781A>G	uc010rit.1	-	1	159	c.159T>C	c.(157-159)TTT>TTC	p.F53F		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	53	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)																	---	---	---	---
OR5F1	338674	broad.mit.edu	37	11	55761731	55761731	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55761731G>A	uc010riv.1	-	1	371	c.371C>T	c.(370-372)GCG>GTG	p.A124V		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	124	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)																	---	---	---	---
OR8H2	390151	broad.mit.edu	37	11	55872941	55872941	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55872941C>T	uc010riy.1	+	1	423	c.423C>T	c.(421-423)TGC>TGT	p.C141C		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)														HNSCC(53;0.14)			---	---	---	---
OR8H3	390152	broad.mit.edu	37	11	55889929	55889929	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55889929T>C	uc001nii.1	+	1	81	c.81T>C	c.(79-81)GCT>GCC	p.A27A		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	27	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)																	---	---	---	---
OR8K1	390157	broad.mit.edu	37	11	56114241	56114241	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56114241G>A	uc010rjg.1	+	1	727	c.727G>A	c.(727-729)GCC>ACC	p.A243T		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	243	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)														HNSCC(65;0.19)			---	---	---	---
Unknown	0	broad.mit.edu	37	11	56143919	56143919	+	IGR	SNP	G	A	A	rs140673261	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56143919G>A								OR8J1 (15248 upstream) : OR5R1 (40817 downstream)																																			---	---	---	---
OR5M8	219484	broad.mit.edu	37	11	56258342	56258342	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56258342C>T	uc001nix.1	-	1	505	c.505G>A	c.(505-507)GGC>AGC	p.G169S		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	169	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)																	---	---	---	---
TNKS1BP1	85456	broad.mit.edu	37	11	57076125	57076125	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57076125C>A	uc001njr.2	-	5	4372	c.4060G>T	c.(4060-4062)GAG>TAG	p.E1354*	TNKS1BP1_uc001njs.2_Nonsense_Mutation_p.E1354*|TNKS1BP1_uc009ymd.1_Nonsense_Mutation_p.E805*	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	1354	Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)																---	---	---	---
CLP1	10978	broad.mit.edu	37	11	57428850	57428850	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57428850G>A	uc001nkw.2	+	3	1359	c.1220G>A	c.(1219-1221)CGC>CAC	p.R407H	CLP1_uc010rjw.1_Missense_Mutation_p.R343H|CLP1_uc009yml.2_Missense_Mutation_p.R407H	NM_006831	NP_006822	Q92989	CLP1_HUMAN	ATP/GTP-binding protein isoform 1	407					mRNA 3'-end processing|nuclear mRNA splicing, via spliceosome|siRNA loading onto RISC involved in RNA interference|targeting of mRNA for destruction involved in RNA interference|termination of RNA polymerase II transcription|tRNA splicing, via endonucleolytic cleavage and ligation	nucleoplasm|tRNA-intron endonuclease complex	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|ATP-dependent polyribonucleotide 5'-hydroxyl-kinase activity			ovary(1)	1																		---	---	---	---
OR10V1	390201	broad.mit.edu	37	11	59480487	59480487	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59480487C>T	uc001nof.1	-	1	832	c.832G>A	c.(832-834)GCC>ACC	p.A278T		NM_001005324	NP_001005324	Q8NGI7	O10V1_HUMAN	olfactory receptor, family 10, subfamily V,	278	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0																		---	---	---	---
GIF	2694	broad.mit.edu	37	11	59611434	59611434	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59611434C>T	uc001noi.2	-	2	222	c.174G>A	c.(172-174)CTG>CTA	p.L58L	GIF_uc010rkz.1_Silent_p.L58L	NM_005142	NP_005133	P27352	IF_HUMAN	gastric intrinsic factor (vitamin B synthesis)	58					cobalamin metabolic process|cobalamin transport|cobalt ion transport	apical plasma membrane|endosome|extracellular space|microvillus	cobalamin binding			ovary(1)|liver(1)	2																		---	---	---	---
MS4A4A	51338	broad.mit.edu	37	11	60070111	60070111	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60070111C>T	uc001noz.2	+	5	477	c.467C>T	c.(466-468)GCG>GTG	p.A156V	MS4A4A_uc001npa.2_Missense_Mutation_p.A137V|MS4A4A_uc001npb.2_Missense_Mutation_p.A137V|MS4A4A_uc001npc.2_Intron	NM_148975	NP_683876	Q96JQ5	M4A4A_HUMAN	membrane-spanning 4-domains, subfamily A, member	156	Helical; (Potential).					integral to membrane	receptor activity				0																		---	---	---	---
MS4A8B	83661	broad.mit.edu	37	11	60470903	60470903	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60470903C>T	uc001npv.2	+	3	475	c.272C>T	c.(271-273)GCG>GTG	p.A91V	MS4A8B_uc009yne.1_Missense_Mutation_p.A91V	NM_031457	NP_113645	Q9BY19	M4A8B_HUMAN	membrane-spanning 4-domains, subfamily A, member	91	Helical; (Potential).					integral to membrane	receptor activity				0																		---	---	---	---
PRPF19	27339	broad.mit.edu	37	11	60666093	60666093	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60666093T>C	uc001nqf.2	-	13	1267	c.1060A>G	c.(1060-1062)ACC>GCC	p.T354A		NM_014502	NP_055317	Q9UMS4	PRP19_HUMAN	PRP19/PSO4 pre-mRNA processing factor 19	354	WD 4.				DNA repair|protein polyubiquitination|spliceosome assembly	catalytic step 2 spliceosome|nuclear speck|spindle|ubiquitin ligase complex	DNA binding|identical protein binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1																		---	---	---	---
PRPF19	27339	broad.mit.edu	37	11	60670217	60670217	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60670217C>T	uc001nqf.2	-	4	590	c.383G>A	c.(382-384)CGA>CAA	p.R128Q		NM_014502	NP_055317	Q9UMS4	PRP19_HUMAN	PRP19/PSO4 pre-mRNA processing factor 19	128					DNA repair|protein polyubiquitination|spliceosome assembly	catalytic step 2 spliceosome|nuclear speck|spindle|ubiquitin ligase complex	DNA binding|identical protein binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1																		---	---	---	---
CD6	923	broad.mit.edu	37	11	60785861	60785861	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60785861T>C	uc001nqq.2	+	12	2161	c.1938T>C	c.(1936-1938)TGT>TGC	p.C646C	CD6_uc001nqr.2_Intron|CD6_uc001nqs.2_Intron|CD6_uc001nqt.2_Intron	NM_006725	NP_006716	P30203	CD6_HUMAN	CD6 molecule precursor	646	Cytoplasmic (Potential).				cell adhesion	cell surface|integral to plasma membrane	scavenger receptor activity			pancreas(1)	1																		---	---	---	---
CD5	921	broad.mit.edu	37	11	60889151	60889151	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60889151C>T	uc009ynk.2	+	6	977	c.874C>T	c.(874-876)CGC>TGC	p.R292C		NM_014207	NP_055022	P06127	CD5_HUMAN	CD5 molecule precursor	292	Extracellular (Potential).|SRCR 3.				cell proliferation|cell recognition	integral to plasma membrane	scavenger receptor activity			ovary(1)	1		all_lung(304;5.94e-05)|Lung NSC(402;7.26e-05)		BRCA - Breast invasive adenocarcinoma(625;0.000946)|Lung(977;0.0086)|LUSC - Lung squamous cell carcinoma(625;0.0528)														---	---	---	---
TMEM216	51259	broad.mit.edu	37	11	61165323	61165323	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61165323G>A	uc010rlj.1	+	4	579	c.286G>A	c.(286-288)GCC>ACC	p.A96T	TMEM216_uc001nrn.1_Missense_Mutation_p.A42T	NM_016499	NP_057583	Q9P0N5	TM216_HUMAN	transmembrane protein 216	96	Helical; (Potential).					integral to membrane					0																		---	---	---	---
SDHAF2	54949	broad.mit.edu	37	11	61205158	61205158	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61205158G>A	uc001nrt.2	+	2	120	c.98G>A	c.(97-99)CGC>CAC	p.R33H		NM_017841	NP_060311	Q9NX18	SDHF2_HUMAN	succinate dehydrogenase complex assembly factor	33					mitochondrial electron transport, succinate to ubiquinone|protein-FAD linkage	mitochondrion	protein binding			ovary(2)	2														Familial_Paragangliomas				---	---	---	---
SYT7	9066	broad.mit.edu	37	11	61290689	61290689	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61290689G>A	uc001nrv.2	-	8	971	c.965C>T	c.(964-966)ACG>ATG	p.T322M	SYT7_uc009ynr.2_Missense_Mutation_p.T397M	NM_004200	NP_004191	O43581	SYT7_HUMAN	synaptotagmin VII	322	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|pancreas(1)	4																		---	---	---	---
DAGLA	747	broad.mit.edu	37	11	61488161	61488161	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61488161C>T	uc001nsa.2	+	3	217	c.106C>T	c.(106-108)CTG>TTG	p.L36L		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	36	Helical; (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)														---	---	---	---
FADS1	3992	broad.mit.edu	37	11	61580742	61580742	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61580742C>G	uc010rlm.1	-	2	587	c.459G>C	c.(457-459)GAG>GAC	p.E153D	FADS2_uc001nsj.2_5'Flank|FADS1_uc001nsh.2_Missense_Mutation_p.E12D|FADS1_uc010rln.1_Missense_Mutation_p.E12D	NM_013402	NP_037534	O60427	FADS1_HUMAN	fatty acid desaturase 1	96	Cytoplasmic (Potential).				cell-cell signaling|cellular response to starvation|electron transport chain|icosanoid biosynthetic process|phospholipid biosynthetic process|regulation of cell differentiation|regulation of transcription, DNA-dependent|transport	endoplasmic reticulum membrane|integral to membrane|microsome	C-5 sterol desaturase activity|heme binding|protein binding			central_nervous_system(1)	1					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)													---	---	---	---
FADS2	9415	broad.mit.edu	37	11	61615676	61615676	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61615676G>A	uc001nsl.1	+	5	814	c.664G>A	c.(664-666)GCC>ACC	p.A222T	FADS2_uc001nsj.2_Missense_Mutation_p.A200T|FADS2_uc010rlo.1_Missense_Mutation_p.A191T|FADS2_uc001nsk.2_Missense_Mutation_p.A222T	NM_004265	NP_004256	O95864	FADS2_HUMAN	fatty acid desaturase 2	222	Cytoplasmic (Potential).				electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	heme binding			ovary(1)|pancreas(1)	2					Alpha-Linolenic Acid(DB00132)													---	---	---	---
AHNAK	79026	broad.mit.edu	37	11	62288822	62288822	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62288822G>A	uc001ntl.2	-	5	13367	c.13067C>T	c.(13066-13068)GCC>GTC	p.A4356V	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4356					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)																---	---	---	---
AHNAK	79026	broad.mit.edu	37	11	62293096	62293096	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62293096G>A	uc001ntl.2	-	5	9093	c.8793C>T	c.(8791-8793)GAC>GAT	p.D2931D	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	2931					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)																---	---	---	---
AHNAK	79026	broad.mit.edu	37	11	62294104	62294104	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62294104G>A	uc001ntl.2	-	5	8085	c.7785C>T	c.(7783-7785)GGC>GGT	p.G2595G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	2595					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)																---	---	---	---
AHNAK	79026	broad.mit.edu	37	11	62298466	62298466	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62298466G>A	uc001ntl.2	-	5	3723	c.3423C>T	c.(3421-3423)GGC>GGT	p.G1141G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1141					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)																---	---	---	---
EEF1G	1937	broad.mit.edu	37	11	62338497	62338497	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62338497G>A	uc001ntm.1	-	5	608	c.462C>T	c.(460-462)GGC>GGT	p.G154G	EEF1G_uc010rlw.1_Silent_p.G204G|EEF1G_uc001ntn.1_Silent_p.G34G	NM_001404	NP_001395	P26641	EF1G_HUMAN	eukaryotic translation elongation factor 1	154	GST C-terminal.				response to virus	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0																		---	---	---	---
GANAB	23193	broad.mit.edu	37	11	62400959	62400959	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62400959G>A	uc001nub.2	-	6	621	c.588C>T	c.(586-588)GGC>GGT	p.G196G	GANAB_uc001nua.2_Silent_p.G218G|GANAB_uc001nuc.2_Silent_p.G99G|GANAB_uc010rma.1_Silent_p.G104G|GANAB_uc010rmb.1_Silent_p.G82G	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2	196					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|Golgi apparatus|melanosome	carbohydrate binding|glucan 1,3-alpha-glucosidase activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5																		---	---	---	---
WDR74	54663	broad.mit.edu	37	11	62601368	62601368	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62601368G>A	uc001nvm.1	-	10	985	c.817C>T	c.(817-819)CGT>TGT	p.R273C	STX5_uc001nvh.2_5'Flank|STX5_uc010rmi.1_5'Flank|STX5_uc009yoh.2_5'Flank|STX5_uc001nvi.2_5'Flank|STX5_uc010rmj.1_5'Flank|STX5_uc001nvj.2_5'Flank|WDR74_uc001nvk.1_Missense_Mutation_p.R216C|WDR74_uc001nvl.1_Missense_Mutation_p.R273C|WDR74_uc001nvn.1_Missense_Mutation_p.R325C|WDR74_uc009yoi.1_Missense_Mutation_p.R273C	NM_018093	NP_060563	Q6RFH5	WDR74_HUMAN	WD repeat domain 74	273	WD 6.					nucleolus				ovary(1)	1																		---	---	---	---
SLC22A8	9376	broad.mit.edu	37	11	62766535	62766535	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62766535G>A	uc001nwo.2	-	5	755	c.619C>T	c.(619-621)CGG>TGG	p.R207W	SLC22A8_uc001nwn.1_5'UTR|SLC22A8_uc001nwp.2_Missense_Mutation_p.R207W|SLC22A8_uc009yom.2_Missense_Mutation_p.R84W|SLC22A8_uc010rmm.1_Missense_Mutation_p.R116W|SLC22A8_uc009yon.2_Missense_Mutation_p.R207W	NM_004254	NP_004245	Q8TCC7	S22A8_HUMAN	solute carrier family 22 member 8	207	Cytoplasmic (Potential).				response to toxin	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|organic anion transmembrane transporter activity			skin(2)|ovary(1)	3																		---	---	---	---
SLC22A10	387775	broad.mit.edu	37	11	63057764	63057764	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:63057764G>T	uc009yor.2	+	1	335	c.127G>T	c.(127-129)GCC>TCC	p.A43S	SLC22A10_uc010rmo.1_Intron|SLC22A10_uc001nwu.3_RNA|SLC22A10_uc010rmp.1_5'UTR	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	43	Extracellular (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2																		---	---	---	---
SLC22A10	387775	broad.mit.edu	37	11	63066382	63066382	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:63066382C>A	uc009yor.2	+						SLC22A10_uc010rmo.1_Intron|SLC22A10_uc001nwu.3_Intron|SLC22A10_uc010rmp.1_Intron	NM_001039752	NP_001034841			solute carrier family 22, member 10							integral to membrane	transmembrane transporter activity			ovary(2)	2																		---	---	---	---
RCOR2	283248	broad.mit.edu	37	11	63682282	63682282	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:63682282C>T	uc001nyc.2	-	5	713	c.325G>A	c.(325-327)GGC>AGC	p.G109S		NM_173587	NP_775858	Q8IZ40	RCOR2_HUMAN	REST corepressor 2	109	ELM2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)|skin(1)	2																		---	---	---	---
FKBP2	2286	broad.mit.edu	37	11	64011431	64011431	+	Intron	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64011431C>G	uc001nyy.2	+						FKBP2_uc010rnh.1_Intron|FKBP2_uc001nyz.2_Intron	NM_004470	NP_004461			FK506 binding protein 2, 13kDa precursor						protein folding	endoplasmic reticulum membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|protein binding				0																		---	---	---	---
PLCB3	5331	broad.mit.edu	37	11	64023268	64023268	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64023268G>A	uc001nzb.2	+	8	673	c.673G>A	c.(673-675)GAC>AAC	p.D225N	PLCB3_uc009ypg.1_Missense_Mutation_p.D225N|PLCB3_uc009yph.1_Missense_Mutation_p.D158N|PLCB3_uc009ypi.2_Missense_Mutation_p.D225N	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	225					intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2																		---	---	---	---
NRXN2	9379	broad.mit.edu	37	11	64434955	64434955	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64434955C>T	uc001oar.2	-	10	2004	c.1565G>A	c.(1564-1566)CGC>CAC	p.R522H	NRXN2_uc001oas.2_Missense_Mutation_p.R491H|NRXN2_uc001oaq.2_Missense_Mutation_p.R189H	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:Variant_position_missing_in_P58401_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10																		---	---	---	---
PYGM	5837	broad.mit.edu	37	11	64522963	64522963	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64522963C>T	uc001oax.3	-	6	1545	c.728G>A	c.(727-729)CGC>CAC	p.R243H	PYGM_uc001oay.3_Missense_Mutation_p.R155H	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	243					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)													---	---	---	---
SNX15	29907	broad.mit.edu	37	11	64802341	64802341	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64802341C>T	uc001oci.3	+	7	932	c.279C>T	c.(277-279)ATC>ATT	p.I93I	SNX15_uc009ypy.2_Silent_p.I93I|SNX15_uc001ocj.2_Silent_p.I93I|SNX15_uc001ock.2_Silent_p.I93I	NM_013306	NP_037438	Q9NRS6	SNX15_HUMAN	sorting nexin 15 isoform A	93	PX.				cell communication|intracellular protein transport	cytoplasmic vesicle membrane|cytosol	phosphatidylinositol binding|protein transporter activity			ovary(1)	1																		---	---	---	---
C11orf2	738	broad.mit.edu	37	11	64876893	64876893	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64876893C>T	uc001ocr.1	+	6	1625	c.1585C>T	c.(1585-1587)CGC>TGC	p.R529C	TM7SF2_uc001oct.2_5'Flank|TM7SF2_uc010rny.1_5'Flank|TM7SF2_uc001ocu.2_5'Flank|TM7SF2_uc001ocv.2_5'Flank|C11orf2_uc001ocs.1_Missense_Mutation_p.R405C	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	529					lipid transport|protein transport	Golgi apparatus|integral to membrane					0																		---	---	---	---
MALAT1	378938	broad.mit.edu	37	11	65273657	65273657	+	RNA	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65273657A>G	uc010roh.1	+	1		c.8425A>G			uc001ody.2_5'Flank	NR_002819				Homo sapiens clone alpha1 mRNA sequence.												0																		---	---	---	---
LTBP3	4054	broad.mit.edu	37	11	65325188	65325188	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65325188C>T	uc001oej.2	-	1	512	c.243G>A	c.(241-243)CGG>CGA	p.R81R	LTBP3_uc010roi.1_5'UTR|LTBP3_uc001oei.2_Silent_p.R81R|LTBP3_uc010roj.1_Silent_p.R67R|LTBP3_uc010rok.1_Intron	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	81	Gly-rich.					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3																		---	---	---	---
KAT5	10524	broad.mit.edu	37	11	65486194	65486194	+	Silent	SNP	C	T	T	rs114460328	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65486194C>T	uc001ofi.2	+	12	1549	c.1299C>T	c.(1297-1299)AGC>AGT	p.S433S	KAT5_uc001ofj.2_Silent_p.S381S|KAT5_uc001ofk.2_Silent_p.S466S|KAT5_uc010roo.1_Silent_p.S414S|KAT5_uc001ofl.2_Silent_p.S222S|RNASEH2C_uc001ofm.2_RNA|RNASEH2C_uc001ofn.2_3'UTR	NM_006388	NP_006379	Q92993	KAT5_HUMAN	K(lysine) acetyltransferase 5 isoform 2	433					androgen receptor signaling pathway|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|double-strand break repair|interspecies interaction between organisms|negative regulation of interleukin-2 production|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nucleolus|perinuclear region of cytoplasm|Piccolo NuA4 histone acetyltransferase complex	androgen receptor binding|histone acetyltransferase activity|metal ion binding|repressing transcription factor binding|transcription coactivator activity				0																		---	---	---	---
MUS81	80198	broad.mit.edu	37	11	65633355	65633355	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65633355C>T	uc001ofv.3	+	15	1932	c.1579C>T	c.(1579-1581)CGT>TGT	p.R527C	MUS81_uc001ofw.3_RNA|MUS81_uc001ofx.3_Missense_Mutation_p.R84C	NM_025128	NP_079404	Q96NY9	MUS81_HUMAN	MUS81 endonuclease homolog	527					DNA recombination|DNA repair	nucleolus	3'-flap endonuclease activity|DNA binding|metal ion binding|protein binding				0				READ - Rectum adenocarcinoma(159;0.166)									Homologous_recombination					---	---	---	---
SART1	9092	broad.mit.edu	37	11	65743960	65743960	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65743960C>T	uc001ogl.2	+	13	1759	c.1667C>T	c.(1666-1668)ACG>ATG	p.T556M		NM_005146	NP_005137	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T	556					cell cycle arrest|induction of apoptosis by intracellular signals|positive regulation of cytotoxic T cell differentiation|spliceosomal snRNP assembly	Cajal body|catalytic step 2 spliceosome|cytosol				ovary(1)	1																		---	---	---	---
CATSPER1	117144	broad.mit.edu	37	11	65793857	65793857	+	5'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65793857G>A	uc001ogt.2	-	1						NM_053054	NP_444282			sperm-associated cation channel 1						cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	protein binding			ovary(2)	2																		---	---	---	---
KLC2	64837	broad.mit.edu	37	11	66033585	66033585	+	Missense_Mutation	SNP	C	T	T	rs139049979	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66033585C>T	uc010rov.1	+	14	1867	c.1624C>T	c.(1624-1626)CGC>TGC	p.R542C	KLC2_uc010row.1_Missense_Mutation_p.R542C|KLC2_uc009yra.2_Intron|KLC2_uc001ohb.2_Missense_Mutation_p.R542C|KLC2_uc010rox.1_Missense_Mutation_p.R465C|KLC2_uc001ohc.2_Missense_Mutation_p.R542C|KLC2_uc001ohd.2_Missense_Mutation_p.R465C|KLC2_uc001ohe.1_Missense_Mutation_p.R403C|RAB1B_uc001ohf.2_5'Flank	NM_001134775	NP_001128247	Q9H0B6	KLC2_HUMAN	kinesin light chain 2 isoform 1	542					blood coagulation	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0																		---	---	---	---
TMEM151A	256472	broad.mit.edu	37	11	66061810	66061810	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66061810G>A	uc001ohl.2	+	2	205	c.93G>A	c.(91-93)CAG>CAA	p.Q31Q		NM_153266	NP_694998	Q8N4L1	T151A_HUMAN	transmembrane protein 151A	31						integral to membrane				central_nervous_system(1)	1																		---	---	---	---
TMEM151A	256472	broad.mit.edu	37	11	66061905	66061905	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66061905G>A	uc001ohl.2	+	2	300	c.188G>A	c.(187-189)CGC>CAC	p.R63H		NM_153266	NP_694998	Q8N4L1	T151A_HUMAN	transmembrane protein 151A	63	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1																		---	---	---	---
CD248	57124	broad.mit.edu	37	11	66083274	66083274	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66083274C>T	uc001ohm.1	-	1	1242	c.1225G>A	c.(1225-1227)GCC>ACC	p.A409T		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	409	Pro-rich.|Extracellular (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)													---	---	---	---
PELI3	246330	broad.mit.edu	37	11	66235677	66235677	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66235677C>T	uc001oic.3	+	2	242	c.78C>T	c.(76-78)TGC>TGT	p.C26C	PELI3_uc001oib.2_Silent_p.C26C|PELI3_uc001oid.3_Silent_p.C26C|PELI3_uc001oie.3_5'UTR	NM_145065	NP_659502	Q8N2H9	PELI3_HUMAN	pellino 3 alpha isoform 1	26						cytosol	protein binding			ovary(1)	1																		---	---	---	---
DPP3	10072	broad.mit.edu	37	11	66262922	66262922	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66262922C>T	uc001oig.1	+	14	1601	c.1539C>T	c.(1537-1539)AGC>AGT	p.S513S	DPP3_uc001oif.1_Silent_p.S513S|DPP3_uc010rpe.1_Silent_p.S502S|DPP3_uc001oih.1_5'Flank	NM_005700	NP_005691	Q9NY33	DPP3_HUMAN	dipeptidyl peptidase III	513					proteolysis	cytoplasm	aminopeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity			ovary(1)|skin(1)	2																		---	---	---	---
ACTN3	89	broad.mit.edu	37	11	66330622	66330622	+	Silent	SNP	C	T	T	rs79516407	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66330622C>T	uc001oio.1	+	22	2682	c.2664C>T	c.(2662-2664)TAC>TAT	p.Y888Y	ACTN3_uc010rpi.1_RNA	NM_001104	NP_001095	Q08043	ACTN3_HUMAN	actinin, alpha 3	888					focal adhesion assembly|muscle filament sliding|regulation of apoptosis	actin filament|cytosol|focal adhesion|pseudopodium	actin binding|calcium ion binding|integrin binding|protein homodimerization activity|structural constituent of muscle				0																		---	---	---	---
RBM4	5936	broad.mit.edu	37	11	66411175	66411175	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66411175A>G	uc009yrj.2	+	3	1155	c.667A>G	c.(667-669)AAG>GAG	p.K223E	RBM4_uc009yrk.2_Missense_Mutation_p.K198E|RBM4_uc001oiw.1_Missense_Mutation_p.K223E|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Missense_Mutation_p.K223E|RBM4_uc001oiz.1_Missense_Mutation_p.K223E	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	223	Interaction with TNPO3.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)														---	---	---	---
SPTBN2	6712	broad.mit.edu	37	11	66456223	66456223	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66456223C>T	uc001ojd.2	-	30	6204	c.6132G>A	c.(6130-6132)ACG>ACA	p.T2044T	SPTBN2_uc001ojc.1_5'Flank	NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	2044	Spectrin 17.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
SPTBN2	6712	broad.mit.edu	37	11	66457766	66457766	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66457766C>A	uc001ojd.2	-						SPTBN2_uc001ojc.1_5'Flank	NM_006946	NP_008877			spectrin, beta, non-erythrocytic 2						actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
SPTBN2	6712	broad.mit.edu	37	11	66461764	66461764	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66461764G>A	uc001ojd.2	-	21	4421	c.4349C>T	c.(4348-4350)GCC>GTC	p.A1450V		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1450	Spectrin 11.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4																OREG0021113	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
SPTBN2	6712	broad.mit.edu	37	11	66475077	66475077	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66475077G>A	uc001ojd.2	-	12	1635	c.1563C>T	c.(1561-1563)GCC>GCT	p.A521A		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	521	Spectrin 2.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
SPTBN2	6712	broad.mit.edu	37	11	66475138	66475138	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66475138C>T	uc001ojd.2	-	12	1574	c.1502G>A	c.(1501-1503)CGC>CAC	p.R501H		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	501	Spectrin 2.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
LRFN4	78999	broad.mit.edu	37	11	66626561	66626561	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66626561A>G	uc001ojr.2	+	1	1686	c.1346A>G	c.(1345-1347)TAC>TGC	p.Y449C	PC_uc001ojo.1_Intron|PC_uc001ojp.1_Intron|PC_uc001ojn.1_Intron|LRFN4_uc001ojs.2_Intron	NM_024036	NP_076941	Q6PJG9	LRFN4_HUMAN	leucine rich repeat and fibronectin type III	449	Extracellular (Potential).|Fibronectin type-III.					integral to membrane					0																		---	---	---	---
ADRBK1	156	broad.mit.edu	37	11	67047125	67047125	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67047125T>C	uc009yrn.1	+	5	661	c.395T>C	c.(394-396)GTC>GCC	p.V132A	ADRBK1_uc009yrm.1_Missense_Mutation_p.V132A	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	132	RGS.|N-terminal.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)													---	---	---	---
ADRBK1	156	broad.mit.edu	37	11	67052656	67052656	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67052656C>T	uc009yrn.1	+	20	2168	c.1902C>T	c.(1900-1902)TGC>TGT	p.C634C	ADRBK1_uc009yrm.1_Intron	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	634	PH.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)													---	---	---	---
SSH3	54961	broad.mit.edu	37	11	67077278	67077278	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67077278C>T	uc001okj.2	+	12	1426	c.1248C>T	c.(1246-1248)GGC>GGT	p.G416G	SSH3_uc001okk.2_RNA|SSH3_uc001okl.2_Silent_p.G270G	NM_017857	NP_060327	Q8TE77	SSH3_HUMAN	slingshot homolog 3	416	Tyrosine-protein phosphatase.				regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton|nucleus	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)															---	---	---	---
GSTP1	2950	broad.mit.edu	37	11	67352167	67352167	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67352167G>A	uc001omf.2	+	4	405	c.156G>A	c.(154-156)CAG>CAA	p.Q52Q	GSTP1_uc001omg.1_Silent_p.Q33Q	NM_000852	NP_000843	P09211	GSTP1_HUMAN	glutathione transferase	52	GST N-terminal.|Glutathione binding.				anti-apoptosis|cellular response to lipopolysaccharide|central nervous system development|common myeloid progenitor cell proliferation|glutathione metabolic process|negative regulation of acute inflammatory response|negative regulation of ERK1 and ERK2 cascade|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 beta production|negative regulation of JUN kinase activity|negative regulation of leukocyte proliferation|negative regulation of monocyte chemotactic protein-1 production|negative regulation of necrotic cell death|negative regulation of nitric-oxide synthase 2 biosynthetic process|negative regulation of stress-activated MAPK cascade|negative regulation of tumor necrosis factor production|nitric oxide storage|positive regulation of superoxide anion generation|response to reactive oxygen species|xenobiotic metabolic process	cytosol|protein complex	dinitrosyl-iron complex binding|glutathione transferase activity|JUN kinase binding|kinase regulator activity|nitric oxide binding|S-nitrosoglutathione binding			ovary(1)	1					Ethacrynic acid(DB00903)|Glutathione(DB00143)													---	---	---	---
ACY3	91703	broad.mit.edu	37	11	67412751	67412751	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67412751G>A	uc001omq.2	-							NM_080658	NP_542389			aspartoacylase 3						interspecies interaction between organisms	apical plasma membrane|cytoplasm	hydrolase activity, acting on ester bonds|metal ion binding				0					L-Aspartic Acid(DB00128)													---	---	---	---
ALDH3B2	222	broad.mit.edu	37	11	67432886	67432886	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67432886G>A	uc001omr.2	-	7	1015	c.576C>T	c.(574-576)GGC>GGT	p.G192G	ALDH3B2_uc001oms.2_Silent_p.G192G|ALDH3B2_uc009ysa.1_Silent_p.G192G	NM_000695	NP_000686	P48448	AL3B2_HUMAN	aldehyde dehydrogenase 3B2	192					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase			lung(1)|kidney(1)	2					NADH(DB00157)													---	---	---	---
TCIRG1	10312	broad.mit.edu	37	11	67816417	67816417	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67816417C>T	uc001one.2	+	14	1734	c.1626C>T	c.(1624-1626)GGC>GGT	p.G542G	TCIRG1_uc001ong.2_Silent_p.G326G|TCIRG1_uc001onh.2_Silent_p.G244G|TCIRG1_uc001oni.2_Silent_p.G46G|TCIRG1_uc009ysd.2_5'Flank	NM_006019	NP_006010	Q13488	VPP3_HUMAN	T-cell, immune regulator 1 isoform a	542	Helical; (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																		---	---	---	---
SUV420H1	51111	broad.mit.edu	37	11	67957392	67957392	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67957392G>A	uc001onm.1	-	2	408	c.152C>T	c.(151-153)TCG>TTG	p.S51L	SUV420H1_uc009yse.1_5'UTR|SUV420H1_uc001onn.1_5'UTR|SUV420H1_uc009ysf.2_5'UTR|SUV420H1_uc001ono.1_Missense_Mutation_p.S51L|SUV420H1_uc001onp.2_Missense_Mutation_p.S51L|SUV420H1_uc010rqa.1_Missense_Mutation_p.S51L|SUV420H1_uc001onq.2_Missense_Mutation_p.S51L	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	51					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3																		---	---	---	---
C11orf24	53838	broad.mit.edu	37	11	68029864	68029864	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68029864G>A	uc001onr.3	-	4	1041	c.599C>T	c.(598-600)GCG>GTG	p.A200V	C11orf24_uc001ons.2_Missense_Mutation_p.A200V	NM_022338	NP_071733	Q96F05	CK024_HUMAN	hypothetical protein LOC53838 precursor	200	Extracellular (Potential).					integral to membrane					0																		---	---	---	---
SAPS3	55291	broad.mit.edu	37	11	68377453	68377453	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68377453C>T	uc001onw.2	+	23	2799	c.2532C>T	c.(2530-2532)TGC>TGT	p.C844C	SAPS3_uc001onv.2_Silent_p.C850C|SAPS3_uc001ony.3_Silent_p.C815C|SAPS3_uc001onx.2_Silent_p.C838C|SAPS3_uc009ysh.2_Silent_p.C764C|SAPS3_uc001onu.2_Silent_p.C764C|SAPS3_uc010rqc.1_Silent_p.C612C|SAPS3_uc010rqd.1_Silent_p.C527C|SAPS3_uc001onz.2_Silent_p.C172C|SAPS3_uc001ooa.2_Silent_p.C300C	NM_001164161	NP_001157633	Q5H9R7	PP6R3_HUMAN	SAPS domain family, member 3 isoform 6	844					regulation of phosphoprotein phosphatase activity	cytoplasm|nucleus	protein phosphatase binding				0			LUAD - Lung adenocarcinoma(13;0.102)															---	---	---	---
PPFIA1	8500	broad.mit.edu	37	11	70118424	70118424	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:70118424G>A	uc001opo.2	+	2	344	c.146G>A	c.(145-147)CGC>CAC	p.R49H	PPFIA1_uc001opn.1_Missense_Mutation_p.R49H|PPFIA1_uc001opp.2_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	49	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)															---	---	---	---
SHANK2	22941	broad.mit.edu	37	11	70332069	70332069	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:70332069G>A	uc001oqc.2	-	21	4407	c.4329C>T	c.(4327-4329)AGC>AGT	p.S1443S	SHANK2_uc010rqn.1_Silent_p.S855S|SHANK2_uc001opz.2_Silent_p.S848S|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	1064					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)															---	---	---	---
SHANK2	22941	broad.mit.edu	37	11	70507852	70507852	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:70507852G>A	uc010rqn.1	-	1	72	c.21C>T	c.(19-21)GGC>GGT	p.G7G	SHANK2_uc001opz.2_Silent_p.G7G|SHANK2_uc001oqc.2_Intron|uc009ysn.1_Missense_Mutation_p.R97H|SHANK2_uc010rqp.1_Silent_p.G7G	NM_133266	NP_573573	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	Error:Variant_position_missing_in_Q9UPX8_after_alignment					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)															---	---	---	---
DHCR7	1717	broad.mit.edu	37	11	71150017	71150017	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:71150017C>T	uc001oqk.2	-	7	989	c.739G>A	c.(739-741)GCC>ACC	p.A247T	DHCR7_uc001oql.2_Missense_Mutation_p.A247T	NM_001163817	NP_001157289	Q9UBM7	DHCR7_HUMAN	7-dehydrocholesterol reductase	247			A -> V (in SLOS).		cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|nuclear outer membrane	7-dehydrocholesterol reductase activity|protein binding			ovary(1)|liver(1)	2					NADH(DB00157)									Smith-Lemli-Opitz_syndrome				---	---	---	---
NUMA1	4926	broad.mit.edu	37	11	71725378	71725378	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:71725378C>T	uc001orl.1	-	15	3343	c.3171G>A	c.(3169-3171)ACG>ACA	p.T1057T	NUMA1_uc009ysw.1_Silent_p.T620T|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Silent_p.T1057T|NUMA1_uc001orn.2_Silent_p.T620T|NUMA1_uc009ysx.1_Silent_p.T1057T|NUMA1_uc001oro.1_Silent_p.T1057T	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1057	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8								T	RARA	APL								---	---	---	---
NUMA1	4926	broad.mit.edu	37	11	71725779	71725779	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:71725779G>A	uc001orl.1	-	15	2942	c.2770C>T	c.(2770-2772)CGC>TGC	p.R924C	NUMA1_uc009ysw.1_Missense_Mutation_p.R487C|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Missense_Mutation_p.R924C|NUMA1_uc001orn.2_Missense_Mutation_p.R487C|NUMA1_uc009ysx.1_Missense_Mutation_p.R924C|NUMA1_uc001oro.1_Missense_Mutation_p.R924C	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	924	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8								T	RARA	APL								---	---	---	---
FOLR3	2352	broad.mit.edu	37	11	71850830	71850830	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:71850830G>A	uc001ory.1	+	5	869	c.819G>A	c.(817-819)GCG>GCA	p.A273A	FOLR3_uc001orx.1_Silent_p.A231A			P41439	FOLR3_HUMAN	SubName: Full=FOLR3 protein; Flags: Fragment;	229					folic acid transport	extracellular region|extrinsic to membrane|membrane fraction	folic acid binding|receptor activity				0					Folic Acid(DB00158)													---	---	---	---
INPPL1	3636	broad.mit.edu	37	11	71939260	71939260	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:71939260G>A	uc001osf.2	+	2	356	c.209G>A	c.(208-210)CGC>CAC	p.R70H	INPPL1_uc001osg.2_5'UTR	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	70	SH2.				actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4																		---	---	---	---
PDE2A	5138	broad.mit.edu	37	11	72295250	72295250	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:72295250C>T	uc010rrc.1	-	19	1888	c.1645G>A	c.(1645-1647)GCC>ACC	p.A549T	PDE2A_uc001oso.2_Missense_Mutation_p.A528T|PDE2A_uc010rra.1_Missense_Mutation_p.A542T|PDE2A_uc001osn.2_Missense_Mutation_p.A293T|PDE2A_uc010rrb.1_Missense_Mutation_p.A540T|PDE2A_uc010rrd.1_Missense_Mutation_p.A434T	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	549					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)													---	---	---	---
ARAP1	116985	broad.mit.edu	37	11	72420943	72420943	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:72420943C>T	uc001osu.2	-	11	1684	c.1495G>A	c.(1495-1497)GAC>AAC	p.D499N	ARAP1_uc001osv.2_Missense_Mutation_p.D499N|ARAP1_uc001osr.2_Missense_Mutation_p.D259N|ARAP1_uc001oss.2_Missense_Mutation_p.D254N|ARAP1_uc009yth.2_Missense_Mutation_p.D254N|ARAP1_uc010rre.1_Missense_Mutation_p.D254N	NM_001040118	NP_001035207	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	499	PH 2.				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																		---	---	---	---
P2RY2	5029	broad.mit.edu	37	11	72945327	72945327	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:72945327C>T	uc001otj.2	+	3	456	c.123C>T	c.(121-123)GGC>GGT	p.G41G	P2RY2_uc001otk.2_Silent_p.G41G|P2RY2_uc001otl.2_Silent_p.G41G	NM_002564	NP_002555	P41231	P2RY2_HUMAN	purinergic receptor P2Y2	41	Helical; Name=1; (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(2)|lung(1)|skin(1)	4					Suramin(DB04786)													---	---	---	---
ARHGEF17	9828	broad.mit.edu	37	11	73070963	73070963	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:73070963G>A	uc001otu.2	+	10	4193	c.4172G>A	c.(4171-4173)AGC>AAC	p.S1391N		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1391					actin cytoskeleton organization|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	Rho guanyl-nucleotide exchange factor activity				0																		---	---	---	---
RAB6A	5870	broad.mit.edu	37	11	73429910	73429910	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:73429910G>A	uc001oue.2	-	4	730	c.209C>T	c.(208-210)GCG>GTG	p.A70V	RAB6A_uc001ouf.2_Intron|RAB6A_uc009yts.2_Intron	NM_002869	NP_002860	P20340	RAB6A_HUMAN	RAB6A, member RAS oncogene family isoform a	70	GTP.				minus-end-directed organelle transport along microtubule|peptidyl-cysteine methylation|protein targeting to Golgi|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic vesicle|cytosol|Golgi membrane|trans-Golgi network	GTP binding|GTPase activity|protein domain specific binding				0																		---	---	---	---
XRRA1	143570	broad.mit.edu	37	11	74563096	74563096	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:74563096G>A	uc009yub.2	-	13	1510	c.1178C>T	c.(1177-1179)GCT>GTT	p.A393V	XRRA1_uc001ovm.2_RNA|XRRA1_uc001ovn.2_Missense_Mutation_p.A16V|XRRA1_uc001ovo.2_Missense_Mutation_p.A16V|XRRA1_uc001ovq.3_Intron|XRRA1_uc001ovp.3_Missense_Mutation_p.A118V|XRRA1_uc001ovr.2_Missense_Mutation_p.A16V|XRRA1_uc001ovs.1_Intron	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	393					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1																		---	---	---	---
UVRAG	7405	broad.mit.edu	37	11	75851844	75851844	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:75851844T>A	uc001oxc.2	+	15	1728	c.1487T>A	c.(1486-1488)ATC>AAC	p.I496N	UVRAG_uc010rrw.1_Missense_Mutation_p.I395N|UVRAG_uc001oxd.2_Missense_Mutation_p.I124N|UVRAG_uc010rrx.1_Missense_Mutation_p.I124N|UVRAG_uc010rry.1_Missense_Mutation_p.I52N	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	496					DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6																		---	---	---	---
UVRAG	7405	broad.mit.edu	37	11	75851877	75851877	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:75851877C>T	uc001oxc.2	+	15	1761	c.1520C>T	c.(1519-1521)GCC>GTC	p.A507V	UVRAG_uc010rrw.1_Missense_Mutation_p.A406V|UVRAG_uc001oxd.2_Missense_Mutation_p.A135V|UVRAG_uc010rrx.1_Missense_Mutation_p.A135V|UVRAG_uc010rry.1_Missense_Mutation_p.A63V	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	507					DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6																		---	---	---	---
TSKU	25987	broad.mit.edu	37	11	76507476	76507476	+	Silent	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:76507476T>G	uc001oxt.2	+	2	988	c.816T>G	c.(814-816)GCT>GCG	p.A272A		NM_015516	NP_056331	Q8WUA8	TSK_HUMAN	tsukushin precursor	272	LRR 9.					extracellular region					0	Ovarian(111;0.112)																	---	---	---	---
INTS4	92105	broad.mit.edu	37	11	77666981	77666981	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:77666981A>G	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)															---	---	---	---
NDUFC2	4718	broad.mit.edu	37	11	77784094	77784094	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:77784094C>T	uc009yuw.2	-	2	735	c.260G>A	c.(259-261)CGT>CAT	p.R87H		NM_004549	NP_004540	O95298	NDUC2_HUMAN	NADH dehydrogenase (ubiquinone) 1, subcomplex	87					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0	all_cancers(14;2.23e-19)|all_epithelial(13;7.49e-22)|Breast(9;6.38e-17)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;2.15e-25)		Carvedilol(DB01136)|NADH(DB00157)													---	---	---	---
PCF11	51585	broad.mit.edu	37	11	82868586	82868586	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:82868586G>A	uc001ozx.3	+	1	450	c.105G>A	c.(103-105)CCG>CCA	p.P35P	PCF11_uc010rsu.1_Silent_p.P35P|PCF11_uc001ozy.2_Silent_p.P35P	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	35	CID.				mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1																		---	---	---	---
C11orf73	51501	broad.mit.edu	37	11	86048431	86048431	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:86048431C>T	uc001pbu.2	+	3	517	c.279C>T	c.(277-279)AGC>AGT	p.S93S	C11orf73_uc001pbt.2_Silent_p.S93S|C11orf73_uc010rto.1_RNA|C11orf73_uc010rtp.1_5'UTR|C11orf73_uc001pbv.2_RNA	NM_016401	NP_057485	Q53FT3	CK073_HUMAN	lethal, Chr 7, Rinchik 6	93						cytoplasm					0		Acute lymphoblastic leukemia(157;1.17e-07)|all_hematologic(158;0.000556)																---	---	---	---
ME3	10873	broad.mit.edu	37	11	86267716	86267716	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:86267716G>A	uc001pbz.2	-	3	600	c.346C>T	c.(346-348)CGG>TGG	p.R116W	ME3_uc001pca.2_Missense_Mutation_p.R116W|ME3_uc009yvk.2_Missense_Mutation_p.R116W|ME3_uc010rtr.1_RNA	NM_001014811	NP_001014811	Q16798	MAON_HUMAN	mitochondrial malic enzyme 3 precursor	116					aerobic respiration|malate metabolic process|oxygen metabolic process|pyruvate metabolic process	mitochondrial matrix	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|metal ion binding|NAD binding			ovary(1)	1		Acute lymphoblastic leukemia(157;4.34e-06)|all_hematologic(158;0.00252)			NADH(DB00157)													---	---	---	---
GRM5	2915	broad.mit.edu	37	11	88300351	88300351	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:88300351G>A	uc001pcq.2	-	7	2700	c.2500C>T	c.(2500-2502)CGC>TGC	p.R834C	GRM5_uc009yvm.2_Missense_Mutation_p.R834C	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	834	Cytoplasmic (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)													---	---	---	---
CHORDC1	26973	broad.mit.edu	37	11	89938663	89938663	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:89938663T>C	uc001pdg.2	-	8	1044	c.634A>G	c.(634-636)ACA>GCA	p.T212A	CHORDC1_uc009yvz.2_Missense_Mutation_p.T193A	NM_012124	NP_036256	Q9UHD1	CHRD1_HUMAN	cysteine and histidine-rich domain-containing	212	Interaction with HSP90AA1 and HSP90AB1 (By similarity).|CHORD 2.				chaperone-mediated protein folding|regulation of response to stress|response to stress		Hsp90 protein binding|identical protein binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.00915)																---	---	---	---
FAT3	120114	broad.mit.edu	37	11	92507336	92507336	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92507336C>T	uc001pdj.3	+	6	4342	c.4325C>T	c.(4324-4326)GCT>GTT	p.A1442V		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1442	Cadherin 13.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)													TCGA Ovarian(4;0.039)			---	---	---	---
MTNR1B	4544	broad.mit.edu	37	11	92715429	92715429	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92715429G>A	uc001pdk.1	+	2	1143	c.1040G>A	c.(1039-1041)AGC>AAC	p.S347N		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	347	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)													---	---	---	---
TAF1D	79101	broad.mit.edu	37	11	93471417	93471417	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:93471417C>A	uc001ped.2	-	3	519	c.317G>T	c.(316-318)CGG>CTG	p.R106L	SNORA8_uc001pec.2_5'Flank|TAF1D_uc001pdz.2_RNA|TAF1D_uc001pea.1_RNA	NM_024116	NP_077021	Q9H5J8	TAF1D_HUMAN	TATA box binding protein (TBP)-associated	106					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding				0																		---	---	---	---
HEPHL1	341208	broad.mit.edu	37	11	93796832	93796832	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:93796832G>A	uc001pep.2	+	3	731	c.574G>A	c.(574-576)GCC>ACC	p.A192T		NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	192	Plastocyanin-like 1.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)																---	---	---	---
HEPHL1	341208	broad.mit.edu	37	11	93826690	93826690	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:93826690G>A	uc001pep.2	+	13	2475	c.2318G>A	c.(2317-2319)CGC>CAC	p.R773H	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	773	Plastocyanin-like 5.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)																---	---	---	---
PIWIL4	143689	broad.mit.edu	37	11	94326774	94326774	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:94326774G>A	uc001pfa.2	+	9	1328	c.1117G>A	c.(1117-1119)GCC>ACC	p.A373T	PIWIL4_uc010rue.1_RNA|PIWIL4_uc009ywk.1_RNA	NM_152431	NP_689644	Q7Z3Z4	PIWL4_HUMAN	piwi-like 4	373	PAZ.				cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|meiosis|multicellular organismal development|piRNA metabolic process|regulation of translation|spermatogenesis	nucleus|piP-body	piRNA binding			skin(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)																---	---	---	---
PIWIL4	143689	broad.mit.edu	37	11	94331089	94331089	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:94331089C>T	uc001pfa.2	+						PIWIL4_uc010rue.1_Intron|PIWIL4_uc009ywk.1_Intron	NM_152431	NP_689644			piwi-like 4						cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|meiosis|multicellular organismal development|piRNA metabolic process|regulation of translation|spermatogenesis	nucleus|piP-body	piRNA binding			skin(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)																---	---	---	---
AMOTL1	154810	broad.mit.edu	37	11	94599243	94599243	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:94599243G>A	uc001pfb.2	+	11	2568	c.2398G>A	c.(2398-2400)GCT>ACT	p.A800T	AMOTL1_uc001pfc.2_Missense_Mutation_p.A750T	NM_130847	NP_570899	Q8IY63	AMOL1_HUMAN	angiomotin like 1	800						cytoplasm|tight junction	identical protein binding			ovary(1)|breast(1)	2		Acute lymphoblastic leukemia(157;2.38e-05)|all_hematologic(158;0.00824)																---	---	---	---
MMP1	4312	broad.mit.edu	37	11	102665947	102665947	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:102665947G>A	uc001phi.2	-	6	1000	c.857C>T	c.(856-858)GCT>GTT	p.A286V	uc001phh.1_RNA|MMP1_uc010ruv.1_Missense_Mutation_p.A220V	NM_002421	NP_002412	P03956	MMP1_HUMAN	matrix metalloproteinase 1 isoform 1	286	Hemopexin-like 1.				blood coagulation|collagen catabolic process|interspecies interaction between organisms|leukocyte migration|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)|lung(1)	4	all_epithelial(12;0.0127)	all_neural(303;0.000318)|all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.072)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.233)	OV - Ovarian serous cystadenocarcinoma(223;1.82e-07)|Epithelial(105;1.51e-06)|BRCA - Breast invasive adenocarcinoma(274;0.014)														---	---	---	---
DYNC2H1	79659	broad.mit.edu	37	11	102987424	102987424	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:102987424G>A	uc001pho.2	+	5	891	c.747G>A	c.(745-747)TTG>TTA	p.L249L	DYNC2H1_uc001phn.1_Silent_p.L249L|DYNC2H1_uc009yxe.1_Silent_p.L249L	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	249	Stem (By similarity).				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)														---	---	---	---
GUCY1A2	2977	broad.mit.edu	37	11	106558464	106558464	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:106558464T>A	uc001pjg.1	-	8	2400	c.2010A>T	c.(2008-2010)GAA>GAT	p.E670D	GUCY1A2_uc010rvo.1_Missense_Mutation_p.E691D|GUCY1A2_uc009yxn.1_Missense_Mutation_p.E701D	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	670					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)														---	---	---	---
LOC643923	643923	broad.mit.edu	37	11	107462667	107462667	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:107462667G>A	uc001pjo.1	+	1	197	c.184G>A	c.(184-186)GCC>ACC	p.A62T	ELMOD1_uc010rvs.1_Intron|ELMOD1_uc001pjm.2_Intron|ELMOD1_uc010rvt.1_Intron	NM_001039772	NP_001034861			SubName: Full=cDNA FLJ25337 fis, clone TST00714; SubName: Full=HCG2032453;												0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00512)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;2.61e-05)|Epithelial(105;0.000155)|all cancers(92;0.00283)														---	---	---	---
CUL5	8065	broad.mit.edu	37	11	107920682	107920682	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:107920682C>A	uc001pjv.2	+	4	967	c.300C>A	c.(298-300)TTC>TTA	p.F100L	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	100					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)														---	---	---	---
ACAT1	38	broad.mit.edu	37	11	108013239	108013239	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108013239C>T	uc001pjy.2	+	9	978	c.902C>T	c.(901-903)GCG>GTG	p.A301V	ACAT1_uc001pjx.2_Missense_Mutation_p.A175V	NM_000019	NP_000010	P24752	THIL_HUMAN	acetyl-Coenzyme A acetyltransferase 1 precursor	301			A -> P (in 3KTD; 5% normal activity).		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)													---	---	---	---
NPAT	4863	broad.mit.edu	37	11	108043647	108043647	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108043647C>T	uc001pjz.3	-	13	2166	c.2064G>A	c.(2062-2064)ACG>ACA	p.T688T	NPAT_uc010rvv.1_5'Flank|NPAT_uc001pka.2_Silent_p.T483T	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	688					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)														---	---	---	---
KDELC2	143888	broad.mit.edu	37	11	108350021	108350021	+	Intron	SNP	C	T	T	rs146498830	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108350021C>T	uc001pkj.2	-						KDELC2_uc001pki.2_Intron	NM_153705	NP_714916			KDEL (Lys-Asp-Glu-Leu) containing 2 precursor							endoplasmic reticulum lumen				ovary(1)	1		all_cancers(61;1.38e-11)|all_epithelial(67;3.16e-07)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;6.93e-06)|BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|all cancers(92;0.00016)|OV - Ovarian serous cystadenocarcinoma(223;0.132)|Colorectal(284;0.14)														---	---	---	---
EXPH5	23086	broad.mit.edu	37	11	108409786	108409786	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108409786C>A	uc001pkk.2	-	3	519	c.408G>T	c.(406-408)AAG>AAT	p.K136N	EXPH5_uc010rvy.1_5'Flank|EXPH5_uc010rvz.1_5'Flank|EXPH5_uc010rwa.1_Missense_Mutation_p.K60N	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	136					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)														---	---	---	---
DDX10	1662	broad.mit.edu	37	11	108577481	108577481	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108577481T>C	uc001pkm.2	+	10	1304	c.1239T>C	c.(1237-1239)GGT>GGC	p.G413G	DDX10_uc001pkl.1_Silent_p.G413G	NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	413	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)				T	NUP98	AML*								---	---	---	---
ZC3H12C	85463	broad.mit.edu	37	11	110035523	110035523	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110035523G>A	uc009yxw.2	+	6	1764	c.1713G>A	c.(1711-1713)ACG>ACA	p.T571T	ZC3H12C_uc010rwc.1_Silent_p.T572T|ZC3H12C_uc010rwd.1_Silent_p.T572T|ZC3H12C_uc001pkr.3_Silent_p.T540T	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	571							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)														---	---	---	---
ZC3H12C	85463	broad.mit.edu	37	11	110035979	110035979	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110035979C>T	uc009yxw.2	+	6	2220	c.2169C>T	c.(2167-2169)GGC>GGT	p.G723G	ZC3H12C_uc010rwc.1_Silent_p.G724G|ZC3H12C_uc010rwd.1_Silent_p.G724G|ZC3H12C_uc001pkr.3_Silent_p.G692G	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	723							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)														---	---	---	---
RDX	5962	broad.mit.edu	37	11	110102620	110102620	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110102620G>A	uc001pku.2	-	14	2036	c.1726C>T	c.(1726-1728)CGT>TGT	p.R576C	RDX_uc009yxx.1_RNA|RDX_uc009yxy.2_Missense_Mutation_p.R576C|RDX_uc009yxz.2_Missense_Mutation_p.R229C|RDX_uc009yya.2_Missense_Mutation_p.R172C|RDX_uc001pks.2_Missense_Mutation_p.R110C|RDX_uc001pkt.2_Missense_Mutation_p.R230C|RDX_uc010rwe.1_Missense_Mutation_p.R440C	NM_002906	NP_002897	P35241	RADI_HUMAN	radixin	576					actin filament capping	cleavage furrow|cytoskeleton|extrinsic to membrane|Golgi apparatus|nucleolus|plasma membrane	actin binding				0		all_cancers(61;7.18e-13)|all_epithelial(67;2.61e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.13e-06)|BRCA - Breast invasive adenocarcinoma(274;9.75e-06)|all cancers(92;5.9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0248)														---	---	---	---
ARHGAP20	57569	broad.mit.edu	37	11	110451712	110451712	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110451712C>T	uc001pkz.1	-	16	2243	c.1958G>A	c.(1957-1959)CGG>CAG	p.R653Q	ARHGAP20_uc001pky.1_Missense_Mutation_p.R630Q|ARHGAP20_uc009yyb.1_Missense_Mutation_p.R617Q|ARHGAP20_uc001pla.1_Missense_Mutation_p.R617Q|ARHGAP20_uc001plb.2_Missense_Mutation_p.R196Q	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	653					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)														---	---	---	---
ARHGAP20	57569	broad.mit.edu	37	11	110477373	110477373	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110477373C>A	uc001pkz.1	-	10	1161	c.876G>T	c.(874-876)GAG>GAT	p.E292D	ARHGAP20_uc001pky.1_Missense_Mutation_p.E269D|ARHGAP20_uc009yyb.1_Missense_Mutation_p.E256D|ARHGAP20_uc001pla.1_Missense_Mutation_p.E256D	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	292	Ras-associating.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)														---	---	---	---
SIK2	23235	broad.mit.edu	37	11	111491132	111491132	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:111491132C>T	uc001plt.2	+							NM_015191	NP_056006			SNF1-like kinase 2						intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3																		---	---	---	---
SIK2	23235	broad.mit.edu	37	11	111582989	111582989	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:111582989C>T	uc001plt.2	+	9	1274	c.1156C>T	c.(1156-1158)CGA>TGA	p.R386*		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	386					intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3																		---	---	---	---
TIMM8B	26521	broad.mit.edu	37	11	111956131	111956131	+	Missense_Mutation	SNP	C	T	T	rs116405897	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:111956131C>T	uc001pmx.2	-	2	152	c.140G>A	c.(139-141)CGC>CAC	p.R47H	TIMM8B_uc001pmy.2_RNA|SDHD_uc001pmz.2_5'Flank	NM_012459	NP_036591	Q9Y5J9	TIM8B_HUMAN	translocase of inner mitochondrial membrane 8	47	Twin CX3C motif.				protein import into mitochondrial inner membrane|sensory perception of sound|transmembrane transport	mitochondrial inner membrane presequence translocase complex|mitochondrial intermembrane space protein transporter complex	protein binding|zinc ion binding				0		all_cancers(61;1.84e-10)|all_epithelial(67;9.33e-06)|Melanoma(852;4.01e-05)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0512)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)		Epithelial(105;6.01e-07)|BRCA - Breast invasive adenocarcinoma(274;6.17e-07)|all cancers(92;1.03e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0512)														---	---	---	---
BCO2	83875	broad.mit.edu	37	11	112050080	112050080	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:112050080G>A	uc001pnf.2	+	2	285	c.168G>A	c.(166-168)CCG>CCA	p.P56P	BCO2_uc001pne.1_Intron|BCO2_uc001png.2_Silent_p.P56P|BCO2_uc001pnh.2_Silent_p.P22P|BCO2_uc010rwt.1_Intron|BCO2_uc009yyn.2_Silent_p.P22P|BCO2_uc001pni.2_Silent_p.P22P	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	56					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																		---	---	---	---
BCO2	83875	broad.mit.edu	37	11	112071486	112071486	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:112071486G>A	uc001pnf.2	+	7	1133	c.1016G>A	c.(1015-1017)CGC>CAC	p.R339H	BCO2_uc001pne.1_Missense_Mutation_p.R166H|BCO2_uc001png.2_Missense_Mutation_p.R266H|BCO2_uc001pnh.2_Missense_Mutation_p.R305H|BCO2_uc010rwt.1_Missense_Mutation_p.R234H|BCO2_uc009yyn.2_Missense_Mutation_p.R305H|BCO2_uc001pni.2_Missense_Mutation_p.R305H	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	339					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																		---	---	---	---
CLDN25	644672	broad.mit.edu	37	11	113651128	113651128	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:113651128T>C	uc009yyw.1	+	1	611	c.611T>C	c.(610-612)GTC>GCC	p.V204A		NM_001101389	NP_001094859	C9JDP6	CLD25_HUMAN	claudin 25	204	Cytoplasmic (Potential).					integral to membrane|tight junction	structural molecule activity				0																		---	---	---	---
NNMT	4837	broad.mit.edu	37	11	114182863	114182863	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:114182863C>T	uc001por.1	+	5	723	c.459C>T	c.(457-459)CCC>CCT	p.P153P	NNMT_uc001pos.1_Silent_p.P153P	NM_006169	NP_006160	P40261	NNMT_HUMAN	nicotinamide N-methyltransferase	153					xenobiotic metabolic process	cytosol	nicotinamide N-methyltransferase activity|pyridine N-methyltransferase activity			ovary(1)	1		all_cancers(61;4.83e-16)|all_epithelial(67;7.28e-09)|all_hematologic(158;0.000135)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.79e-06)|Epithelial(105;1.32e-05)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.128)	Niacin(DB00627)													---	---	---	---
RBM7	10179	broad.mit.edu	37	11	114278293	114278293	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:114278293T>C	uc001pov.2	+	5	575	c.565T>C	c.(565-567)TGG>CGG	p.W189R	RBM7_uc001pow.2_Missense_Mutation_p.W190R|RBM7_uc001pox.2_Missense_Mutation_p.W69R	NM_016090	NP_057174	Q9Y580	RBM7_HUMAN	RNA binding motif protein 7	189					meiosis		nucleotide binding|protein binding|RNA binding			ovary(2)	2		all_cancers(61;5.06e-12)|all_epithelial(67;5.3e-06)|all_hematologic(158;7.68e-05)|Acute lymphoblastic leukemia(157;0.000966)|Melanoma(852;0.00153)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.0818)|Prostate(24;0.104)		BRCA - Breast invasive adenocarcinoma(274;2.56e-06)|Epithelial(105;4.17e-05)|all cancers(92;0.000348)														---	---	---	---
APOA5	116519	broad.mit.edu	37	11	116661211	116661211	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:116661211C>T	uc001ppr.2	-	3	742	c.734G>A	c.(733-735)CGC>CAC	p.R245H	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Missense_Mutation_p.R245H|APOA5_uc009yzf.2_Missense_Mutation_p.R245H|APOA5_uc009yzg.2_Missense_Mutation_p.R271H	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	245	Potential.				acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)														---	---	---	---
SIDT2	51092	broad.mit.edu	37	11	117062650	117062650	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117062650C>T	uc001pqh.1	+	19	1833	c.1792C>T	c.(1792-1794)CGG>TGG	p.R598W	SIDT2_uc010rxe.1_Missense_Mutation_p.R598W|SIDT2_uc001pqg.2_Missense_Mutation_p.R619W|SIDT2_uc001pqi.1_Missense_Mutation_p.R595W|SIDT2_uc001pqj.1_5'Flank	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	598	Extracellular (Potential).					integral to membrane|lysosomal membrane					0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)														---	---	---	---
CEP164	22897	broad.mit.edu	37	11	117253605	117253605	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117253605G>T	uc001prc.2	+	14	1818	c.1671G>T	c.(1669-1671)GAG>GAT	p.E557D	CEP164_uc001prb.2_Missense_Mutation_p.E560D|CEP164_uc010rxk.1_Missense_Mutation_p.E531D|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_5'Flank	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	557	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)														---	---	---	---
DSCAML1	57453	broad.mit.edu	37	11	117308798	117308798	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117308798G>A	uc001prh.1	-	25	4427	c.4425C>T	c.(4423-4425)GGC>GGT	p.G1475G		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1415	Fibronectin type-III 5.|Extracellular (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)														---	---	---	---
DSCAML1	57453	broad.mit.edu	37	11	117332302	117332302	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117332302C>A	uc001prh.1	-	18	3458	c.3456G>T	c.(3454-3456)CAG>CAT	p.Q1152H		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1092	Fibronectin type-III 3.|Extracellular (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)														---	---	---	---
TMPRSS13	84000	broad.mit.edu	37	11	117787928	117787928	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117787928G>A	uc001prs.1	-	3	606	c.513C>T	c.(511-513)TGC>TGT	p.C171C	TMPRSS13_uc009yzr.1_Intron|TMPRSS13_uc001prt.1_5'UTR|TMPRSS13_uc001pru.1_Silent_p.C171C	NM_001077263	NP_001070731	Q9BYE2	TMPSD_HUMAN	transmembrane protease, serine 13	166	Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			pancreas(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.00106)														---	---	---	---
MLL	4297	broad.mit.edu	37	11	118369241	118369241	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118369241G>A	uc001pta.2	+	22	5973	c.5950G>A	c.(5950-5952)GAA>AAA	p.E1984K	MLL_uc001ptb.2_Missense_Mutation_p.E1987K	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1984					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								---	---	---	---
MLL	4297	broad.mit.edu	37	11	118373253	118373253	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118373253A>G	uc001pta.2	+	27	6660	c.6637A>G	c.(6637-6639)ATG>GTG	p.M2213V	MLL_uc001ptb.2_Missense_Mutation_p.M2216V	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	2213					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								---	---	---	---
PHLDB1	23187	broad.mit.edu	37	11	118501928	118501928	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118501928G>A	uc001ptr.1	+	8	2185	c.1832G>A	c.(1831-1833)CGC>CAC	p.R611H	PHLDB1_uc001pts.2_Missense_Mutation_p.R611H|PHLDB1_uc001ptt.2_Missense_Mutation_p.R611H|PHLDB1_uc001ptu.1_Intron|PHLDB1_uc001ptv.1_Missense_Mutation_p.R411H|PHLDB1_uc001ptw.1_Missense_Mutation_p.R13H|PHLDB1_uc009zai.1_5'Flank|PHLDB1_uc001ptx.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	611											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)														---	---	---	---
PHLDB1	23187	broad.mit.edu	37	11	118512986	118512986	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118512986G>A	uc001ptr.1	+	14	3104	c.2751G>A	c.(2749-2751)CTG>CTA	p.L917L	PHLDB1_uc001pts.2_Silent_p.L917L|PHLDB1_uc001ptt.2_Intron|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Silent_p.L717L|PHLDB1_uc001ptw.1_Intron|PHLDB1_uc009zai.1_Intron|PHLDB1_uc001ptx.1_Intron|PHLDB1_uc010ryi.1_Silent_p.L60L|PHLDB1_uc010ryj.1_Silent_p.L55L	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	917											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)														---	---	---	---
HYOU1	10525	broad.mit.edu	37	11	118921765	118921765	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118921765G>A	uc001puu.2	-	14	1840	c.1647C>T	c.(1645-1647)GGC>GGT	p.G549G	HYOU1_uc001put.2_Silent_p.G514G|HYOU1_uc010ryu.1_Silent_p.G569G|HYOU1_uc010ryv.1_Silent_p.G438G|HYOU1_uc001pux.3_Silent_p.G549G|HYOU1_uc010ryw.1_RNA|HYOU1_uc001puw.1_Silent_p.G549G	NM_006389	NP_006380	Q9Y4L1	HYOU1_HUMAN	hypoxia up-regulated 1 precursor	549						endoplasmic reticulum lumen	ATP binding|protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.78e-05)														---	---	---	---
VPS11	55823	broad.mit.edu	37	11	118949009	118949009	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118949009C>T	uc010ryx.1	+	12	1930	c.1888C>T	c.(1888-1890)CGA>TGA	p.R630*	VPS11_uc010ryy.1_Nonsense_Mutation_p.R476*	NM_021729	NP_068375	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11	630					protein transport	endocytic vesicle|HOPS complex|late endosome membrane|lysosomal membrane	nucleotide binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.88e-05)														---	---	---	---
MFRP	83552	broad.mit.edu	37	11	119213674	119213674	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119213674C>T	uc001pwj.2	-	10	1324	c.1164G>A	c.(1162-1164)TCG>TCA	p.S388S	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Missense_Mutation_p.R313H	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)														---	---	---	---
ARHGEF12	23365	broad.mit.edu	37	11	120317151	120317151	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120317151G>A	uc001pxl.1	+	17	1392	c.1385G>A	c.(1384-1386)CGC>CAC	p.R462H	ARHGEF12_uc009zat.2_Missense_Mutation_p.R443H|ARHGEF12_uc010rzn.1_Missense_Mutation_p.R359H|ARHGEF12_uc009zau.1_Missense_Mutation_p.R359H	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	462	RGSL.				apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)				T	MLL	AML								---	---	---	---
UBASH3B	84959	broad.mit.edu	37	11	122650347	122650347	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:122650347C>T	uc001pyi.3	+	4	905	c.545C>T	c.(544-546)GCG>GTG	p.A182V		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,	182						cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)														---	---	---	---
ASAM	79827	broad.mit.edu	37	11	122955287	122955287	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:122955287G>A	uc001pyt.2	-	3	680	c.321C>T	c.(319-321)GGC>GGT	p.G107G		NM_024769	NP_079045	Q9H6B4	CLMP_HUMAN	adipocyte-specific adhesion molecule precursor	107	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane|tight junction					0		Breast(109;0.0025)|Lung NSC(97;0.0179)|all_lung(97;0.0182)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.73e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0446)														---	---	---	---
GRAMD1B	57476	broad.mit.edu	37	11	123479434	123479434	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123479434C>T	uc001pyx.2	+	11	1481	c.1152C>T	c.(1150-1152)AGC>AGT	p.S384S	GRAMD1B_uc001pyw.2_Silent_p.S391S|GRAMD1B_uc010rzw.1_Silent_p.S344S|GRAMD1B_uc010rzx.1_Silent_p.S344S|GRAMD1B_uc009zbe.1_Silent_p.S380S|GRAMD1B_uc001pyy.2_Silent_p.S75S	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	384						integral to membrane				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;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)														---	---	---	---
SCN3B	55800	broad.mit.edu	37	11	123513331	123513331	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123513331C>A	uc001pza.1	-	4	675	c.268G>T	c.(268-270)GGG>TGG	p.G90W	SCN3B_uc001pzb.1_Missense_Mutation_p.G90W	NM_001040151	NP_001035241	Q9NY72	SCN3B_HUMAN	voltage-gated sodium channel beta-3 subunit	90	Ig-like C2-type.|Extracellular (Potential).				axon guidance	integral to membrane|plasma membrane	voltage-gated sodium channel activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6		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;5.37e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0227)														---	---	---	---
ZNF202	7753	broad.mit.edu	37	11	123596942	123596942	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123596942G>A	uc001pzd.1	-	9	2110	c.1710C>T	c.(1708-1710)TGC>TGT	p.C570C	ZNF202_uc001pzc.1_Silent_p.C346C|ZNF202_uc001pze.1_Silent_p.C570C|ZNF202_uc001pzf.1_Silent_p.C570C	NM_003455	NP_003446	O95125	ZN202_HUMAN	zinc finger protein 202	570	C2H2-type 6.				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)														---	---	---	---
OR6M1	390261	broad.mit.edu	37	11	123676505	123676505	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123676505C>T	uc010rzz.1	-	1	553	c.553G>A	c.(553-555)GCC>ACC	p.A185T		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)														---	---	---	---
OR10G8	219869	broad.mit.edu	37	11	123900389	123900389	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123900389G>A	uc001pzp.1	+	1	60	c.60G>A	c.(58-60)GCG>GCA	p.A20A		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)														---	---	---	---
OR10G8	219869	broad.mit.edu	37	11	123900887	123900887	+	Silent	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123900887G>C	uc001pzp.1	+	1	558	c.558G>C	c.(556-558)CTG>CTC	p.L186L		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	186	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)														---	---	---	---
OR8B3	390271	broad.mit.edu	37	11	124266483	124266483	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124266483C>T	uc010saj.1	-	1	765	c.765G>A	c.(763-765)GCG>GCA	p.A255A	OR8B2_uc001qab.3_Intron	NM_001005467	NP_001005467	Q8NGG8	OR8B3_HUMAN	olfactory receptor, family 8, subfamily B,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		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)														---	---	---	---
OR8B8	26493	broad.mit.edu	37	11	124310510	124310510	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124310510C>T	uc010sal.1	-	1	472	c.472G>A	c.(472-474)GCC>ACC	p.A158T		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		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)														---	---	---	---
ESAM	90952	broad.mit.edu	37	11	124623849	124623849	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124623849G>A	uc001qav.3	-	7	1039	c.866C>T	c.(865-867)GCC>GTC	p.A289V	VSIG2_uc001qas.2_5'Flank|VSIG2_uc001qat.2_5'Flank|ESAM_uc010sao.1_Intron|ESAM_uc001qau.3_Missense_Mutation_p.A216V|ESAM_uc001qaw.3_RNA|ESAM_uc001qax.3_RNA|ESAM_uc009zbi.2_Missense_Mutation_p.P288S	NM_138961	NP_620411	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule precursor	289	Cytoplasmic (Potential).				blood coagulation|leukocyte migration	adherens junction|integral to membrane|tight junction					0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)														---	---	---	---
ESAM	90952	broad.mit.edu	37	11	124624540	124624540	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124624540T>C	uc001qav.3	-	5	900	c.727A>G	c.(727-729)ACA>GCA	p.T243A	VSIG2_uc001qas.2_5'Flank|VSIG2_uc001qat.2_5'Flank|ESAM_uc010sao.1_Missense_Mutation_p.T64A|ESAM_uc001qau.3_Missense_Mutation_p.T170A|ESAM_uc001qaw.3_RNA|ESAM_uc001qax.3_RNA|ESAM_uc009zbi.2_Missense_Mutation_p.T243A	NM_138961	NP_620411	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule precursor	243	Extracellular (Potential).				blood coagulation|leukocyte migration	adherens junction|integral to membrane|tight junction					0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)														---	---	---	---
ROBO3	64221	broad.mit.edu	37	11	124735609	124735609	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124735609C>T	uc001qbc.2	+	1	328	c.136C>T	c.(136-138)CCT>TCT	p.P46S		NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	46	Extracellular (Potential).				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)												OREG0021466	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
ROBO3	64221	broad.mit.edu	37	11	124749437	124749437	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124749437G>T	uc001qbc.2	+	25	3954	c.3762G>T	c.(3760-3762)AAG>AAT	p.K1254N	ROBO3_uc001qbd.2_Missense_Mutation_p.K179N|ROBO3_uc010sar.1_Missense_Mutation_p.K303N|ROBO3_uc001qbe.2_Missense_Mutation_p.K179N|ROBO3_uc001qbf.1_Missense_Mutation_p.K138N	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	1254	Cytoplasmic (Potential).				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)														---	---	---	---
SLC37A2	219855	broad.mit.edu	37	11	124955002	124955002	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124955002C>T	uc001qbn.2	+	14	1466	c.1215C>T	c.(1213-1215)TAC>TAT	p.Y405Y	SLC37A2_uc010sau.1_Silent_p.Y405Y|SLC37A2_uc010sav.1_Silent_p.Y30Y|SLC37A2_uc001qbp.2_Silent_p.Y30Y	NM_001145290	NP_001138762	Q8TED4	SPX2_HUMAN	solute carrier family 37 (glycerol-3-phosphate	405	Helical; (Potential).				carbohydrate transport|transmembrane transport	integral to membrane				ovary(2)	2	all_hematologic(175;0.215)	Breast(109;0.012)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.152)|all_lung(97;0.159)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0384)														---	---	---	---
PKNOX2	63876	broad.mit.edu	37	11	125267792	125267792	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:125267792T>C	uc001qbu.2	+	7	736	c.422T>C	c.(421-423)CTG>CCG	p.L141P	PKNOX2_uc010saz.1_Missense_Mutation_p.L112P|PKNOX2_uc010sba.1_Missense_Mutation_p.L112P|PKNOX2_uc010sbb.1_Missense_Mutation_p.L77P	NM_022062	NP_071345	Q96KN3	PKNX2_HUMAN	PBX/knotted 1 homeobox 2	141						nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(109;0.00234)|all_lung(97;0.0191)|Lung NSC(97;0.0196)|Medulloblastoma(222;0.0447)|all_neural(223;0.116)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.117)														---	---	---	---
CDON	50937	broad.mit.edu	37	11	125853941	125853941	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:125853941T>C	uc009zbw.2	-	16	2949	c.2821A>G	c.(2821-2823)ACC>GCC	p.T941A	CDON_uc001qdb.3_Missense_Mutation_p.T318A|CDON_uc001qdc.3_Missense_Mutation_p.T941A	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	941	Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)														---	---	---	---
FOXRED1	55572	broad.mit.edu	37	11	126144908	126144908	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:126144908C>T	uc001qdi.2	+	5	670	c.623C>T	c.(622-624)GCG>GTG	p.A208V	FOXRED1_uc010sbn.1_Missense_Mutation_p.A38V|FOXRED1_uc010sbo.1_Intron|FOXRED1_uc010sbp.1_Missense_Mutation_p.A21V|FOXRED1_uc010sbq.1_Missense_Mutation_p.A75V|FOXRED1_uc001qdj.2_Intron|FOXRED1_uc010sbr.1_Missense_Mutation_p.A194V|FOXRED1_uc001qdk.2_Intron	NM_017547	NP_060017	Q96CU9	FXRD1_HUMAN	FAD-dependent oxidoreductase domain containing	208						integral to membrane|mitochondrion	oxidoreductase activity|protein binding				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0729)														---	---	---	---
ST3GAL4	6484	broad.mit.edu	37	11	126283479	126283479	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:126283479C>A	uc001qds.2	+	10	1070	c.851C>A	c.(850-852)CCA>CAA	p.P284Q	ST3GAL4_uc001qdt.2_Missense_Mutation_p.P280Q|ST3GAL4_uc009zcc.2_Missense_Mutation_p.P120Q|ST3GAL4_uc009zcd.2_Missense_Mutation_p.P273Q|ST3GAL4_uc001qdu.2_Missense_Mutation_p.P280Q|ST3GAL4_uc001qdv.2_Missense_Mutation_p.P284Q|ST3GAL4_uc009zce.2_Missense_Mutation_p.P280Q|ST3GAL4_uc001qdw.2_Missense_Mutation_p.P273Q|ST3GAL4_uc001qdx.1_Intron|ST3GAL4_uc001qdy.2_Missense_Mutation_p.P120Q|ST3GAL4_uc001qdz.2_Missense_Mutation_p.P120Q	NM_006278	NP_006269	Q11206	SIA4C_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	284	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.138)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0767)														---	---	---	---
ETS1	2113	broad.mit.edu	37	11	128350146	128350146	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128350146G>A	uc010sbs.1	-	6	1247	c.931C>T	c.(931-933)CGT>TGT	p.R311C	ETS1_uc001qej.2_Missense_Mutation_p.R355C|ETS1_uc009zch.2_Missense_Mutation_p.R95C|ETS1_uc009zcg.2_Intron	NM_005238	NP_005229	P14921	ETS1_HUMAN	v-ets erythroblastosis virus E26 oncogene	311					cell motility|immune response|induction of apoptosis|negative regulation of cell cycle|negative regulation of cell cycle|negative regulation of cell proliferation|PML body organization|positive regulation of cellular component movement|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|response to antibiotic|transcription from RNA polymerase II promoter	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			lung(4)|central_nervous_system(1)|pleura(1)	6	all_hematologic(175;0.0537)	Lung NSC(97;0.000542)|all_lung(97;0.000665)|Breast(109;0.00765)|all_neural(223;0.0351)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.47e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0174)|LUSC - Lung squamous cell carcinoma(976;0.0815)|Lung(307;0.0833)														---	---	---	---
C11orf45	219833	broad.mit.edu	37	11	128773396	128773396	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128773396G>T	uc001qeu.2	-	3	341	c.147C>A	c.(145-147)GCC>GCA	p.A49A	KCNJ5_uc001qet.2_Intron|KCNJ5_uc009zck.2_Intron|C11orf45_uc009zcl.2_Silent_p.A49A|C11orf45_uc001qev.2_Silent_p.A49A	NM_145013	NP_659450	Q8TAV5	CK045_HUMAN	hypothetical protein LOC219833 precursor	49						extracellular region					0	all_hematologic(175;0.0641)	Lung NSC(97;0.00521)|Breast(109;0.00715)|all_lung(97;0.0111)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.00531)|LUSC - Lung squamous cell carcinoma(976;0.0193)|Lung(977;0.0195)														---	---	---	---
ARHGAP32	9743	broad.mit.edu	37	11	128993351	128993351	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128993351C>T	uc009zcp.2	-	4	392	c.392G>A	c.(391-393)GGC>GAC	p.G131D	ARHGAP32_uc009zcq.1_Missense_Mutation_p.G91D	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	131	PX; atypical.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5																		---	---	---	---
TMEM45B	120224	broad.mit.edu	37	11	129722528	129722528	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:129722528G>A	uc001qfe.1	+	2	212	c.151G>A	c.(151-153)GCA>ACA	p.A51T	TMEM45B_uc001qff.1_Missense_Mutation_p.A51T	NM_138788	NP_620143	Q96B21	TM45B_HUMAN	transmembrane protein 45B	51	Helical; (Potential).					integral to membrane					0	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.012)|Lung(977;0.179)|LUSC - Lung squamous cell carcinoma(976;0.189)														---	---	---	---
NFRKB	4798	broad.mit.edu	37	11	129740016	129740016	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:129740016C>T	uc001qfi.2	-	24	3105	c.2904G>A	c.(2902-2904)ACG>ACA	p.T968T	NFRKB_uc001qfg.2_Silent_p.T993T|NFRKB_uc001qfh.2_Silent_p.T991T|NFRKB_uc010sbw.1_Silent_p.T978T|NFRKB_uc009zcr.2_Silent_p.T254T	NM_001143835	NP_001137307	Q6P4R8	NFRKB_HUMAN	nuclear factor related to kappaB binding protein	968					DNA recombination|DNA repair|inflammatory response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Ino80 complex	DNA binding|protease binding			ovary(3)	3	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0167)|Lung(977;0.171)|LUSC - Lung squamous cell carcinoma(976;0.184)														---	---	---	---
PRDM10	56980	broad.mit.edu	37	11	129817095	129817095	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:129817095C>T	uc001qfm.2	-	5	697	c.465G>A	c.(463-465)ACG>ACA	p.T155T	PRDM10_uc001qfj.2_Silent_p.T69T|PRDM10_uc001qfk.2_Silent_p.T69T|PRDM10_uc001qfl.2_Silent_p.T69T|PRDM10_uc010sbx.1_Silent_p.T69T|PRDM10_uc001qfn.2_Silent_p.T155T|PRDM10_uc009zct.1_Silent_p.T187T	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	155					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)														---	---	---	---
ZBTB44	29068	broad.mit.edu	37	11	130108387	130108387	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:130108387G>A	uc001qga.2	-	4	1613	c.1219C>T	c.(1219-1221)CGA>TGA	p.R407*	ZBTB44_uc001qgb.3_Nonsense_Mutation_p.R407*|ZBTB44_uc001qfx.2_RNA|ZBTB44_uc001qfz.2_Nonsense_Mutation_p.R407*	NM_014155	NP_054874	Q8NCP5	ZBT44_HUMAN	zinc finger and BTB domain containing 44	407	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0192)|Lung(977;0.235)														---	---	---	---
ADAMTS15	170689	broad.mit.edu	37	11	130341117	130341117	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:130341117G>A	uc010scd.1	+	7	1917	c.1917G>A	c.(1915-1917)ACG>ACA	p.T639T		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	639	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)														---	---	---	---
IGSF9B	22997	broad.mit.edu	37	11	133791085	133791085	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:133791085C>T	uc001qgx.3	-	18	2766	c.2535G>A	c.(2533-2535)ACG>ACA	p.T845T		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	845	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)														---	---	---	---
IGSF9B	22997	broad.mit.edu	37	11	133794728	133794728	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:133794728G>A	uc001qgx.3	-	15	2337	c.2106C>T	c.(2104-2106)GGC>GGT	p.G702G	IGSF9B_uc001qgy.1_Silent_p.G544G	NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	702	Fibronectin type-III 2.|Extracellular (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)														---	---	---	---
NCAPD3	23310	broad.mit.edu	37	11	134073538	134073538	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134073538G>A	uc001qhd.1	-						NCAPD3_uc010scm.1_Intron|NCAPD3_uc009zda.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)														---	---	---	---
GLB1L2	89944	broad.mit.edu	37	11	134240273	134240273	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134240273G>A	uc001qhp.2	+	12	1383	c.1195G>A	c.(1195-1197)GCC>ACC	p.A399T	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	399					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)														---	---	---	---
GLB1L2	89944	broad.mit.edu	37	11	134244527	134244527	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134244527G>A	uc001qhp.2	+	18	1927	c.1739G>A	c.(1738-1740)GGC>GAC	p.G580D	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	580					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)														---	---	---	---
GLB1L2	89944	broad.mit.edu	37	11	134244570	134244570	+	Silent	SNP	G	A	A	rs145307661		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134244570G>A	uc001qhp.2	+	18	1970	c.1782G>A	c.(1780-1782)ACG>ACA	p.T594T	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	594					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)														---	---	---	---
IQSEC3	440073	broad.mit.edu	37	12	266244	266244	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:266244G>A	uc001qhw.1	+	3	1304	c.1298G>A	c.(1297-1299)CGC>CAC	p.R433H	IQSEC3_uc001qhu.1_Missense_Mutation_p.R433H	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	736	SEC7.				regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)														---	---	---	---
KDM5A	5927	broad.mit.edu	37	12	416652	416652	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:416652G>A	uc001qif.1	-	23	4261	c.3898C>T	c.(3898-3900)CTC>TTC	p.L1300F	KDM5A_uc001qie.1_Missense_Mutation_p.L1300F	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	1300					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3								T 	NUP98	AML								---	---	---	---
B4GALNT3	283358	broad.mit.edu	37	12	654106	654106	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:654106G>A	uc001qii.1	+	5	506	c.506G>A	c.(505-507)CGC>CAC	p.R169H	B4GALNT3_uc001qij.1_Missense_Mutation_p.R71H	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	169	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)															---	---	---	---
B4GALNT3	283358	broad.mit.edu	37	12	657408	657408	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:657408C>T	uc001qii.1	+	9	798	c.798C>T	c.(796-798)AAC>AAT	p.N266N	B4GALNT3_uc001qij.1_Silent_p.N168N	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	266	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)															---	---	---	---
NINJ2	4815	broad.mit.edu	37	12	675296	675296	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:675296C>T	uc001qil.2	-	2	311	c.220G>A	c.(220-222)GCC>ACC	p.A74T	NINJ2_uc010sdr.1_5'UTR|NINJ2_uc010sds.1_Missense_Mutation_p.A74T	NM_016533	NP_057617	Q9NZG7	NINJ2_HUMAN	ninjurin 2	28	Extracellular (Potential).				nervous system development|neuron cell-cell adhesion|tissue regeneration	integral to plasma membrane				ovary(2)	2	all_cancers(10;0.0101)|all_epithelial(11;0.0174)|Ovarian(42;0.0512)|all_lung(10;0.103)|Lung NSC(10;0.185)		OV - Ovarian serous cystadenocarcinoma(31;3.26e-05)|BRCA - Breast invasive adenocarcinoma(9;0.0508)															---	---	---	---
WNK1	65125	broad.mit.edu	37	12	966394	966394	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:966394T>C	uc001qio.3	+	5	1886	c.1379T>C	c.(1378-1380)ATA>ACA	p.I460T	WNK1_uc001qip.3_Missense_Mutation_p.I460T	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	460	Protein kinase.				intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)															---	---	---	---
WNK1	65125	broad.mit.edu	37	12	996473	996473	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:996473G>A	uc001qio.3	+						WNK1_uc001qip.3_Intron|WNK1_uc001qir.3_Intron	NM_018979	NP_061852			WNK lysine deficient protein kinase 1						intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)															---	---	---	---
ERC1	23085	broad.mit.edu	37	12	1137114	1137114	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:1137114C>T	uc001qjb.2	+	2	286	c.45C>T	c.(43-45)AGC>AGT	p.S15S	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Silent_p.S15S|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Silent_p.S15S	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	15					I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)															---	---	---	---
ERC1	23085	broad.mit.edu	37	12	1137664	1137664	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:1137664G>T	uc001qjb.2	+	2	836	c.595G>T	c.(595-597)GCC>TCC	p.A199S	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.A199S|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.A199S	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	199	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)															---	---	---	---
ERC1	23085	broad.mit.edu	37	12	1299205	1299205	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:1299205G>A	uc001qjb.2	+	12	2579	c.2338G>A	c.(2338-2340)GCT>ACT	p.A780T	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.A752T|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.A780T|ERC1_uc010sdv.1_Missense_Mutation_p.A528T|ERC1_uc009zdp.2_Missense_Mutation_p.A420T|ERC1_uc001qje.2_RNA	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	780	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)															---	---	---	---
CACNA2D4	93589	broad.mit.edu	37	12	2024074	2024074	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:2024074G>A	uc001qjp.2	-	2	486	c.255C>T	c.(253-255)GGC>GGT	p.G85G	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Silent_p.G85G	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	85	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)														---	---	---	---
CACNA1C	775	broad.mit.edu	37	12	2788716	2788716	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:2788716C>T	uc009zdu.1	+	44	5655	c.5342C>T	c.(5341-5343)GCG>GTG	p.A1781V	CACNA1C_uc009zdv.1_Missense_Mutation_p.A1730V|CACNA1C_uc001qkb.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkc.2_Missense_Mutation_p.A1752V|CACNA1C_uc001qke.2_Missense_Mutation_p.A1722V|CACNA1C_uc001qkf.2_Missense_Mutation_p.A1741V|CACNA1C_uc001qjz.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkd.2_Missense_Mutation_p.A1752V|CACNA1C_uc001qkg.2_Missense_Mutation_p.A1739V|CACNA1C_uc009zdw.1_Missense_Mutation_p.A1774V|CACNA1C_uc001qkh.2_Missense_Mutation_p.A1741V|CACNA1C_uc001qkl.2_Missense_Mutation_p.A1781V|CACNA1C_uc001qkn.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qko.2_Missense_Mutation_p.A1753V|CACNA1C_uc001qkp.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkr.2_Missense_Mutation_p.A1750V|CACNA1C_uc001qku.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkq.2_Missense_Mutation_p.A1761V|CACNA1C_uc001qks.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkt.2_Missense_Mutation_p.A1752V|CACNA1C_uc001qki.1_Missense_Mutation_p.A1469V|CACNA1C_uc001qkj.1_Missense_Mutation_p.A1469V|CACNA1C_uc001qkk.1_Missense_Mutation_p.A1469V|CACNA1C_uc001qkm.1_Missense_Mutation_p.A1458V|CACNA1C_uc010sea.1_Missense_Mutation_p.A424V|uc001qkx.1_Intron|CACNA1C_uc001qky.1_Missense_Mutation_p.A51V	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1781	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)													---	---	---	---
FKBP4	2288	broad.mit.edu	37	12	2907922	2907922	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:2907922C>T	uc001qkz.2	+	4	642	c.444C>T	c.(442-444)GGC>GGT	p.G148G		NM_002014	NP_002005	Q02790	FKBP4_HUMAN	FK506 binding protein 52	148					negative regulation of microtubule polymerization or depolymerization|negative regulation of neuron projection development|protein folding	axonal growth cone|cytosol|membrane|microtubule|nucleus	FK506 binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity|protein binding, bridging				0			OV - Ovarian serous cystadenocarcinoma(31;0.00105)		Dimethyl sulfoxide(DB01093)													---	---	---	---
GALNT8	26290	broad.mit.edu	37	12	4835984	4835984	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:4835984G>A	uc001qne.1	+	2	590	c.498G>A	c.(496-498)ACG>ACA	p.T166T		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	166	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
KCNA6	3742	broad.mit.edu	37	12	4919925	4919925	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:4919925C>T	uc001qng.2	+	1	1584	c.718C>T	c.(718-720)CCT>TCT	p.P240S		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	240						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3															HNSCC(72;0.22)			---	---	---	---
KCNA6	3742	broad.mit.edu	37	12	4920535	4920535	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:4920535C>T	uc001qng.2	+	1	2194	c.1328C>T	c.(1327-1329)GCC>GTC	p.A443V		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	443	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3															HNSCC(72;0.22)			---	---	---	---
KCNA5	3741	broad.mit.edu	37	12	5154014	5154014	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:5154014G>A	uc001qni.2	+	1	930	c.701G>A	c.(700-702)CGC>CAC	p.R234H		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	234						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4																		---	---	---	---
VWF	7450	broad.mit.edu	37	12	6127784	6127784	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6127784C>T	uc001qnn.1	-	28	5050	c.4800G>A	c.(4798-4800)GCG>GCA	p.A1600A	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1600	VWFA 2.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)													---	---	---	---
CHD4	1108	broad.mit.edu	37	12	6711240	6711240	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6711240G>A	uc001qpo.2	-	4	488	c.324C>T	c.(322-324)AGC>AGT	p.S108S	CHD4_uc001qpn.2_Silent_p.S101S|CHD4_uc001qpp.2_Silent_p.S105S	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	108					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																		---	---	---	---
ENO2	2026	broad.mit.edu	37	12	7025874	7025874	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7025874C>T	uc001qru.1	+	4	443	c.221C>T	c.(220-222)GCG>GTG	p.A74V	ENO2_uc009zfi.1_Missense_Mutation_p.A74V|ENO2_uc010sfq.1_Intron|ENO2_uc001qrv.1_Missense_Mutation_p.A74V	NM_001975	NP_001966	P09104	ENOG_HUMAN	enolase 2	74					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex|plasma membrane	magnesium ion binding|phosphopyruvate hydratase activity				0																		---	---	---	---
RBP5	83758	broad.mit.edu	37	12	7280857	7280857	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7280857G>A	uc001qsq.2	-	2	326	c.231C>T	c.(229-231)AGC>AGT	p.S77S	CLSTN3_uc001qsr.2_5'Flank	NM_031491	NP_113679	P82980	RET5_HUMAN	retinol binding protein 5, cellular	77						cytoplasm	retinal binding|retinol binding|transporter activity			ovary(1)	1					Vitamin A(DB00162)													---	---	---	---
CLSTN3	9746	broad.mit.edu	37	12	7288865	7288865	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7288865G>A	uc001qsr.2	+	6	1084	c.806G>A	c.(805-807)CGC>CAC	p.R269H	CLSTN3_uc001qss.2_Missense_Mutation_p.R281H	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	269	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1																		---	---	---	---
CD163L1	283316	broad.mit.edu	37	12	7528533	7528533	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7528533G>A	uc001qsy.2	-	10	2475	c.2449C>T	c.(2449-2451)CGC>TGC	p.R817C	CD163L1_uc010sge.1_Missense_Mutation_p.R827C	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	817	SRCR 8.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11																		---	---	---	---
NANOG	79923	broad.mit.edu	37	12	7945545	7945545	+	Splice_Site	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7945545G>T	uc009zfy.1	+	2	368	c.152_splice	c.e2-1	p.V51_splice		NM_024865	NP_079141			Nanog homeobox						cell proliferation|embryo development|somatic stem cell maintenance	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				Kidney(36;0.0872)														---	---	---	---
AICDA	57379	broad.mit.edu	37	12	8759609	8759609	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8759609C>T	uc001qur.2	-	2	88	c.9_splice	c.e2-1	p.S3_splice	AICDA_uc001qup.1_Splice_Site|AICDA_uc001quq.1_Splice_Site|AICDA_uc009zgd.1_Splice_Site	NM_020661	NP_065712			activation-induced cytidine deaminase						B cell differentiation|DNA demethylation|mRNA processing|negative regulation of methylation-dependent chromatin silencing	cytoplasm	cytidine deaminase activity|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung SC(5;0.184)													Immune_Deficiency_with_Hyper-IgM				---	---	---	---
RIMKLB	57494	broad.mit.edu	37	12	8866509	8866509	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8866509G>A	uc001quu.2	+	2	298	c.47G>A	c.(46-48)CGC>CAC	p.R16H	RIMKLB_uc009zgf.1_RNA|RIMKLB_uc001qux.2_Missense_Mutation_p.R16H|RIMKLB_uc010sgl.1_Missense_Mutation_p.R16H|RIMKLB_uc001quw.2_Missense_Mutation_p.R16H	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	16					protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0																		---	---	---	---
A2ML1	144568	broad.mit.edu	37	12	9000230	9000230	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9000230C>T	uc001quz.3	+	15	1867	c.1769C>T	c.(1768-1770)GCG>GTG	p.A590V	A2ML1_uc001qva.1_Missense_Mutation_p.A170V|A2ML1_uc010sgm.1_Missense_Mutation_p.A90V	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	434						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3																		---	---	---	---
A2M	2	broad.mit.edu	37	12	9229462	9229462	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9229462C>T	uc001qvk.1	-	28	3535	c.3422G>A	c.(3421-3423)GGC>GAC	p.G1141D	A2M_uc001qvj.1_Missense_Mutation_p.G183D|A2M_uc009zgk.1_Missense_Mutation_p.G991D	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1141					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)													---	---	---	---
A2M	2	broad.mit.edu	37	12	9268379	9268379	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9268379C>T	uc001qvk.1	-	1	180	c.67G>A	c.(67-69)GCC>ACC	p.A23T	A2M_uc009zgk.1_5'UTR	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	23					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)													---	---	---	---
CLEC1B	51266	broad.mit.edu	37	12	10147759	10147759	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10147759G>A	uc001qwu.2	-	5	725	c.525C>T	c.(523-525)GGC>GGT	p.G175G	CLEC1B_uc009zhd.2_Silent_p.G142G	NM_016509	NP_057593	Q9P126	CLC1B_HUMAN	C-type lectin domain family 1, member B isoform	175	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	protein binding|sugar binding|transmembrane receptor activity				0																		---	---	---	---
CLEC12B	387837	broad.mit.edu	37	12	10167889	10167889	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10167889T>C	uc001qwz.2	+	4	576	c.448T>C	c.(448-450)TAC>CAC	p.Y150H	CLEC12B_uc001qwx.1_Missense_Mutation_p.Y150H|CLEC12B_uc001qwy.1_Missense_Mutation_p.Y47H|CLEC12B_uc009zhe.2_RNA	NM_001129998	NP_001123470	Q2HXU8	CL12B_HUMAN	C-type lectin domain family 12, member B isoform	150	Extracellular (Potential).|C-type lectin.					integral to membrane|plasma membrane	receptor activity|sugar binding				0																		---	---	---	---
CLEC9A	283420	broad.mit.edu	37	12	10206943	10206943	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10206943C>T	uc001qxa.2	+	5	778	c.165C>T	c.(163-165)GGC>GGT	p.G55G		NM_207345	NP_997228	Q6UXN8	CLC9A_HUMAN	C-type lectin domain family 9, member A	55	Helical; Signal-anchor for type II membrane protein; (Potential).				positive regulation of cytokine secretion|receptor-mediated endocytosis	cell surface|integral to membrane	receptor activity|sugar binding			ovary(1)	1																		---	---	---	---
GABARAPL1	23710	broad.mit.edu	37	12	10370695	10370695	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10370695C>T	uc001qxs.2	+	2	364	c.124C>T	c.(124-126)CCT>TCT	p.P42S	GABARAPL1_uc010shb.1_Missense_Mutation_p.P42S|GABARAPL1_uc001qxt.2_RNA|GABARAPL1_uc001qxu.2_RNA	NM_031412	NP_113600	Q9H0R8	GBRL1_HUMAN	GABA(A) receptor-associated protein like 1	42	Interaction with GABRG2 (By similarity).					autophagic vacuole|endoplasmic reticulum|Golgi apparatus|membrane|microtubule	beta-tubulin binding|GABA receptor binding				0																		---	---	---	---
KLRC3	3823	broad.mit.edu	37	12	10587133	10587133	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10587133T>C	uc001qyh.2	-						KLRC2_uc010she.1_Intron|KLRC2_uc001qyk.2_Intron	NM_002261	NP_002252			killer cell lectin-like receptor subfamily C,						cellular defense response	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|skin(1)	3																		---	---	---	---
CSDA	8531	broad.mit.edu	37	12	10862618	10862618	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10862618C>T	uc001qyt.2	-	6	912	c.669G>A	c.(667-669)CTG>CTA	p.L223L	CSDA_uc001qyu.2_Intron	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	223					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)																	---	---	---	---
CSDA	8531	broad.mit.edu	37	12	10862684	10862684	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10862684G>A	uc001qyt.2	-	6	846	c.603C>T	c.(601-603)AGC>AGT	p.S201S	CSDA_uc001qyu.2_Intron	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	201					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)																	---	---	---	---
TAS2R30	259293	broad.mit.edu	37	12	11286180	11286180	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11286180T>C	uc009zhs.1	-	1	664	c.664A>G	c.(664-666)AAG>GAG	p.K222E	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_001097643	NP_001091112			type 2 taste receptor member 30												0																		---	---	---	---
LRP6	4040	broad.mit.edu	37	12	12334196	12334196	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12334196C>T	uc001rah.3	-	6	1296	c.1154G>A	c.(1153-1155)CGC>CAC	p.R385H	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.R385H	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	385	LDL-receptor class B 6.|Extracellular (Potential).|Beta-propeller 2.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)																---	---	---	---
DUSP16	80824	broad.mit.edu	37	12	12630760	12630760	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12630760C>T	uc001rao.1	-	7	1637	c.1005G>A	c.(1003-1005)ACG>ACA	p.T335T	DUSP16_uc001ram.1_5'Flank|DUSP16_uc001ran.1_Silent_p.T187T	NM_030640	NP_085143	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	335					inactivation of MAPK activity|MAPK export from nucleus|MAPK phosphatase export from nucleus, leptomycin B sensitive	cytoplasmic membrane-bounded vesicle|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)														---	---	---	---
GSG1	83445	broad.mit.edu	37	12	13243486	13243486	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:13243486G>T	uc001rbn.2	-	2	488	c.315C>A	c.(313-315)AGC>AGA	p.S105R	GSG1_uc001rbj.2_Missense_Mutation_p.S92R|GSG1_uc001rbk.2_Missense_Mutation_p.S92R|GSG1_uc001rbl.2_Missense_Mutation_p.S92R|GSG1_uc001rbm.2_Missense_Mutation_p.S92R|GSG1_uc001rbo.2_Missense_Mutation_p.S105R|GSG1_uc001rbp.2_Missense_Mutation_p.S105R|GSG1_uc001rbq.1_Missense_Mutation_p.S105R	NM_001080555	NP_001074024	Q2KHT4	GSG1_HUMAN	germ cell associated 1 isoform 4	92						endoplasmic reticulum membrane|integral to membrane					0		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)														---	---	---	---
GRIN2B	2904	broad.mit.edu	37	12	13717182	13717182	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:13717182G>A	uc001rbt.2	-	13	3169	c.2990C>T	c.(2989-2991)GCC>GTC	p.A997V		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	997	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)													---	---	---	---
ATF7IP	55729	broad.mit.edu	37	12	14599916	14599916	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14599916T>C	uc001rbw.2	+						ATF7IP_uc010shs.1_Intron|ATF7IP_uc001rbu.2_Intron|ATF7IP_uc001rbv.1_Intron|ATF7IP_uc001rbx.2_Intron|ATF7IP_uc010sht.1_Intron|ATF7IP_uc001rby.3_Intron|ATF7IP_uc001rca.2_Intron	NM_018179	NP_060649			activating transcription factor 7 interacting						DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5																		---	---	---	---
C12orf60	144608	broad.mit.edu	37	12	14976105	14976105	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14976105A>G	uc001rcj.3	+	2	440	c.236A>G	c.(235-237)GAC>GGC	p.D79G		NM_175874	NP_787070	Q5U649	CL060_HUMAN	hypothetical protein LOC144608	79										ovary(1)|central_nervous_system(1)	2																		---	---	---	---
C12orf60	144608	broad.mit.edu	37	12	14976279	14976279	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14976279A>G	uc001rcj.3	+	2	614	c.410A>G	c.(409-411)GAA>GGA	p.E137G		NM_175874	NP_787070	Q5U649	CL060_HUMAN	hypothetical protein LOC144608	137										ovary(1)|central_nervous_system(1)	2																		---	---	---	---
EPS8	2059	broad.mit.edu	37	12	15807237	15807237	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15807237T>C	uc009zif.2	-						EPS8_uc001rdb.2_Intron|EPS8_uc009zig.2_Intron|EPS8_uc010shv.1_Intron	NM_004447	NP_004438			epidermal growth factor receptor pathway						cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)														---	---	---	---
EPS8	2059	broad.mit.edu	37	12	15819381	15819381	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15819381C>T	uc009zif.2	-	7	686	c.592G>A	c.(592-594)GCC>ACC	p.A198T	EPS8_uc001rdb.2_Missense_Mutation_p.A198T|EPS8_uc009zig.2_5'UTR	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	198					cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)														---	---	---	---
LMO3	55885	broad.mit.edu	37	12	16704207	16704207	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:16704207C>T	uc001rdk.1	-	4	827	c.387G>A	c.(385-387)ACG>ACA	p.T129T	LMO3_uc001rdj.1_Silent_p.T140T|LMO3_uc010shy.1_Silent_p.T147T|LMO3_uc001rdl.1_Silent_p.T129T|LMO3_uc009zii.1_RNA|LMO3_uc010shz.1_Silent_p.T151T|LMO3_uc001rdm.1_Silent_p.T129T|LMO3_uc001rdo.1_RNA|LMO3_uc001rdp.1_RNA|LMO3_uc001rdn.1_Silent_p.T129T|LMO3_uc009zij.1_RNA|LMO3_uc009zik.1_RNA	NM_018640	NP_061110	Q8TAP4	LMO3_HUMAN	LIM domain only 3	129	LIM zinc-binding 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent		zinc ion binding				0		Hepatocellular(102;0.244)																---	---	---	---
PIK3C2G	5288	broad.mit.edu	37	12	18491429	18491429	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:18491429C>T	uc001rdt.2	+	9	1458	c.1342C>T	c.(1342-1344)CAA>TAA	p.Q448*	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Nonsense_Mutation_p.Q448*|PIK3C2G_uc010sic.1_Nonsense_Mutation_p.Q226*	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	448					cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)																---	---	---	---
PLEKHA5	54477	broad.mit.edu	37	12	19427794	19427794	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:19427794G>A	uc001reb.2	+	10	1258	c.1172G>A	c.(1171-1173)CGC>CAC	p.R391H	PLEKHA5_uc010sie.1_Missense_Mutation_p.R397H|PLEKHA5_uc001rea.2_Missense_Mutation_p.R391H|PLEKHA5_uc009zin.2_Missense_Mutation_p.R149H|PLEKHA5_uc010sif.1_Missense_Mutation_p.R283H|PLEKHA5_uc010sig.1_Missense_Mutation_p.R283H|PLEKHA5_uc010sih.1_Missense_Mutation_p.R283H|PLEKHA5_uc001rec.1_Missense_Mutation_p.R79H	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	391							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	20876195	20876195	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:20876195T>C	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)																	---	---	---	---
IAPP	3375	broad.mit.edu	37	12	21531352	21531352	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21531352C>A	uc001rev.2	+	3	414	c.262C>A	c.(262-264)CCC>ACC	p.P88T	SLCO1A2_uc001res.2_Intron|SLCO1A2_uc010siq.1_Intron	NM_000415	NP_000406	P10997	IAPP_HUMAN	islet amyloid polypeptide precursor	88					apoptosis|cell-cell signaling|endocrine pancreas development|signal transduction	extracellular region|soluble fraction	hormone activity				0					Perindopril(DB00790)													---	---	---	---
PYROXD1	79912	broad.mit.edu	37	12	21614991	21614991	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21614991C>T	uc001rew.2	+	9	1057	c.930C>T	c.(928-930)TGC>TGT	p.C310C	PYROXD1_uc009ziq.2_Silent_p.C51C|PYROXD1_uc009zir.2_Silent_p.C16C	NM_024854	NP_079130	Q8WU10	PYRD1_HUMAN	pyridine nucleotide-disulphide oxidoreductase	310							oxidoreductase activity			ovary(1)	1																		---	---	---	---
RECQL	5965	broad.mit.edu	37	12	21630862	21630862	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21630862C>T	uc001rex.2	-	8	1090	c.742G>A	c.(742-744)GCA>ACA	p.A248T	RECQL_uc001rey.2_Missense_Mutation_p.A248T	NM_032941	NP_116559	P46063	RECQ1_HUMAN	RecQ protein-like	248	Helicase ATP-binding.				DNA recombination|DNA repair|DNA replication	nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|DNA strand annealing activity|protein binding			ovary(1)|lung(1)	2													Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					---	---	---	---
ETNK1	55500	broad.mit.edu	37	12	22797200	22797200	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22797200G>A	uc001rft.2	+						ETNK1_uc009ziz.2_Intron|ETNK1_uc001rfs.2_Missense_Mutation_p.G247S	NM_018638	NP_061108			ethanolamine kinase 1 isoform A						phosphatidylethanolamine biosynthetic process	cytoplasm	ATP binding|ethanolamine kinase activity				0																		---	---	---	---
SOX5	6660	broad.mit.edu	37	12	23687401	23687401	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:23687401C>T	uc001rfw.2	-	15	2146	c.2044G>A	c.(2044-2046)GCC>ACC	p.A682T	SOX5_uc001rfx.2_Missense_Mutation_p.A669T|SOX5_uc001rfy.2_Missense_Mutation_p.A561T|SOX5_uc001rfv.2_Missense_Mutation_p.A296T|SOX5_uc010siv.1_Missense_Mutation_p.A669T	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	682					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6																		---	---	---	---
SOX5	6660	broad.mit.edu	37	12	23689453	23689453	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:23689453C>T	uc001rfw.2	-	14	2024	c.1922G>A	c.(1921-1923)CGC>CAC	p.R641H	SOX5_uc001rfx.2_Missense_Mutation_p.R628H|SOX5_uc001rfy.2_Missense_Mutation_p.R520H|SOX5_uc001rfv.2_Missense_Mutation_p.R255H|SOX5_uc010siv.1_Missense_Mutation_p.R628H|SOX5_uc010siw.1_RNA	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	641					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6																		---	---	---	---
CASC1	55259	broad.mit.edu	37	12	25267782	25267782	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:25267782G>A	uc001rgl.2	-	12	1483	c.1401C>T	c.(1399-1401)GGC>GGT	p.G467G	CASC1_uc001rgk.2_Silent_p.G473G|CASC1_uc001rgm.3_Silent_p.G531G|CASC1_uc001rgj.2_Silent_p.G427G|CASC1_uc010sje.1_Silent_p.G408G|CASC1_uc010sjf.1_Silent_p.G355G|CASC1_uc010sjg.1_3'UTR	NM_001082973	NP_001076442	Q6TDU7	CASC1_HUMAN	cancer susceptibility candidate 1 isoform b	467										ovary(2)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Melanoma(3;0.0301)|Colorectal(261;0.11)		OV - Ovarian serous cystadenocarcinoma(3;7.42e-20)|Epithelial(3;7.58e-16)|all cancers(3;1.07e-13)															---	---	---	---
KRAS	3845	broad.mit.edu	37	12	25398284	25398284	+	Missense_Mutation	SNP	C	T	T	rs121913529		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:25398284C>T	uc001rgp.1	-	2	216	c.35G>A	c.(34-36)GGT>GAT	p.G12D	KRAS_uc001rgq.1_Missense_Mutation_p.G12D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12N(6)|p.G12G(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			G12D(HPAC_PANCREAS)|G12V(SW403_LARGE_INTESTINE)|G12D(HPAFII_PANCREAS)|G12D(PANC0403_PANCREAS)|G12D(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12A(KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(NCIH441_LUNG)|G12D(SU8686_PANCREAS)|G12D(SUIT2_PANCREAS)|G12D(PK1_PANCREAS)|G12V(KP3_PANCREAS)|G12D(PANC0813_PANCREAS)|G12A(SW1116_LARGE_INTESTINE)|G12D(LS180_LARGE_INTESTINE)|G12V(NCIH727_LUNG)|G12V(PATU8988S_PANCREAS)|G12V(CAPAN2_PANCREAS)|G12D(KP4_PANCREAS)|G12D(LS513_LARGE_INTESTINE)|G12D(SNUC2A_LARGE_INTESTINE)|G12V(SW480_LARGE_INTESTINE)|G12V(COLO668_LUNG)|G12D(COLO678_LARGE_INTESTINE)|G12V(RERFLCAD2_LUNG)|G12D(PANC0203_PANCREAS)|G12V(CFPAC1_PANCREAS)|G12V(SW900_LUNG)|G12V(LCLC97TM1_LUNG)|G12V(SW620_LARGE_INTESTINE)|G12A(MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(SH10TC_STOMACH)|G12V(A498_KIDNEY)|G12D(PK59_PANCREAS)|G12D(HEC1A_ENDOMETRIUM)|G12D(PANC0504_PANCREAS)|G12V(SNGM_ENDOMETRIUM)|G12A(RERFLCAD1_LUNG)|G12A(KPNSI9S_AUTONOMIC_GANGLIA)|G12D(ASPC1_PANCREAS)|G12A(RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(RCM1_LARGE_INTESTINE)|G12V(CORL23_LUNG)|G12D(SW1990_PANCREAS)|G12D(HEYA8_OVARY)|G12A(NCIH1573_LUNG)|G12A(NCIH2009_LUNG)|G12V(HUPT4_PANCREAS)|G12D(KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12D(HEC50B_ENDOMETRIUM)|G12V(YAPC_PANCREAS)|G12V(NCIH2444_LUNG)|G12V(HCC56_LARGE_INTESTINE)|G12D(MCAS_OVARY)|G12V(DANG_PANCREAS)|G12V(SHP77_LUNG)|G12D(AGS_STOMACH)|G12D(SKLU1_LUNG)|G12V(QGP1_PANCREAS)|G12D(L33_PANCREAS)|G12V(PANC0327_PANCREAS)|G12D(PANC1_PANCREAS)|G12V(RKN_OVARY)|G12V(PATU8902_PANCREAS)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			---	---	---	---
TMTC1	83857	broad.mit.edu	37	12	29709779	29709779	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:29709779G>A	uc001rjb.2	-						TMTC1_uc001riz.2_Intron|TMTC1_uc001rja.2_Intron|TMTC1_uc001rjc.1_Intron	NM_175861	NP_787057			transmembrane and tetratricopeptide repeat							integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)																	---	---	---	---
IPO8	10526	broad.mit.edu	37	12	30837276	30837276	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:30837276A>G	uc001rjd.2	-	3	452	c.282T>C	c.(280-282)GAT>GAC	p.D94D		NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	94	Importin N-terminal.				intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)																	---	---	---	---
TSPAN11	441631	broad.mit.edu	37	12	31116918	31116918	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31116918C>T	uc010sju.1	+	3	622	c.242C>T	c.(241-243)GCC>GTC	p.A81V	TSPAN11_uc001rjp.2_Missense_Mutation_p.A81V|TSPAN11_uc010sjv.1_Missense_Mutation_p.A71V	NM_001080509	NP_001073978	A1L157	TSN11_HUMAN	tetraspanin 11	81	Helical; (Potential).					integral to membrane					0	all_lung(12;3.11e-10)|Lung NSC(12;5.24e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)																	---	---	---	---
KIF21A	55605	broad.mit.edu	37	12	39716590	39716590	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:39716590C>T	uc001rly.2	-	27	3697	c.3551G>A	c.(3550-3552)GGC>GAC	p.G1184D	KIF21A_uc001rlv.2_Missense_Mutation_p.G189D|KIF21A_uc001rlw.2_Missense_Mutation_p.G501D|KIF21A_uc001rlx.2_Missense_Mutation_p.G1171D|KIF21A_uc001rlz.2_Missense_Mutation_p.G1148D|KIF21A_uc010skl.1_Missense_Mutation_p.G1164D	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	1184					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)																---	---	---	---
KIF21A	55605	broad.mit.edu	37	12	39726490	39726490	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:39726490C>T	uc001rly.2	-	20	2905	c.2759G>A	c.(2758-2760)CGC>CAC	p.R920H	KIF21A_uc001rlv.2_5'Flank|KIF21A_uc001rlw.2_Missense_Mutation_p.R237H|KIF21A_uc001rlx.2_Missense_Mutation_p.R907H|KIF21A_uc001rlz.2_Missense_Mutation_p.R884H|KIF21A_uc010skl.1_Missense_Mutation_p.R907H	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	920					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)																---	---	---	---
SLC2A13	114134	broad.mit.edu	37	12	40345052	40345052	+	Intron	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:40345052T>A	uc010skm.1	-						SLC2A13_uc001rmf.2_Silent_p.V347V	NM_052885	NP_443117			solute carrier family 2 (facilitated glucose							integral to membrane|plasma membrane	myo-inositol:hydrogen symporter activity			ovary(1)	1		Lung NSC(34;0.105)|all_lung(34;0.123)													HNSCC(50;0.14)			---	---	---	---
CNTN1	1272	broad.mit.edu	37	12	41408099	41408099	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41408099C>T	uc001rmm.1	+	18	2296	c.2183C>T	c.(2182-2184)GCG>GTG	p.A728V	CNTN1_uc001rmn.1_Missense_Mutation_p.A717V	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	728	Fibronectin type-III 2.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane		p.A728V(1)		lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)																---	---	---	---
CNTN1	1272	broad.mit.edu	37	12	41410609	41410609	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41410609A>G	uc001rmm.1	+	19	2423	c.2310A>G	c.(2308-2310)AAA>AAG	p.K770K	CNTN1_uc001rmn.1_Silent_p.K759K	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	770	Fibronectin type-III 2.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)																---	---	---	---
PDZRN4	29951	broad.mit.edu	37	12	41966851	41966851	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41966851A>G	uc010skn.1	+	10	1741	c.1673A>G	c.(1672-1674)GAC>GGC	p.D558G	PDZRN4_uc001rmq.3_Missense_Mutation_p.D499G|PDZRN4_uc009zjz.2_Missense_Mutation_p.D497G|PDZRN4_uc001rmr.2_Missense_Mutation_p.D384G	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	757							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)																---	---	---	---
PDZRN4	29951	broad.mit.edu	37	12	41967300	41967300	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41967300C>T	uc010skn.1	+	10	2190	c.2122C>T	c.(2122-2124)CGA>TGA	p.R708*	PDZRN4_uc001rmq.3_Nonsense_Mutation_p.R649*|PDZRN4_uc009zjz.2_Nonsense_Mutation_p.R647*|PDZRN4_uc001rmr.2_Nonsense_Mutation_p.R534*	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	907							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)																---	---	---	---
PRICKLE1	144165	broad.mit.edu	37	12	42858589	42858589	+	Missense_Mutation	SNP	G	A	A	rs151332996	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:42858589G>A	uc010skv.1	-	7	1534	c.1247C>T	c.(1246-1248)ACG>ATG	p.T416M	PRICKLE1_uc001rnl.2_Missense_Mutation_p.T416M|PRICKLE1_uc010skw.1_Missense_Mutation_p.T416M|PRICKLE1_uc001rnm.2_Missense_Mutation_p.T416M	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	416					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)														---	---	---	---
PRICKLE1	144165	broad.mit.edu	37	12	42858777	42858777	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:42858777C>T	uc010skv.1	-	7	1346	c.1059G>A	c.(1057-1059)TCG>TCA	p.S353S	PRICKLE1_uc001rnl.2_Silent_p.S353S|PRICKLE1_uc010skw.1_Silent_p.S353S|PRICKLE1_uc001rnm.2_Silent_p.S353S	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	353					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)														---	---	---	---
PRICKLE1	144165	broad.mit.edu	37	12	42860064	42860064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:42860064C>T	uc010skv.1	-	6	994	c.707G>A	c.(706-708)CGC>CAC	p.R236H	PRICKLE1_uc001rnl.2_Missense_Mutation_p.R236H|PRICKLE1_uc010skw.1_Missense_Mutation_p.R236H|PRICKLE1_uc001rnm.2_Missense_Mutation_p.R236H	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	236	LIM zinc-binding 2.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)														---	---	---	---
ADAMTS20	80070	broad.mit.edu	37	12	43826209	43826209	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:43826209G>A	uc010skx.1	-	21	2994	c.2994C>T	c.(2992-2994)GGC>GGT	p.G998G	ADAMTS20_uc001rno.1_Silent_p.G152G|ADAMTS20_uc001rnp.1_Silent_p.G152G	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	998	TSP type-1 4.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)														---	---	---	---
ADAMTS20	80070	broad.mit.edu	37	12	43944883	43944883	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:43944883G>A	uc010skx.1	-	2	282	c.282C>T	c.(280-282)ACC>ACT	p.T94T		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	94						proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)														---	---	---	---
PUS7L	83448	broad.mit.edu	37	12	44130389	44130389	+	Missense_Mutation	SNP	C	T	T	rs143825055		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:44130389C>T	uc001rnq.3	-	7	2009	c.1520G>A	c.(1519-1521)CGC>CAC	p.R507H	PUS7L_uc001rnr.3_Missense_Mutation_p.R507H|PUS7L_uc001rns.3_Missense_Mutation_p.R507H|PUS7L_uc009zkb.2_Missense_Mutation_p.R194H	NM_001098615	NP_001092085	Q9H0K6	PUS7L_HUMAN	pseudouridylate synthase 7 homolog (S.	507	TRUD.				pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			pancreas(1)	1	all_cancers(12;0.00027)	Lung NSC(34;0.114)|all_lung(34;0.24)		GBM - Glioblastoma multiforme(48;0.0402)														---	---	---	---
NELL2	4753	broad.mit.edu	37	12	44926433	44926433	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:44926433A>G	uc001rog.2	-	16	2330	c.1735T>C	c.(1735-1737)TAC>CAC	p.Y579H	NELL2_uc001rof.3_Missense_Mutation_p.Y578H|NELL2_uc001roh.2_Missense_Mutation_p.Y579H|NELL2_uc009zkd.2_Intron|NELL2_uc010skz.1_Missense_Mutation_p.Y629H|NELL2_uc010sla.1_Missense_Mutation_p.Y602H|NELL2_uc001roi.1_Missense_Mutation_p.Y579H|NELL2_uc010slb.1_Missense_Mutation_p.Y578H	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	579	EGF-like 5; calcium-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)														---	---	---	---
ANO6	196527	broad.mit.edu	37	12	45822925	45822925	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:45822925C>T	uc001roo.2	+	20	2899	c.2564C>T	c.(2563-2565)GCA>GTA	p.A855V	ANO6_uc010sld.1_Intron|ANO6_uc010sle.1_Intron|ANO6_uc010slf.1_Missense_Mutation_p.A876V|ANO6_uc010slg.1_Missense_Mutation_p.A837V	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	855	Cytoplasmic (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2																		---	---	---	---
ARID2	196528	broad.mit.edu	37	12	46246417	46246417	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:46246417G>A	uc001ros.1	+	15	4511	c.4511G>A	c.(4510-4512)CGG>CAG	p.R1504Q	ARID2_uc001ror.2_Missense_Mutation_p.R1504Q|ARID2_uc009zkg.1_Missense_Mutation_p.R960Q|ARID2_uc009zkh.1_Missense_Mutation_p.R1131Q|ARID2_uc001rou.1_Missense_Mutation_p.R838Q	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1504					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)														---	---	---	---
SLC38A1	81539	broad.mit.edu	37	12	46598370	46598370	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:46598370T>C	uc001rpa.2	-	10	908	c.650A>G	c.(649-651)TAT>TGT	p.Y217C	SLC38A1_uc001rpb.2_Missense_Mutation_p.Y217C|SLC38A1_uc001rpc.2_Missense_Mutation_p.Y217C|SLC38A1_uc001rpd.2_Missense_Mutation_p.Y217C|SLC38A1_uc001rpe.2_Missense_Mutation_p.Y217C|SLC38A1_uc010slh.1_Missense_Mutation_p.Y190C|SLC38A1_uc009zkj.1_Missense_Mutation_p.Y217C	NM_030674	NP_109599	Q9H2H9	S38A1_HUMAN	amino acid transporter system A1	217	Helical; (Potential).				cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)															---	---	---	---
SLC38A1	81539	broad.mit.edu	37	12	46602891	46602891	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:46602891T>C	uc001rpa.2	-	6	592	c.334A>G	c.(334-336)ACA>GCA	p.T112A	SLC38A1_uc001rpb.2_Missense_Mutation_p.T112A|SLC38A1_uc001rpc.2_Missense_Mutation_p.T112A|SLC38A1_uc001rpd.2_Missense_Mutation_p.T112A|SLC38A1_uc001rpe.2_Missense_Mutation_p.T112A|SLC38A1_uc010slh.1_Missense_Mutation_p.T85A|SLC38A1_uc009zkj.1_Missense_Mutation_p.T112A	NM_030674	NP_109599	Q9H2H9	S38A1_HUMAN	amino acid transporter system A1	112	Extracellular (Potential).				cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)															---	---	---	---
RPAP3	79657	broad.mit.edu	37	12	48073291	48073291	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48073291C>T	uc001rpr.2	-	12	1388	c.1272G>A	c.(1270-1272)CCG>CCA	p.P424P	RPAP3_uc010slk.1_Silent_p.P265P|RPAP3_uc001rps.2_Intron	NM_024604	NP_078880	Q9H6T3	RPAP3_HUMAN	RNA polymerase II associated protein 3 isoform	424							binding			ovary(1)	1	Lung SC(27;0.192)																	---	---	---	---
HDAC7	51564	broad.mit.edu	37	12	48188645	48188645	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48188645G>A	uc010slo.1	-	12	1551	c.1356C>T	c.(1354-1356)GGC>GGT	p.G452G	HDAC7_uc009zku.2_5'Flank|HDAC7_uc001rqe.2_5'Flank|HDAC7_uc001rqj.3_Silent_p.G415G|HDAC7_uc001rqk.3_Silent_p.G435G	NM_015401	NP_056216	Q8WUI4	HDAC7_HUMAN	histone deacetylase 7 isoform a	413	Transcription repression 2 (By similarity).				negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)														---	---	---	---
VDR	7421	broad.mit.edu	37	12	48240547	48240547	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48240547G>A	uc001rqm.2	-	9	1082	c.800C>T	c.(799-801)GCC>GTC	p.A267V	VDR_uc001rql.2_Missense_Mutation_p.A317V|VDR_uc001rqn.2_Missense_Mutation_p.A267V|VDR_uc010slq.1_Missense_Mutation_p.A235V	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor	267	Ligand-binding.				decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)													---	---	---	---
TMEM106C	79022	broad.mit.edu	37	12	48361942	48361942	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48361942G>A	uc001rqp.2	+	8	798	c.683G>A	c.(682-684)GGC>GAC	p.G228D	TMEM106C_uc001rqo.2_Missense_Mutation_p.G209D|TMEM106C_uc001rqr.2_Missense_Mutation_p.G228D|TMEM106C_uc001rqq.2_Missense_Mutation_p.G209D	NM_024056	NP_076961	Q9BVX2	T106C_HUMAN	transmembrane protein 106C isoform a	228						endoplasmic reticulum membrane|integral to membrane					0		Acute lymphoblastic leukemia(13;0.11)		GBM - Glioblastoma multiforme(48;0.241)														---	---	---	---
COL2A1	1280	broad.mit.edu	37	12	48369182	48369182	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48369182G>A	uc001rqu.2	-	51	3985	c.3804C>T	c.(3802-3804)AGC>AGT	p.S1268S	COL2A1_uc001rqt.2_Silent_p.S49S|COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Silent_p.S1199S	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	1268	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)													---	---	---	---
SENP1	29843	broad.mit.edu	37	12	48477397	48477397	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48477397G>A	uc001rqx.2	-	6	975	c.529C>T	c.(529-531)CGA>TGA	p.R177*	SENP1_uc001rqw.2_Nonsense_Mutation_p.R177*|SENP1_uc001rqy.2_5'UTR|SENP1_uc001rqz.2_5'UTR|SENP1_uc009zkx.2_Nonsense_Mutation_p.R177*	NM_014554	NP_055369	Q9P0U3	SENP1_HUMAN	sentrin/SUMO-specific protease 1	177	Nuclear localization signal (Probable).				activation of caspase activity|induction of apoptosis by extracellular signals|protein desumoylation|proteolysis	cytoplasm|nucleus	endopeptidase activity|SUMO-specific protease activity			pancreas(2)|lung(1)	3		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)																---	---	---	---
PFKM	5213	broad.mit.edu	37	12	48534513	48534513	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48534513G>A	uc001rrc.2	+	14	1370	c.1200G>A	c.(1198-1200)TCG>TCA	p.S400S	PFKM_uc001rra.1_Silent_p.S85S|PFKM_uc001rrb.1_Silent_p.S471S|PFKM_uc001rrd.2_Silent_p.S85S|PFKM_uc001rre.1_Silent_p.S400S|PFKM_uc001rrg.1_Silent_p.S369S	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle	400					fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4																		---	---	---	---
ASB8	140461	broad.mit.edu	37	12	48543596	48543596	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48543596G>A	uc001rrh.2	-	4	589	c.420C>T	c.(418-420)AGC>AGT	p.S140S	ASB8_uc010slr.1_Silent_p.S136S	NM_024095	NP_077000	Q9H765	ASB8_HUMAN	ankyrin repeat and SOCS box-containing 8	140	ANK 3.				intracellular signal transduction	cytoplasm|nucleus				kidney(1)	1																		---	---	---	---
ASB8	140461	broad.mit.edu	37	12	48547285	48547285	+	5'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48547285C>T	uc001rrh.2	-	2					ASB8_uc010slr.1_5'UTR	NM_024095	NP_077000			ankyrin repeat and SOCS box-containing 8						intracellular signal transduction	cytoplasm|nucleus				kidney(1)	1																		---	---	---	---
ANP32D	23519	broad.mit.edu	37	12	48866816	48866816	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48866816C>T	uc010slt.1	+	1	369	c.369C>T	c.(367-369)TGC>TGT	p.C123C		NM_012404	NP_036536	O95626	AN32D_HUMAN	acidic nuclear phosphoprotein 32D	123	LRR 5.									ovary(1)|central_nervous_system(1)	2																		---	---	---	---
DDX23	9416	broad.mit.edu	37	12	49227064	49227064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49227064C>T	uc001rsm.2	-	13	1890	c.1799G>A	c.(1798-1800)CGC>CAC	p.R600H		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	600	Helicase ATP-binding.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding			kidney(3)|ovary(1)|lung(1)|skin(1)	6																		---	---	---	---
PRKAG1	5571	broad.mit.edu	37	12	49397360	49397360	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49397360T>C	uc001rsy.2	-	10	791	c.722A>G	c.(721-723)TAC>TGC	p.Y241C	uc001rsw.2_Intron|PRKAG1_uc010smd.1_Missense_Mutation_p.Y209C|PRKAG1_uc001rsx.2_Missense_Mutation_p.Y157C|PRKAG1_uc001rsz.2_Missense_Mutation_p.Y250C|PRKAG1_uc009zlb.2_Missense_Mutation_p.Y53C	NM_002733	NP_002724	P54619	AAKG1_HUMAN	AMP-activated protein kinase, noncatalytic	241	CBS 3.				cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|positive regulation of protein kinase activity|regulation of fatty acid oxidation|regulation of glycolysis|spermatogenesis	cytosol	cAMP-dependent protein kinase activity|cAMP-dependent protein kinase regulator activity|protein kinase binding			kidney(1)	1																		---	---	---	---
TUBA1C	84790	broad.mit.edu	37	12	49666675	49666675	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49666675C>T	uc001rtt.1	+	4	1115	c.1015C>T	c.(1015-1017)CGT>TGT	p.R339C	TUBA1C_uc001rts.2_Missense_Mutation_p.R304C|TUBA1C_uc010smh.1_Missense_Mutation_p.R409C|uc010smi.1_5'UTR	NM_032704	NP_116093	Q9BQE3	TBA1C_HUMAN	tubulin alpha 6	339					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0																		---	---	---	---
TROAP	10024	broad.mit.edu	37	12	49719532	49719532	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49719532T>C	uc001rtx.3	+	5	665	c.498T>C	c.(496-498)GGT>GGC	p.G166G	TROAP_uc009zlh.2_Silent_p.G166G|TROAP_uc001rty.2_5'Flank	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	166					cell adhesion	cytoplasm				ovary(1)	1																		---	---	---	---
TROAP	10024	broad.mit.edu	37	12	49722962	49722962	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49722962C>T	uc001rtx.3	+	10	1206	c.1039C>T	c.(1039-1041)CGG>TGG	p.R347W	TROAP_uc009zlh.2_Missense_Mutation_p.R347W|TROAP_uc001rty.2_Missense_Mutation_p.R55W	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	347					cell adhesion	cytoplasm				ovary(1)	1																		---	---	---	---
MCRS1	10445	broad.mit.edu	37	12	49952676	49952676	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49952676G>A	uc001ruk.1	-	14	1443	c.1252C>T	c.(1252-1254)CCG>TCG	p.P418S	MCRS1_uc001rui.1_Missense_Mutation_p.P431S|MCRS1_uc001ruj.1_Missense_Mutation_p.P405S|MCRS1_uc001rul.1_Missense_Mutation_p.P418S|MCRS1_uc009zlj.1_Missense_Mutation_p.P227S|MCRS1_uc001rum.1_Missense_Mutation_p.P405S	NM_006337	NP_006328	Q96EZ8	MCRS1_HUMAN	microspherule protein 1 isoform 1	418	FHA.				DNA recombination|DNA repair|protein modification process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|MLL1 complex|nucleolus	protein binding			large_intestine(1)	1																		---	---	---	---
FAM186B	84070	broad.mit.edu	37	12	49993556	49993556	+	Missense_Mutation	SNP	G	T	T	rs139367853	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49993556G>T	uc001ruo.2	-	4	2040	c.1867C>A	c.(1867-1869)CGC>AGC	p.R623S	FAM186B_uc010smk.1_Missense_Mutation_p.R533S	NM_032130	NP_115506	Q8IYM0	F186B_HUMAN	hypothetical protein LOC84070	623						protein complex				ovary(1)	1																		---	---	---	---
FAM186B	84070	broad.mit.edu	37	12	49994713	49994713	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49994713G>A	uc001ruo.2	-	4	883	c.710C>T	c.(709-711)GCC>GTC	p.A237V	FAM186B_uc010smk.1_Missense_Mutation_p.A147V	NM_032130	NP_115506	Q8IYM0	F186B_HUMAN	hypothetical protein LOC84070	237						protein complex				ovary(1)	1																		---	---	---	---
FMNL3	91010	broad.mit.edu	37	12	50043299	50043299	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50043299G>A	uc001ruv.1	-	19	2492	c.2258C>T	c.(2257-2259)GCG>GTG	p.A753V	FMNL3_uc001ruw.1_Missense_Mutation_p.A702V|FMNL3_uc001rut.1_Missense_Mutation_p.A319V|FMNL3_uc001ruu.1_Missense_Mutation_p.A603V	NM_175736	NP_783863	Q8IVF7	FMNL3_HUMAN	formin-like 3 isoform 1	753	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			breast(2)|pancreas(2)	4																		---	---	---	---
AQP6	363	broad.mit.edu	37	12	50367132	50367132	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50367132C>T	uc001rvr.1	+	1	513	c.176C>T	c.(175-177)GCC>GTC	p.A59V	AQP6_uc001rvp.1_Intron|AQP6_uc001rvq.1_RNA	NM_001652	NP_001643	Q13520	AQP6_HUMAN	aquaporin 6	59	Helical; (Potential).				excretion|odontogenesis	integral to plasma membrane|transport vesicle membrane	anion channel activity|water channel activity				0																		---	---	---	---
LIMA1	51474	broad.mit.edu	37	12	50594644	50594644	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50594644G>A	uc001rwj.3	-	7	1062	c.888C>T	c.(886-888)GGC>GGT	p.G296G	LIMA1_uc001rwg.3_5'UTR|LIMA1_uc001rwh.3_Silent_p.G136G|LIMA1_uc001rwi.3_Silent_p.G136G|LIMA1_uc001rwk.3_Silent_p.G296G|LIMA1_uc010smr.1_RNA|LIMA1_uc010sms.1_RNA	NM_016357	NP_057441	Q9UHB6	LIMA1_HUMAN	LIM domain and actin binding 1 isoform b	296					actin filament bundle assembly|negative regulation of actin filament depolymerization|ruffle organization	cytoplasm|focal adhesion|stress fiber	actin filament binding|actin monomer binding|zinc ion binding			ovary(1)	1																		---	---	---	---
LARP4	113251	broad.mit.edu	37	12	50856385	50856385	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50856385G>A	uc001rwp.1	+	12	1499	c.1355G>A	c.(1354-1356)CGA>CAA	p.R452Q	LARP4_uc001rwo.1_Missense_Mutation_p.R458Q|LARP4_uc001rwq.1_Missense_Mutation_p.R381Q|LARP4_uc001rwr.1_Missense_Mutation_p.R381Q|LARP4_uc001rws.1_Missense_Mutation_p.R451Q|LARP4_uc009zlr.1_Missense_Mutation_p.R271Q|LARP4_uc001rwt.1_Missense_Mutation_p.R43Q	NM_052879	NP_443111	Q71RC2	LARP4_HUMAN	c-Mpl binding protein isoform a	452							nucleotide binding|RNA binding			ovary(1)	1																		---	---	---	---
DIP2B	57609	broad.mit.edu	37	12	51128878	51128878	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51128878G>A	uc001rwv.2	+	34	4222	c.4066G>A	c.(4066-4068)GCC>ACC	p.A1356T	DIP2B_uc009zlt.2_Missense_Mutation_p.A786T	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	1356						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6																OREG0021816	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
DIP2B	57609	broad.mit.edu	37	12	51138606	51138606	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51138606T>C	uc001rwv.2	+	38	4871	c.4715T>C	c.(4714-4716)GTG>GCG	p.V1572A	DIP2B_uc009zlt.2_Missense_Mutation_p.V1002A	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	1572						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6																		---	---	---	---
DAZAP2	9802	broad.mit.edu	37	12	51636174	51636174	+	Missense_Mutation	SNP	G	A	A	rs144235964		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51636174G>A	uc010snd.1	+	4	546	c.362G>A	c.(361-363)CGT>CAT	p.R121H	DAZAP2_uc001ryb.2_Missense_Mutation_p.V125I|DAZAP2_uc010snc.1_Missense_Mutation_p.V65I|DAZAP2_uc010sne.1_Missense_Mutation_p.V115I|DAZAP2_uc010snf.1_Intron	NM_001136266	NP_001129738	Q15038	DAZP2_HUMAN	DAZ associated protein 2 isoform c	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							WW domain binding				0																		---	---	---	---
BIN2	51411	broad.mit.edu	37	12	51693445	51693445	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51693445G>A	uc001ryg.2	-	6	514	c.462C>T	c.(460-462)CAC>CAT	p.H154H	BIN2_uc009zlz.2_Silent_p.H122H|BIN2_uc001ryh.2_Silent_p.H30H|BIN2_uc010sng.1_Silent_p.H128H	NM_016293	NP_057377	Q9UBW5	BIN2_HUMAN	bridging integrator 2	154	BAR.					cytoplasm	protein binding			ovary(1)	1																		---	---	---	---
GALNT6	11226	broad.mit.edu	37	12	51757930	51757930	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51757930G>A	uc001ryk.2	-	5	1249	c.1024C>T	c.(1024-1026)CGC>TGC	p.R342C	GALNT6_uc009zma.1_RNA|GALNT6_uc001ryl.1_Missense_Mutation_p.R342C	NM_007210	NP_009141	Q8NCL4	GALT6_HUMAN	polypeptide N-acetylgalactosaminyltransferase 6	342	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane|perinuclear region of cytoplasm	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2																		---	---	---	---
SLC4A8	9498	broad.mit.edu	37	12	51856118	51856118	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51856118G>A	uc001rys.1	+	10	1304	c.1126G>A	c.(1126-1128)GCA>ACA	p.A376T	SLC4A8_uc010sni.1_Missense_Mutation_p.A323T|SLC4A8_uc001rym.2_Missense_Mutation_p.A323T|SLC4A8_uc001ryn.2_Missense_Mutation_p.A323T|SLC4A8_uc001ryo.2_Missense_Mutation_p.A323T|SLC4A8_uc001ryp.1_3'UTR|SLC4A8_uc010snj.1_Missense_Mutation_p.A403T|SLC4A8_uc001ryq.3_Missense_Mutation_p.A376T|SLC4A8_uc001ryr.2_Missense_Mutation_p.A376T|SLC4A8_uc010snk.1_Missense_Mutation_p.A323T	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	376	Extracellular (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)														---	---	---	---
SCN8A	6334	broad.mit.edu	37	12	52082586	52082586	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52082586G>A	uc001ryw.2	+	6	837	c.659G>A	c.(658-660)CGC>CAC	p.R220H	SCN8A_uc010snl.1_Missense_Mutation_p.R85H|SCN8A_uc001ryx.1_Missense_Mutation_p.R85H|SCN8A_uc001ryz.1_Intron|SCN8A_uc001ryy.2_Intron	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	220	Helical; Voltage-sensor; Name=S4 of repeat I; (Potential).|I.				axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)													---	---	---	---
ACVR1B	91	broad.mit.edu	37	12	52385715	52385715	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52385715C>T	uc001rzn.2	+	8	1372	c.1330C>T	c.(1330-1332)CGA>TGA	p.R444*	ACVR1B_uc001rzm.2_Nonsense_Mutation_p.R444*|ACVR1B_uc010snn.1_Nonsense_Mutation_p.R485*	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	444	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding	p.R485*(1)		pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)													---	---	---	---
KRT86	3892	broad.mit.edu	37	12	52695732	52695732	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52695732C>T	uc010snq.1	+	2	165	c.32C>T	c.(31-33)GCC>GTC	p.A11V	KRT86_uc009zmg.2_Missense_Mutation_p.A11V|KRT81_uc001sac.2_Intron|KRT86_uc001sad.2_Missense_Mutation_p.A11V	NM_002284	NP_002275	O43790	KRT86_HUMAN	keratin 86	11	Head.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(357;0.189)														---	---	---	---
KRT75	9119	broad.mit.edu	37	12	52822241	52822241	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52822241G>A	uc001saj.2	-	7	1203	c.1181C>T	c.(1180-1182)GCC>GTC	p.A394V		NM_004693	NP_004684	O95678	K2C75_HUMAN	keratin 75	394	Coil 2.|Rod.					keratin filament	structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.192)														---	---	---	---
KRT6C	286887	broad.mit.edu	37	12	52864995	52864995	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52864995A>T	uc001sal.3	-	5	1046	c.998T>A	c.(997-999)ATC>AAC	p.I333N		NM_173086	NP_775109	P48668	K2C6C_HUMAN	keratin 6C	333	Rod.|Linker 12.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0828)														---	---	---	---
KRT6A	3853	broad.mit.edu	37	12	52881499	52881499	+	3'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52881499G>A	uc001sam.2	-	9						NM_005554	NP_005545			keratin 6A						cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)														---	---	---	---
KRT71	112802	broad.mit.edu	37	12	52940272	52940272	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52940272C>T	uc001sao.2	-	7	1193	c.1123G>A	c.(1123-1125)GCC>ACC	p.A375T		NM_033448	NP_258259	Q3SY84	K2C71_HUMAN	keratin 71	375	Coil 2.|Rod.						structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.194)														---	---	---	---
KRT8	3856	broad.mit.edu	37	12	53292668	53292668	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53292668C>T	uc001sbd.2	-	6	1100	c.997G>A	c.(997-999)GCC>ACC	p.A333T	KRT8_uc009zmj.2_Intron|KRT8_uc009zmk.1_Missense_Mutation_p.A361T|KRT8_uc009zml.1_Missense_Mutation_p.A333T|KRT8_uc009zmm.1_Missense_Mutation_p.A333T	NM_002273	NP_002264	P05787	K2C8_HUMAN	keratin 8	333	Necessary for interaction with PNN.|Rod.|Coil 2.				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)													---	---	---	---
TENC1	23371	broad.mit.edu	37	12	53446255	53446255	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53446255G>A	uc001sbp.2	+	3	336	c.201G>A	c.(199-201)ACG>ACA	p.T67T	uc001sbk.1_Intron|TENC1_uc001sbl.2_5'UTR|TENC1_uc001sbm.2_Silent_p.T77T|TENC1_uc001sbn.2_Silent_p.T77T|TENC1_uc001sbo.1_Silent_p.T67T	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	67	Phorbol-ester/DAG-type.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2																		---	---	---	---
SP7	121340	broad.mit.edu	37	12	53723085	53723085	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53723085C>T	uc001sct.2	-	2	248	c.141G>A	c.(139-141)CCG>CCA	p.P47P	SP7_uc001scu.2_Silent_p.P29P|SP7_uc001scv.2_Silent_p.P47P	NM_152860	NP_690599	Q8TDD2	SP7_HUMAN	osterix	47					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
SP1	6667	broad.mit.edu	37	12	53776267	53776267	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53776267T>C	uc001scw.2	+	3	633	c.536T>C	c.(535-537)TTC>TCC	p.F179S	SP1_uc010sog.1_Missense_Mutation_p.F172S	NM_138473	NP_612482	P08047	SP1_HUMAN	Sp1 transcription factor isoform a	179	Transactivation domain A (Gln-rich).				positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	double-stranded DNA binding|histone deacetylase binding|HMG box domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(357;0.00527)														---	---	---	---
HOXC10	3226	broad.mit.edu	37	12	54379097	54379097	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54379097G>A	uc001sen.2	+	1	152	c.54G>A	c.(52-54)GCG>GCA	p.A18A		NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	18					positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1																		---	---	---	---
HOXC10	3226	broad.mit.edu	37	12	54379557	54379557	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54379557G>A	uc001sen.2	+	1	612	c.514G>A	c.(514-516)GCC>ACC	p.A172T		NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	172					positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1																		---	---	---	---
HOXC9	3225	broad.mit.edu	37	12	54396240	54396240	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54396240G>A	uc001sep.2	+	3	663	c.565G>A	c.(565-567)GCC>ACC	p.A189T	HOXC9_uc001seq.2_Missense_Mutation_p.A189T	NM_006897	NP_008828	P31274	HXC9_HUMAN	homeobox C9	189					multicellular organismal development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)|skin(1)	3																		---	---	---	---
HOXC6	3223	broad.mit.edu	37	12	54423569	54423569	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54423569G>A	uc001sev.2	+	2	643	c.531G>A	c.(529-531)GCG>GCA	p.A177A	HOXC6_uc001ses.2_Silent_p.A95A|HOXC5_uc001set.2_Intron|HOXC4_uc001seu.2_Intron	NM_004503	NP_004494	P09630	HXC6_HUMAN	homeobox C6 isoform 1	177	Homeobox.				regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|upper_aerodigestive_tract(1)	3																		---	---	---	---
HOXC5	3222	broad.mit.edu	37	12	54428168	54428168	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54428168G>T	uc001sew.2	+	2	636	c.561G>T	c.(559-561)GAG>GAT	p.E187D	HOXC5_uc001set.2_RNA|HOXC4_uc001seu.2_Intron	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	187	Homeobox.				regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0																		---	---	---	---
ITGA5	3678	broad.mit.edu	37	12	54799107	54799107	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54799107G>A	uc001sga.2	-	12	1136	c.1068C>T	c.(1066-1068)GAC>GAT	p.D356D	ITGA5_uc010sow.1_RNA|ITGA5_uc009znp.1_RNA	NM_002205	NP_002196	P08648	ITA5_HUMAN	integrin alpha 5 precursor	356	Extracellular (Potential).|FG-GAP 5.				angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			ovary(2)	2																		---	---	---	---
NEUROD4	58158	broad.mit.edu	37	12	55420335	55420335	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55420335C>T	uc001sgp.3	+	2	490	c.112C>T	c.(112-114)CCA>TCA	p.P38S		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	38					amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4																		---	---	---	---
NEUROD4	58158	broad.mit.edu	37	12	55420539	55420539	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55420539G>A	uc001sgp.3	+	2	694	c.316G>A	c.(316-318)GCC>ACC	p.A106T		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	106	Helix-loop-helix motif.				amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4																		---	---	---	---
OR6C3	254786	broad.mit.edu	37	12	55726283	55726283	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55726283T>C	uc010spj.1	+	1	799	c.799T>C	c.(799-801)TTG>CTG	p.L267L		NM_054104	NP_473445	Q9NZP0	OR6C3_HUMAN	olfactory receptor, family 6, subfamily C,	267	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1																		---	---	---	---
OR6C65	403282	broad.mit.edu	37	12	55794672	55794672	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55794672C>T	uc010spl.1	+	1	360	c.360C>T	c.(358-360)CGC>CGT	p.R120R		NM_001005518	NP_001005518	A6NJZ3	O6C65_HUMAN	olfactory receptor, family 6, subfamily C,	120	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0																		---	---	---	---
GDF11	10220	broad.mit.edu	37	12	56143477	56143477	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56143477C>T	uc001shq.2	+	3	1072	c.1035C>T	c.(1033-1035)TGC>TGT	p.C345C	GDF11_uc010spv.1_Silent_p.C345C	NM_005811	NP_005802	O95390	GDF11_HUMAN	growth differentiation factor 11 precursor	345					growth|mesoderm development|skeletal system development	extracellular space	cytokine activity|growth factor activity			kidney(1)	1																		---	---	---	---
DGKA	1606	broad.mit.edu	37	12	56346910	56346910	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56346910C>T	uc001sij.2	+	22	2293	c.2029C>T	c.(2029-2031)CGT>TGT	p.R677C	DGKA_uc001sik.2_Missense_Mutation_p.R677C|DGKA_uc001sil.2_Missense_Mutation_p.R677C|DGKA_uc001sim.2_Missense_Mutation_p.R677C|DGKA_uc001sin.2_Missense_Mutation_p.R677C|DGKA_uc009zof.2_Missense_Mutation_p.R323C|DGKA_uc001sio.2_Missense_Mutation_p.R419C	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	677					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)													---	---	---	---
ERBB3	2065	broad.mit.edu	37	12	56478854	56478854	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56478854G>A	uc001sjh.2	+	3	503	c.310G>A	c.(310-312)GTG>ATG	p.V104M	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.V45M|ERBB3_uc001sjg.2_Missense_Mutation_p.V104M	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	104	Extracellular (Potential).		V -> M (in an ovarian mucinous carcinoma sample; somatic mutation).		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	p.V104M(1)		lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)															---	---	---	---
COQ10A	93058	broad.mit.edu	37	12	56661571	56661571	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56661571G>A	uc001sko.3	+						COQ10A_uc001skp.3_Intron|COQ10A_uc001skq.3_Missense_Mutation_p.G26D	NM_144576	NP_653177			coenzyme Q10 homolog A isoform a							mitochondrial inner membrane				ovary(1)	1																		---	---	---	---
PAN2	9924	broad.mit.edu	37	12	56716264	56716264	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56716264G>A	uc001skx.2	-	19	3025	c.2652C>T	c.(2650-2652)GGC>GGT	p.G884G	PAN2_uc001skw.2_Silent_p.G32G|PAN2_uc001skz.2_Silent_p.G883G|PAN2_uc001sky.2_Silent_p.G880G	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	884					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6																		---	---	---	---
TIMELESS	8914	broad.mit.edu	37	12	56811784	56811784	+	Missense_Mutation	SNP	C	T	T	rs150055938	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56811784C>T	uc001slf.2	-	28	3631	c.3463G>A	c.(3463-3465)GCT>ACT	p.A1155T		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	1155					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8																		---	---	---	---
BAZ2A	11176	broad.mit.edu	37	12	56992460	56992460	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56992460C>T	uc001slq.1	-	29	5854	c.5660G>A	c.(5659-5661)CGC>CAC	p.R1887H	BAZ2A_uc001slp.1_Missense_Mutation_p.R1885H|BAZ2A_uc001slo.1_Missense_Mutation_p.R693H|BAZ2A_uc009zov.1_Missense_Mutation_p.R853H|BAZ2A_uc009zow.1_Missense_Mutation_p.R1855H	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	1887					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																		---	---	---	---
ZBTB39	9880	broad.mit.edu	37	12	57397343	57397343	+	Silent	SNP	G	A	A	rs150115700		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57397343G>A	uc001sml.1	-	2	1445	c.1359C>T	c.(1357-1359)TGC>TGT	p.C453C	RDH16_uc010sqx.1_5'Flank	NM_014830	NP_055645	O15060	ZBT39_HUMAN	zinc finger and BTB domain containing 39	453					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1																		---	---	---	---
LRP1	4035	broad.mit.edu	37	12	57537525	57537525	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57537525C>A	uc001snd.2	+	4	858	c.392C>A	c.(391-393)CCC>CAC	p.P131H	LRP1_uc010sre.1_Missense_Mutation_p.P131H|LRP1_uc001snb.2_Missense_Mutation_p.P131H|LRP1_uc001snc.1_Missense_Mutation_p.P131H	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	131	EGF-like 1.|Extracellular (Potential).				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)													---	---	---	---
LRP1	4035	broad.mit.edu	37	12	57538743	57538743	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57538743T>C	uc001snd.2	+						LRP1_uc010sre.1_Intron|LRP1_uc001snb.2_Intron|LRP1_uc001snc.1_Intron	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)													---	---	---	---
LRP1	4035	broad.mit.edu	37	12	57548147	57548147	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57548147C>T	uc001snd.2	+	7	1464	c.998C>T	c.(997-999)GCC>GTC	p.A333V	LRP1_uc001snc.1_Missense_Mutation_p.A333V	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	333	Extracellular (Potential).|LDL-receptor class B 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)													---	---	---	---
LRP1	4035	broad.mit.edu	37	12	57595585	57595585	+	Silent	SNP	C	T	T	rs138672668		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57595585C>T	uc001snd.2	+	67	10957	c.10491C>T	c.(10489-10491)GAC>GAT	p.D3497D		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3497	Extracellular (Potential).|LDL-receptor class A 25.				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)													---	---	---	---
LRP1	4035	broad.mit.edu	37	12	57605717	57605717	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57605717C>A	uc001snd.2	+	87	13732	c.13266C>A	c.(13264-13266)GCC>GCA	p.A4422A		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	4422	Helical; (Potential).				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)													---	---	---	---
NXPH4	11247	broad.mit.edu	37	12	57619402	57619402	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57619402G>A	uc010srf.1	+	2	974	c.799G>A	c.(799-801)GCC>ACC	p.A267T	NXPH4_uc009zpj.2_Missense_Mutation_p.A73T	NM_007224	NP_009155	O95158	NXPH4_HUMAN	neurexophilin 4 precursor	267	V (Cys-rich).				neuropeptide signaling pathway	extracellular region					0																		---	---	---	---
GEFT	115557	broad.mit.edu	37	12	58009072	58009072	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:58009072C>T	uc001spb.2	+	11	1473	c.1013C>T	c.(1012-1014)ACG>ATG	p.T338M	GEFT_uc009zpy.2_Missense_Mutation_p.T377M|GEFT_uc001soz.1_Intron|GEFT_uc001spa.2_Missense_Mutation_p.T232M|uc001spc.2_RNA|GEFT_uc001spd.2_Missense_Mutation_p.T43M	NM_182947	NP_891992	Q86VW2	ARHGP_HUMAN	RhoA/RAC/CDC42 exchange factor isoform 1	338					regulation of Rho protein signal transduction	cytosol|plasma membrane|sarcomere	Rho guanyl-nucleotide exchange factor activity				0	Melanoma(17;0.122)																	---	---	---	---
OS9	10956	broad.mit.edu	37	12	58090083	58090083	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:58090083G>A	uc001spj.2	+	5	565	c.506G>A	c.(505-507)CGC>CAC	p.R169H	OS9_uc010srx.1_Intron|OS9_uc001spk.2_Missense_Mutation_p.R169H|OS9_uc001spl.2_Missense_Mutation_p.R169H|OS9_uc001spm.2_Missense_Mutation_p.R169H|OS9_uc001spn.2_Missense_Mutation_p.R169H|OS9_uc010sry.1_Intron|OS9_uc010srz.1_Missense_Mutation_p.R110H	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	169	PRKCSH.				ER-associated protein catabolic process|protein retention in ER lumen|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to endoplasmic reticulum stress	endoplasmic reticulum lumen|Hrd1p ubiquitin ligase complex	glycoprotein binding|protein binding|sugar binding			ovary(1)	1	all_neural(12;0.00548)|Glioma(12;0.0126)|Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)															---	---	---	---
AGAP2	116986	broad.mit.edu	37	12	58120958	58120958	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:58120958C>T	uc001spq.2	-	18	3135	c.3135G>A	c.(3133-3135)GCG>GCA	p.A1045A	AGAP2_uc001spo.1_5'Flank|AGAP2_uc001spp.2_Silent_p.A1044A|AGAP2_uc001spr.2_Silent_p.A689A|LOC100130776_uc001sps.3_Silent_p.G61G	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	1045	Arf-GAP.				axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5																OREG0021951	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
AVIL	10677	broad.mit.edu	37	12	58197057	58197057	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:58197057G>A	uc001sqj.1	-	15	1964	c.1935C>T	c.(1933-1935)GAC>GAT	p.D645D	AVIL_uc009zqe.1_Silent_p.D638D|AVIL_uc001sqk.1_Silent_p.D223D	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	645	Gelsolin-like 6.|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)															OREG0021955	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
CTDSP2	10106	broad.mit.edu	37	12	58223300	58223300	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:58223300C>T	uc001sqm.2	-	2	673	c.144G>A	c.(142-144)CAG>CAA	p.Q48Q	CTDSP2_uc009zqf.2_5'UTR|CTDSP2_uc009zqg.2_Intron	NM_005730	NP_005721	O14595	CTDS2_HUMAN	nuclear LIM interactor-interacting factor 2	48					protein dephosphorylation	nucleus|soluble fraction	CTD phosphatase activity|metal ion binding			central_nervous_system(1)	1	all_neural(12;0.00559)|Glioma(12;0.0143)|Melanoma(17;0.122)																	---	---	---	---
SLC16A7	9194	broad.mit.edu	37	12	60168512	60168512	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:60168512G>A	uc001sqs.2	+	5	735	c.436G>A	c.(436-438)GCA>ACA	p.A146T	SLC16A7_uc001sqt.2_Missense_Mutation_p.A146T|SLC16A7_uc001squ.2_Missense_Mutation_p.A146T|SLC16A7_uc009zqi.2_Missense_Mutation_p.A47T|SLC16A7_uc010ssi.1_Missense_Mutation_p.A47T	NM_004731	NP_004722	O60669	MOT2_HUMAN	solute carrier family 16, member 7	146	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	pyruvate secondary active transmembrane transporter activity|secondary active monocarboxylate transmembrane transporter activity|symporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(3;0.0303)	Pyruvic acid(DB00119)													---	---	---	---
PPM1H	57460	broad.mit.edu	37	12	63182064	63182064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:63182064C>T	uc001srk.3	-	4	960	c.811G>A	c.(811-813)GCC>ACC	p.A271T		NM_020700	NP_065751	Q9ULR3	PPM1H_HUMAN	protein phosphatase 1H (PP2C domain containing)	271	PP2C-like.						phosphoprotein phosphatase activity			lung(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;0.000443)|BRCA - Breast invasive adenocarcinoma(9;0.209)	GBM - Glioblastoma multiforme(28;0.0126)														---	---	---	---
AVPR1A	552	broad.mit.edu	37	12	63543935	63543935	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:63543935G>A	uc001sro.1	-	1	2656	c.682C>T	c.(682-684)CCC>TCC	p.P228S		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	228	Helical; Name=5; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)													---	---	---	---
AVPR1A	552	broad.mit.edu	37	12	63544099	63544099	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:63544099G>A	uc001sro.1	-	1	2492	c.518C>T	c.(517-519)GCC>GTC	p.A173V		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	173	Helical; Name=4; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)													---	---	---	---
SRGAP1	57522	broad.mit.edu	37	12	64377886	64377886	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64377886C>T	uc010ssp.1	+	2	283	c.227C>T	c.(226-228)GCA>GTA	p.A76V	SRGAP1_uc001srt.2_Missense_Mutation_p.A76V|SRGAP1_uc001srv.2_Missense_Mutation_p.A36V	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	76	FCH.				axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)														---	---	---	---
SRGAP1	57522	broad.mit.edu	37	12	64472905	64472905	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64472905G>A	uc010ssp.1	+						SRGAP1_uc001srt.2_Intron|SRGAP1_uc001srv.2_Intron	NM_020762	NP_065813			SLIT-ROBO Rho GTPase activating protein 1						axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)														---	---	---	---
SRGAP1	57522	broad.mit.edu	37	12	64505708	64505708	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64505708G>T	uc010ssp.1	+	17	2142	c.2086G>T	c.(2086-2088)GAT>TAT	p.D696Y	SRGAP1_uc001srv.2_Missense_Mutation_p.D633Y	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	696					axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)														---	---	---	---
XPOT	11260	broad.mit.edu	37	12	64812728	64812728	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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)														---	---	---	---
HELB	92797	broad.mit.edu	37	12	66703905	66703905	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:66703905T>C	uc001sti.2	+	4	1225	c.1197T>C	c.(1195-1197)GAT>GAC	p.D399D	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	399					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)														---	---	---	---
CAND1	55832	broad.mit.edu	37	12	67699777	67699777	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:67699777C>T	uc001stn.2	+	10	2766	c.2329C>T	c.(2329-2331)CGC>TGC	p.R777C	CAND1_uc001sto.2_Missense_Mutation_p.R287C	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	777	HEAT 18.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)														---	---	---	---
IFNG	3458	broad.mit.edu	37	12	68551823	68551823	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:68551823A>G	uc001stw.1	-	3	362	c.236T>C	c.(235-237)CTT>CCT	p.L79P		NM_000619	NP_000610	P01579	IFNG_HUMAN	interferon, gamma precursor	79					cell cycle arrest|interferon-gamma-mediated signaling pathway|negative regulation of interleukin-17 production|negative regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of metanephric nephron tubule epithelial cell differentiation|negative regulation of smooth muscle cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of calcidiol 1-monooxygenase activity|positive regulation of fructose 1,6-bisphosphate 1-phosphatase activity|positive regulation of fructose 1,6-bisphosphate metabolic process|positive regulation of interleukin-12 production|positive regulation of interleukin-23 production|positive regulation of killing of cells of other organism|positive regulation of membrane protein ectodomain proteolysis|positive regulation of mesenchymal cell proliferation|positive regulation of nitric oxide biosynthetic process|positive regulation of osteoclast differentiation|positive regulation of peptidyl-serine phosphorylation of STAT protein|positive regulation of smooth muscle cell apoptosis|positive regulation of tumor necrosis factor (ligand) superfamily member 11 production|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of vitamin D biosynthetic process|protein import into nucleus, translocation|regulation of insulin secretion|regulation of interferon-gamma-mediated signaling pathway|response to virus	extracellular space	cytokine activity|interferon-gamma receptor binding				0			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000829)	Glucosamine(DB01296)|Interferon gamma-1b(DB00033)|Simvastatin(DB00641)													---	---	---	---
RAP1B	5908	broad.mit.edu	37	12	69042508	69042508	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:69042508C>T	uc001sub.2	+	2	167	c.4C>T	c.(4-6)CGT>TGT	p.R2C	RAP1B_uc010ste.1_Intron|RAP1B_uc001suc.2_Missense_Mutation_p.R2C|RAP1B_uc010stf.1_Missense_Mutation_p.R2C|RAP1B_uc010stg.1_Missense_Mutation_p.R2C|RAP1B_uc010sth.1_Missense_Mutation_p.R2C|RAP1B_uc010sti.1_Missense_Mutation_p.R2C	NM_001089704	NP_001083173	P61224	RAP1B_HUMAN	SubName: Full=Ras-related protein Rap-1A; SubName: Full=cDNA FLJ75985, highly similar to Homo sapiens RAP1A, member of RAS oncogene family (RAP1A), transcript variant 2, mRNA; SubName: Full=RAP1A, member of RAS oncogene family;	2					blood coagulation|energy reserve metabolic process|regulation of establishment of cell polarity|regulation of insulin secretion	cell-cell junction|cytosol	GDP binding|GTP binding|GTPase activity|protein binding				0	Breast(13;1.24e-05)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)	GBM - Glioblastoma multiforme(7;0.000306)														---	---	---	---
CPSF6	11052	broad.mit.edu	37	12	69651601	69651601	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:69651601C>T	uc001sut.3	+	5	720	c.610C>T	c.(610-612)CGG>TGG	p.R204W	CPSF6_uc001suu.3_Missense_Mutation_p.R204W|CPSF6_uc010stk.1_5'Flank	NM_007007	NP_008938	Q16630	CPSF6_HUMAN	cleavage and polyadenylation specific factor 6,	204					mRNA polyadenylation|protein tetramerization	mRNA cleavage factor complex|paraspeckles|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding				0	all_epithelial(5;2.47e-36)|Lung NSC(4;1.1e-32)|all_lung(4;6.26e-31)|Breast(13;1.59e-06)|Esophageal squamous(21;0.187)		Epithelial(6;4.89e-17)|BRCA - Breast invasive adenocarcinoma(5;8.5e-10)|Lung(24;6.04e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|LUSC - Lung squamous cell carcinoma(43;0.171)|Kidney(9;0.241)															---	---	---	---
BEST3	144453	broad.mit.edu	37	12	70087555	70087555	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:70087555G>A	uc001svg.2	-	4	607	c.380C>T	c.(379-381)ACG>ATG	p.T127M	BEST3_uc001svd.1_Missense_Mutation_p.T127M|BEST3_uc001sve.1_RNA|BEST3_uc010stm.1_Missense_Mutation_p.T21M|BEST3_uc001svh.2_Translation_Start_Site|BEST3_uc001svi.1_RNA	NM_032735	NP_116124	Q8N1M1	BEST3_HUMAN	vitelliform macular dystrophy 2-like 3 isoform	127	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0	Breast(13;2.31e-06)|Esophageal squamous(21;0.187)		Lung(24;0.000278)|OV - Ovarian serous cystadenocarcinoma(12;0.0019)|STAD - Stomach adenocarcinoma(21;0.00694)															---	---	---	---
CNOT2	4848	broad.mit.edu	37	12	70735907	70735907	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:70735907C>T	uc001svv.2	+	12	1778	c.1199C>T	c.(1198-1200)GCG>GTG	p.A400V	CNOT2_uc009zro.2_Missense_Mutation_p.A400V|CNOT2_uc009zrp.2_Missense_Mutation_p.A380V|CNOT2_uc009zrq.2_Missense_Mutation_p.A400V|CNOT2_uc001svw.1_Missense_Mutation_p.A140V	NM_014515	NP_055330	Q9NZN8	CNOT2_HUMAN	CCR4-NOT transcription complex, subunit 2	400					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	protein binding|RNA polymerase II transcription cofactor activity				0	Renal(347;0.236)		GBM - Glioblastoma multiforme(1;4.77e-09)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)															---	---	---	---
PTPRB	5787	broad.mit.edu	37	12	70964877	70964877	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:70964877C>T	uc001swb.3	-	11	2675	c.2645G>A	c.(2644-2646)CGC>CAC	p.R882H	PTPRB_uc010sto.1_Missense_Mutation_p.R882H|PTPRB_uc010stp.1_Missense_Mutation_p.R792H|PTPRB_uc001swc.3_Missense_Mutation_p.R1100H|PTPRB_uc001swa.3_Missense_Mutation_p.R1012H|PTPRB_uc001swd.3_Missense_Mutation_p.R1099H|PTPRB_uc009zrr.1_Missense_Mutation_p.R979H	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	882	Fibronectin type-III 10.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)															---	---	---	---
TSPAN8	7103	broad.mit.edu	37	12	71531970	71531970	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:71531970G>A	uc009zrt.1	-	4	464	c.302C>T	c.(301-303)GCG>GTG	p.A101V	TSPAN8_uc001swk.1_Missense_Mutation_p.A101V|TSPAN8_uc001swj.1_Missense_Mutation_p.A101V	NM_004616	NP_004607	P19075	TSN8_HUMAN	transmembrane 4 superfamily member 3	101	Helical; (Potential).				protein glycosylation	integral to membrane|lysosome	signal transducer activity			skin(2)|lung(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(43;0.24)|OV - Ovarian serous cystadenocarcinoma(12;0.244)															---	---	---	---
TPH2	121278	broad.mit.edu	37	12	72416230	72416230	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72416230C>T	uc009zrw.1	+	9	1261	c.1120C>T	c.(1120-1122)CGG>TGG	p.R374W	TPH2_uc001swy.2_Missense_Mutation_p.R284W	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	374					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)													---	---	---	---
TRHDE	29953	broad.mit.edu	37	12	72863686	72863686	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72863686T>C	uc001sxa.2	+	4	1359	c.1329T>C	c.(1327-1329)TGT>TGC	p.C443C		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	443	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3																		---	---	---	---
CAPS2	84698	broad.mit.edu	37	12	75676076	75676076	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:75676076T>C	uc001sxk.3	-	17	1821	c.1624A>G	c.(1624-1626)ATA>GTA	p.I542V	CAPS2_uc001sxm.3_Missense_Mutation_p.I310V|CAPS2_uc009zsa.2_Missense_Mutation_p.I132V|CAPS2_uc001sxi.3_Missense_Mutation_p.I278V|CAPS2_uc001sxj.3_Missense_Mutation_p.I453V|CAPS2_uc001sxl.3_Missense_Mutation_p.I523V	NM_032606	NP_115995	Q9BXY5	CAYP2_HUMAN	calcyphosine 2	542	EF-hand 3.						calcium ion binding			ovary(2)	2																		---	---	---	---
BBS10	79738	broad.mit.edu	37	12	76740999	76740999	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:76740999G>A	uc001syd.1	-	2	850	c.766C>T	c.(766-768)CGA>TGA	p.R256*		NM_024685	NP_078961	Q8TAM1	BBS10_HUMAN	Bardet-Biedl syndrome 10	256					cellular protein metabolic process|nonmotile primary cilium assembly|photoreceptor cell maintenance|response to stimulus|retina homeostasis	cilium	ATP binding			ovary(1)|skin(1)	2														Bardet-Biedl_syndrome				---	---	---	---
ZDHHC17	23390	broad.mit.edu	37	12	77244672	77244672	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:77244672C>T	uc001syk.1	+	17	1969	c.1806C>T	c.(1804-1806)TGC>TGT	p.C602C		NM_015336	NP_056151	Q8IUH5	ZDH17_HUMAN	huntingtin interacting protein 14	602	Cytoplasmic (Potential).				lipoprotein transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|protein binding|protein-cysteine S-palmitoleyltransferase activity|signal transducer activity|zinc ion binding				0																		---	---	---	---
NAV3	89795	broad.mit.edu	37	12	78444840	78444840	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:78444840A>G	uc001syp.2	+	11	2602	c.2429A>G	c.(2428-2430)GAC>GGC	p.D810G	NAV3_uc001syo.2_Missense_Mutation_p.D810G|NAV3_uc010sub.1_Missense_Mutation_p.D310G	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	810						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17															HNSCC(70;0.22)			---	---	---	---
PPP1R12A	4659	broad.mit.edu	37	12	80211266	80211266	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:80211266C>T	uc001syz.2	-	9	1414	c.1147G>A	c.(1147-1149)GCC>ACC	p.A383T	PPP1R12A_uc010suc.1_Missense_Mutation_p.A296T|PPP1R12A_uc001sza.2_Missense_Mutation_p.A383T|PPP1R12A_uc010sud.1_Missense_Mutation_p.A383T|PPP1R12A_uc001szb.2_Missense_Mutation_p.A383T|PPP1R12A_uc001szc.2_Missense_Mutation_p.A383T	NM_002480	NP_002471	O14974	MYPT1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	383						contractile fiber	protein binding|signal transducer activity			ovary(2)|breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	7																		---	---	---	---
ACSS3	79611	broad.mit.edu	37	12	81610701	81610701	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:81610701C>T	uc001szl.1	+	10	1467	c.1376C>T	c.(1375-1377)GCG>GTG	p.A459V	ACSS3_uc001szm.1_Missense_Mutation_p.A458V|ACSS3_uc001szn.1_Missense_Mutation_p.A141V	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	459						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
C12orf26	84190	broad.mit.edu	37	12	82870436	82870436	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:82870436T>A	uc001szq.2	+	10	1607	c.1586T>A	c.(1585-1587)ATT>AAT	p.I529N		NM_032230	NP_115606	Q8N6Q8	CL026_HUMAN	hypothetical protein LOC84190	529											0																		---	---	---	---
TMTC2	160335	broad.mit.edu	37	12	83358797	83358797	+	Intron	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:83358797A>C	uc001szt.2	+						TMTC2_uc001szr.1_Intron|TMTC2_uc001szs.1_Intron|TMTC2_uc010suk.1_Intron	NM_152588	NP_689801			transmembrane and tetratricopeptide repeat							endoplasmic reticulum|integral to membrane	binding			ovary(2)	2																		---	---	---	---
TMTC3	160418	broad.mit.edu	37	12	88547228	88547228	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:88547228A>G	uc001tau.2	+	3	570	c.350A>G	c.(349-351)AAC>AGC	p.N117S	TMTC3_uc009zsm.2_RNA	NM_181783	NP_861448	Q6ZXV5	TMTC3_HUMAN	transmembrane and tetratricopeptide repeat	117						integral to membrane	binding			skin(1)	1																		---	---	---	---
KITLG	4254	broad.mit.edu	37	12	88910187	88910187	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:88910187A>G	uc001tav.2	-	5	627	c.444T>C	c.(442-444)ATT>ATC	p.I148I	KITLG_uc009zsn.2_Intron|KITLG_uc001taw.2_Silent_p.I148I|KITLG_uc009zso.1_Intron	NM_000899	NP_000890	P21583	SCF_HUMAN	KIT ligand isoform b precursor	148	Extracellular (Potential).				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				---	---	---	---
ATP2B1	490	broad.mit.edu	37	12	89992941	89992941	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:89992941G>A	uc001tbh.2	-	19	3485	c.3304C>T	c.(3304-3306)CGT>TGT	p.R1102C	ATP2B1_uc001tbg.2_Missense_Mutation_p.R1102C|ATP2B1_uc009zsr.2_RNA|ATP2B1_uc001tbf.2_Missense_Mutation_p.R736C	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	1102	Cytoplasmic (Potential).|Calmodulin-binding subdomain A.				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
ATP2B1	490	broad.mit.edu	37	12	90049651	90049651	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:90049651C>T	uc001tbh.2	-	1	194	c.13G>A	c.(13-15)GCA>ACA	p.A5T	ATP2B1_uc001tbg.2_Missense_Mutation_p.A5T	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	5	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
LUM	4060	broad.mit.edu	37	12	91498015	91498015	+	Missense_Mutation	SNP	C	T	T	rs139919924		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:91498015C>T	uc001tbm.2	-	3	1333	c.944G>A	c.(943-945)CGC>CAC	p.R315H	LUM_uc001tbn.2_RNA	NM_002345	NP_002336	P51884	LUM_HUMAN	lumican precursor	315	LRR 11.				collagen fibril organization|visual perception	extracellular space|fibrillar collagen	collagen binding|extracellular matrix structural constituent			central_nervous_system(2)	2																		---	---	---	---
CLLU1OS	574016	broad.mit.edu	37	12	92814871	92814871	+	Missense_Mutation	SNP	G	A	A	rs147336226		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:92814871G>A	uc001tcb.1	-	3	223	c.221C>T	c.(220-222)GCG>GTG	p.A74V	CLLU1_uc001tcc.2_5'Flank|CLLU1_uc001tcd.2_5'Flank|CLLU1_uc001tce.1_5'Flank|CLLU1_uc001tcf.2_5'Flank	NM_001025232	NP_001020403	Q5K130	CLU1O_HUMAN	chronic lymphocytic leukemia up-regulated 1	74											0																		---	---	---	---
C12orf74	338809	broad.mit.edu	37	12	93100872	93100872	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:93100872C>T	uc001tch.1	+	2	695	c.465C>T	c.(463-465)GGC>GGT	p.G155G	C12orf74_uc001tci.2_Silent_p.G155G	NM_001037671	NP_001032760	Q32Q52	CL074_HUMAN	hypothetical protein LOC338809	155											0																		---	---	---	---
EEA1	8411	broad.mit.edu	37	12	93236266	93236266	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:93236266A>C	uc001tck.2	-	10	1155	c.890T>G	c.(889-891)GTT>GGT	p.V297G		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	297	Potential.				early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3																		---	---	---	---
TMCC3	57458	broad.mit.edu	37	12	94972205	94972205	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:94972205C>T	uc001tdj.2	-	3	1214	c.1096G>A	c.(1096-1098)GCC>ACC	p.A366T	TMCC3_uc001tdi.2_Missense_Mutation_p.A335T	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	366	Potential.					integral to membrane				ovary(1)|skin(1)	2																		---	---	---	---
HAL	3034	broad.mit.edu	37	12	96380970	96380970	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:96380970G>A	uc001tem.1	-	12	1223	c.926C>T	c.(925-927)ACG>ATG	p.T309M	HAL_uc009zti.1_RNA|HAL_uc010suw.1_Missense_Mutation_p.T101M|HAL_uc010sux.1_Missense_Mutation_p.T309M	NM_002108	NP_002099	P42357	HUTH_HUMAN	histidine ammonia-lyase	309					biosynthetic process|histidine catabolic process	cytosol	histidine ammonia-lyase activity			ovary(2)|skin(1)	3					L-Histidine(DB00117)													---	---	---	---
LTA4H	4048	broad.mit.edu	37	12	96409440	96409440	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:96409440C>T	uc001ten.1	-	11	1048	c.980G>A	c.(979-981)CGC>CAC	p.R327H	LTA4H_uc010suy.1_Missense_Mutation_p.R289H|LTA4H_uc010suz.1_Missense_Mutation_p.R289H|LTA4H_uc010sva.1_RNA|LTA4H_uc009ztj.2_5'Flank	NM_000895	NP_000886	P09960	LKHA4_HUMAN	leukotriene A4 hydrolase	327					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																OREG0022040	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
ELK3	2004	broad.mit.edu	37	12	96640801	96640801	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:96640801G>A	uc001teo.1	+	3	570	c.291G>A	c.(289-291)GCG>GCA	p.A97A		NM_005230	NP_005221	P41970	ELK3_HUMAN	ELK3 protein	97					negative regulation of transcription, DNA-dependent|signal transduction	mitochondrion	protein binding|purine-rich negative regulatory element binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	all_cancers(2;0.00173)																	---	---	---	---
C12orf63	374467	broad.mit.edu	37	12	97051724	97051724	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:97051724G>A	uc001tet.1	+	4	518	c.440G>A	c.(439-441)GGT>GAT	p.G147D		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	147										skin(6)|ovary(1)	7																		---	---	---	---
UHRF1BP1L	23074	broad.mit.edu	37	12	100482858	100482858	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:100482858C>T	uc001tgq.2	-	8	1085	c.856G>A	c.(856-858)GCA>ACA	p.A286T	UHRF1BP1L_uc001tgr.2_Missense_Mutation_p.A286T|UHRF1BP1L_uc001tgp.2_5'UTR	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	286										ovary(2)	2																		---	---	---	---
GAS2L3	283431	broad.mit.edu	37	12	101018596	101018596	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101018596A>T	uc001thu.2	+	10	2239	c.2013A>T	c.(2011-2013)AAA>AAT	p.K671N	GAS2L3_uc009zty.2_Missense_Mutation_p.K671N|GAS2L3_uc001thv.2_Missense_Mutation_p.K567N	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	671					cell cycle arrest					skin(1)	1																		---	---	---	---
SLC5A8	160728	broad.mit.edu	37	12	101588918	101588918	+	Silent	SNP	G	A	A	rs143104107		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101588918G>A	uc001thz.3	-	4	882	c.492C>T	c.(490-492)GGC>GGT	p.G164G		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	164	Helical; (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0																		---	---	---	---
UTP20	27340	broad.mit.edu	37	12	101720944	101720944	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101720944C>T	uc001tia.1	+	26	3283	c.3127C>T	c.(3127-3129)CGG>TGG	p.R1043W		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	1043					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																		---	---	---	---
C12orf42	374470	broad.mit.edu	37	12	103699756	103699756	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:103699756A>T	uc001tjt.2	-	5	715	c.627T>A	c.(625-627)AAT>AAA	p.N209K	C12orf42_uc001tjs.2_Intron|C12orf42_uc009zuf.1_Missense_Mutation_p.N209K|C12orf42_uc001tju.2_Missense_Mutation_p.N114K	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	209										ovary(1)|central_nervous_system(1)	2																		---	---	---	---
C12orf42	374470	broad.mit.edu	37	12	103872137	103872137	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:103872137T>A	uc001tjt.2	-	2	156	c.68A>T	c.(67-69)AAC>ATC	p.N23I	C12orf42_uc001tjs.2_RNA|C12orf42_uc009zuf.1_Missense_Mutation_p.N23I|C12orf42_uc001tju.2_5'UTR	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	23										ovary(1)|central_nervous_system(1)	2																		---	---	---	---
STAB2	55576	broad.mit.edu	37	12	104136204	104136204	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104136204C>T	uc001tjw.2	+	56	6089	c.5903C>T	c.(5902-5904)GCC>GTC	p.A1968V	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1968	Extracellular (Potential).|Laminin EGF-like 2.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14																		---	---	---	---
STAB2	55576	broad.mit.edu	37	12	104142772	104142772	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104142772C>A	uc001tjw.2	+	59	6462	c.6276C>A	c.(6274-6276)GGC>GGA	p.G2092G	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2092	Extracellular (Potential).|EGF-like 16.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14																		---	---	---	---
HSP90B1	7184	broad.mit.edu	37	12	104335416	104335416	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104335416C>T	uc001tkb.1	+	10	1345	c.1240C>T	c.(1240-1242)CGC>TGC	p.R414C	HSP90B1_uc010swg.1_Missense_Mutation_p.R79C|HSP90B1_uc009zui.1_Intron	NM_003299	NP_003290	P14625	ENPL_HUMAN	heat shock protein 90kDa beta, member 1	414					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	104682747	104682747	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104682747G>T	uc010swk.1	+	4	365	c.343G>T	c.(343-345)GCC>TCC	p.A115S	TXNRD1_uc010swl.1_5'UTR|TXNRD1_uc010swm.1_Missense_Mutation_p.A17S|TXNRD1_uc010swn.1_Intron|TXNRD1_uc010swo.1_Intron|TXNRD1_uc010swp.1_5'UTR|TXNRD1_uc010swq.1_Missense_Mutation_p.A15S|TXNRD1_uc001tku.2_RNA|TXNRD1_uc001tko.1_RNA|TXNRD1_uc001tkp.1_Intron|TXNRD1_uc001tkv.1_5'Flank	NM_001093771	NP_001087240	Q16881	TRXR1_HUMAN	thioredoxin reductase 1 isoform 3	115	Glutaredoxin.				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																		---	---	---	---
ALDH1L2	160428	broad.mit.edu	37	12	105454748	105454748	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:105454748C>T	uc001tlc.2	-						ALDH1L2_uc009zuo.2_Intron|ALDH1L2_uc009zup.2_Intron	NM_001034173	NP_001029345			aldehyde dehydrogenase 1 family, member L2						10-formyltetrahydrofolate catabolic process|biosynthetic process	mitochondrion	acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity|phosphopantetheine binding			skin(1)	1																		---	---	---	---
KIAA1033	23325	broad.mit.edu	37	12	105531765	105531765	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:105531765G>C	uc001tld.2	+	15	1515	c.1428G>C	c.(1426-1428)TTG>TTC	p.L476F	KIAA1033_uc010swr.1_Missense_Mutation_p.L477F|KIAA1033_uc010sws.1_Missense_Mutation_p.L288F	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	476					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2																		---	---	---	---
FICD	11153	broad.mit.edu	37	12	108912521	108912521	+	Missense_Mutation	SNP	C	T	T	rs151147125		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108912521C>T	uc001tmx.1	+	3	792	c.646C>T	c.(646-648)CGC>TGC	p.R216C		NM_007076	NP_009007	Q9BVA6	FICD_HUMAN	Huntingtin interacting protein E	216					negative regulation of Rho GTPase activity	integral to membrane	binding|protein adenylyltransferase activity				0																		---	---	---	---
FICD	11153	broad.mit.edu	37	12	108913112	108913112	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108913112C>T	uc001tmx.1	+	3	1383	c.1237C>T	c.(1237-1239)CCT>TCT	p.P413S		NM_007076	NP_009007	Q9BVA6	FICD_HUMAN	Huntingtin interacting protein E	413	Fido.				negative regulation of Rho GTPase activity	integral to membrane	binding|protein adenylyltransferase activity				0																		---	---	---	---
SELPLG	6404	broad.mit.edu	37	12	109017688	109017688	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109017688C>A	uc001tni.2	-	2	556	c.396G>T	c.(394-396)CAG>CAT	p.Q132H	SELPLG_uc001tnh.2_Intron|SELPLG_uc010sxe.1_Missense_Mutation_p.Q148H	NM_003006	NP_002997	Q14242	SELPL_HUMAN	selectin P ligand	132	2.|Extracellular (Potential).|12 X 10 AA tandem repeats.				blood coagulation|cellular response to interleukin-6	integral to plasma membrane|membrane fraction	bacterial cell surface binding|receptor binding				0																		---	---	---	---
SELPLG	6404	broad.mit.edu	37	12	109017769	109017769	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109017769C>A	uc001tni.2	-	2	475	c.315G>T	c.(313-315)GAG>GAT	p.E105D	SELPLG_uc001tnh.2_Missense_Mutation_p.E105D|SELPLG_uc010sxe.1_Missense_Mutation_p.E121D	NM_003006	NP_002997	Q14242	SELPL_HUMAN	selectin P ligand	105	Extracellular (Potential).				blood coagulation|cellular response to interleukin-6	integral to plasma membrane|membrane fraction	bacterial cell surface binding|receptor binding				0																		---	---	---	---
UNG	7374	broad.mit.edu	37	12	109536423	109536423	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109536423G>T	uc001tnz.1	+	2	389	c.319G>T	c.(319-321)GGG>TGG	p.G107W	UNG_uc001toa.1_Missense_Mutation_p.G98W	NM_080911	NP_550433	P13051	UNG_HUMAN	uracil-DNA glycosylase isoform UNG2	107					base-excision repair|interspecies interaction between organisms	mitochondrion|nucleus	protein binding|uracil DNA N-glycosylase activity			lung(1)|central_nervous_system(1)	2													BER_DNA_glycosylases	Immune_Deficiency_with_Hyper-IgM				---	---	---	---
ACACB	32	broad.mit.edu	37	12	109577464	109577464	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109577464C>T	uc001tob.2	+	2	373	c.254C>T	c.(253-255)GCC>GTC	p.A85V	ACACB_uc001toc.2_Missense_Mutation_p.A85V	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	85					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)													---	---	---	---
ACACB	32	broad.mit.edu	37	12	109639432	109639432	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109639432C>T	uc001tob.2	+	19	2958	c.2839C>T	c.(2839-2841)CGT>TGT	p.R947C	ACACB_uc001toc.2_Missense_Mutation_p.R947C	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	947	Biotinyl-binding.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)													---	---	---	---
ACACB	32	broad.mit.edu	37	12	109687849	109687849	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109687849C>T	uc001tob.2	+	41	5849	c.5730C>T	c.(5728-5730)GGC>GGT	p.G1910G	ACACB_uc001toc.2_Silent_p.G1910G|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Silent_p.G576G	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1910	Carboxyltransferase.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)													---	---	---	---
KCTD10	83892	broad.mit.edu	37	12	109898545	109898545	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109898545C>T	uc001toi.1	-	3	371	c.283G>A	c.(283-285)GCG>ACG	p.A95T	KCTD10_uc001toh.1_5'Flank|KCTD10_uc009zvi.1_Missense_Mutation_p.A92T|KCTD10_uc001toj.1_Missense_Mutation_p.A103T|KCTD10_uc001tok.1_Intron	NM_031954	NP_114160	Q9H3F6	BACD3_HUMAN	potassium channel tetramerisation domain	95	BTB.				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|nucleus|voltage-gated potassium channel complex	voltage-gated potassium channel activity				0																		---	---	---	---
UBE3B	89910	broad.mit.edu	37	12	109962256	109962256	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109962256A>G	uc001top.2	+	23	3119	c.2516A>G	c.(2515-2517)GAC>GGC	p.D839G	UBE3B_uc001toq.2_Missense_Mutation_p.D839G|UBE3B_uc001tos.2_Missense_Mutation_p.D266G|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Missense_Mutation_p.D839G	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	839	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4																		---	---	---	---
MVK	4598	broad.mit.edu	37	12	110019211	110019211	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110019211G>A	uc001toy.3	+	5	567	c.383G>A	c.(382-384)AGC>AAC	p.S128N	MVK_uc009zvk.2_Missense_Mutation_p.S128N|MVK_uc010sxr.1_Intron|MVK_uc001toz.3_Intron|MVK_uc001tpc.3_RNA	NM_001114185	NP_001107657	Q03426	KIME_HUMAN	mevalonate kinase	128					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|peroxisome	ATP binding|identical protein binding|mevalonate kinase activity				0																		---	---	---	---
TRPV4	59341	broad.mit.edu	37	12	110240894	110240894	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110240894C>T	uc001tpj.1	-	3	709	c.614G>A	c.(613-615)GGC>GAC	p.G205D	TRPV4_uc001tpg.1_Missense_Mutation_p.G171D|TRPV4_uc001tph.1_Missense_Mutation_p.G205D|TRPV4_uc001tpi.1_Missense_Mutation_p.G205D|TRPV4_uc001tpk.1_Missense_Mutation_p.G205D|TRPV4_uc001tpl.1_Missense_Mutation_p.G205D	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	205	Cytoplasmic (Potential).				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4																		---	---	---	---
TCHP	84260	broad.mit.edu	37	12	110350854	110350854	+	Missense_Mutation	SNP	G	A	A	rs147052884	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110350854G>A	uc001tpn.2	+	10	1264	c.1111G>A	c.(1111-1113)GCA>ACA	p.A371T	TCHP_uc001tpo.1_RNA|TCHP_uc001tpp.2_Missense_Mutation_p.A371T	NM_001143852	NP_001137324	Q9BT92	TCHP_HUMAN	trichoplein	371	Trichohyalin/plectin homology domain.|Glu-rich.|Interaction with keratin proteins.				apoptosis|negative regulation of cell growth	apical cortex|centrosome|keratin filament|mitochondrion|plasma membrane	protein binding			skin(1)	1																		---	---	---	---
GPN3	51184	broad.mit.edu	37	12	110906005	110906005	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110906005G>A	uc001tqr.2	-	1	60	c.4C>T	c.(4-6)CCT>TCT	p.P2S	GPN3_uc001tqs.2_Missense_Mutation_p.P2S|C12orf24_uc010sxz.1_5'Flank|C12orf24_uc009zvo.2_5'Flank|C12orf24_uc001tqt.2_5'Flank|C12orf24_uc001tqu.3_5'Flank|C12orf24_uc001tqv.3_5'Flank	NM_016301	NP_057385	Q9UHW5	GPN3_HUMAN	GPN-loop GTPase 3 isoform 1	2						protein complex	GTP binding				0																		---	---	---	---
PPP1CC	5501	broad.mit.edu	37	12	111169698	111169698	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111169698A>G	uc001tru.2	-	2	309	c.64T>C	c.(64-66)TCC>CCC	p.S22P		NM_002710	NP_002701	P36873	PP1G_HUMAN	protein phosphatase 1, catalytic subunit, gamma	22					cell division|glycogen metabolic process|mitotic prometaphase|triglyceride catabolic process	cleavage furrow|condensed chromosome kinetochore|cytosol|midbody|MLL5-L complex|nuclear speck|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|protein binding|protein kinase binding|protein serine/threonine phosphatase activity			lung(2)|central_nervous_system(1)	3																		---	---	---	---
ATXN2	6311	broad.mit.edu	37	12	111895132	111895132	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111895132C>T	uc001tsj.2	-	22	3564	c.3402G>A	c.(3400-3402)GCG>GCA	p.A1134A	ATXN2_uc001tsh.2_Silent_p.A869A|ATXN2_uc001tsi.2_Silent_p.A827A|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsg.2_Silent_p.A322A|ATXN2_uc001tsl.1_Silent_p.A135A	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	1134					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2																		---	---	---	---
NAA25	80018	broad.mit.edu	37	12	112513574	112513574	+	Silent	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112513574A>T	uc001ttm.2	-	8	704	c.684T>A	c.(682-684)ATT>ATA	p.I228I	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Silent_p.I200I|NAA25_uc009zwa.1_Silent_p.I228I	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	228						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3																		---	---	---	---
TRAFD1	10906	broad.mit.edu	37	12	112589844	112589844	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112589844G>A	uc001ttp.2	+	10	1605	c.1519G>A	c.(1519-1521)GCC>ACC	p.A507T	TRAFD1_uc001tto.2_Missense_Mutation_p.A507T	NM_006700	NP_006691	O14545	TRAD1_HUMAN	TRAF-type zinc finger domain containing 1	507					negative regulation of innate immune response	intracellular	protein binding|zinc ion binding				0																		---	---	---	---
C12orf51	283450	broad.mit.edu	37	12	112605114	112605114	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112605114C>T	uc009zwc.2	-							NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2																		---	---	---	---
C12orf51	283450	broad.mit.edu	37	12	112632704	112632704	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112632704C>T	uc009zwc.2	-	49	7486	c.7468G>A	c.(7468-7470)GCA>ACA	p.A2490T		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2																		---	---	---	---
C12orf51	283450	broad.mit.edu	37	12	112657288	112657288	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112657288G>A	uc009zwc.2	-	38	5728	c.5710C>T	c.(5710-5712)CGA>TGA	p.R1904*	C12orf51_uc001ttr.1_Nonsense_Mutation_p.R79*	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2																		---	---	---	---
C12orf51	283450	broad.mit.edu	37	12	112721041	112721041	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112721041G>A	uc009zwc.2	-	2	237	c.219C>T	c.(217-219)GGC>GGT	p.G73G		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2																		---	---	---	---
DTX1	1840	broad.mit.edu	37	12	113515327	113515327	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113515327G>T	uc001tuk.1	+	2	694	c.358G>T	c.(358-360)GCC>TCC	p.A120S		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	120	WWE 2.				negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4																		---	---	---	---
RASAL1	8437	broad.mit.edu	37	12	113545988	113545988	+	Nonsense_Mutation	SNP	G	A	A	rs145374624		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113545988G>A	uc001tum.1	-	15	1707	c.1414C>T	c.(1414-1416)CGA>TGA	p.R472*	RASAL1_uc010syp.1_Nonsense_Mutation_p.R472*|RASAL1_uc001tul.2_Nonsense_Mutation_p.R472*|RASAL1_uc001tun.1_Nonsense_Mutation_p.R473*|RASAL1_uc010syq.1_Nonsense_Mutation_p.R472*|RASAL1_uc001tuo.3_Nonsense_Mutation_p.R472*|RASAL1_uc010syr.1_Nonsense_Mutation_p.R472*	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	472	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4																		---	---	---	---
DDX54	79039	broad.mit.edu	37	12	113612541	113612541	+	Silent	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113612541A>T	uc001tup.2	-	10	1000	c.972T>A	c.(970-972)GCT>GCA	p.A324A	DDX54_uc001tuq.3_Silent_p.A324A	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	324					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3																OREG0022139	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
PLBD2	196463	broad.mit.edu	37	12	113822727	113822727	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113822727T>C	uc001tve.2	+	8	1225	c.1190T>C	c.(1189-1191)GTG>GCG	p.V397A	PLBD2_uc001tvf.2_Intron	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	397					lipid catabolic process	lysosomal lumen	hydrolase activity				0																		---	---	---	---
SDS	10993	broad.mit.edu	37	12	113830802	113830802	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113830802C>T	uc001tvg.2	-	8	1053	c.931G>A	c.(931-933)GCC>ACC	p.A311T		NM_006843	NP_006834	P20132	SDHL_HUMAN	serine dehydratase	311					gluconeogenesis|L-serine catabolic process|pyruvate biosynthetic process	cytoplasm	L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|protein homodimerization activity|pyridoxal phosphate binding			pancreas(1)	1					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)													---	---	---	---
FBXO21	23014	broad.mit.edu	37	12	117604880	117604880	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117604880G>A	uc001twk.2	-	8	1055	c.1016C>T	c.(1015-1017)GCG>GTG	p.A339V	FBXO21_uc001twj.2_Missense_Mutation_p.A339V|FBXO21_uc009zwq.2_Intron|FBXO21_uc001twl.1_5'UTR	NM_033624	NP_296373	O94952	FBX21_HUMAN	F-box only protein 21 isoform 1	339					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			kidney(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)														---	---	---	---
NOS1	4842	broad.mit.edu	37	12	117672544	117672544	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117672544G>A	uc001twm.1	-	21	3747	c.3061C>T	c.(3061-3063)CGT>TGT	p.R1021C		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1021	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)													---	---	---	---
NOS1	4842	broad.mit.edu	37	12	117705930	117705930	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117705930T>C	uc001twm.1	-	11	2545	c.1859A>G	c.(1858-1860)AAC>AGC	p.N620S		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	620					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)													---	---	---	---
NOS1	4842	broad.mit.edu	37	12	117768289	117768289	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117768289G>T	uc001twm.1	-	2	1272	c.586C>A	c.(586-588)CTC>ATC	p.L196I		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	196	Interaction with NOSIP (By similarity).|PIN (nNOS-inhibiting protein) binding.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)													---	---	---	---
KSR2	283455	broad.mit.edu	37	12	118105353	118105353	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118105353C>T	uc001two.2	-	5	1065	c.1010G>A	c.(1009-1011)CGC>CAC	p.R337H		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	366					intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)																	---	---	---	---
KSR2	283455	broad.mit.edu	37	12	118199014	118199014	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118199014C>T	uc001two.2	-	4	756	c.701G>A	c.(700-702)CGC>CAC	p.R234H		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	263	Pro-rich.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)																	---	---	---	---
VSIG10	54621	broad.mit.edu	37	12	118506296	118506296	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118506296G>A	uc001tws.2	-	8	1787	c.1453C>T	c.(1453-1455)CGT>TGT	p.R485C		NM_019086	NP_061959	Q8N0Z9	VSI10_HUMAN	V-set and immunoglobulin domain containing 10	485	Cytoplasmic (Potential).|Glu-rich.					integral to membrane					0																		---	---	---	---
VSIG10	54621	broad.mit.edu	37	12	118517172	118517172	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118517172C>T	uc001tws.2	-	4	1238	c.904G>A	c.(904-906)GCC>ACC	p.A302T		NM_019086	NP_061959	Q8N0Z9	VSI10_HUMAN	V-set and immunoglobulin domain containing 10	302	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane					0																		---	---	---	---
TAOK3	51347	broad.mit.edu	37	12	118627718	118627718	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118627718C>T	uc001twx.2	-	14	1518	c.1223G>A	c.(1222-1224)GGC>GAC	p.G408D	TAOK3_uc001twv.2_5'UTR|TAOK3_uc001tww.2_Missense_Mutation_p.G238D|TAOK3_uc001twy.3_Missense_Mutation_p.G408D	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	408					MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)																	---	---	---	---
SUDS3	64426	broad.mit.edu	37	12	118828947	118828947	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118828947G>A	uc001twz.2	+	6	516	c.377G>A	c.(376-378)CGA>CAA	p.R126Q		NM_022491	NP_071936	Q9H7L9	SDS3_HUMAN	suppressor of defective silencing 3	126	Potential.				chromatin modification|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	Sin3 complex	histone deacetylase binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)																	---	---	---	---
SRRM4	84530	broad.mit.edu	37	12	119583293	119583293	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:119583293G>A	uc001txa.1	+	9	1171	c.879G>A	c.(877-879)TCG>TCA	p.S293S		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	293	Ser-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2																		---	---	---	---
SRRM4	84530	broad.mit.edu	37	12	119588980	119588980	+	Missense_Mutation	SNP	C	A	A	rs56390632		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:119588980C>A	uc001txa.1	+	10	1527	c.1235C>A	c.(1234-1236)GCT>GAT	p.A412D		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	412	Ser-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2																		---	---	---	---
CIT	11113	broad.mit.edu	37	12	120142248	120142248	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120142248G>A	uc001txi.1	-	40	5151	c.5098C>T	c.(5098-5100)CTC>TTC	p.L1700F	CIT_uc001txh.1_Missense_Mutation_p.L1219F|CIT_uc001txj.1_Missense_Mutation_p.L1742F	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1700	CNH.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)														---	---	---	---
ACADS	35	broad.mit.edu	37	12	121175675	121175675	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121175675G>A	uc001tza.3	+	5	626	c.508G>A	c.(508-510)GCC>ACC	p.A170T	ACADS_uc010szl.1_Intron|ACADS_uc001tzb.3_Missense_Mutation_p.A97T	NM_000017	NP_000008	P16219	ACADS_HUMAN	short-chain acyl-CoA dehydrogenase precursor	170						mitochondrial matrix	butyryl-CoA dehydrogenase activity			central_nervous_system(2)	2	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)	Lung NSC(355;0.163)			NADH(DB00157)													---	---	---	---
ACADS	35	broad.mit.edu	37	12	121177116	121177116	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121177116C>T	uc001tza.3	+	10	1222	c.1104C>T	c.(1102-1104)GGC>GGT	p.G368G	ACADS_uc001tzb.3_Silent_p.G249G	NM_000017	NP_000008	P16219	ACADS_HUMAN	short-chain acyl-CoA dehydrogenase precursor	368	FAD; shared with dimeric partner.					mitochondrial matrix	butyryl-CoA dehydrogenase activity			central_nervous_system(2)	2	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)	Lung NSC(355;0.163)			NADH(DB00157)													---	---	---	---
SPPL3	121665	broad.mit.edu	37	12	121205248	121205248	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121205248G>A	uc001tzd.2	-	9	1403	c.922C>T	c.(922-924)CGC>TGC	p.R308C	SPPL3_uc009zwz.2_Missense_Mutation_p.R301C|SPPL3_uc001tzc.2_Missense_Mutation_p.R138C	NM_139015	NP_620584	Q8TCT6	PSL4_HUMAN	signal peptide peptidase 3	309						integral to membrane	aspartic-type endopeptidase activity				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)																	---	---	---	---
WDR66	144406	broad.mit.edu	37	12	122359496	122359496	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122359496A>C	uc009zxk.2	+	2	427	c.285A>C	c.(283-285)GAA>GAC	p.E95D		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	95	Glu-rich.						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)														---	---	---	---
WDR66	144406	broad.mit.edu	37	12	122372182	122372182	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122372182C>T	uc009zxk.2	+	5	1060	c.918C>T	c.(916-918)TGC>TGT	p.C306C		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	306	WD 1.						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)														---	---	---	---
WDR66	144406	broad.mit.edu	37	12	122396992	122396992	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122396992G>A	uc009zxk.2	+	13	2267	c.2125G>A	c.(2125-2127)GCA>ACA	p.A709T		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	709	WD 8.						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)														---	---	---	---
B3GNT4	79369	broad.mit.edu	37	12	122691165	122691165	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122691165G>A	uc001ubx.2	+	3	585	c.367G>A	c.(367-369)GCC>ACC	p.A123T	B3GNT4_uc001uby.2_Missense_Mutation_p.A98T	NM_030765	NP_110392	Q9C0J1	B3GN4_HUMAN	UDP-GlcNAc:betaGal	123	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000297)|Epithelial(86;0.000497)|BRCA - Breast invasive adenocarcinoma(302;0.222)														---	---	---	---
VPS33A	65082	broad.mit.edu	37	12	122716928	122716928	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122716928G>A	uc001ucd.2	-	13	1769	c.1656C>T	c.(1654-1656)GGC>GGT	p.G552G	VPS33A_uc001ucc.2_RNA	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A	552					lysosome localization|melanosome localization|platelet formation|protein transport|regulation of developmental pigmentation|vesicle docking involved in exocytosis	early endosome|late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			skin(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000336)|Epithelial(86;0.000606)|BRCA - Breast invasive adenocarcinoma(302;0.23)														---	---	---	---
GPR81	27198	broad.mit.edu	37	12	123214781	123214781	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123214781C>T	uc001ucz.2	-	1	349	c.106G>A	c.(106-108)GCC>ACC	p.A36T	GPR81_uc001ucw.1_RNA	NM_032554	NP_115943	Q9BXC0	HCAR1_HUMAN	G protein-coupled receptor 81	36	Helical; Name=1; (Potential).				response to estradiol stimulus	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.14e-05)|Epithelial(86;3.25e-05)|BRCA - Breast invasive adenocarcinoma(302;0.197)														---	---	---	---
CCDC62	84660	broad.mit.edu	37	12	123273396	123273396	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123273396C>T	uc001udc.2	+	5	735	c.590C>T	c.(589-591)GCG>GTG	p.A197V	CCDC62_uc010tah.1_RNA|CCDC62_uc001udf.2_Missense_Mutation_p.A197V|CCDC62_uc001ude.2_Intron	NM_201435	NP_958843	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62 isoform b	197						cytoplasm|nucleus				ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)														---	---	---	---
MPHOSPH9	10198	broad.mit.edu	37	12	123648504	123648504	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123648504A>G	uc001uel.2	-	15	2552	c.2445T>C	c.(2443-2445)AGT>AGC	p.S815S	MPHOSPH9_uc010tal.1_Silent_p.S269S|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Silent_p.S269S	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	815					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)														---	---	---	---
MPHOSPH9	10198	broad.mit.edu	37	12	123687564	123687564	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123687564C>T	uc001uel.2	-	6	1039	c.932G>A	c.(931-933)GGC>GAC	p.G311D	MPHOSPH9_uc010tal.1_Intron|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Intron	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	311					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)														---	---	---	---
GTF2H3	2967	broad.mit.edu	37	12	124144112	124144112	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124144112C>A	uc001ufo.1	+	10	691	c.665C>A	c.(664-666)TCT>TAT	p.S222Y	GTF2H3_uc010tau.1_Missense_Mutation_p.S181Y	NM_001516	NP_001507	Q13889	TF2H3_HUMAN	general transcription factor IIH, polypeptide 3,	222					mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	core TFIIH complex|holo TFIIH complex	damaged DNA binding|metal ion binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|translation factor activity, nucleic acid binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.1e-05)|Epithelial(86;0.000388)|all cancers(50;0.00362)									NER					---	---	---	---
DNAH10	196385	broad.mit.edu	37	12	124270301	124270301	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124270301G>A	uc001uft.3	+	9	1081	c.1056G>A	c.(1054-1056)ACG>ACA	p.T352T		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	352	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)														---	---	---	---
DNAH10	196385	broad.mit.edu	37	12	124337847	124337847	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124337847C>T	uc001uft.3	+	35	6057	c.6032C>T	c.(6031-6033)TCG>TTG	p.S2011L		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2011	AAA 1 (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)														---	---	---	---
CCDC92	80212	broad.mit.edu	37	12	124422003	124422003	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124422003C>T	uc001ufw.1	-	5	745	c.598G>A	c.(598-600)GAA>AAA	p.E200K	CCDC92_uc001ufv.1_Missense_Mutation_p.E183K|CCDC92_uc001ufx.1_Missense_Mutation_p.E200K|CCDC92_uc001ufy.1_Missense_Mutation_p.E183K	NM_025140	NP_079416	Q53HC0	CCD92_HUMAN	coiled-coil domain containing 92	200											0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;0.0002)|OV - Ovarian serous cystadenocarcinoma(86;0.000222)|all cancers(50;0.00129)|BRCA - Breast invasive adenocarcinoma(302;0.242)														---	---	---	---
FAM101A	144347	broad.mit.edu	37	12	124798908	124798908	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124798908G>A	uc001ugd.1	+	3	488	c.245G>A	c.(244-246)CGC>CAC	p.R82H	FAM101A_uc001uge.1_Missense_Mutation_p.R82H	NM_181709	NP_859060	Q6ZTI6	F101A_HUMAN	hypothetical protein LOC144347	163											0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;2.38e-05)|OV - Ovarian serous cystadenocarcinoma(86;6.95e-05)|all cancers(50;0.000361)|BRCA - Breast invasive adenocarcinoma(302;0.059)														---	---	---	---
NCOR2	9612	broad.mit.edu	37	12	124824566	124824566	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124824566C>T	uc010tay.1	-	39	5859	c.5703G>A	c.(5701-5703)ACG>ACA	p.T1901T	NCOR2_uc010taz.1_Silent_p.T1885T|NCOR2_uc010tax.1_Silent_p.T12T	NM_006312	NP_006303	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 1	1902				T -> K (in Ref. 2; AAD20946, 3; AAD22973, 4; AAX77219 and 8; AAC50236).	cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)														---	---	---	---
NCOR2	9612	broad.mit.edu	37	12	124857100	124857100	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124857100C>T	uc010tba.1	-	20	2392	c.2275G>A	c.(2275-2277)GCC>ACC	p.A759T	NCOR2_uc010tay.1_Missense_Mutation_p.A759T|NCOR2_uc010taz.1_Missense_Mutation_p.A742T|NCOR2_uc010tbb.1_Missense_Mutation_p.A759T|NCOR2_uc010tbc.1_Missense_Mutation_p.A741T|NCOR2_uc001ugj.1_Missense_Mutation_p.A759T	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	759					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)														---	---	---	---
DHX37	57647	broad.mit.edu	37	12	125448952	125448952	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:125448952C>T	uc001ugy.2	-	15	2132	c.2033G>A	c.(2032-2034)GGC>GAC	p.G678D		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	678	Helicase C-terminal.						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)														---	---	---	---
TMEM132B	114795	broad.mit.edu	37	12	125900205	125900205	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:125900205G>A	uc001uhe.1	+	3	1081	c.1073G>A	c.(1072-1074)CGC>CAC	p.R358H		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	358	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)														---	---	---	---
TMEM132B	114795	broad.mit.edu	37	12	126138478	126138478	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:126138478G>A	uc001uhe.1	+	9	2467	c.2459G>A	c.(2458-2460)CGC>CAC	p.R820H	TMEM132B_uc001uhf.1_Missense_Mutation_p.R332H	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	820	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)														---	---	---	---
FZD10	11211	broad.mit.edu	37	12	130647640	130647640	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:130647640T>C	uc001uii.2	+	1	609	c.153T>C	c.(151-153)CGT>CGC	p.R51R	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	51	FZ.|Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)														---	---	---	---
PIWIL1	9271	broad.mit.edu	37	12	130842068	130842068	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:130842068A>G	uc001uik.2	+	14	1725	c.1635A>G	c.(1633-1635)TTA>TTG	p.L545L	PIWIL1_uc001uij.1_Silent_p.L545L	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	545	RNA-binding (By similarity).				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)														---	---	---	---
RIMBP2	23504	broad.mit.edu	37	12	130919323	130919323	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:130919323C>T	uc001uil.2	-	11	2322	c.2158G>A	c.(2158-2160)GCC>ACC	p.A720T	RIMBP2_uc001uim.2_Missense_Mutation_p.A628T|RIMBP2_uc001uin.1_Missense_Mutation_p.A379T	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	720						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)														---	---	---	---
SFRS8	6433	broad.mit.edu	37	12	132237801	132237801	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132237801C>T	uc001uja.1	+	8	1355	c.1215C>T	c.(1213-1215)TCC>TCT	p.S405S	SFRS8_uc010tbn.1_Silent_p.S405S|SFRS8_uc001ujb.1_Silent_p.S198S|SFRS8_uc001uiz.1_Silent_p.S279S	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	405					mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)														---	---	---	---
SFRS8	6433	broad.mit.edu	37	12	132239022	132239022	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132239022G>A	uc001uja.1	+	9	1572	c.1432G>A	c.(1432-1434)GTT>ATT	p.V478I	SFRS8_uc010tbn.1_Missense_Mutation_p.V478I|SFRS8_uc001ujb.1_Missense_Mutation_p.V271I|SFRS8_uc001uiz.1_Missense_Mutation_p.V352I	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	478	SURP motif 2.				mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)														---	---	---	---
ULK1	8408	broad.mit.edu	37	12	132399917	132399917	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132399917G>A	uc001uje.2	+	18	1828	c.1560G>A	c.(1558-1560)ACG>ACA	p.T520T		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	520					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)														---	---	---	---
EP400	57634	broad.mit.edu	37	12	132514593	132514593	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132514593C>A	uc001ujn.2	+	28	5679	c.5644C>A	c.(5644-5646)CTG>ATG	p.L1882M	EP400_uc001ujl.2_Missense_Mutation_p.L1881M|EP400_uc001ujm.2_Missense_Mutation_p.L1801M|SNORA49_uc001ujo.2_5'Flank	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1918	Helicase C-terminal.				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	132529374	132529374	+	Silent	SNP	C	T	T	rs147763834	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132529374C>T	uc001ujn.2	+	36	6695	c.6660C>T	c.(6658-6660)GAC>GAT	p.D2220D	EP400_uc001ujl.2_Silent_p.D2219D|EP400_uc001ujm.2_Silent_p.D2139D	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2256					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)														---	---	---	---
POLE	5426	broad.mit.edu	37	12	133256788	133256788	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133256788C>T	uc001uks.1	-	4	350	c.306G>A	c.(304-306)CCG>CCA	p.P102P	POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Silent_p.P75P	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	102					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|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	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)									DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					---	---	---	---
ANKLE2	23141	broad.mit.edu	37	12	133303972	133303972	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133303972G>A	uc001ukx.2	-	13	2740	c.2673C>T	c.(2671-2673)GGC>GGT	p.G891G	ANKLE2_uc009zyw.1_Silent_p.G246G	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	891						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)														---	---	---	---
GOLGA3	2802	broad.mit.edu	37	12	133381403	133381403	+	Missense_Mutation	SNP	G	A	A	rs138594544	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133381403G>A	uc001ukz.1	-	7	2055	c.1496C>T	c.(1495-1497)GCG>GTG	p.A499V	GOLGA3_uc001ula.1_Missense_Mutation_p.A499V|GOLGA3_uc001ulb.2_Missense_Mutation_p.A499V	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	499	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)														---	---	---	---
GOLGA3	2802	broad.mit.edu	37	12	133385136	133385136	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133385136C>T	uc001ukz.1	-	5	1079	c.520_splice	c.e5-1	p.S174_splice	GOLGA3_uc001ula.1_Splice_Site_p.S174_splice|GOLGA3_uc001ulb.2_Splice_Site_p.S174_splice	NM_005895	NP_005886			Golgi autoantigen, golgin subfamily a, 3						intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)														---	---	---	---
ZNF140	7699	broad.mit.edu	37	12	133683228	133683228	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133683228A>C	uc001ulo.2	+	5	2035	c.1365A>C	c.(1363-1365)GAA>GAC	p.E455D	ZNF140_uc001ulp.2_Missense_Mutation_p.E352D|ZNF140_uc010tbu.1_Missense_Mutation_p.E352D	NM_003440	NP_003431	P52738	ZN140_HUMAN	zinc finger protein 140	455						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;1.28e-06)|all_epithelial(31;0.0051)|Lung NSC(355;0.114)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)														---	---	---	---
TPTE2	93492	broad.mit.edu	37	13	20056655	20056655	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:20056655T>C	uc001umd.2	-	5	363	c.152A>G	c.(151-153)GAA>GGA	p.E51G	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Missense_Mutation_p.E51G|TPTE2_uc001ume.2_Intron|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	51						endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)														---	---	---	---
TPTE2	93492	broad.mit.edu	37	13	20056687	20056687	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:20056687A>T	uc001umd.2	-	5	331	c.120T>A	c.(118-120)AGT>AGA	p.S40R	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Missense_Mutation_p.S40R|TPTE2_uc001ume.2_Intron|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	40						endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)														---	---	---	---
PSPC1	55269	broad.mit.edu	37	13	20279899	20279899	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:20279899G>A	uc001uml.2	-	8	1475	c.1289C>T	c.(1288-1290)GCA>GTA	p.A430V	PSPC1_uc001umj.1_Intron|PSPC1_uc001umk.1_Intron	NM_001042414	NP_001035879	Q8WXF1	PSPC1_HUMAN	paraspeckle protein 1	430	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleolus	nucleotide binding|protein binding|RNA binding			breast(1)	1		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)														---	---	---	---
ZMYM2	7750	broad.mit.edu	37	13	20641083	20641083	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:20641083C>T	uc001umr.2	+	21	3523	c.3225C>T	c.(3223-3225)GGC>GGT	p.G1075G	ZMYM2_uc001ums.2_Silent_p.G1075G|ZMYM2_uc001umt.2_Silent_p.G1075G|ZMYM2_uc001umv.2_Silent_p.G455G|ZMYM2_uc001umw.2_Silent_p.G528G	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	1075					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	21189979	21189979	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21189979C>T	uc001unh.2	+	16	1583	c.1187C>T	c.(1186-1188)GCT>GTT	p.A396V	IFT88_uc001uni.2_Missense_Mutation_p.A387V|IFT88_uc001unj.2_Missense_Mutation_p.A386V|IFT88_uc010tcq.1_Missense_Mutation_p.A367V|IFT88_uc001unk.2_Missense_Mutation_p.A142V|IFT88_uc001unl.1_Missense_Mutation_p.A14V	NM_175605	NP_783195	Q13099	IFT88_HUMAN	intraflagellar transport 88 homolog isoform 1	396					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)														---	---	---	---
LATS2	26524	broad.mit.edu	37	13	21555688	21555688	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21555688G>A	uc009zzs.2	-	6	2947	c.2582C>T	c.(2581-2583)GCG>GTG	p.A861V	LATS2_uc001unr.3_Missense_Mutation_p.A861V	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	861	Protein kinase.				cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)														---	---	---	---
MRP63	78988	broad.mit.edu	37	13	21751062	21751062	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21751062C>A	uc001unw.2	+	2	497	c.7C>A	c.(7-9)CTG>ATG	p.L3M	SKA3_uc001unt.2_5'Flank|SKA3_uc001unv.2_5'Flank|SKA3_uc001unu.2_5'Flank	NM_024026	NP_076931	Q9BQC6	RT63_HUMAN	mitochondrial ribosomal protein 63	3											0		all_cancers(29;2.76e-20)|all_epithelial(30;2.97e-18)|all_lung(29;4.58e-16)|Lung SC(185;0.0262)|Breast(139;0.147)		all cancers(112;9.43e-05)|Epithelial(112;0.000285)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|Lung(94;0.0932)														---	---	---	---
FGF9	2254	broad.mit.edu	37	13	22246290	22246290	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:22246290G>A	uc001uog.2	+	1	1076	c.239G>A	c.(238-240)GGT>GAT	p.G80D		NM_002010	NP_002001	P31371	FGF9_HUMAN	fibroblast growth factor 9 precursor	80					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|male gonad development|positive regulation of cell division	extracellular space	growth factor activity|heparin binding				0		all_cancers(29;1.23e-20)|all_epithelial(30;9.83e-19)|all_lung(29;9.64e-17)|Lung SC(185;0.0262)|Breast(139;0.106)		all cancers(112;3.92e-05)|Epithelial(112;0.000166)|OV - Ovarian serous cystadenocarcinoma(117;0.00314)|Lung(94;0.163)														---	---	---	---
SACS	26278	broad.mit.edu	37	13	23906034	23906034	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:23906034G>A	uc001uon.2	-	10	12570	c.11981C>T	c.(11980-11982)GCG>GTG	p.A3994V	SACS_uc001uoo.2_Missense_Mutation_p.A3847V|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3994					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)														---	---	---	---
SACS	26278	broad.mit.edu	37	13	23908271	23908271	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:23908271C>T	uc001uon.2	-	10	10333	c.9744G>A	c.(9742-9744)TGG>TGA	p.W3248*	SACS_uc001uoo.2_Nonsense_Mutation_p.W3101*|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3248			W -> R (in SACS).		cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)														---	---	---	---
SACS	26278	broad.mit.edu	37	13	23909914	23909914	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:23909914G>A	uc001uon.2	-	10	8690	c.8101C>T	c.(8101-8103)CCT>TCT	p.P2701S	SACS_uc001uoo.2_Missense_Mutation_p.P2554S|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2701					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)														---	---	---	---
SACS	26278	broad.mit.edu	37	13	23942607	23942607	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:23942607C>T	uc001uon.2	-	5	868	c.279G>A	c.(277-279)ACG>ACA	p.T93T	SACS_uc001uoo.2_5'UTR|SACS_uc001uoq.1_5'UTR	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	93					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)														---	---	---	---
TNFRSF19	55504	broad.mit.edu	37	13	24190110	24190110	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24190110C>T	uc001uov.1	+	4	349	c.285C>T	c.(283-285)TGC>TGT	p.C95C	TNFRSF19_uc001uot.2_Silent_p.C95C|TNFRSF19_uc010tcu.1_5'UTR|TNFRSF19_uc001uow.2_Silent_p.C95C	NM_018647	NP_061117	Q9NS68	TNR19_HUMAN	tumor necrosis factor receptor superfamily,	95	TNFR-Cys 2.|Extracellular (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)														---	---	---	---
SPATA13	221178	broad.mit.edu	37	13	24860366	24860366	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24860366C>T	uc001upg.1	+	5	848	c.441C>T	c.(439-441)GGC>GGT	p.G147G	SPATA13_uc001upd.1_Silent_p.G772G|C1QTNF9_uc001upe.2_RNA|SPATA13_uc010tcy.1_Silent_p.G93G|SPATA13_uc010tcz.1_Silent_p.G93G|SPATA13_uc010tda.1_Silent_p.G91G|SPATA13_uc001uph.2_Silent_p.G69G|SPATA13_uc010tdb.1_Silent_p.G69G|SPATA13_uc009zzz.1_5'Flank	NM_153023	NP_694568	Q96N96	SPT13_HUMAN	spermatogenesis associated 13	147	SH3.|ABR (APC-binding region) domain.				cell migration|filopodium assembly|lamellipodium assembly|regulation of cell migration|regulation of Rho protein signal transduction	cytoplasm|filopodium|lamellipodium|ruffle membrane	protein binding|Rac guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		all_cancers(29;4.05e-15)|all_lung(29;2.77e-14)|all_epithelial(30;7.77e-13)|Lung SC(185;0.0279)		all cancers(112;0.00616)|Epithelial(112;0.0195)|OV - Ovarian serous cystadenocarcinoma(117;0.0705)|Lung(94;0.231)														---	---	---	---
PARP4	143	broad.mit.edu	37	13	25008533	25008533	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25008533C>A	uc001upl.2	-	31	4852	c.4746G>T	c.(4744-4746)GAG>GAT	p.E1582D		NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	1582	Interaction with the major vault protein.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)														---	---	---	---
PARP4	143	broad.mit.edu	37	13	25075838	25075838	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25075838T>C	uc001upl.2	-	3	373	c.267A>G	c.(265-267)GTA>GTG	p.V89V	PARP4_uc010tdc.1_Silent_p.V89V	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	89	BRCT.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)														---	---	---	---
RNF17	56163	broad.mit.edu	37	13	25442732	25442732	+	Intron	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25442732T>G	uc001upr.2	+						RNF17_uc010aab.2_Intron|RNF17_uc010tde.1_Intron|RNF17_uc001ups.2_Intron|RNF17_uc010aac.2_Intron|RNF17_uc010aad.2_Intron	NM_031277	NP_112567			ring finger protein 17						multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)														---	---	---	---
CENPJ	55835	broad.mit.edu	37	13	25480954	25480954	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25480954C>T	uc001upt.3	-	7	1475	c.1222G>A	c.(1222-1224)GAG>AAG	p.E408K	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA|CENPJ_uc001upu.2_5'Flank	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	408					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)														---	---	---	---
PABPC3	5042	broad.mit.edu	37	13	25670410	25670410	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25670410C>T	uc001upy.2	+	1	135	c.74C>T	c.(73-75)GCG>GTG	p.A25V		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	25	RRM 1.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)														---	---	---	---
PABPC3	5042	broad.mit.edu	37	13	25671495	25671495	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25671495G>A	uc001upy.2	+	1	1220	c.1159G>A	c.(1159-1161)GCA>ACA	p.A387T		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	387					mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)														---	---	---	---
ATP8A2	51761	broad.mit.edu	37	13	26144987	26144987	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:26144987T>A	uc001uqk.2	+	17	1698	c.1556T>A	c.(1555-1557)ATC>AAC	p.I519N	ATP8A2_uc010tdi.1_Missense_Mutation_p.I479N|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.I29N|ATP8A2_uc001uql.1_Missense_Mutation_p.I479N	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	479	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)														---	---	---	---
RNF6	6049	broad.mit.edu	37	13	26792703	26792703	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:26792703G>A	uc001uqo.2	-	4	525	c.234C>T	c.(232-234)GGC>GGT	p.G78G	RNF6_uc001uqn.1_Silent_p.G78G|RNF6_uc010aak.2_Silent_p.G78G|RNF6_uc001uqp.2_Silent_p.G78G|RNF6_uc001uqq.2_Silent_p.G78G|RNF6_uc010tdk.1_5'UTR	NM_183044	NP_898865	Q9Y252	RNF6_HUMAN	ring finger protein 6	78					negative regulation of axon extension|positive regulation of transcription, DNA-dependent|protein K27-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|regulation of androgen receptor signaling pathway|ubiquitin-dependent protein catabolic process	axon|cytoplasm|PML body	androgen receptor binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2	Colorectal(5;0.000442)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.00893)|Epithelial(112;0.0481)|OV - Ovarian serous cystadenocarcinoma(117;0.148)|GBM - Glioblastoma multiforme(144;0.23)|Lung(94;0.245)														---	---	---	---
FLT3	2322	broad.mit.edu	37	13	28592704	28592704	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:28592704G>A	uc001urw.2	-	20	2523	c.2441C>T	c.(2440-2442)GCC>GTC	p.A814V	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Intron	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	814	Protein kinase.|Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)			Mis|O		AML|ALL								---	---	---	---
FLT1	2321	broad.mit.edu	37	13	29002038	29002038	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:29002038G>A	uc001usb.3	-	9	1412	c.1127C>T	c.(1126-1128)GCG>GTG	p.A376V	FLT1_uc010aar.1_Missense_Mutation_p.A376V|FLT1_uc001usc.3_Missense_Mutation_p.A376V|FLT1_uc010tdp.1_Missense_Mutation_p.A376V	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	376	Ig-like C2-type 4.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)													---	---	---	---
RXFP2	122042	broad.mit.edu	37	13	32355867	32355867	+	Missense_Mutation	SNP	C	T	T	rs144275111		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32355867C>T	uc001utt.2	+	10	916	c.845C>T	c.(844-846)TCG>TTG	p.S282L	RXFP2_uc010aba.2_Missense_Mutation_p.S265L	NM_130806	NP_570718	Q8WXD0	RXFP2_HUMAN	relaxin/insulin-like family peptide receptor 2	282	LRR 7.|Extracellular (Potential).					integral to membrane|plasma membrane					0		Lung SC(185;0.0262)		all cancers(112;0.000559)|Epithelial(112;0.0017)|OV - Ovarian serous cystadenocarcinoma(117;0.0145)|BRCA - Breast invasive adenocarcinoma(63;0.0535)														---	---	---	---
FRY	10129	broad.mit.edu	37	13	32747622	32747622	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32747622G>A	uc001utx.2	+	19	2766	c.2270G>A	c.(2269-2271)CGC>CAC	p.R757H	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	757					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)														---	---	---	---
FRY	10129	broad.mit.edu	37	13	32821627	32821627	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32821627C>T	uc001utx.2	+	48	7492	c.6996C>T	c.(6994-6996)TTC>TTT	p.F2332F	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2332					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)														---	---	---	---
BRCA2	675	broad.mit.edu	37	13	32906931	32906931	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32906931T>G	uc001uub.1	+	10	1543	c.1316T>G	c.(1315-1317)TTT>TGT	p.F439C	BRCA2_uc001uua.1_Missense_Mutation_p.F316C	NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	439					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)				D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			---	---	---	---
BRCA2	675	broad.mit.edu	37	13	32912807	32912807	+	Missense_Mutation	SNP	G	A	A	rs80358666		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32912807G>A	uc001uub.1	+	11	4542	c.4315G>A	c.(4315-4317)GCC>ACC	p.A1439T		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1439	BRCA2 3.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)				D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			---	---	---	---
BRCA2	675	broad.mit.edu	37	13	32944628	32944628	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32944628G>A	uc001uub.1	+	19	8648	c.8421G>A	c.(8419-8421)TCG>TCA	p.S2807S		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2807					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)				D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			---	---	---	---
BRCA2	675	broad.mit.edu	37	13	32953551	32953551	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32953551C>T	uc001uub.1	+	22	9079	c.8852C>T	c.(8851-8853)GCC>GTC	p.A2951V		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2951			A -> T.		cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)				D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			---	---	---	---
PDS5B	23047	broad.mit.edu	37	13	33344393	33344393	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:33344393C>T	uc010abf.2	+	32	3917	c.3759C>T	c.(3757-3759)GGC>GGT	p.G1253G	PDS5B_uc010abg.2_RNA	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1253	A.T hook 1.				cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)														---	---	---	---
STARD13	90627	broad.mit.edu	37	13	33686932	33686932	+	Silent	SNP	C	T	T	rs145394840		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:33686932C>T	uc001uuw.2	-	9	2544	c.2418G>A	c.(2416-2418)ACG>ACA	p.T806T	STARD13_uc001uuu.2_Silent_p.T798T|STARD13_uc001uuv.2_Silent_p.T688T|STARD13_uc001uux.2_Silent_p.T771T|STARD13_uc010tec.1_RNA	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	806	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)														---	---	---	---
SOHLH2	54937	broad.mit.edu	37	13	36767810	36767810	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36767810C>T	uc001uvj.2	-	4	467	c.378G>A	c.(376-378)ATG>ATA	p.M126I	SOHLH2_uc010tei.1_Missense_Mutation_p.M203I	NM_017826	NP_060296	Q9NX45	SOLH2_HUMAN	spermatogenesis and oogenesis specific basic	126					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)														---	---	---	---
SPG20	23111	broad.mit.edu	37	13	36878523	36878523	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36878523C>T	uc001uvn.2	-	10	2250	c.1980G>A	c.(1978-1980)GAG>GAA	p.E660E	SPG20_uc010ten.1_Silent_p.E650E|SPG20_uc001uvm.2_Silent_p.E660E|SPG20_uc001uvo.2_Silent_p.E660E|SPG20_uc001uvq.2_Silent_p.E660E	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	660					cell death	cytoplasm	ubiquitin protein ligase binding				0		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;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)														---	---	---	---
CCNA1	8900	broad.mit.edu	37	13	37014191	37014191	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:37014191A>G	uc001uvr.3	+	6	1319	c.969A>G	c.(967-969)CAA>CAG	p.Q323Q	CCNA1_uc010teo.1_Silent_p.Q279Q|CCNA1_uc010abq.2_Silent_p.Q279Q|CCNA1_uc010abp.2_Silent_p.Q279Q|CCNA1_uc001uvs.3_Silent_p.Q322Q|CCNA1_uc010abr.2_RNA	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	323					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)														---	---	---	---
FAM48A	55578	broad.mit.edu	37	13	37598339	37598339	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:37598339A>G	uc001uwg.2	-						FAM48A_uc010abt.2_Intron|FAM48A_uc001uwh.2_Intron|FAM48A_uc001uwi.2_Intron|FAM48A_uc001uwj.2_Intron|FAM48A_uc001uwk.2_Intron|FAM48A_uc010tes.1_Intron|FAM48A_uc001uwl.1_Intron|FAM48A_uc001uwd.2_5'Flank|FAM48A_uc001uwe.2_Intron|FAM48A_uc001uwf.2_Intron	NM_001014286	NP_001014308			family with sequence similarity 48, member A						autophagy|gastrulation	SAGA-type complex	protein binding				0		Lung NSC(96;2.09e-06)|Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.0959)		all cancers(112;6.06e-07)|Epithelial(112;1.87e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00794)|BRCA - Breast invasive adenocarcinoma(63;0.0128)|GBM - Glioblastoma multiforme(144;0.0477)														---	---	---	---
FREM2	341640	broad.mit.edu	37	13	39262274	39262274	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:39262274C>T	uc001uwv.2	+	1	1102	c.793C>T	c.(793-795)CGC>TGC	p.R265C		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	265	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)														---	---	---	---
LHFP	10186	broad.mit.edu	37	13	40175124	40175124	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:40175124A>G	uc001uxf.2	-	2	741	c.230T>C	c.(229-231)ATC>ACC	p.I77T		NM_005780	NP_005771	Q9Y693	LHFP_HUMAN	lipoma HMGIC fusion partner precursor	77						integral to membrane	DNA binding		HMGA2/LHFP(2)	soft_tissue(2)|lung(1)|breast(1)	4		Lung NSC(96;3.55e-06)|Breast(139;0.00408)|Ovarian(182;0.0107)|Prostate(109;0.0118)|Lung SC(185;0.0719)|Hepatocellular(188;0.114)		OV - Ovarian serous cystadenocarcinoma(117;6.48e-46)|Epithelial(112;8.43e-42)|all cancers(112;1.42e-36)|GBM - Glioblastoma multiforme(144;0.00187)|BRCA - Breast invasive adenocarcinoma(63;0.00886)|KIRC - Kidney renal clear cell carcinoma(186;0.048)|Kidney(163;0.0601)|LUSC - Lung squamous cell carcinoma(192;0.105)				T	HMGA2	lipoma								---	---	---	---
FOXO1	2308	broad.mit.edu	37	13	41134254	41134254	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:41134254C>T	uc001uxl.3	-	2	1759	c.1374G>A	c.(1372-1374)GCG>GCA	p.A458A	FOXO1_uc010acc.1_Silent_p.A273A	NM_002015	NP_002006	Q12778	FOXO1_HUMAN	forkhead box O1	458					anti-apoptosis|blood vessel development|embryo development|endocrine pancreas development|insulin receptor signaling pathway|negative regulation of stress-activated MAPK cascade|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|response to DNA damage stimulus|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding		PAX3/FOXO1(749)|PAX7/FOXO1(197)	soft_tissue(946)|lung(1)|central_nervous_system(1)	948		Lung NSC(96;1.18e-05)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;7.32e-09)|Epithelial(112;2.87e-06)|OV - Ovarian serous cystadenocarcinoma(117;6.98e-05)|GBM - Glioblastoma multiforme(144;0.00394)|BRCA - Breast invasive adenocarcinoma(63;0.0815)														---	---	---	---
KBTBD6	89890	broad.mit.edu	37	13	41705170	41705170	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:41705170C>T	uc001uxu.1	-	1	1767	c.1478G>A	c.(1477-1479)CGC>CAC	p.R493H	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Missense_Mutation_p.R427H|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	493	Kelch 3.						protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)														---	---	---	---
KBTBD6	89890	broad.mit.edu	37	13	41705357	41705357	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:41705357C>T	uc001uxu.1	-	1	1580	c.1291G>A	c.(1291-1293)GCA>ACA	p.A431T	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Missense_Mutation_p.A365T|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	431	Kelch 1.						protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)														---	---	---	---
MTRF1	9617	broad.mit.edu	37	13	41834827	41834827	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:41834827T>C	uc001uxx.2	-	4	687	c.217A>G	c.(217-219)AAA>GAA	p.K73E	MTRF1_uc001uxy.2_Missense_Mutation_p.K73E|MTRF1_uc001uxz.2_Translation_Start_Site|MTRF1_uc010tff.1_Missense_Mutation_p.K86E|MTRF1_uc001uyc.1_Missense_Mutation_p.K73E	NM_004294	NP_004285	O75570	RF1M_HUMAN	mitochondrial translational release factor 1	73					regulation of translational termination	mitochondrion	translation release factor activity, codon specific				0		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)|Ovarian(182;0.125)		OV - Ovarian serous cystadenocarcinoma(117;4.24e-10)|all cancers(112;2.05e-09)|Epithelial(112;2.48e-09)|GBM - Glioblastoma multiforme(144;0.00115)|BRCA - Breast invasive adenocarcinoma(63;0.0721)|KIRC - Kidney renal clear cell carcinoma(186;0.248)														---	---	---	---
KIAA0564	23078	broad.mit.edu	37	13	42465597	42465597	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:42465597G>A	uc001uyj.2	-	5	680	c.610C>T	c.(610-612)CGC>TGC	p.R204C	KIAA0564_uc001uyk.2_Missense_Mutation_p.R204C	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	204						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)														---	---	---	---
DGKH	160851	broad.mit.edu	37	13	42793448	42793448	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:42793448C>T	uc001uyl.1	+	27	3317	c.3296C>T	c.(3295-3297)CCT>CTT	p.P1099L	DGKH_uc010tfh.1_Missense_Mutation_p.P1099L|DGKH_uc001uym.1_Missense_Mutation_p.P1099L|DGKH_uc010tfi.1_Missense_Mutation_p.P854L|DGKH_uc010tfj.1_Missense_Mutation_p.P954L|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Missense_Mutation_p.P954L|DGKH_uc001uyp.2_RNA	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	1099					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)														---	---	---	---
AKAP11	11215	broad.mit.edu	37	13	42875031	42875031	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:42875031G>A	uc001uys.1	+	8	2324	c.2149G>A	c.(2149-2151)GCA>ACA	p.A717T		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	717					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)														---	---	---	---
AKAP11	11215	broad.mit.edu	37	13	42876608	42876608	+	Silent	SNP	G	A	A	rs149090364	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:42876608G>A	uc001uys.1	+	8	3901	c.3726G>A	c.(3724-3726)TCG>TCA	p.S1242S		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	1242					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)														---	---	---	---
SLC25A30	253512	broad.mit.edu	37	13	45983111	45983111	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:45983111C>T	uc001vag.2	-	3	300	c.163G>A	c.(163-165)GCA>ACA	p.A55T	SLC25A30_uc010tfs.1_Intron|SLC25A30_uc001vah.2_Intron|SLC25A30_uc010tft.1_Missense_Mutation_p.A4T	NM_001010875	NP_001010875	Q5SVS4	KMCP1_HUMAN	solute carrier family 25, member 30	55	Solcar 1.				mitochondrial transport	integral to membrane|mitochondrial inner membrane	binding			breast(1)	1		Lung NSC(96;0.00227)|Prostate(109;0.00578)|Breast(56;0.0192)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.95e-05)														---	---	---	---
FNDC3A	22862	broad.mit.edu	37	13	49688825	49688825	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:49688825T>C	uc001vcm.2	+	4	515	c.210T>C	c.(208-210)GGT>GGC	p.G70G	FNDC3A_uc001vcl.1_Silent_p.G70G|FNDC3A_uc001vcn.2_Silent_p.G70G|FNDC3A_uc001vco.2_RNA|FNDC3A_uc001vcp.1_Silent_p.G14G|FNDC3A_uc001vcq.2_Silent_p.G14G	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	70	Pro-rich.					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)														---	---	---	---
ARL11	115761	broad.mit.edu	37	13	50204926	50204926	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:50204926G>A	uc001vdf.1	+	2	489	c.343G>A	c.(343-345)GTC>ATC	p.V115I		NM_138450	NP_612459	Q969Q4	ARL11_HUMAN	ADP-ribosylation factor-like 11	115					small GTPase mediated signal transduction	intracellular	GTP binding|protein binding				0		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00174)|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;0.119)|Kidney(9;0.169)	GBM - Glioblastoma multiforme(99;1.67e-09)														---	---	---	---
C13orf1	57213	broad.mit.edu	37	13	50505205	50505205	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:50505205C>T	uc001vdl.2	-	2	434	c.172G>A	c.(172-174)GCA>ACA	p.A58T	C13orf1_uc001vdm.2_Intron|C13orf1_uc010tgm.1_Intron|C13orf1_uc010adj.2_Missense_Mutation_p.A58T	NM_020456	NP_065189	Q5W111	SPRY7_HUMAN	chromosome 13 open reading frame 1 isoform 1	58	B30.2/SPRY.										0		Lung NSC(96;7.5e-06)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Acute lymphoblastic leukemia(7;0.117)		GBM - Glioblastoma multiforme(99;1.72e-10)|COAD - Colon adenocarcinoma(199;0.208)														---	---	---	---
FAM124A	220108	broad.mit.edu	37	13	51855296	51855296	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:51855296C>T	uc001vfg.1	+	4	1676	c.1545C>T	c.(1543-1545)TGC>TGT	p.C515C	FAM124A_uc001vff.1_Silent_p.C551C	NM_145019	NP_659456	Q86V42	F124A_HUMAN	hypothetical protein LOC220108	515										central_nervous_system(1)	1		Acute lymphoblastic leukemia(7;0.000334)|Breast(56;0.00156)|Prostate(109;0.00538)|Lung NSC(96;0.0216)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;4.25e-07)														---	---	---	---
INTS6	26512	broad.mit.edu	37	13	51953678	51953678	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:51953678C>T	uc001vfk.2	-	11	1920	c.1306G>A	c.(1306-1308)GCA>ACA	p.A436T	INTS6_uc001vfi.2_Missense_Mutation_p.A120T|INTS6_uc001vfj.2_Missense_Mutation_p.A423T|INTS6_uc001vfl.2_Missense_Mutation_p.A258T	NM_012141	NP_036273	Q9UL03	INT6_HUMAN	integrator complex subunit 6 isoform a	436					snRNA processing	actin cytoskeleton|integrator complex	protein binding|transmembrane receptor activity			ovary(1)|lung(1)	2		Breast(56;0.000286)|Lung NSC(96;0.00145)|Prostate(109;0.00403)|Hepatocellular(98;0.065)|Myeloproliferative disorder(33;0.163)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;7.7e-08)														---	---	---	---
INTS6	26512	broad.mit.edu	37	13	51963446	51963446	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:51963446C>T	uc001vfk.2	-						INTS6_uc001vfj.2_Intron|INTS6_uc001vfl.2_Intron	NM_012141	NP_036273			integrator complex subunit 6 isoform a						snRNA processing	actin cytoskeleton|integrator complex	protein binding|transmembrane receptor activity			ovary(1)|lung(1)	2		Breast(56;0.000286)|Lung NSC(96;0.00145)|Prostate(109;0.00403)|Hepatocellular(98;0.065)|Myeloproliferative disorder(33;0.163)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;7.7e-08)														---	---	---	---
CCDC70	83446	broad.mit.edu	37	13	52439935	52439935	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52439935G>A	uc001vfu.3	+	2	717	c.421G>A	c.(421-423)GCC>ACC	p.A141T	uc010tgr.1_RNA	NM_031290	NP_112580	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70 precursor	141	Potential.					extracellular region|plasma membrane					0		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.0107)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;2.4e-08)														---	---	---	---
UTP14C	9724	broad.mit.edu	37	13	52598400	52598400	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52598400C>T	uc001vgb.2	+						UTP14C_uc001vga.2_Silent_p.Y178Y|UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677			UTP14, U3 small nucleolar ribonucleoprotein,						cell differentiation|meiosis|multicellular organismal development|rRNA processing|spermatogenesis	nucleolus|small-subunit processome				ovary(3)|large_intestine(1)|breast(1)	5		Breast(56;0.00173)|Lung NSC(96;0.0108)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.3e-08)														---	---	---	---
UTP14C	9724	broad.mit.edu	37	13	52603935	52603935	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52603935T>C	uc001vgb.2	+	2	1530	c.995T>C	c.(994-996)CTG>CCG	p.L332P	UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677	Q5TAP6	UT14C_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	332	Potential.				cell differentiation|meiosis|multicellular organismal development|rRNA processing|spermatogenesis	nucleolus|small-subunit processome				ovary(3)|large_intestine(1)|breast(1)	5		Breast(56;0.00173)|Lung NSC(96;0.0108)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.3e-08)														---	---	---	---
THSD1	55901	broad.mit.edu	37	13	52960256	52960256	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52960256G>A	uc001vgo.2	-	4	1632	c.1087C>T	c.(1087-1089)CGT>TGT	p.R363C	THSD1_uc001vgp.2_Intron|THSD1_uc010tgz.1_5'UTR|THSD1_uc010aea.2_Intron	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	363	Extracellular (Potential).|TSP type-1.					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)														---	---	---	---
LECT1	11061	broad.mit.edu	37	13	53282677	53282677	+	Silent	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:53282677A>C	uc001vhf.2	-	6	894	c.783T>G	c.(781-783)CCT>CCG	p.P261P	LECT1_uc001vhg.2_Silent_p.P261P|LECT1_uc001vhh.2_Silent_p.P250P	NM_007015	NP_008946	O75829	LECT1_HUMAN	leukocyte cell derived chemotaxin 1 isoform 1	261					cartilage development|proteoglycan metabolic process	endomembrane system|extracellular region|integral to membrane				ovary(2)	2		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.38e-08)														---	---	---	---
PCDH8	5100	broad.mit.edu	37	13	53418988	53418988	+	Missense_Mutation	SNP	C	T	T	rs141509995		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:53418988C>T	uc001vhi.2	-	3	3123	c.2920G>A	c.(2920-2922)GCA>ACA	p.A974T	PCDH8_uc001vhj.2_Missense_Mutation_p.A877T	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	974	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)														---	---	---	---
OLFM4	10562	broad.mit.edu	37	13	53624246	53624246	+	Silent	SNP	G	A	A	rs147184057		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:53624246G>A	uc001vhl.2	+	5	873	c.873G>A	c.(871-873)GCG>GCA	p.A291A	OLFM4_uc001vhk.1_Intron	NM_006418	NP_006409	Q6UX06	OLFM4_HUMAN	olfactomedin 4 precursor	291	Olfactomedin-like.				cell adhesion	extracellular space				skin(1)	1		Breast(56;0.000776)|Lung NSC(96;0.000814)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.13e-08)														---	---	---	---
PCDH17	27253	broad.mit.edu	37	13	58208511	58208511	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:58208511C>T	uc001vhq.1	+	1	2723	c.1831C>T	c.(1831-1833)CGC>TGC	p.R611C	PCDH17_uc010aec.1_Missense_Mutation_p.R611C	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	611	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)														---	---	---	---
DIAPH3	81624	broad.mit.edu	37	13	60413545	60413545	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:60413545C>A	uc001vht.2	-	23	2994	c.2775G>T	c.(2773-2775)ATG>ATT	p.M925I	DIAPH3_uc001vhu.2_Missense_Mutation_p.M662I	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	925	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)														---	---	---	---
PCDH20	64881	broad.mit.edu	37	13	61986229	61986229	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:61986229G>T	uc001vid.3	-	2	2367	c.2003C>A	c.(2002-2004)GCT>GAT	p.A668D	PCDH20_uc010thj.1_Missense_Mutation_p.A668D	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	641	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)														---	---	---	---
DACH1	1602	broad.mit.edu	37	13	72049901	72049901	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:72049901G>A	uc010thn.1	-	10	2374	c.1951C>T	c.(1951-1953)CGT>TGT	p.R651C	DACH1_uc010tho.1_Missense_Mutation_p.R503C|DACH1_uc010thp.1_Missense_Mutation_p.R449C	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	703	Potential.|Interaction with SIN3A (By similarity).				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)														---	---	---	---
C13orf34	79866	broad.mit.edu	37	13	73321194	73321194	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:73321194G>A	uc001viv.1	+	10	1546	c.1427G>A	c.(1426-1428)TGC>TAC	p.C476Y	C13orf34_uc010thq.1_Missense_Mutation_p.C251Y|C13orf34_uc010aen.1_Missense_Mutation_p.C551Y|C13orf34_uc010thr.1_Missense_Mutation_p.C406Y|C13orf34_uc001viw.1_Missense_Mutation_p.C425Y	NM_024808	NP_079084	Q6PGQ7	BORA_HUMAN	aurora borealis	476					cell division|mitosis|regulation of mitosis|regulation of mitotic spindle organization|regulation of protein localization		protein kinase binding				0		Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.000227)														---	---	---	---
LMO7	4008	broad.mit.edu	37	13	76379754	76379754	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:76379754C>T	uc001vjv.2	+	6	1115	c.355C>T	c.(355-357)CGC>TGC	p.R119C	LMO7_uc010thv.1_Intron|LMO7_uc001vjt.1_Intron|LMO7_uc010thw.1_Intron|LMO7_uc001vjw.1_Intron	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	404						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)														---	---	---	---
LMO7	4008	broad.mit.edu	37	13	76391408	76391408	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:76391408G>A	uc001vjv.2	+	9	2119	c.1359G>A	c.(1357-1359)TGG>TGA	p.W453*	LMO7_uc010thv.1_Nonsense_Mutation_p.W404*|LMO7_uc001vjt.1_Nonsense_Mutation_p.W352*|LMO7_uc010thw.1_Nonsense_Mutation_p.W303*|LMO7_uc001vjw.1_Nonsense_Mutation_p.W359*	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	738						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)														---	---	---	---
LMO7	4008	broad.mit.edu	37	13	76408509	76408509	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:76408509G>A	uc001vjv.2	+	14	3273	c.2513G>A	c.(2512-2514)CGC>CAC	p.R838H	LMO7_uc010thv.1_Missense_Mutation_p.R789H|LMO7_uc001vjt.1_Missense_Mutation_p.R737H|LMO7_uc010thw.1_Missense_Mutation_p.R688H|LMO7_uc001vjw.1_Missense_Mutation_p.R744H	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	1123	PDZ.					cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)														---	---	---	---
FBXL3	26224	broad.mit.edu	37	13	77592810	77592810	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:77592810C>T	uc001vkd.2	-	3	767	c.396G>A	c.(394-396)TCG>TCA	p.S132S		NM_012158	NP_036290	Q9UKT7	FBXL3_HUMAN	F-box and leucine-rich repeat protein 3	132	LRR 1.				regulation of circadian rhythm|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.218)		GBM - Glioblastoma multiforme(99;0.0521)														---	---	---	---
MYCBP2	23077	broad.mit.edu	37	13	77642784	77642784	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:77642784G>A	uc001vkf.2	-	71	12064	c.11973C>T	c.(11971-11973)GGC>GGT	p.G3991G	MYCBP2_uc010aev.2_Silent_p.G3395G|MYCBP2_uc001vke.2_Silent_p.G608G	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3991					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)														---	---	---	---
MYCBP2	23077	broad.mit.edu	37	13	77807298	77807298	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:77807298C>T	uc001vkf.2	-	19	2707	c.2616G>A	c.(2614-2616)AAG>AAA	p.K872K	MYCBP2_uc010aev.2_Silent_p.K276K	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	872	RCC1 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)														---	---	---	---
SCEL	8796	broad.mit.edu	37	13	78188060	78188060	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:78188060T>C	uc001vki.2	+	24	1591	c.1421T>C	c.(1420-1422)GTC>GCC	p.V474A	SCEL_uc001vkj.2_Missense_Mutation_p.V454A|SCEL_uc010thx.1_Missense_Mutation_p.V432A	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	474	16 X approximate tandem repeats.|12.				embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)														---	---	---	---
EDNRB	1910	broad.mit.edu	37	13	78492681	78492681	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:78492681G>A	uc001vko.2	-	1	286	c.28C>T	c.(28-30)CGC>TGC	p.R10C	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.R10C|EDNRB_uc010aez.1_Missense_Mutation_p.R10C|EDNRB_uc001vkp.1_Missense_Mutation_p.R93C|EDNRB_uc010afa.1_Missense_Mutation_p.R10C	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	10				R -> P (in Ref. 3; AAB19411).	activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)											OREG0022452	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
POU4F1	5457	broad.mit.edu	37	13	79175910	79175910	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:79175910G>A	uc001vkv.2	-	2	1134	c.900C>T	c.(898-900)GGC>GGT	p.G300G	uc001vku.1_Intron	NM_006237	NP_006228	Q01851	PO4F1_HUMAN	POU domain, class 4, transcription factor 1	300	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)														---	---	---	---
RBM26	64062	broad.mit.edu	37	13	79943029	79943029	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:79943029C>T	uc001vkz.2	-	6	745	c.731G>A	c.(730-732)GGC>GAC	p.G244D	RBM26_uc001vky.2_Missense_Mutation_p.G244D|RBM26_uc001vla.2_Missense_Mutation_p.G244D|RBM26_uc001vkx.2_5'UTR|RBM26_uc001vlb.1_RNA	NM_022118	NP_071401	Q5T8P6	RBM26_HUMAN	RNA binding motif protein 26	244					mRNA processing		nucleotide binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)		GBM - Glioblastoma multiforme(99;0.0188)														---	---	---	---
SLITRK6	84189	broad.mit.edu	37	13	86369760	86369760	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:86369760C>T	uc001vll.1	-	2	1343	c.884G>A	c.(883-885)CGC>CAC	p.R295H	SLITRK6_uc010afe.1_Missense_Mutation_p.R60H	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	295	Extracellular (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)														---	---	---	---
SLITRK5	26050	broad.mit.edu	37	13	88329951	88329951	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:88329951G>T	uc001vln.2	+	2	2527	c.2308G>T	c.(2308-2310)GGC>TGC	p.G770C	SLITRK5_uc010tic.1_Missense_Mutation_p.G529C	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	770	Cytoplasmic (Potential).					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	92345910	92345910	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:92345910G>A	uc010tif.1	+	3	1161	c.795G>A	c.(793-795)GCG>GCA	p.A265A		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	265						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)																---	---	---	---
GPC6	10082	broad.mit.edu	37	13	94958286	94958286	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:94958286G>A	uc001vlt.2	+	6	1693	c.1061G>A	c.(1060-1062)CGC>CAC	p.R354H	GPC6_uc010tig.1_Missense_Mutation_p.R354H	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	354						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)																---	---	---	---
CLDN10	9071	broad.mit.edu	37	13	96086079	96086079	+	5'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:96086079C>T	uc001vmg.2	+	1					CLDN10_uc010tii.1_5'UTR	NM_182848	NP_878268			claudin 10 isoform a						calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.18)															---	---	---	---
DZIP1	22873	broad.mit.edu	37	13	96239899	96239899	+	Silent	SNP	C	T	T	rs111764824		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:96239899C>T	uc001vmk.2	-	20	2964	c.2112G>A	c.(2110-2112)CCG>CCA	p.P704P	DZIP1_uc001vmi.2_5'UTR|DZIP1_uc001vmj.2_Silent_p.P180P|DZIP1_uc001vml.2_Silent_p.P685P	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2	704					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)															---	---	---	---
UGGT2	55757	broad.mit.edu	37	13	96592200	96592200	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:96592200T>C	uc001vmt.2	-							NM_020121	NP_064506			UDP-glucose ceramide glucosyltransferase-like 2						post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
HS6ST3	266722	broad.mit.edu	37	13	97485082	97485082	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:97485082C>T	uc001vmw.2	+	2	1070	c.1046C>T	c.(1045-1047)GCC>GTC	p.A349V		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	349	Lumenal (Potential).					integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)																	---	---	---	---
OXGR1	27199	broad.mit.edu	37	13	97639229	97639229	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:97639229A>C	uc001vmx.1	-	4	1029	c.785T>G	c.(784-786)GTC>GGC	p.V262G	OXGR1_uc010afr.1_Missense_Mutation_p.V262G	NM_080818	NP_543008	Q96P68	OXGR1_HUMAN	oxoglutarate (alpha-ketoglutarate) receptor 1	262	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.186)															---	---	---	---
MBNL2	10150	broad.mit.edu	37	13	98009823	98009823	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:98009823G>A	uc010aft.2	+	6	1708	c.892G>A	c.(892-894)GTC>ATC	p.V298I	MBNL2_uc001vmz.2_Missense_Mutation_p.V298I|MBNL2_uc001vna.2_Missense_Mutation_p.V298I|MBNL2_uc001vnb.2_RNA|MBNL2_uc010tij.1_Missense_Mutation_p.V143I|MBNL2_uc001vnc.2_Missense_Mutation_p.V31I	NM_144778	NP_659002	Q5VZF2	MBNL2_HUMAN	muscleblind-like 2 isoform 1	298					mRNA processing|regulation of RNA splicing|RNA splicing	cytoplasm|nucleus	RNA binding|zinc ion binding				0	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.218)															---	---	---	---
RNF113B	140432	broad.mit.edu	37	13	98829385	98829385	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:98829385G>A	uc001vnk.2	-	1	137	c.106C>T	c.(106-108)CGC>TGC	p.R36C	FARP1_uc001vnh.2_Intron|FARP1_uc001vni.2_Intron|FARP1_uc001vnj.2_Intron	NM_178861	NP_849192	Q8IZP6	R113B_HUMAN	ring finger protein 113B	36							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.13)															---	---	---	---
FARP1	10160	broad.mit.edu	37	13	99042215	99042215	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:99042215C>T	uc001vnj.2	+	10	1196	c.860C>T	c.(859-861)GCG>GTG	p.A287V	FARP1_uc001vnh.2_Missense_Mutation_p.A287V	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	287	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)															---	---	---	---
TM9SF2	9375	broad.mit.edu	37	13	100172322	100172322	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100172322G>A	uc001voj.1	+	3	405	c.272G>A	c.(271-273)CGC>CAC	p.R91H	TM9SF2_uc010afz.1_Missense_Mutation_p.R91H	NM_004800	NP_004791	Q99805	TM9S2_HUMAN	transmembrane 9 superfamily member 2 precursor	91	Lumenal (Potential).				transport	endosome membrane|integral to plasma membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.218)																	---	---	---	---
TM9SF2	9375	broad.mit.edu	37	13	100204534	100204534	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100204534C>T	uc001voj.1	+	13	1575	c.1442C>T	c.(1441-1443)TCT>TTT	p.S481F	TM9SF2_uc010afz.1_Missense_Mutation_p.S316F	NM_004800	NP_004791	Q99805	TM9S2_HUMAN	transmembrane 9 superfamily member 2 precursor	481	Helical; (Potential).				transport	endosome membrane|integral to plasma membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.218)																	---	---	---	---
PCCA	5095	broad.mit.edu	37	13	100909900	100909900	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100909900G>A	uc001voo.2	+	9	727	c.689G>A	c.(688-690)CGC>CAC	p.R230H	PCCA_uc010aga.2_Missense_Mutation_p.R204H|PCCA_uc010tiz.1_Missense_Mutation_p.R230H	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha	230	ATP-grasp.|Biotin carboxylation.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)													---	---	---	---
TMTC4	84899	broad.mit.edu	37	13	101264648	101264648	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:101264648G>A	uc001vou.2	-						TMTC4_uc001vot.2_Intron|TMTC4_uc010tja.1_Intron	NM_001079669	NP_001073137			transmembrane and tetratricopeptide repeat							integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)																	---	---	---	---
NALCN	259232	broad.mit.edu	37	13	101720344	101720344	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:101720344C>T	uc001vox.1	-	39	4561	c.4372G>A	c.(4372-4374)GAG>AAG	p.E1458K		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1458	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)																	---	---	---	---
NALCN	259232	broad.mit.edu	37	13	102029307	102029307	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:102029307C>T	uc001vox.1	-	5	665	c.476G>A	c.(475-477)CGA>CAA	p.R159Q	NALCN_uc001voy.2_5'UTR|NALCN_uc001voz.2_Missense_Mutation_p.R159Q|NALCN_uc001vpa.2_Missense_Mutation_p.R159Q	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	159	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)																	---	---	---	---
ITGBL1	9358	broad.mit.edu	37	13	102359114	102359114	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:102359114A>G	uc001vpb.2	+	9	1360	c.1141A>G	c.(1141-1143)ACA>GCA	p.T381A	ITGBL1_uc010agb.2_Missense_Mutation_p.T332A|ITGBL1_uc001vpc.3_Missense_Mutation_p.T240A	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	381	VIII.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)																	---	---	---	---
FGF14	2259	broad.mit.edu	37	13	102568812	102568812	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:102568812G>A	uc001vpe.2	-	1	184	c.184C>T	c.(184-186)CGG>TGG	p.R62W	FGF14_uc001vpf.2_Intron	NM_004115	NP_004106	Q92915	FGF14_HUMAN	fibroblast growth factor 14 isoform 1A	62					cell death|cell-cell signaling|JNK cascade|nervous system development|signal transduction	nucleus	growth factor activity|heparin binding			ovary(2)|lung(1)|large_intestine(1)	4	all_neural(89;0.0239)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)																	---	---	---	---
TPP2	7174	broad.mit.edu	37	13	103286332	103286332	+	Missense_Mutation	SNP	C	T	T	rs2230855		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:103286332C>T	uc001vpi.3	+	11	1380	c.1277C>T	c.(1276-1278)GCG>GTG	p.A426V		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	426					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)																	---	---	---	---
TPP2	7174	broad.mit.edu	37	13	103286454	103286454	+	Intron	SNP	C	T	T	rs2274462		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:103286454C>T	uc001vpi.3	+							NM_003291	NP_003282			tripeptidyl peptidase II						proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)																	---	---	---	---
KDELC1	79070	broad.mit.edu	37	13	103445716	103445716	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:103445716G>A	uc001vpq.3	-	4	1031	c.647C>T	c.(646-648)GCC>GTC	p.A216V	KDELC1_uc001vpr.3_5'UTR	NM_024089	NP_076994	Q6UW63	KDEL1_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 1 precursor	216						endoplasmic reticulum lumen				ovary(1)	1	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)																	---	---	---	---
EFNB2	1948	broad.mit.edu	37	13	107165167	107165167	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:107165167G>A	uc001vqi.2	-							NM_004093	NP_004084			ephrin B2 precursor						cell differentiation|cell-cell signaling|interspecies interaction between organisms|nervous system development	integral to plasma membrane	ephrin receptor binding			ovary(1)	1	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)																	---	---	---	---
MYO16	23026	broad.mit.edu	37	13	109792683	109792683	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:109792683C>T	uc001vqt.1	+	32	4183	c.4057C>T	c.(4057-4059)CGC>TGC	p.R1353C	MYO16_uc010agk.1_Missense_Mutation_p.R1375C	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1353					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)															---	---	---	---
COL4A1	1282	broad.mit.edu	37	13	110827668	110827668	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:110827668C>T	uc001vqw.3	-	37	3217	c.3095G>A	c.(3094-3096)GGC>GAC	p.G1032D	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1032	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)															---	---	---	---
COL4A1	1282	broad.mit.edu	37	13	110839556	110839556	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:110839556C>T	uc001vqw.3	-	25	1779	c.1657G>A	c.(1657-1659)GGC>AGC	p.G553S	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	553	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)															---	---	---	---
COL4A1	1282	broad.mit.edu	37	13	110859767	110859767	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:110859767C>T	uc001vqw.3	-	13	885	c.763G>A	c.(763-765)GCC>ACC	p.A255T	COL4A1_uc010agl.2_Missense_Mutation_p.A255T	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	255	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)															---	---	---	---
COL4A2	1284	broad.mit.edu	37	13	111130478	111130478	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:111130478C>T	uc001vqx.2	+	30	2843	c.2554C>T	c.(2554-2556)CCC>TCC	p.P852S		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	852	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)															---	---	---	---
CARS2	79587	broad.mit.edu	37	13	111319736	111319736	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:111319736G>A	uc001vrd.2	-	8	910	c.870C>T	c.(868-870)TGC>TGT	p.C290C	CARS2_uc010tjm.1_RNA	NM_024537	NP_078813	Q9HA77	SYCM_HUMAN	cysteinyl-tRNA synthetase 2, mitochondrial	290					cysteinyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|cysteine-tRNA ligase activity|metal ion binding				0	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.163)		L-Cysteine(DB00151)													---	---	---	---
C13orf16	121793	broad.mit.edu	37	13	111996478	111996478	+	3'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:111996478G>A	uc001vsa.2	+	6						NM_152324	NP_689537			hypothetical protein LOC121793							integral to membrane					0	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		all cancers(43;0.113)|GBM - Glioblastoma multiforme(44;0.174)|BRCA - Breast invasive adenocarcinoma(86;0.188)															---	---	---	---
F10	2159	broad.mit.edu	37	13	113803279	113803279	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:113803279G>T	uc001vsx.2	+	8	972	c.915G>T	c.(913-915)GTG>GTT	p.V305V	F10_uc001vsy.2_Missense_Mutation_p.W302L|F10_uc001vsz.2_Missense_Mutation_p.W304L	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	305	Peptidase S1.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
PROZ	8858	broad.mit.edu	37	13	113826043	113826043	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:113826043C>T	uc001vta.1	+	8	834	c.827C>T	c.(826-828)GCG>GTG	p.A276V	PROZ_uc010agr.1_Missense_Mutation_p.A298V	NM_003891	NP_003882	P22891	PROZ_HUMAN	protein Z, vitamin K-dependent plasma	276	Peptidase S1.				blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.216)	all cancers(43;0.104)		Menadione(DB00170)													---	---	---	---
PCID2	55795	broad.mit.edu	37	13	113850537	113850537	+	Splice_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:113850537G>A	uc010tju.1	-	5	349	c.268_splice	c.e5-1	p.S90_splice	PCID2_uc010tjv.1_Splice_Site_p.S90_splice|PCID2_uc010tjw.1_Splice_Site_p.Q89_splice|PCID2_uc001vte.2_5'UTR|PCID2_uc001vtd.2_5'UTR|PCID2_uc001vtf.2_5'UTR	NM_001127203	NP_001120675			PCI domain containing 2						negative regulation of apoptosis|negative regulation of cysteine-type endopeptidase activity|positive regulation of mitotic cell cycle spindle assembly checkpoint|positive regulation of transcription, DNA-dependent|regulation of mRNA stability|spleen development		protein binding				0	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.216)|all_epithelial(44;0.234)	all cancers(43;0.104)															---	---	---	---
LAMP1	3916	broad.mit.edu	37	13	113975905	113975905	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:113975905G>A	uc001vtm.1	+	8	1258	c.977G>A	c.(976-978)CGA>CAA	p.R326Q	LAMP1_uc010tka.1_Missense_Mutation_p.R273Q	NM_005561	NP_005552	P11279	LAMP1_HUMAN	lysosomal-associated membrane protein 1	326	Lumenal (Potential).|Second lumenal domain.					endosome membrane|integral to plasma membrane|lysosomal membrane|membrane fraction				central_nervous_system(2)	2	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)															---	---	---	---
GAS6	2621	broad.mit.edu	37	13	114526405	114526405	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:114526405G>A	uc001vud.2	-	13	1749	c.1596C>T	c.(1594-1596)GCC>GCT	p.A532A	GAS6_uc001vug.2_Silent_p.A233A|GAS6_uc001vuf.2_Silent_p.A259A	NM_000820	NP_000811	Q14393	GAS6_HUMAN	growth arrest-specific 6 isoform 1 precursor	575	Laminin G-like 2.				cell proliferation|leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|post-translational protein modification|proteolysis|regulation of growth	endoplasmic reticulum lumen|extracellular space|Golgi lumen|platelet alpha granule lumen	calcium ion binding|receptor agonist activity			central_nervous_system(4)	4	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0176)|all_epithelial(44;0.0104)|all_lung(25;0.0249)|Lung NSC(25;0.0908)|Breast(118;0.188)																---	---	---	---
OR4K5	79317	broad.mit.edu	37	14	20388764	20388764	+	5'Flank	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20388764C>T	uc010tkw.1	+							NM_001005483	NP_001005483			olfactory receptor, family 4, subfamily K,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)														---	---	---	---
OR4K1	79544	broad.mit.edu	37	14	20404274	20404274	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20404274C>T	uc001vwj.1	+	1	449	c.449C>T	c.(448-450)GCG>GTG	p.A150V		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)														---	---	---	---
OR4K1	79544	broad.mit.edu	37	14	20404350	20404350	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20404350T>C	uc001vwj.1	+	1	525	c.525T>C	c.(523-525)GAT>GAC	p.D175D		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)														---	---	---	---
TTC5	91875	broad.mit.edu	37	14	20763639	20763639	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20763639C>T	uc001vwt.2	-	8	947	c.890G>A	c.(889-891)CGC>CAC	p.R297H	TTC5_uc001vwu.2_Missense_Mutation_p.R154H	NM_138376	NP_612385	Q8N0Z6	TTC5_HUMAN	tetratricopeptide repeat domain 5	297					DNA repair	cytoplasm|nucleus	binding			ovary(1)	1	all_cancers(95;0.00092)		Epithelial(56;1.1e-06)|all cancers(55;8.07e-06)	GBM - Glioblastoma multiforme(265;0.0106)														---	---	---	---
CCNB1IP1	57820	broad.mit.edu	37	14	20779703	20779703	+	3'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20779703C>T	uc001vwv.2	-	7					CCNB1IP1_uc001vww.2_3'UTR|CCNB1IP1_uc001vwx.2_3'UTR|CCNB1IP1_uc001vwy.2_3'UTR|CCNB1IP1_uc001vwz.2_3'UTR	NM_182851	NP_878271			cyclin B1 interacting protein 1 isoform 3							chromosome|nucleus	ligase activity|metal ion binding|protein binding		HMGA2/CCNB1IP1(2)	soft_tissue(2)|ovary(1)	3	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;8.86e-07)|all cancers(55;4.98e-06)	GBM - Glioblastoma multiforme(265;0.0164)				T	HMGA2	leiomyoma								---	---	---	---
CCNB1IP1	57820	broad.mit.edu	37	14	20784573	20784573	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20784573C>T	uc001vwv.2	-	5	759	c.110G>A	c.(109-111)GGC>GAC	p.G37D	CCNB1IP1_uc001vww.2_Missense_Mutation_p.G37D|CCNB1IP1_uc001vwx.2_Missense_Mutation_p.G37D|CCNB1IP1_uc001vwy.2_Missense_Mutation_p.G37D|CCNB1IP1_uc001vwz.2_Missense_Mutation_p.G37D|CCNB1IP1_uc010ahh.1_RNA	NM_182851	NP_878271	Q9NPC3	CIP1_HUMAN	cyclin B1 interacting protein 1 isoform 3	37	RING-type; atypical.					chromosome|nucleus	ligase activity|metal ion binding|protein binding		HMGA2/CCNB1IP1(2)	soft_tissue(2)|ovary(1)	3	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;8.86e-07)|all cancers(55;4.98e-06)	GBM - Glioblastoma multiforme(265;0.0164)				T	HMGA2	leiomyoma								---	---	---	---
TEP1	7011	broad.mit.edu	37	14	20836631	20836631	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20836631C>T	uc001vxe.2	-	55	7889	c.7849G>A	c.(7849-7851)GTG>ATG	p.V2617M	TEP1_uc010ahj.1_RNA|TEP1_uc010ahk.2_3'UTR|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.V2509M	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	2617	WD 21.				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)														---	---	---	---
TEP1	7011	broad.mit.edu	37	14	20853143	20853143	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20853143C>T	uc001vxe.2	-	21	3147	c.3107_splice	c.e21+1	p.S1036_splice	TEP1_uc010ahk.2_Splice_Site_p.S386_splice|TEP1_uc010tlf.1_Splice_Site|TEP1_uc010tlg.1_Splice_Site_p.S928_splice|TEP1_uc010tlh.1_5'Flank	NM_007110	NP_009041			telomerase-associated protein 1						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)														---	---	---	---
RNASE4	6038	broad.mit.edu	37	14	21167643	21167643	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21167643G>A	uc001vxy.3	+	2	676	c.113G>A	c.(112-114)CGG>CAG	p.R38Q	RNASE4_uc001vxx.3_RNA|RNASE4_uc001vya.2_Missense_Mutation_p.R38Q	NM_002937	NP_002928	P34096	RNAS4_HUMAN	ribonuclease, RNase A family, 4 precursor	38		Substrate.			mRNA cleavage	extracellular region	nucleic acid binding|pancreatic ribonuclease activity			central_nervous_system(1)	1	all_cancers(95;0.00304)		Epithelial(56;5.13e-07)|all cancers(55;4.73e-06)	GBM - Glioblastoma multiforme(265;0.0133)														---	---	---	---
HNRNPC	3183	broad.mit.edu	37	14	21702318	21702318	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21702318C>T	uc001vzy.2	-	3	279	c.35G>A	c.(34-36)CGC>CAC	p.R12H	HNRNPC_uc001vzw.2_Missense_Mutation_p.R12H|HNRNPC_uc001wad.2_Missense_Mutation_p.R12H|HNRNPC_uc001vzx.2_RNA|HNRNPC_uc001vzz.2_Missense_Mutation_p.R12H|HNRNPC_uc001waa.2_Missense_Mutation_p.R12H|HNRNPC_uc010ail.2_Missense_Mutation_p.R12H|HNRNPC_uc010tlq.1_RNA|HNRNPC_uc001wab.2_Missense_Mutation_p.R12H|HNRNPC_uc001wac.2_Missense_Mutation_p.R12H|HNRNPC_uc001waf.2_Missense_Mutation_p.R12H|HNRNPC_uc001wae.2_Missense_Mutation_p.R12H	NM_031314	NP_112604	P07910	HNRPC_HUMAN	heterogeneous nuclear ribonucleoprotein C	12						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)														---	---	---	---
CHD8	57680	broad.mit.edu	37	14	21873401	21873401	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21873401G>A	uc001was.1	-	16	2531	c.2437C>T	c.(2437-2439)CGC>TGC	p.R813C	CHD8_uc001war.1_Missense_Mutation_p.R709C|CHD8_uc001wav.1_Missense_Mutation_p.R255C	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	1092					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)														---	---	---	---
OR10G3	26533	broad.mit.edu	37	14	22038134	22038134	+	Missense_Mutation	SNP	C	T	T	rs142649226	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22038134C>T	uc010tmb.1	-	1	742	c.742G>A	c.(742-744)GTG>ATG	p.V248M		NM_001005465	NP_001005465	Q8NGC4	O10G3_HUMAN	olfactory receptor, family 10, subfamily G,	248	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|central_nervous_system(1)	2	all_cancers(95;0.000987)			GBM - Glioblastoma multiforme(265;0.0139)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	22616465	22616465	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22616465C>T	uc001wbw.2	+						uc010aiv.1_Intron|uc010aja.1_Intron|uc010tmk.1_Intron|uc010tmo.1_Intron|uc001wco.2_Intron|uc010aje.1_Intron|uc001wcp.2_Intron|uc001wcr.1_Intron|uc001wcs.1_Intron|uc010ajf.1_Intron|uc010ajg.1_Intron|uc001wcx.3_Intron|uc001wdd.2_Intron|uc010ajj.1_Intron|uc001wde.1_Intron|uc001wdf.2_Missense_Mutation_p.T69M|uc010ajk.1_Missense_Mutation_p.T69M|uc001wdg.1_Translation_Start_Site					SubName: Full=Alpha-chain C region; Flags: Fragment;																														---	---	---	---
HAUS4	54930	broad.mit.edu	37	14	23416833	23416833	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23416833G>A	uc001whp.2	-	7	847	c.816C>T	c.(814-816)TGC>TGT	p.C272C	HAUS4_uc001who.2_RNA|HAUS4_uc001whq.2_Silent_p.C146C|HAUS4_uc001whr.2_Silent_p.C272C|HAUS4_uc001whs.2_Silent_p.C227C|HAUS4_uc001wht.2_Silent_p.C272C|HAUS4_uc001whu.2_Silent_p.C227C|HAUS4_uc001whv.2_Silent_p.C148C|HAUS4_uc001whw.2_Silent_p.C272C|HAUS4_uc001whx.2_Silent_p.C227C	NM_017815	NP_060285	Q9H6D7	HAUS4_HUMAN	HAUS augmin-like complex, subunit 4	272					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle				ovary(1)	1																		---	---	---	---
IL25	64806	broad.mit.edu	37	14	23845030	23845030	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23845030C>T	uc001wjr.2	+	2	785	c.475C>T	c.(475-477)CGC>TGC	p.R159C	IL25_uc001wjq.2_Missense_Mutation_p.R143C|CMTM5_uc001wjs.2_5'Flank|CMTM5_uc001wjt.2_5'Flank|CMTM5_uc010akm.2_5'Flank|CMTM5_uc010akn.2_5'Flank|CMTM5_uc001wju.2_5'Flank|CMTM5_uc010ako.2_5'Flank	NM_022789	NP_073626	Q9H293	IL25_HUMAN	interleukin 25 isoform 1 precursor	159					inflammatory response	extracellular space|membrane	cytokine activity|interleukin-17E receptor binding			ovary(1)	1	all_cancers(95;2e-05)			GBM - Glioblastoma multiforme(265;0.00665)|READ - Rectum adenocarcinoma(4;0.0276)|Colorectal(4;0.0396)														---	---	---	---
MYH6	4624	broad.mit.edu	37	14	23862233	23862233	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23862233G>A	uc001wjv.2	-	24	3206	c.3139C>T	c.(3139-3141)CGC>TGC	p.R1047C		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1047	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)														---	---	---	---
MYH7	4625	broad.mit.edu	37	14	23886441	23886441	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23886441C>A	uc001wjx.2	-	32	4546	c.4440G>T	c.(4438-4440)GAG>GAT	p.E1480D		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1480	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)														---	---	---	---
AP1G2	8906	broad.mit.edu	37	14	24035477	24035477	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24035477G>A	uc001wkl.2	-						AP1G2_uc001wkj.2_Intron|AP1G2_uc001wkk.3_Intron|AP1G2_uc001wkn.2_Intron|uc001wko.1_RNA|AP1G2_uc001wkp.1_5'Flank|AP1G2_uc010tnp.1_Intron|AP1G2_uc010aks.2_Intron|AP1G2_uc010akt.2_Intron|AP1G2_uc010tnq.1_Intron	NM_003917	NP_003908			adaptor-related protein complex 1, gamma 2						interspecies interaction between organisms|intracellular protein transport|vesicle-mediated transport	AP-1 adaptor complex|endosome membrane	protein binding|protein transporter activity			ovary(1)	1	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00672)														---	---	---	---
DHRS4L2	317749	broad.mit.edu	37	14	24470629	24470629	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24470629C>T	uc001wli.3	+	6	698	c.568C>T	c.(568-570)CTG>TTG	p.L190L	DHRS4_uc001wlc.3_Intron|DHRS4L2_uc001wld.3_Intron|DHRS4L2_uc001wle.3_Intron|DHRS4L2_uc001wlg.3_Intron|DHRS4L2_uc001wlh.3_Intron|DHRS4L2_uc010tnt.1_Silent_p.L113L|DHRS4L2_uc010alb.2_Silent_p.L64L	NM_198083	NP_932349	D5KJA1	D5KJA1_HUMAN	dehydrogenase/reductase (SDR family) member 4	128							binding|oxidoreductase activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00962)														---	---	---	---
PCK2	5106	broad.mit.edu	37	14	24572751	24572751	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24572751C>T	uc001wlt.2	+	10	1633	c.1501C>T	c.(1501-1503)CGG>TGG	p.R501W	NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_Intron|PCK2_uc010tnw.1_Missense_Mutation_p.R367W|PCK2_uc010tnx.1_Missense_Mutation_p.R367W|PCK2_uc001wlu.3_Missense_Mutation_p.R335W	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	501					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)														---	---	---	---
RNF31	55072	broad.mit.edu	37	14	24618731	24618731	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24618731C>T	uc001wmn.1	+	6	997	c.748C>T	c.(748-750)CGT>TGT	p.R250C	PSME2_uc001wmj.2_5'Flank|PSME2_uc001wmk.2_5'Flank|RNF31_uc001wml.1_Missense_Mutation_p.R99C|RNF31_uc001wmm.1_Intron|RNF31_uc010alg.1_Missense_Mutation_p.R65C|RNF31_uc001wmo.1_5'Flank|RNF31_uc001wmp.2_5'Flank	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	250	Polyubiquitin-binding.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)														---	---	---	---
RNF31	55072	broad.mit.edu	37	14	24620776	24620776	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24620776G>A	uc001wmn.1	+	10	2069	c.1820G>A	c.(1819-1821)CGG>CAG	p.R607Q	RNF31_uc001wml.1_Missense_Mutation_p.R456Q|RNF31_uc001wmm.1_Intron|RNF31_uc010alg.1_Missense_Mutation_p.R366Q|RNF31_uc001wmo.1_Missense_Mutation_p.R74Q|RNF31_uc001wmp.2_RNA	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	607	Interaction with RBCK1.|UBA.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)														---	---	---	---
REC8	9985	broad.mit.edu	37	14	24642219	24642219	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24642219C>T	uc001wmr.2	+	4	664	c.237C>T	c.(235-237)CGC>CGT	p.R79R	REC8_uc001wms.2_Silent_p.R79R	NM_005132	NP_005123	O95072	REC8_HUMAN	REC8 homolog	79					mitotic metaphase/anaphase transition|mitotic prometaphase|reciprocal meiotic recombination|sister chromatid cohesion	nucleoplasm					0				GBM - Glioblastoma multiforme(265;0.00839)														---	---	---	---
IPO4	79711	broad.mit.edu	37	14	24654160	24654160	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24654160C>T	uc001wmv.1	-	15	1566	c.1435G>A	c.(1435-1437)GAG>AAG	p.E479K	IPO4_uc001wmt.1_5'Flank|IPO4_uc001wmu.2_Missense_Mutation_p.E141K|IPO4_uc001wmx.1_Missense_Mutation_p.E343K|IPO4_uc001wmy.1_Missense_Mutation_p.E343K|IPO4_uc010tnz.1_RNA|IPO4_uc001wmw.1_RNA|IPO4_uc001wmz.1_Missense_Mutation_p.E479K	NM_024658	NP_078934	Q8TEX9	IPO4_HUMAN	importin 4	479	HEAT 4.				intracellular protein transport	cytoplasm|nucleus	protein binding|protein transporter activity			kidney(1)	1				GBM - Glioblastoma multiforme(265;0.0087)														---	---	---	---
TM9SF1	10548	broad.mit.edu	37	14	24679618	24679618	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24679618G>A	uc010tob.1	-	5	1258	c.624C>T	c.(622-624)GAC>GAT	p.D208D	CHMP4A_uc001wni.2_Silent_p.D225D|CHMP4A_uc010toc.1_RNA|CHMP4A_uc001wnj.2_Silent_p.D225D	NM_006405	NP_006396	O15321	TM9S1_HUMAN	transmembrane 9 superfamily member 1 isoform a	Error:Variant_position_missing_in_O15321_after_alignment					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0183)														---	---	---	---
ADCY4	196883	broad.mit.edu	37	14	24791279	24791279	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24791279C>T	uc001wov.2	-	20	2585	c.2579G>A	c.(2578-2580)CGC>CAC	p.R860H	ADCY4_uc001wow.2_Missense_Mutation_p.R860H|ADCY4_uc010toh.1_Missense_Mutation_p.R546H|ADCY4_uc001wox.2_Missense_Mutation_p.R860H|ADCY4_uc001woy.2_Missense_Mutation_p.R860H	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	860	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	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)														---	---	---	---
KHNYN	23351	broad.mit.edu	37	14	24900835	24900835	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24900835G>A	uc001wph.3	+	3	570	c.368G>A	c.(367-369)GGC>GAC	p.G123D	KHNYN_uc010tpc.1_Missense_Mutation_p.G164D|KHNYN_uc010alw.2_Missense_Mutation_p.G123D|CBLN3_uc001wpg.3_5'Flank	NM_015299	NP_056114	O15037	KHNYN_HUMAN	hypothetical protein LOC23351	123										ovary(2)|liver(1)	3																OREG0022627	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
HECTD1	25831	broad.mit.edu	37	14	31604296	31604296	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31604296A>G	uc001wrc.1	-	22	3849	c.3360T>C	c.(3358-3360)CGT>CGC	p.R1120R	HECTD1_uc001wrd.1_Silent_p.R635R	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1120					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)														---	---	---	---
AKAP6	9472	broad.mit.edu	37	14	33014574	33014574	+	Missense_Mutation	SNP	G	T	T	rs145116316	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:33014574G>T	uc001wrq.2	+	4	885	c.715G>T	c.(715-717)GGG>TGG	p.G239W	AKAP6_uc010aml.2_Missense_Mutation_p.G236W	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	239					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)														---	---	---	---
BAZ1A	11177	broad.mit.edu	37	14	35240741	35240741	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35240741G>A	uc001wsk.2	-	21	3845	c.3277C>T	c.(3277-3279)CGG>TGG	p.R1093W	BAZ1A_uc001wsl.2_Missense_Mutation_p.R1061W	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1093					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)														---	---	---	---
KIAA0391	9692	broad.mit.edu	37	14	35739649	35739649	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35739649C>T	uc001wsy.1	+	7	1827	c.1467C>T	c.(1465-1467)TCC>TCT	p.S489S	KIAA0391_uc010tps.1_Silent_p.S394S|KIAA0391_uc001wsz.1_Silent_p.S473S|KIAA0391_uc001wta.2_RNA|KIAA0391_uc001wtb.1_Silent_p.S473S|KIAA0391_uc001wtc.1_Silent_p.S117S	NM_014672	NP_055487	O15091	MRRP3_HUMAN	mitochondrial RNase P protein 3 precursor	489					tRNA processing	mitochondrion					0	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;2.93e-05)|LUAD - Lung adenocarcinoma(48;3.86e-05)|Epithelial(34;0.0114)|all cancers(34;0.0277)	GBM - Glioblastoma multiforme(112;0.0593)														---	---	---	---
RALGAPA1	253959	broad.mit.edu	37	14	36133925	36133925	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:36133925G>A	uc001wti.2	-	26	4124	c.3733C>T	c.(3733-3735)CCC>TCC	p.P1245S	RALGAPA1_uc010amp.2_RNA|RALGAPA1_uc001wtj.2_Missense_Mutation_p.P1245S|RALGAPA1_uc010tpv.1_Missense_Mutation_p.P1258S|RALGAPA1_uc010tpw.1_Missense_Mutation_p.P1292S	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1245					activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4																		---	---	---	---
SSTR1	6751	broad.mit.edu	37	14	38678974	38678974	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38678974C>T	uc001wul.1	+	3	997	c.380C>T	c.(379-381)GCG>GTG	p.A127V	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	127	Extracellular (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)													---	---	---	---
SSTR1	6751	broad.mit.edu	37	14	38679346	38679346	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38679346G>A	uc001wul.1	+	3	1369	c.752G>A	c.(751-753)CGC>CAC	p.R251H	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	251	Cytoplasmic (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)													---	---	---	---
CLEC14A	161198	broad.mit.edu	37	14	38724733	38724733	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38724733G>A	uc001wum.1	-	1	842	c.495C>T	c.(493-495)CGC>CGT	p.R165R		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	165	Extracellular (Potential).|C-type lectin.					integral to membrane	sugar binding			ovary(3)|skin(1)	4	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;0.00439)														---	---	---	---
SIP1	8487	broad.mit.edu	37	14	39591696	39591696	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:39591696C>T	uc001wuq.2	+	5	490	c.468C>T	c.(466-468)GAC>GAT	p.D156D	SIP1_uc001wur.2_Silent_p.D156D|SIP1_uc001wus.2_Silent_p.D156D|SIP1_uc010amx.2_RNA	NM_003616	NP_003607	O14893	GEMI2_HUMAN	SMN-interacting protein 1 isoform alpha	156					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	Cajal body|cytosol|spliceosomal complex	protein binding				0	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0121)														---	---	---	---
KLHL28	54813	broad.mit.edu	37	14	45400591	45400591	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45400591G>A	uc001wvq.2	-	4	1743	c.1497C>T	c.(1495-1497)TAC>TAT	p.Y499Y	KLHL28_uc001wvr.2_Silent_p.Y499Y	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	499	Kelch 5.									ovary(1)	1																		---	---	---	---
FAM179B	23116	broad.mit.edu	37	14	45473399	45473399	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45473399C>G	uc001wvv.2	+	4	2683	c.2474C>G	c.(2473-2475)ACT>AGT	p.T825S	FAM179B_uc001wvw.2_Missense_Mutation_p.T825S|FAM179B_uc010anc.2_RNA|FAM179B_uc001wvu.2_Missense_Mutation_p.T825S	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	825							binding			skin(2)|upper_aerodigestive_tract(1)	3																		---	---	---	---
PRPF39	55015	broad.mit.edu	37	14	45579902	45579902	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45579902C>T	uc001wvz.3	+	10	1624	c.1454C>T	c.(1453-1455)GCC>GTC	p.A485V	PRPF39_uc001wvy.3_Missense_Mutation_p.A364V|PRPF39_uc010and.2_Missense_Mutation_p.A275V|PRPF39_uc001wwa.1_Missense_Mutation_p.A89V|SNORD127_uc010ane.2_5'Flank	NM_017922	NP_060392	Q86UA1	PRP39_HUMAN	PRP39 pre-mRNA processing factor 39 homolog	485					mRNA processing|RNA splicing	nucleus	binding			ovary(1)|breast(1)	2																		---	---	---	---
FANCM	57697	broad.mit.edu	37	14	45667954	45667954	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45667954G>A	uc001wwd.3	+	22	5923	c.5824G>A	c.(5824-5826)GCA>ACA	p.A1942T	FANCM_uc010anf.2_Missense_Mutation_p.A1916T|FANCM_uc001wwe.3_Missense_Mutation_p.A1478T|FANCM_uc010ang.2_Missense_Mutation_p.A1191T	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1942	Interaction with FAAP24 and EME1.				DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7													Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				---	---	---	---
NIN	51199	broad.mit.edu	37	14	51210171	51210171	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:51210171G>A	uc001wym.2	-	24	5455	c.5264C>T	c.(5263-5265)GCG>GTG	p.A1755V	NIN_uc001wyi.2_Missense_Mutation_p.A1755V|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.A1042V|NIN_uc010tqp.1_Missense_Mutation_p.A1761V|NIN_uc001wyo.2_Missense_Mutation_p.A1755V	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1755	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)							T	PDGFRB	MPD								---	---	---	---
NIN	51199	broad.mit.edu	37	14	51259463	51259463	+	Silent	SNP	C	T	T	rs146441468		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:51259463C>T	uc001wym.2	-	5	593	c.402G>A	c.(400-402)CGG>CGA	p.R134R	NIN_uc001wyi.2_Silent_p.R134R|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Silent_p.R134R|NIN_uc010tqp.1_Silent_p.R140R|NIN_uc001wyo.2_Silent_p.R134R|NIN_uc001wyp.1_Silent_p.R96R	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	134					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)							T	PDGFRB	MPD								---	---	---	---
TRIM9	114088	broad.mit.edu	37	14	51448575	51448575	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:51448575G>A	uc001wyx.3	-	8	2615	c.1850C>T	c.(1849-1851)GCA>GTA	p.A617V	TRIM9_uc001wyy.2_Missense_Mutation_p.A698V	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	617	B30.2/SPRY.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)																	---	---	---	---
TRIM9	114088	broad.mit.edu	37	14	51560869	51560869	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:51560869G>A	uc001wyx.3	-	1	1554	c.789C>T	c.(787-789)GTC>GTT	p.V263V	TRIM9_uc001wyy.2_Silent_p.V263V|TRIM9_uc001wyz.3_Silent_p.V263V	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	263	B box-type 2.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)																	---	---	---	---
TRIM9	114088	broad.mit.edu	37	14	51561103	51561103	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:51561103G>A	uc001wyx.3	-	1	1320	c.555C>T	c.(553-555)TGC>TGT	p.C185C	TRIM9_uc001wyy.2_Silent_p.C185C|TRIM9_uc001wyz.3_Silent_p.C185C	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	185	B box-type 1.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)																	---	---	---	---
FRMD6	122786	broad.mit.edu	37	14	52169261	52169261	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52169261T>A	uc001wzd.2	+	5	611	c.326T>A	c.(325-327)ATC>AAC	p.I109N	FRMD6_uc001wzb.2_Missense_Mutation_p.I101N|FRMD6_uc001wzc.2_Missense_Mutation_p.I101N|FRMD6_uc001wze.2_Missense_Mutation_p.I32N	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	109	FERM.					cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)																	---	---	---	---
NID2	22795	broad.mit.edu	37	14	52477679	52477679	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52477679C>T	uc001wzo.2	-	18	3871	c.3637G>A	c.(3637-3639)GCC>ACC	p.A1213T	NID2_uc010tqs.1_Missense_Mutation_p.A1165T|NID2_uc010tqt.1_Missense_Mutation_p.A1213T	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	1213	LDL-receptor class B 2.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)																	---	---	---	---
TXNDC16	57544	broad.mit.edu	37	14	52981604	52981604	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52981604C>T	uc001wzs.2	-	8	1048	c.599G>A	c.(598-600)AGT>AAT	p.S200N	TXNDC16_uc010tqu.1_Missense_Mutation_p.S195N|TXNDC16_uc010aoe.2_RNA	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1	200					cell redox homeostasis	extracellular region					0	Breast(41;0.0716)																	---	---	---	---
DDHD1	80821	broad.mit.edu	37	14	53525293	53525293	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:53525293G>A	uc001xai.2	-	9	2124	c.1894C>T	c.(1894-1896)CGT>TGT	p.R632C	DDHD1_uc001xaj.2_Missense_Mutation_p.R639C|DDHD1_uc001xah.2_Missense_Mutation_p.R632C|DDHD1_uc001xag.2_Missense_Mutation_p.R214C|DDHD1_uc001xak.1_Missense_Mutation_p.R28C	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	632	DDHD.				lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)																	---	---	---	---
SAMD4A	23034	broad.mit.edu	37	14	55251329	55251329	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:55251329G>A	uc001xbb.2	+	11	2117	c.2116G>A	c.(2116-2118)GCC>ACC	p.A706T	SAMD4A_uc001xbc.2_Missense_Mutation_p.A618T|SAMD4A_uc001xbg.2_Missense_Mutation_p.A334T	NM_015589	NP_056404	Q9UPU9	SMAG1_HUMAN	sterile alpha motif domain containing 4 isoform	707					positive regulation of translation	cell junction|cytoplasm|dendrite|synapse|synaptosome	translation repressor activity				0																		---	---	---	---
KIAA0831	22863	broad.mit.edu	37	14	55836529	55836529	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:55836529G>A	uc001xbx.1	-	10	1323	c.1287C>T	c.(1285-1287)ACC>ACT	p.T429T	FBXO34_uc001xbv.2_Intron|KIAA0831_uc001xbw.1_Silent_p.T316T	NM_014924	NP_055739	Q6ZNE5	BAKOR_HUMAN	Barkor	429					autophagic vacuole assembly|positive regulation of autophagy	autophagic vacuole|endoplasmic reticulum|pre-autophagosomal structure membrane	protein binding				0																		---	---	---	---
KIAA0831	22863	broad.mit.edu	37	14	55836547	55836547	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:55836547G>A	uc001xbx.1	-	10	1305	c.1269C>T	c.(1267-1269)CGC>CGT	p.R423R	FBXO34_uc001xbv.2_Intron|KIAA0831_uc001xbw.1_Silent_p.R310R	NM_014924	NP_055739	Q6ZNE5	BAKOR_HUMAN	Barkor	423					autophagic vacuole assembly|positive regulation of autophagy	autophagic vacuole|endoplasmic reticulum|pre-autophagosomal structure membrane	protein binding				0																		---	---	---	---
TBPL2	387332	broad.mit.edu	37	14	55903506	55903506	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:55903506G>A	uc001xby.2	-	2	381	c.381C>T	c.(379-381)AGC>AGT	p.S127S		NM_199047	NP_950248	Q6SJ96	TBPL2_HUMAN	TATA box binding protein like 2	127					multicellular organismal development|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding				0																		---	---	---	---
KTN1	3895	broad.mit.edu	37	14	56142642	56142642	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:56142642C>T	uc001xcb.2	+						KTN1_uc001xce.2_Intron|KTN1_uc001xcc.2_Intron|KTN1_uc001xcd.2_Intron|KTN1_uc010trb.1_Intron|KTN1_uc001xcf.1_Intron|KTN1_uc010aoq.2_Intron|KTN1_uc010trc.1_Intron|KTN1_uc001xcg.2_Intron	NM_182926	NP_891556			kinectin 1 isoform a						microtubule-based movement	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction				breast(3)|ovary(2)|lung(1)|central_nervous_system(1)	7								T	RET	papillary thryoid								---	---	---	---
C14orf101	54916	broad.mit.edu	37	14	57085368	57085368	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:57085368T>C	uc001xcm.2	+	10	1235	c.1113T>C	c.(1111-1113)GGT>GGC	p.G371G	C14orf101_uc001xcj.2_RNA|C14orf101_uc001xcl.1_RNA|C14orf101_uc001xcn.2_RNA|C14orf101_uc010trf.1_5'UTR|C14orf101_uc001xco.2_5'UTR	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	371	Helical; (Potential).					integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)														---	---	---	---
KIAA0586	9786	broad.mit.edu	37	14	58934588	58934588	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:58934588C>T	uc001xdv.3	+	15	2435	c.2162C>T	c.(2161-2163)GCC>GTC	p.A721V	KIAA0586_uc010trr.1_Missense_Mutation_p.A838V|KIAA0586_uc001xdt.3_Missense_Mutation_p.A753V|KIAA0586_uc001xdu.3_Missense_Mutation_p.A782V|KIAA0586_uc010trs.1_Missense_Mutation_p.A712V|KIAA0586_uc010trt.1_Missense_Mutation_p.A657V|KIAA0586_uc010tru.1_Missense_Mutation_p.A657V	NM_014749	NP_055564	E9PGW8	E9PGW8_HUMAN	talpid3 protein	721										ovary(1)	1																		---	---	---	---
C14orf135	64430	broad.mit.edu	37	14	60574805	60574805	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:60574805C>T	uc001xer.3	+						C14orf135_uc001xeq.2_Intron	NM_022495	NP_071940			hepatitis C virus F protein-binding protein 2							integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)														---	---	---	---
PPM1A	5494	broad.mit.edu	37	14	60749747	60749747	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:60749747A>G	uc010apn.2	+	3	728	c.326A>G	c.(325-327)GAT>GGT	p.D109G	PPM1A_uc001xew.3_Missense_Mutation_p.D182G|PPM1A_uc001xex.3_Missense_Mutation_p.D109G|PPM1A_uc001xey.3_Missense_Mutation_p.D109G	NM_021003	NP_066283	P35813	PPM1A_HUMAN	protein phosphatase 1A isoform 1	109					cell cycle arrest|insulin receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein dephosphorylation|Wnt receptor signaling pathway	cytosol|nucleus|protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein serine/threonine phosphatase activity|signal transducer activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.046)														---	---	---	---
PPM1A	5494	broad.mit.edu	37	14	60756574	60756574	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:60756574C>T	uc010apn.2	+	5	1405	c.1003C>T	c.(1003-1005)CGC>TGC	p.R335C	PPM1A_uc001xew.3_Missense_Mutation_p.R408C|PPM1A_uc001xey.3_Missense_Mutation_p.R335C	NM_021003	NP_066283	P35813	PPM1A_HUMAN	protein phosphatase 1A isoform 1	335					cell cycle arrest|insulin receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein dephosphorylation|Wnt receptor signaling pathway	cytosol|nucleus|protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein serine/threonine phosphatase activity|signal transducer activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.046)														---	---	---	---
PRKCH	5583	broad.mit.edu	37	14	61997194	61997194	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:61997194C>T	uc001xfn.2	+	12	1947	c.1642C>T	c.(1642-1644)CTC>TTC	p.L548F	PRKCH_uc010tsa.1_Missense_Mutation_p.L387F|PRKCH_uc010tsb.1_Missense_Mutation_p.L116F	NM_006255	NP_006246	P24723	KPCL_HUMAN	protein kinase C, eta	548	Protein kinase.				intracellular signal transduction|platelet activation	cytosol|plasma membrane	ATP binding|enzyme binding|metal ion binding|protein kinase C activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|large_intestine(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(108;0.045)|BRCA - Breast invasive adenocarcinoma(234;0.0906)|KIRC - Kidney renal clear cell carcinoma(182;0.182)														---	---	---	---
PPP2R5E	5529	broad.mit.edu	37	14	63856359	63856359	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:63856359C>T	uc001xgd.1	-	11	1635	c.1045G>A	c.(1045-1047)GCC>ACC	p.A349T	PPP2R5E_uc010tsf.1_Missense_Mutation_p.A273T|PPP2R5E_uc010tsg.1_Missense_Mutation_p.A273T|PPP2R5E_uc001xge.2_Missense_Mutation_p.A349T|PPP2R5E_uc010tsh.1_Missense_Mutation_p.A349T|PPP2R5E_uc001xgf.1_RNA	NM_006246	NP_006237	Q16537	2A5E_HUMAN	epsilon isoform of regulatory subunit B56,	349					signal transduction	cytoplasm|intracellular membrane-bounded organelle|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00197)|all cancers(60;0.0153)|BRCA - Breast invasive adenocarcinoma(234;0.128)														---	---	---	---
SYNE2	23224	broad.mit.edu	37	14	64518405	64518405	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64518405G>A	uc001xgm.2	+	48	8004	c.7774G>A	c.(7774-7776)GAT>AAT	p.D2592N	SYNE2_uc001xgl.2_Missense_Mutation_p.D2592N	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	2592	Potential.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)														---	---	---	---
SYNE2	23224	broad.mit.edu	37	14	64519034	64519034	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64519034C>T	uc001xgm.2	+	48	8633	c.8403C>T	c.(8401-8403)GGC>GGT	p.G2801G	SYNE2_uc001xgl.2_Silent_p.G2801G	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	2801	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)														---	---	---	---
SYNE2	23224	broad.mit.edu	37	14	64542723	64542723	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64542723C>T	uc001xgm.2	+	54	11157	c.10927C>T	c.(10927-10929)CGA>TGA	p.R3643*	SYNE2_uc001xgl.2_Nonsense_Mutation_p.R3643*|SYNE2_uc010apy.2_Nonsense_Mutation_p.R5*|SYNE2_uc010apw.1_Nonsense_Mutation_p.R349*|SYNE2_uc010apx.1_Nonsense_Mutation_p.R35*	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	3643	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)														---	---	---	---
SYNE2	23224	broad.mit.edu	37	14	64676162	64676162	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64676162C>T	uc001xgm.2	+	102	18636	c.18406C>T	c.(18406-18408)CGC>TGC	p.R6136C	SYNE2_uc001xgl.2_Missense_Mutation_p.R6136C|SYNE2_uc010apy.2_Missense_Mutation_p.R2521C|SYNE2_uc001xgn.2_Missense_Mutation_p.R1098C|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.R106C|SYNE2_uc001xgq.2_Missense_Mutation_p.R501C|SYNE2_uc001xgr.2_5'UTR	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6136	Spectrin 7.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)														---	---	---	---
SYNE2	23224	broad.mit.edu	37	14	64678805	64678805	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64678805C>T	uc001xgm.2	+	104	19080	c.18850C>T	c.(18850-18852)CGC>TGC	p.R6284C	SYNE2_uc001xgl.2_Missense_Mutation_p.R6284C|SYNE2_uc010apy.2_Missense_Mutation_p.R2669C|SYNE2_uc001xgn.2_Missense_Mutation_p.R1246C|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.R254C|SYNE2_uc001xgq.2_Missense_Mutation_p.R649C|SYNE2_uc001xgr.2_Missense_Mutation_p.R67C|SYNE2_uc010tsi.1_5'Flank|SYNE2_uc001xgs.2_5'Flank	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6284	Spectrin 8.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)														---	---	---	---
HSPA2	3306	broad.mit.edu	37	14	65008477	65008477	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:65008477C>T	uc001xhj.2	+	2	986	c.910C>T	c.(910-912)CGC>TGC	p.R304C	HSPA2_uc001xhk.3_Missense_Mutation_p.R304C	NM_021979	NP_068814	P54652	HSP72_HUMAN	heat shock 70kDa protein 2	304					response to unfolded protein|spermatid development	cell surface	ATP binding|unfolded protein binding			skin(1)	1				all cancers(60;0.00515)|OV - Ovarian serous cystadenocarcinoma(108;0.00584)|BRCA - Breast invasive adenocarcinoma(234;0.045)														---	---	---	---
GPHN	10243	broad.mit.edu	37	14	67389441	67389441	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:67389441C>T	uc001xiy.2	+	7	1636	c.515C>T	c.(514-516)GCC>GTC	p.A172V	GPHN_uc001xiw.2_Missense_Mutation_p.A154V|GPHN_uc001xix.2_Missense_Mutation_p.A172V|GPHN_uc010tss.1_Missense_Mutation_p.A185V|GPHN_uc010tst.1_Missense_Mutation_p.A141V|GPHN_uc010tsu.1_Missense_Mutation_p.A62V	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2	172	Interaction with GABARAP (By similarity).				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)				T	MLL	AL								---	---	---	---
FAM71D	161142	broad.mit.edu	37	14	67671596	67671596	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:67671596C>T	uc001xja.1	+	5	956	c.702C>T	c.(700-702)TTC>TTT	p.F234F	FAM71D_uc010aqn.1_RNA	NM_173526	NP_775797	Q8N9W8	FA71D_HUMAN	hypothetical protein LOC161142	234										ovary(1)	1		all_hematologic(31;0.0116)		all cancers(60;0.00107)|BRCA - Breast invasive adenocarcinoma(234;0.00993)|OV - Ovarian serous cystadenocarcinoma(108;0.012)														---	---	---	---
DCAF5	8816	broad.mit.edu	37	14	69521638	69521638	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:69521638G>A	uc001xkp.2	-	9	1984	c.1765C>T	c.(1765-1767)CGC>TGC	p.R589C	DCAF5_uc001xkq.2_Missense_Mutation_p.R588C	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	589						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2																		---	---	---	---
GALNTL1	57452	broad.mit.edu	37	14	69791495	69791495	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:69791495G>A	uc010aqu.1	+	3	515	c.422G>A	c.(421-423)CGC>CAC	p.R141H	GALNTL1_uc001xla.1_Missense_Mutation_p.R141H|GALNTL1_uc001xlb.1_Missense_Mutation_p.R141H	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	141	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)														---	---	---	---
GALNTL1	57452	broad.mit.edu	37	14	69795264	69795264	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:69795264G>A	uc010aqu.1	+	6	759	c.666G>A	c.(664-666)CCG>CCA	p.P222P	GALNTL1_uc001xla.1_Silent_p.P222P|GALNTL1_uc001xlb.1_Silent_p.P222P	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	222	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)														---	---	---	---
SLC39A9	55334	broad.mit.edu	37	14	69908873	69908873	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:69908873G>A	uc001xle.2	+	3	973	c.293G>A	c.(292-294)AGC>AAC	p.S98N	SLC39A9_uc010aqx.2_Missense_Mutation_p.S98N|SLC39A9_uc001xlf.3_Missense_Mutation_p.S98N|SLC39A9_uc001xlg.3_RNA	NM_018375	NP_060845	Q9NUM3	S39A9_HUMAN	solute carrier family 39 (zinc transporter),	98					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity				0				all cancers(60;0.00299)|BRCA - Breast invasive adenocarcinoma(234;0.0145)|OV - Ovarian serous cystadenocarcinoma(108;0.0373)														---	---	---	---
SLC39A9	55334	broad.mit.edu	37	14	69925158	69925158	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:69925158G>A	uc001xle.2	+	7	1452	c.772G>A	c.(772-774)GCC>ACC	p.A258T	SLC39A9_uc010aqx.2_Missense_Mutation_p.A235T|SLC39A9_uc001xlf.3_Intron|SLC39A9_uc001xlg.3_RNA	NM_018375	NP_060845	Q9NUM3	S39A9_HUMAN	solute carrier family 39 (zinc transporter),	258	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity				0				all cancers(60;0.00299)|BRCA - Breast invasive adenocarcinoma(234;0.0145)|OV - Ovarian serous cystadenocarcinoma(108;0.0373)														---	---	---	---
KIAA0247	9766	broad.mit.edu	37	14	70171413	70171413	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:70171413C>A	uc001xlk.2	+	4	728	c.412C>A	c.(412-414)CTG>ATG	p.L138M	KIAA0247_uc010aqz.2_Missense_Mutation_p.L113M	NM_014734	NP_055549	Q92537	K0247_HUMAN	hypothetical protein LOC9766 precursor	138	Helical; (Potential).					integral to membrane				ovary(3)	3				all cancers(60;0.00155)|BRCA - Breast invasive adenocarcinoma(234;0.0164)|OV - Ovarian serous cystadenocarcinoma(108;0.0196)														---	---	---	---
SMOC1	64093	broad.mit.edu	37	14	70496965	70496965	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:70496965G>A	uc001xls.1	+	12	1548	c.1295G>A	c.(1294-1296)CGC>CAC	p.R432H	SMOC1_uc001xlt.1_Missense_Mutation_p.R433H	NM_022137	NP_071420	Q9H4F8	SMOC1_HUMAN	secreted modular calcium-binding protein 1	432					cell differentiation|eye development|limb development|regulation of osteoblast differentiation|signal transduction	basement membrane	calcium ion binding			upper_aerodigestive_tract(1)|pancreas(1)	2				all cancers(60;0.00417)|BRCA - Breast invasive adenocarcinoma(234;0.0119)|OV - Ovarian serous cystadenocarcinoma(108;0.028)														---	---	---	---
SLC8A3	6547	broad.mit.edu	37	14	70634125	70634125	+	Missense_Mutation	SNP	C	T	T	rs138512128	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:70634125C>T	uc001xly.2	-	2	1769	c.1015G>A	c.(1015-1017)GCC>ACC	p.A339T	SLC8A3_uc001xlw.2_Missense_Mutation_p.A339T|SLC8A3_uc001xlx.2_Missense_Mutation_p.A339T|SLC8A3_uc001xlz.2_Missense_Mutation_p.A339T|SLC8A3_uc010ara.2_RNA	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	339	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)														---	---	---	---
ADAM21	8747	broad.mit.edu	37	14	70925992	70925992	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:70925992T>C	uc001xmd.2	+	1	1776	c.1776T>C	c.(1774-1776)GGT>GGC	p.G592G		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	592	Cys-rich.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)														---	---	---	---
MAP3K9	4293	broad.mit.edu	37	14	71199485	71199485	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:71199485G>A	uc001xmm.2	-	11	2601	c.2601C>T	c.(2599-2601)GTC>GTT	p.V867V	MAP3K9_uc010ttk.1_Silent_p.V595V|MAP3K9_uc001xmk.2_Silent_p.V600V|MAP3K9_uc001xml.2_Silent_p.V881V	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	867	Pro-rich.				activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)														---	---	---	---
SIPA1L1	26037	broad.mit.edu	37	14	72137841	72137841	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:72137841C>A	uc001xms.2	+	8	2609	c.2261C>A	c.(2260-2262)GCT>GAT	p.A754D	SIPA1L1_uc001xmt.2_Missense_Mutation_p.A754D|SIPA1L1_uc001xmu.2_Missense_Mutation_p.A754D|SIPA1L1_uc001xmv.2_Missense_Mutation_p.A754D|SIPA1L1_uc010ttm.1_Missense_Mutation_p.A229D	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	754	Rap-GAP.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)														---	---	---	---
SIPA1L1	26037	broad.mit.edu	37	14	72190523	72190523	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:72190523G>T	uc001xms.2	+	16	4779	c.4431G>T	c.(4429-4431)CAG>CAT	p.Q1477H	SIPA1L1_uc001xmt.2_Missense_Mutation_p.Q1456H|SIPA1L1_uc001xmu.2_Missense_Mutation_p.Q1456H|SIPA1L1_uc001xmv.2_Missense_Mutation_p.Q1477H|SIPA1L1_uc010ttm.1_Missense_Mutation_p.Q931H|SIPA1L1_uc001xmw.2_Missense_Mutation_p.Q242H	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1477	Ser-rich.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)														---	---	---	---
SIPA1L1	26037	broad.mit.edu	37	14	72191399	72191399	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:72191399C>T	uc001xms.2	+	17	4872	c.4524C>T	c.(4522-4524)AGC>AGT	p.S1508S	SIPA1L1_uc001xmt.2_Silent_p.S1487S|SIPA1L1_uc001xmu.2_Silent_p.S1487S|SIPA1L1_uc001xmv.2_Silent_p.S1508S|SIPA1L1_uc010ttm.1_Silent_p.S962S|SIPA1L1_uc001xmw.2_Silent_p.S273S	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1508					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)														---	---	---	---
DPF3	8110	broad.mit.edu	37	14	73140989	73140989	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:73140989C>T	uc001xnc.2	-	8	843	c.830G>A	c.(829-831)CGG>CAG	p.R277Q	DPF3_uc001xnd.1_RNA|DPF3_uc001xnf.2_RNA|DPF3_uc010ari.1_Missense_Mutation_p.R277Q|DPF3_uc010ttq.1_Missense_Mutation_p.R287Q	NM_012074	NP_036206	Q92784	DPF3_HUMAN	D4, zinc and double PHD fingers, family 3	277	PHD-type 1.				chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex	nucleic acid binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00649)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)														---	---	---	---
DPF3	8110	broad.mit.edu	37	14	73159844	73159844	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:73159844C>T	uc001xnc.2	-	7	695	c.682G>A	c.(682-684)GAT>AAT	p.D228N	DPF3_uc001xnd.1_RNA|DPF3_uc001xnf.2_RNA|DPF3_uc010ari.1_Missense_Mutation_p.D228N|DPF3_uc010ttq.1_Missense_Mutation_p.D238N	NM_012074	NP_036206	Q92784	DPF3_HUMAN	D4, zinc and double PHD fingers, family 3	228					chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex	nucleic acid binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00649)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)														---	---	---	---
HEATR4	399671	broad.mit.edu	37	14	73989372	73989372	+	Missense_Mutation	SNP	C	T	T	rs142623987		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:73989372C>T	uc010tub.1	-	3	807	c.485G>A	c.(484-486)CGC>CAC	p.R162H	HEATR4_uc010tua.1_Missense_Mutation_p.R115H	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)														---	---	---	---
C14orf43	91748	broad.mit.edu	37	14	74186094	74186094	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74186094T>C	uc001xot.2	-	12	3831	c.3048A>G	c.(3046-3048)CTA>CTG	p.L1016L	C14orf43_uc001xos.2_Silent_p.L281L|C14orf43_uc001xou.2_Silent_p.L1016L|C14orf43_uc010tud.1_Silent_p.L1016L|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	1016					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)														---	---	---	---
FAM161B	145483	broad.mit.edu	37	14	74407705	74407705	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74407705C>T	uc001xpd.1	-	5	1430	c.1324G>A	c.(1324-1326)GGC>AGC	p.G442S		NM_152445	NP_689658			hypothetical protein LOC145483											ovary(1)	1																		---	---	---	---
ABCD4	5826	broad.mit.edu	37	14	74763144	74763144	+	Missense_Mutation	SNP	C	T	T	rs150967109		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74763144C>T	uc001xpr.2	-	5	586	c.434G>A	c.(433-435)CGC>CAC	p.R145H	ABCD4_uc001xps.2_5'UTR|ABCD4_uc001xpt.2_5'UTR|ABCD4_uc010tur.1_Missense_Mutation_p.R58H|ABCD4_uc001xpu.2_5'UTR|ABCD4_uc001xpv.2_RNA	NM_005050	NP_005041	O14678	ABCD4_HUMAN	ATP-binding cassette, sub-family D, member 4	145	ABC transmembrane type-1.					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)														---	---	---	---
C14orf115	55237	broad.mit.edu	37	14	74824066	74824066	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74824066C>T	uc001xpw.3	+	2	771	c.580C>T	c.(580-582)CGC>TGC	p.R194C		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	194					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)														---	---	---	---
LTBP2	4053	broad.mit.edu	37	14	74973512	74973512	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74973512C>T	uc001xqa.2	-	27	4309	c.3922G>A	c.(3922-3924)GCC>ACC	p.A1308T		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1308	Cys-rich.|EGF-like 15; calcium-binding (Potential).				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)														---	---	---	---
YLPM1	56252	broad.mit.edu	37	14	75265781	75265781	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75265781C>T	uc001xqj.3	+	5	3905	c.3781C>T	c.(3781-3783)CGA>TGA	p.R1261*	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1066	Arg-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)														---	---	---	---
MLH3	27030	broad.mit.edu	37	14	75516018	75516018	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75516018T>G	uc001xrd.1	-	2	557	c.341A>C	c.(340-342)AAC>ACC	p.N114T	MLH3_uc001xre.1_Missense_Mutation_p.N114T|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	114					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					---	---	---	---
BATF	10538	broad.mit.edu	37	14	76012964	76012964	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76012964G>A	uc001xrr.2	+	3	570	c.328G>A	c.(328-330)GCC>ACC	p.A110T		NM_006399	NP_006390	Q16520	BATF_HUMAN	basic leucine zipper transcription factor,	110						nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.028)														---	---	---	---
TTLL5	23093	broad.mit.edu	37	14	76135826	76135826	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76135826G>A	uc001xrx.2	+	3	347	c.142G>A	c.(142-144)GCT>ACT	p.A48T	TTLL5_uc001xrw.1_Missense_Mutation_p.A48T|TTLL5_uc010ask.1_Missense_Mutation_p.A48T|TTLL5_uc001xrv.2_Missense_Mutation_p.A48T	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	48					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)														---	---	---	---
TGFB3	7043	broad.mit.edu	37	14	76431997	76431997	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76431997G>A	uc001xsc.2	-	4	1544	c.688C>T	c.(688-690)CAC>TAC	p.H230Y	TGFB3_uc001xsd.2_Missense_Mutation_p.H228Y	NM_003239	NP_003230	P10600	TGFB3_HUMAN	transforming growth factor, beta 3 precursor	230					cell growth|cell-cell junction organization|detection of hypoxia|face morphogenesis|in utero embryonic development|induction of apoptosis|lung alveolus development|mammary gland development|menstrual cycle phase|negative regulation of cell proliferation|negative regulation of DNA replication|negative regulation of macrophage cytokine production|negative regulation of neuron apoptosis|odontogenesis|ossification involved in bone remodeling|palate development|platelet activation|platelet degranulation|positive regulation of bone mineralization|positive regulation of cell division|positive regulation of collagen biosynthetic process|positive regulation of DNA replication|positive regulation of epithelial to mesenchymal transition|positive regulation of filopodium assembly|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein secretion|positive regulation of SMAD protein import into nucleus|positive regulation of transcription from RNA polymerase II promoter|response to progesterone stimulus|salivary gland morphogenesis|transforming growth factor beta receptor signaling pathway	extracellular matrix|platelet alpha granule lumen	growth factor activity|identical protein binding|transforming growth factor beta binding|type I transforming growth factor beta receptor binding|type II transforming growth factor beta receptor binding			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0169)														---	---	---	---
C14orf179	112752	broad.mit.edu	37	14	76542994	76542994	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76542994G>A	uc010asm.1	+						C14orf179_uc001xsf.2_RNA|C14orf179_uc010asl.1_Intron|C14orf179_uc001xsg.2_Silent_p.T90T|C14orf179_uc010tve.1_Intron	NM_001102564	NP_001096034			hypothetical protein LOC112752 isoform 2						cilium morphogenesis|intraflagellar retrograde transport						0				BRCA - Breast invasive adenocarcinoma(234;0.0199)														---	---	---	---
ANGEL1	23357	broad.mit.edu	37	14	77255579	77255579	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:77255579C>T	uc001xsv.2	-	10	2118	c.2005G>A	c.(2005-2007)GCC>ACC	p.A669T	uc001xsu.1_5'Flank|ANGEL1_uc010tvf.1_Intron	NM_015305	NP_056120	Q9UNK9	ANGE1_HUMAN	angel homolog 1	669										ovary(2)|central_nervous_system(1)|skin(1)	4			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0285)														---	---	---	---
POMT2	29954	broad.mit.edu	37	14	77745184	77745184	+	Silent	SNP	G	A	A	rs150755807		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:77745184G>A	uc001xti.2	-	19	2121	c.1920C>T	c.(1918-1920)GGC>GGT	p.G640G	POMT2_uc001xth.1_Silent_p.G338G	NM_013382	NP_037514	Q9UKY4	POMT2_HUMAN	protein-O-mannosyltransferase 2	640					protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0292)														---	---	---	---
POMT2	29954	broad.mit.edu	37	14	77750132	77750132	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:77750132A>G	uc001xti.2	-						POMT2_uc001xth.1_Intron	NM_013382	NP_037514			protein-O-mannosyltransferase 2						protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0292)														---	---	---	---
VIPAR	63894	broad.mit.edu	37	14	77910662	77910662	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:77910662C>T	uc001xtt.1	-	9	865	c.527G>A	c.(526-528)CGC>CAC	p.R176H	VIPAR_uc001xtu.1_Missense_Mutation_p.R176H|VIPAR_uc010tvj.1_Missense_Mutation_p.R127H|VIPAR_uc001xtv.1_Missense_Mutation_p.R176H	NM_022067	NP_071350	Q9H9C1	VIPAR_HUMAN	hypothetical protein LOC63894	176					endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1																		---	---	---	---
ALKBH1	8846	broad.mit.edu	37	14	78146264	78146264	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:78146264G>A	uc001xuc.1	-	4	514	c.505C>T	c.(505-507)CGT>TGT	p.R169C	ALKBH1_uc001xud.1_RNA	NM_006020	NP_006011	Q13686	ALKB1_HUMAN	alkylated DNA repair protein alkB homolog	169					DNA dealkylation involved in DNA repair|DNA demethylation|oxidative demethylation|RNA repair	mitochondrion	DNA-(apurinic or apyrimidinic site) lyase activity|ferrous iron binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(1)|skin(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)														---	---	---	---
ADCK1	57143	broad.mit.edu	37	14	78397931	78397931	+	Missense_Mutation	SNP	G	A	A	rs112630340		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:78397931G>A	uc001xui.2	+	10	1376	c.1277G>A	c.(1276-1278)CGC>CAC	p.R426H	ADCK1_uc001xuj.2_Missense_Mutation_p.R358H|ADCK1_uc001xul.2_Missense_Mutation_p.R133H	NM_020421	NP_065154	Q86TW2	ADCK1_HUMAN	aarF domain containing kinase 1 isoform a	433	Protein kinase.					extracellular region	ATP binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)	3			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0376)														---	---	---	---
C14orf145	145508	broad.mit.edu	37	14	81329141	81329141	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:81329141C>T	uc001xux.2	-	8	893	c.722G>A	c.(721-723)CGC>CAC	p.R241H	C14orf145_uc001xuz.2_Missense_Mutation_p.R241H|C14orf145_uc001xuy.1_Missense_Mutation_p.R99H	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	241	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)														---	---	---	---
TSHR	7253	broad.mit.edu	37	14	81422084	81422084	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:81422084C>T	uc001xvd.1	+	1	216	c.60C>T	c.(58-60)GGC>GGT	p.G20G	C14orf145_uc001xva.1_Intron|TSHR_uc001xvb.1_Silent_p.G20G|TSHR_uc001xvc.2_Silent_p.G20G|TSHR_uc010tvs.1_Silent_p.G20G	NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	20					cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						---	---	---	---
SEL1L	6400	broad.mit.edu	37	14	81952724	81952724	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:81952724G>A	uc010tvv.1	-	17	1824	c.1707C>T	c.(1705-1707)GGC>GGT	p.G569G		NM_005065	NP_005056	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like precursor	569	Lumenal (Potential).|Interaction with ERLEC1, OS9 and SYVN1.				Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)														---	---	---	---
FLRT2	23768	broad.mit.edu	37	14	86089506	86089506	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:86089506G>A	uc001xvr.2	+	2	2415	c.1648G>A	c.(1648-1650)GCG>ACG	p.A550T	FLRT2_uc010atd.2_Missense_Mutation_p.A550T	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	550	Helical; (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)														---	---	---	---
GALC	2581	broad.mit.edu	37	14	88401080	88401080	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:88401080C>T	uc001xvt.2	-	17	2453	c.2054G>A	c.(2053-2055)CGC>CAC	p.R685H	GALC_uc010tvw.1_Intron|GALC_uc010tvx.1_Missense_Mutation_p.R659H|GALC_uc010tvy.1_Missense_Mutation_p.R662H|GALC_uc010tvz.1_Intron	NM_000153	NP_000144	P54803	GALC_HUMAN	galactosylceramidase isoform a precursor	685					carbohydrate metabolic process|galactosylceramide catabolic process	lysosome	cation binding|galactosylceramidase activity				0																		---	---	---	---
GALC	2581	broad.mit.edu	37	14	88434718	88434718	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:88434718C>T	uc001xvt.2	-	8	1268	c.869G>A	c.(868-870)CGC>CAC	p.R290H	GALC_uc010tvw.1_RNA|GALC_uc010tvx.1_Missense_Mutation_p.R264H|GALC_uc010tvy.1_Missense_Mutation_p.R267H|GALC_uc010tvz.1_Missense_Mutation_p.R234H|GALC_uc001xvu.1_Missense_Mutation_p.R290H	NM_000153	NP_000144	P54803	GALC_HUMAN	galactosylceramidase isoform a precursor	290					carbohydrate metabolic process|galactosylceramide catabolic process	lysosome	cation binding|galactosylceramidase activity				0																		---	---	---	---
FOXN3	1112	broad.mit.edu	37	14	89647121	89647121	+	Missense_Mutation	SNP	G	A	A	rs145640730		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:89647121G>A	uc001xxo.3	-	6	978	c.841C>T	c.(841-843)CGG>TGG	p.R281W	FOXN3_uc001xxn.3_Missense_Mutation_p.R259W|FOXN3_uc010atk.2_Missense_Mutation_p.R259W	NM_001085471	NP_001078940	O00409	FOXN3_HUMAN	checkpoint suppressor 1 isoform 1	281					DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(2)|ovary(1)	3																		---	---	---	---
C14orf102	55051	broad.mit.edu	37	14	90755095	90755095	+	Missense_Mutation	SNP	C	T	T	rs142600051		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:90755095C>T	uc001xyi.1	-	11	2655	c.2624G>A	c.(2623-2625)CGA>CAA	p.R875Q	C14orf102_uc010atp.1_Missense_Mutation_p.R380Q|C14orf102_uc001xyj.1_Missense_Mutation_p.R644Q|C14orf102_uc001xyk.1_Missense_Mutation_p.R67Q	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	875							protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)														---	---	---	---
C14orf102	55051	broad.mit.edu	37	14	90769464	90769464	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:90769464C>A	uc001xyi.1	-	6	1042	c.1011G>T	c.(1009-1011)GAG>GAT	p.E337D	C14orf102_uc010atp.1_Intron|C14orf102_uc001xyj.1_Missense_Mutation_p.E106D	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	337	HAT 1.|Potential.						protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)														---	---	---	---
C14orf102	55051	broad.mit.edu	37	14	90784357	90784357	+	Silent	SNP	C	T	T	rs146955955		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:90784357C>T	uc001xyi.1	-	2	196	c.165G>A	c.(163-165)CCG>CCA	p.P55P	C14orf102_uc001xyj.1_Intron	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	55							protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)														---	---	---	---
GPR68	8111	broad.mit.edu	37	14	91701428	91701428	+	5'UTR	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:91701428C>A	uc001xzg.2	-	2					GPR68_uc001xzh.2_5'UTR	NM_003485	NP_003476			G protein-coupled receptor 68						inflammatory response	integral to plasma membrane	G-protein coupled receptor activity			kidney(1)	1		all_cancers(154;0.0555)		COAD - Colon adenocarcinoma(157;0.21)														---	---	---	---
CATSPERB	79820	broad.mit.edu	37	14	92076988	92076988	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:92076988C>T	uc001xzs.1	-	21	2574	c.2434G>A	c.(2434-2436)GCC>ACC	p.A812T	CATSPERB_uc010aub.1_Missense_Mutation_p.A334T	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	812					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)																---	---	---	---
RIN3	79890	broad.mit.edu	37	14	93125612	93125612	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:93125612G>C	uc001yap.2	+	7	2285	c.2133G>C	c.(2131-2133)CAG>CAC	p.Q711H	RIN3_uc010auk.2_Missense_Mutation_p.Q373H|RIN3_uc001yaq.2_Missense_Mutation_p.Q636H|RIN3_uc001yar.1_Missense_Mutation_p.Q373H|RIN3_uc001yas.1_Missense_Mutation_p.Q373H	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	711	Interaction with RAB5B.|VPS9.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)																---	---	---	---
RIN3	79890	broad.mit.edu	37	14	93125643	93125643	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:93125643A>G	uc001yap.2	+	7	2316	c.2164A>G	c.(2164-2166)ACC>GCC	p.T722A	RIN3_uc010auk.2_Missense_Mutation_p.T384A|RIN3_uc001yaq.2_Missense_Mutation_p.T647A|RIN3_uc001yar.1_Missense_Mutation_p.T384A|RIN3_uc001yas.1_Missense_Mutation_p.T384A	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	722	Interaction with RAB5B.|Poly-Thr.|VPS9.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)																---	---	---	---
C14orf109	26175	broad.mit.edu	37	14	93651838	93651838	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:93651838C>T	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)														---	---	---	---
BTBD7	55727	broad.mit.edu	37	14	93708973	93708973	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:93708973C>T	uc001ybo.2	-	11	3371	c.3045G>A	c.(3043-3045)GGG>GGA	p.G1015G	BTBD7_uc010aur.2_Silent_p.G540G|BTBD7_uc010two.1_Silent_p.G835G|BTBD7_uc001ybp.2_Silent_p.G664G	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	1015										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)														---	---	---	---
KIAA1409	57578	broad.mit.edu	37	14	94088106	94088106	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94088106G>A	uc001ybv.1	+	28	4145	c.4062G>A	c.(4060-4062)TCG>TCA	p.S1354S	KIAA1409_uc001ybs.1_Silent_p.S1332S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1509						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)														---	---	---	---
KIAA1409	57578	broad.mit.edu	37	14	94103626	94103626	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94103626A>G	uc001ybv.1	+	31	5516	c.5433A>G	c.(5431-5433)GGA>GGG	p.G1811G	KIAA1409_uc001ybs.1_Silent_p.G1789G	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1966						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)														---	---	---	---
KIAA1409	57578	broad.mit.edu	37	14	94120164	94120164	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94120164G>A	uc001ybv.1	+	35	5895	c.5812G>A	c.(5812-5814)GGC>AGC	p.G1938S	KIAA1409_uc001ybs.1_Missense_Mutation_p.G1916S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2093						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)														---	---	---	---
ASB2	51676	broad.mit.edu	37	14	94405768	94405768	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94405768C>T	uc001ycc.1	-	6	1648	c.1159G>A	c.(1159-1161)GCC>ACC	p.A387T	ASB2_uc001ycb.1_Missense_Mutation_p.A81T|ASB2_uc001ycd.2_Missense_Mutation_p.A435T|ASB2_uc001yce.1_Missense_Mutation_p.A333T	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	387	ANK 10.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)														---	---	---	---
ASB2	51676	broad.mit.edu	37	14	94417565	94417565	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94417565G>A	uc001ycc.1	-	4	1005	c.516C>T	c.(514-516)GCC>GCT	p.A172A	ASB2_uc001ycd.2_Silent_p.A220A|ASB2_uc001yce.1_Silent_p.A118A	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	172	ANK 4.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)														---	---	---	---
DDX24	57062	broad.mit.edu	37	14	94528700	94528700	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94528700G>A	uc001ycj.2	-	3	1085	c.986C>T	c.(985-987)GCG>GTG	p.A329V	DDX24_uc010twq.1_Missense_Mutation_p.A286V|DDX24_uc010twr.1_Missense_Mutation_p.A79V	NM_020414	NP_065147	Q9GZR7	DDX24_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 24	329	Helicase ATP-binding.				RNA metabolic process	cytoplasm|nucleolus|nucleolus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|skin(1)	4		all_cancers(154;0.12)		Epithelial(152;0.114)|all cancers(159;0.19)|COAD - Colon adenocarcinoma(157;0.207)														---	---	---	---
SERPINA11	256394	broad.mit.edu	37	14	94914995	94914995	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94914995C>T	uc001ydd.1	-	2	177	c.117G>A	c.(115-117)CAG>CAA	p.Q39Q		NM_001080451	NP_001073920	Q86U17	SPA11_HUMAN	serpin peptidase inhibitor, clade A (alpha-1	39					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			kidney(1)	1				COAD - Colon adenocarcinoma(157;0.211)														---	---	---	---
SERPINA12	145264	broad.mit.edu	37	14	94964324	94964324	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94964324C>T	uc001ydj.2	-	3	1207	c.411G>A	c.(409-411)ACG>ACA	p.T137T		NM_173850	NP_776249	Q8IW75	SPA12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	137					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			central_nervous_system(2)|ovary(1)|lung(1)	4				COAD - Colon adenocarcinoma(157;0.235)														---	---	---	---
CLMN	79789	broad.mit.edu	37	14	95682030	95682030	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95682030C>T	uc001yef.2	-	5	481	c.365G>A	c.(364-366)GGC>GAC	p.G122D		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	122	Actin-binding.|CH 1.					integral to membrane	actin binding				0				Epithelial(152;0.193)														---	---	---	---
C14orf49	161176	broad.mit.edu	37	14	95922035	95922035	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95922035G>A	uc001yei.3	-	5	831	c.816C>T	c.(814-816)GGC>GGT	p.G272G	C14orf49_uc010avi.2_Silent_p.G272G|C14orf49_uc001yej.1_Silent_p.G272G	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	272	Spectrin 1.|Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)														---	---	---	---
BDKRB2	624	broad.mit.edu	37	14	96707401	96707401	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96707401C>T	uc010avm.1	+	3	932	c.736C>T	c.(736-738)CAG>TAG	p.Q246*	BDKRB2_uc010avl.1_3'UTR|BDKRB2_uc010twu.1_Nonsense_Mutation_p.Q219*|BDKRB2_uc001yfg.2_Nonsense_Mutation_p.Q246*	NM_000623	NP_000614	P30411	BKRB2_HUMAN	bradykinin receptor B2	246	Helical; Name=5; (Potential).				arachidonic acid secretion|elevation of cytosolic calcium ion concentration|transmembrane receptor protein tyrosine kinase signaling pathway	endosome|integral to plasma membrane	bradykinin receptor activity|phosphatidylinositol phospholipase C activity|protease binding|protein heterodimerization activity|type 1 angiotensin receptor binding			ovary(3)|breast(1)|kidney(1)	5		all_cancers(154;0.0678)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.226)														---	---	---	---
ATG2B	55102	broad.mit.edu	37	14	96756089	96756089	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96756089C>T	uc001yfi.2	-	41	6275	c.5910G>A	c.(5908-5910)GAG>GAA	p.E1970E		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1970										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)														---	---	---	---
AK7	122481	broad.mit.edu	37	14	96909166	96909166	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96909166G>A	uc001yfn.2	+							NM_152327	NP_689540			adenylate kinase 7						cell projection organization	cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity			ovary(1)	1		all_cancers(154;0.0482)|all_epithelial(191;0.128)|Melanoma(154;0.155)		Epithelial(152;0.134)|COAD - Colon adenocarcinoma(157;0.228)														---	---	---	---
SETD3	84193	broad.mit.edu	37	14	99865307	99865307	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:99865307C>T	uc001ygc.2	-	13	1664	c.1494G>A	c.(1492-1494)CCG>CCA	p.P498P		NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	498					peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)																---	---	---	---
SETD3	84193	broad.mit.edu	37	14	99932082	99932082	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:99932082A>G	uc001ygc.2	-	2	231	c.61T>C	c.(61-63)TCA>CCA	p.S21P	SETD3_uc001ygd.2_Missense_Mutation_p.S21P|SETD3_uc001ygf.2_Missense_Mutation_p.S21P	NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	21					peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)																---	---	---	---
EVL	51466	broad.mit.edu	37	14	100595920	100595920	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:100595920C>T	uc001ygt.2	+	7	971	c.732C>T	c.(730-732)GGC>GGT	p.G244G	EVL_uc001ygv.2_Silent_p.G250G|EVL_uc001ygu.2_Silent_p.G246G|EVL_uc010avu.2_Silent_p.G103G	NM_016337	NP_057421	Q9UI08	EVL_HUMAN	Enah/Vasp-like	244	EVH2.				actin polymerization or depolymerization|axon guidance|cell surface receptor linked signaling pathway|organ morphogenesis	cytoskeleton|cytosol|focal adhesion|lamellipodium	actin binding|profilin binding|SH3 domain binding			large_intestine(2)|ovary(1)	3		Melanoma(154;0.152)																---	---	---	---
MIR379	494328	broad.mit.edu	37	14	101488429	101488429	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:101488429C>T	hsa-mir-379|MI0000787	+			c.27C>T			uc010awa.1_RNA|MIR411_hsa-mir-411|MI0003675_5'Flank|uc001yjx.1_5'Flank|MIR299_hsa-mir-299|MI0000744_5'Flank|uc010awb.1_5'Flank|MIR380_hsa-mir-380|MI0000788_5'Flank																	0																		---	---	---	---
MIR1197	100302250	broad.mit.edu	37	14	101491896	101491896	+	5'Flank	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:101491896G>T	hsa-mir-1197|MI0006656	+						uc001yjy.1_5'Flank|MIR323_hsa-mir-323|MI0000807_5'Flank|MIR758_hsa-mir-758|MI0003757_5'Flank|MIR329-1_hsa-mir-329-1|MI0001725_5'Flank|MIR329-2_hsa-mir-329-2|MI0001726_5'Flank																	0																		---	---	---	---
MIR655	724025	broad.mit.edu	37	14	101515879	101515879	+	5'Flank	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:101515879C>T	hsa-mir-655|MI0003677	+						MIR487A_hsa-mir-487a|MI0002471_5'Flank																	0																		---	---	---	---
MIR134	406924	broad.mit.edu	37	14	101521030	101521030	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:101521030G>A	hsa-mir-134|MI0000474	+			c.7G>A			uc010txo.1_RNA|MIR668_hsa-mir-668|MI0003761_5'Flank|MIR485_hsa-mir-485|MI0002469_5'Flank|hsa-mir-323b|MI0014206_5'Flank																	0																		---	---	---	---
DIO3	1735	broad.mit.edu	37	14	102028655	102028655	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102028655C>T	uc010txq.1	+	2	968	c.744C>T	c.(742-744)GGC>GGT	p.G248G	DIO3OS_uc001ykd.1_5'Flank|uc001yke.2_5'Flank|uc001ykf.2_5'Flank|uc001ykg.2_5'Flank|uc001ykh.3_5'Flank|MIR1247_hsa-mir-1247|MI0006382_5'Flank	NM_001362	NP_001353	P55073	IOD3_HUMAN	deiodinase, iodothyronine, type III	248	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process	endosome membrane|integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|thyroxine 5-deiodinase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(303;0.185)																---	---	---	---
PPP2R5C	5527	broad.mit.edu	37	14	102349641	102349641	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102349641A>G	uc001yko.2	+	4	593	c.453A>G	c.(451-453)CAA>CAG	p.Q151Q	PPP2R5C_uc010txr.1_Silent_p.Q182Q|PPP2R5C_uc001ykk.2_Silent_p.Q206Q|PPP2R5C_uc010txt.1_Silent_p.Q141Q|PPP2R5C_uc001ykn.2_Silent_p.Q151Q|PPP2R5C_uc001ykp.2_Silent_p.Q151Q|PPP2R5C_uc001ykq.2_Silent_p.Q49Q	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	151					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																		---	---	---	---
PPP2R5C	5527	broad.mit.edu	37	14	102356590	102356590	+	Missense_Mutation	SNP	G	A	A	rs4617782		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102356590G>A	uc001yko.2	+	6	786	c.646G>A	c.(646-648)GAG>AAG	p.E216K	PPP2R5C_uc010txr.1_Missense_Mutation_p.E247K|PPP2R5C_uc001ykk.2_Missense_Mutation_p.E271K|PPP2R5C_uc010txt.1_Missense_Mutation_p.E206K|PPP2R5C_uc001ykn.2_Missense_Mutation_p.E216K|PPP2R5C_uc001ykp.2_Missense_Mutation_p.E216K|PPP2R5C_uc001ykq.2_Missense_Mutation_p.E114K	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	216					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																		---	---	---	---
DYNC1H1	1778	broad.mit.edu	37	14	102453010	102453010	+	Silent	SNP	C	T	T	rs145405293	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102453010C>T	uc001yks.2	+	8	2612	c.2448C>T	c.(2446-2448)ATC>ATT	p.I816I		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	816	Stem (By similarity).				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																		---	---	---	---
DYNC1H1	1778	broad.mit.edu	37	14	102469005	102469005	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102469005G>T	uc001yks.2	+	22	4838	c.4674G>T	c.(4672-4674)AAG>AAT	p.K1558N		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1558	Stem (By similarity).				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																		---	---	---	---
CDC42BPB	9578	broad.mit.edu	37	14	103442313	103442313	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103442313G>A	uc001ymi.1	-	10	1526	c.1294C>T	c.(1294-1296)CGG>TGG	p.R432W		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	432	Potential.				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	103447231	103447231	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103447231G>A	uc001ymi.1	-	8	1251	c.1019C>T	c.(1018-1020)GCG>GTG	p.A340V		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	340	Protein kinase.				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)														---	---	---	---
MARK3	4140	broad.mit.edu	37	14	103941507	103941507	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103941507C>T	uc001ymz.3	+	13	2108	c.1442C>T	c.(1441-1443)GCG>GTG	p.A481V	MARK3_uc001ymx.3_Missense_Mutation_p.A481V|MARK3_uc001ymw.3_Missense_Mutation_p.A481V|MARK3_uc001yna.3_Missense_Mutation_p.A465V|MARK3_uc001ymy.3_Missense_Mutation_p.A402V|MARK3_uc010awp.2_Missense_Mutation_p.A504V|MARK3_uc010tyb.1_Missense_Mutation_p.A276V|MARK3_uc010awq.2_Missense_Mutation_p.A11V	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	481							ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)															---	---	---	---
ZFYVE21	79038	broad.mit.edu	37	14	104194182	104194182	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:104194182G>A	uc001yoc.2	+	3	323	c.289G>A	c.(289-291)GCG>ACG	p.A97T	ZFYVE21_uc001yod.2_Missense_Mutation_p.A97T	NM_024071	NP_076976	Q9BQ24	ZFY21_HUMAN	zinc finger, FYVE domain containing 21	97	FYVE-type.					cytoplasmic membrane-bounded vesicle|focal adhesion	metal ion binding				0		Melanoma(154;0.226)		Epithelial(152;0.245)														---	---	---	---
ADSSL1	122622	broad.mit.edu	37	14	105208225	105208225	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105208225C>T	uc001ypd.2	+	9	908	c.834C>T	c.(832-834)GGC>GGT	p.G278G	INF2_uc010tyi.1_Intron|ADSSL1_uc001ype.2_Silent_p.G321G|ADSSL1_uc001ypf.2_RNA	NM_152328	NP_689541	Q8N142	PURA1_HUMAN	adenylosuccinate synthase like 1 isoform 2	278					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(1)|central_nervous_system(1)	2		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.18)	L-Aspartic Acid(DB00128)													---	---	---	---
AHNAK2	113146	broad.mit.edu	37	14	105406357	105406357	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105406357C>T	uc010axc.1	-	7	15551	c.15431G>A	c.(15430-15432)AGC>AAC	p.S5144N	AHNAK2_uc001ypx.2_Missense_Mutation_p.S5044N	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5144						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)															---	---	---	---
AHNAK2	113146	broad.mit.edu	37	14	105411840	105411840	+	Silent	SNP	C	T	T	rs77268153	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105411840C>T	uc010axc.1	-	7	10068	c.9948G>A	c.(9946-9948)CCG>CCA	p.P3316P	AHNAK2_uc001ypx.2_Silent_p.P3216P	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3316						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)															---	---	---	---
AHNAK2	113146	broad.mit.edu	37	14	105413326	105413326	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105413326G>A	uc010axc.1	-	7	8582	c.8462C>T	c.(8461-8463)CCG>CTG	p.P2821L	AHNAK2_uc001ypx.2_Missense_Mutation_p.P2721L	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2821						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)															---	---	---	---
AHNAK2	113146	broad.mit.edu	37	14	105415885	105415885	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105415885G>A	uc010axc.1	-	7	6023	c.5903C>T	c.(5902-5904)GCG>GTG	p.A1968V	AHNAK2_uc001ypx.2_Missense_Mutation_p.A1868V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1968						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)															---	---	---	---
CDCA4	55038	broad.mit.edu	37	14	105478028	105478028	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105478028C>T	uc001yqa.2	-	2	335	c.239G>A	c.(238-240)CGC>CAC	p.R80H	CDCA4_uc001yqb.2_Missense_Mutation_p.R80H	NM_145701	NP_663747	Q9BXL8	CDCA4_HUMAN	cell division cycle associated 4	80						nucleus				ovary(1)	1		all_cancers(154;0.0798)|Melanoma(154;0.155)|all_epithelial(191;0.183)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.142)														---	---	---	---
GPR132	29933	broad.mit.edu	37	14	105517738	105517738	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105517738C>T	uc001yqd.2	-	4	1635	c.736G>A	c.(736-738)GCG>ACG	p.A246T	GPR132_uc001yqc.2_Missense_Mutation_p.A58T|GPR132_uc001yqe.2_Missense_Mutation_p.A237T	NM_013345	NP_037477	Q9UNW8	GP132_HUMAN	G protein-coupled receptor 132	246	Cytoplasmic (Potential).				response to stress	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.0953)|Melanoma(154;0.155)|all_epithelial(191;0.219)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.02)|all cancers(159;0.0419)|OV - Ovarian serous cystadenocarcinoma(161;0.0521)														---	---	---	---
JAG2	3714	broad.mit.edu	37	14	105618517	105618517	+	Silent	SNP	G	A	A	rs138120492		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105618517G>A	uc001yqg.2	-	6	1304	c.900C>T	c.(898-900)GGC>GGT	p.G300G	JAG2_uc001yqf.2_5'Flank|JAG2_uc001yqh.2_Silent_p.G300G	NM_002226	NP_002217	Q9Y219	JAG2_HUMAN	jagged 2 isoform a precursor	300	Extracellular (Potential).|EGF-like 2; atypical.				auditory receptor cell fate commitment|cell communication|cell cycle|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation|spermatogenesis|thymic T cell selection	integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding			lung(3)|breast(2)	5		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)														---	---	---	---
BRF1	2972	broad.mit.edu	37	14	105707625	105707625	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105707625C>T	uc001yqp.2	-	6	1034	c.671G>A	c.(670-672)CGC>CAC	p.R224H	BRF1_uc010tyo.1_Missense_Mutation_p.R109H|BRF1_uc010typ.1_Missense_Mutation_p.R109H|BRF1_uc001yql.2_Missense_Mutation_p.R20H|BRF1_uc001yqo.2_Intron|BRF1_uc010axg.1_Missense_Mutation_p.R197H|BRF1_uc001yqn.2_RNA|BRF1_uc010axh.1_RNA|BRF1_uc010axj.1_Intron	NM_001519	NP_001510	Q92994	TF3B_HUMAN	transcription initiation factor IIIB isoform 1	224	2.			R -> G (in Ref. 1; AAC50170).	positive regulation of transcription, DNA-dependent|rRNA transcription|transcription initiation from RNA polymerase III promoter|tRNA transcription	transcription factor TFIIIB complex	translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		all_cancers(154;0.0231)|all_epithelial(191;0.0694)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00753)|all cancers(16;0.00925)|Epithelial(46;0.0221)	Epithelial(152;0.14)														---	---	---	---
BTBD6	90135	broad.mit.edu	37	14	105716187	105716187	+	Silent	SNP	C	T	T	rs147665481	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105716187C>T	uc010tyq.1	+	5	744	c.636C>T	c.(634-636)GAC>GAT	p.D212D	BRF1_uc010tyo.1_Intron|BRF1_uc010typ.1_Intron|BRF1_uc001yql.2_5'Flank|BRF1_uc001yqo.2_5'Flank|BRF1_uc010axg.1_Intron|BRF1_uc001yqp.2_Intron|BRF1_uc001yqn.2_5'Flank|BRF1_uc010axh.1_5'Flank|BRF1_uc010axj.1_5'Flank	NM_033271	NP_150374	Q96KE9	BTBD6_HUMAN	BTB domain protein BDPL	212						cytoplasmic mRNA processing body					0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.0163)|Epithelial(46;0.0391)	Epithelial(152;0.18)														---	---	---	---
C14orf80	283643	broad.mit.edu	37	14	105965245	105965245	+	Missense_Mutation	SNP	C	T	T	rs140908263	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105965245C>T	uc001yrm.2	+	9	1577	c.1450C>T	c.(1450-1452)CGC>TGC	p.R484C	C14orf80_uc001yrj.2_Missense_Mutation_p.R343C|C14orf80_uc001yrk.2_Missense_Mutation_p.R341C|C14orf80_uc001yrn.2_Missense_Mutation_p.R415C|C14orf80_uc001yro.2_Missense_Mutation_p.R382C|C14orf80_uc010tys.1_Missense_Mutation_p.R237C	NM_001134875	NP_001128347	Q86SX3	CN080_HUMAN	hypothetical protein LOC283643 isoform 1	484											0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0188)	Epithelial(152;0.239)														---	---	---	---
ADAM6	8755	broad.mit.edu	37	14	106235811	106235811	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106235811G>A	uc010tyt.1	-	3617		c.58036C>T			uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Intron|uc001yrx.1_Intron|uc001yrz.1_Intron|uc001yse.2_Intron|uc001ysf.2_Intron|uc001ysh.1_RNA|uc001ysi.1_RNA					Parts of antibodies, mostly variable regions.												0																		---	---	---	---
ADAM6	8755	broad.mit.edu	37	14	106725333	106725333	+	RNA	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106725333A>G	uc010tyt.1	-	588		c.18214T>C								Parts of antibodies, mostly variable regions.												0																		---	---	---	---
ADAM6	8755	broad.mit.edu	37	14	106845337	106845337	+	RNA	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106845337A>G	uc010tyt.1	-	308		c.12315T>C								Parts of antibodies, mostly variable regions.												0																		---	---	---	---
ADAM6	8755	broad.mit.edu	37	14	106967231	106967231	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106967231G>A	uc010tyt.1	-	201		c.9210C>T								Parts of antibodies, mostly variable regions.												0																		---	---	---	---
ADAM6	8755	broad.mit.edu	37	14	107131093	107131093	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:107131093C>T	uc010tyt.1	-	63		c.3417G>A								Parts of antibodies, mostly variable regions.												0																		---	---	---	---
OR4N4	283694	broad.mit.edu	37	15	22383015	22383015	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22383015C>A	uc001yuc.1	+	7	1524	c.543C>A	c.(541-543)GTC>GTA	p.V181V	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Silent_p.V181V	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)														---	---	---	---
CYFIP1	23191	broad.mit.edu	37	15	22945147	22945147	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22945147G>A	uc001yus.2	+	12	1322	c.1218G>A	c.(1216-1218)GCG>GCA	p.A406A	CYFIP1_uc001yut.2_Silent_p.A406A|CYFIP1_uc010aya.1_Silent_p.A434A	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	406					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)														---	---	---	---
CYFIP1	23191	broad.mit.edu	37	15	22997826	22997826	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22997826C>T	uc001yus.2	+	27	3176	c.3072C>T	c.(3070-3072)CAC>CAT	p.H1024H	CYFIP1_uc001yut.2_Silent_p.H1024H|CYFIP1_uc001yuu.2_Silent_p.H593H|CYFIP1_uc001yuv.2_Silent_p.H218H	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	1024					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)														---	---	---	---
MKRN3	7681	broad.mit.edu	37	15	23812066	23812066	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:23812066G>T	uc001ywh.3	+	1	1613	c.1137G>T	c.(1135-1137)GAG>GAT	p.E379D	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.E379D	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	379						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)														---	---	---	---
NDN	4692	broad.mit.edu	37	15	23931741	23931741	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:23931741G>A	uc001ywk.2	-	1	710	c.624C>T	c.(622-624)AGC>AGT	p.S208S		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	208	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)										Prader-Willi_syndrome				---	---	---	---
C15orf2	23742	broad.mit.edu	37	15	24922492	24922492	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:24922492T>A	uc001ywo.2	+	1	1952	c.1478T>A	c.(1477-1479)CTC>CAC	p.L493H		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	493	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)														---	---	---	---
SNORD116-4	100033416	broad.mit.edu	37	15	25315649	25315649	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25315649G>A	uc001yxh.1	+						SNORD116-4_uc001yxm.1_Intron|IPW_uc001yxn.3_Intron|SNORD116-8_uc001yxr.2_RNA|SNORD116-3_uc001yxs.2_5'Flank					Homo sapiens clone kid4 SNURF-SNRPN mRNA, downstream untranslated exons, alternatively spliced.												0																		---	---	---	---
SNORD116-4	100033416	broad.mit.edu	37	15	25318322	25318322	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25318322C>T	uc001yxh.1	+						SNORD116-4_uc001yxm.1_Intron|IPW_uc001yxn.3_Intron|SNORD116-3_uc001yxs.2_RNA|SNORD116-10_uc001yxt.2_5'Flank|SNORD116-11_uc001yxu.2_5'Flank					Homo sapiens clone kid4 SNURF-SNRPN mRNA, downstream untranslated exons, alternatively spliced.												0																		---	---	---	---
SNORD116-4	100033416	broad.mit.edu	37	15	25326459	25326459	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25326459C>T	uc001yxh.1	+						SNORD116-4_uc001yxm.1_Intron|IPW_uc001yxn.3_Intron|SNORD116-28_uc001yxy.2_Intron|SNORD116-15_uc001yxz.2_RNA|SNORD116-16_uc001yya.2_5'Flank|IPW_uc001yyb.3_5'Flank|SNORD116-19_uc001yyc.2_5'Flank					Homo sapiens clone kid4 SNURF-SNRPN mRNA, downstream untranslated exons, alternatively spliced.												0																		---	---	---	---
ATP10A	57194	broad.mit.edu	37	15	25932965	25932965	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25932965G>A	uc010ayu.2	-	16	3282	c.3176C>T	c.(3175-3177)GCC>GTC	p.A1059V		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1059	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)														---	---	---	---
HERC2	8924	broad.mit.edu	37	15	28366571	28366571	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28366571G>A	uc001zbj.2	-	86	13299	c.13193C>T	c.(13192-13194)GCG>GTG	p.A4398V		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4398					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)														---	---	---	---
HERC2	8924	broad.mit.edu	37	15	28389918	28389918	+	Missense_Mutation	SNP	G	A	A	rs143963667		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28389918G>A	uc001zbj.2	-	72	11147	c.11041C>T	c.(11041-11043)CGC>TGC	p.R3681C		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3681					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)														---	---	---	---
HERC2	8924	broad.mit.edu	37	15	28451378	28451378	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28451378G>A	uc001zbj.2	-						HERC2_uc001zbk.1_5'Flank	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)														---	---	---	---
HERC2	8924	broad.mit.edu	37	15	28501354	28501354	+	Missense_Mutation	SNP	G	A	A	rs149493788		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28501354G>A	uc001zbj.2	-	18	2733	c.2627C>T	c.(2626-2628)GCG>GTG	p.A876V	HERC2_uc001zbl.1_Missense_Mutation_p.A571V	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	876					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)														---	---	---	---
APBA2	321	broad.mit.edu	37	15	29397673	29397673	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:29397673G>A	uc001zck.2	+	10	1823	c.1616G>A	c.(1615-1617)AGC>AAC	p.S539N	APBA2_uc010azj.2_Missense_Mutation_p.S527N|APBA2_uc010uat.1_Missense_Mutation_p.S527N|APBA2_uc001zcl.2_Missense_Mutation_p.S527N	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	539	PID.				nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)														---	---	---	---
MTMR10	54893	broad.mit.edu	37	15	31253201	31253201	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:31253201C>T	uc001zfh.1	-	7	739	c.641G>A	c.(640-642)AGC>AAC	p.S214N	MTMR10_uc010azx.1_5'UTR|MTMR10_uc001zfi.1_5'UTR|MTMR10_uc001zfj.2_Missense_Mutation_p.S132N|MTMR10_uc001zfk.2_5'UTR|MTMR10_uc010ubl.1_RNA	NM_017762	NP_060232	Q9NXD2	MTMRA_HUMAN	myotubularin related protein 10	214							phosphatase activity	p.R214Q(1)		ovary(1)	1		all_lung(180;2.81e-11)		all cancers(64;7.26e-15)|Epithelial(43;7.2e-11)|GBM - Glioblastoma multiforme(186;0.000158)|BRCA - Breast invasive adenocarcinoma(123;0.00426)|Lung(196;0.174)														---	---	---	---
TRPM1	4308	broad.mit.edu	37	15	31358383	31358383	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:31358383G>A	uc001zfm.2	-	6	748	c.620C>T	c.(619-621)ACC>ATC	p.T207I	TRPM1_uc010azy.2_Missense_Mutation_p.T120I|TRPM1_uc001zfl.2_RNA|uc010ubm.1_5'Flank|MIR211_hsa-mir-211|MI0000287_5'Flank	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	207	Extracellular (Potential).				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)														---	---	---	---
TRPM1	4308	broad.mit.edu	37	15	31362319	31362319	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:31362319G>T	uc001zfm.2	-	3	256	c.128C>A	c.(127-129)TCT>TAT	p.S43Y	TRPM1_uc010azy.2_5'Flank|TRPM1_uc001zfl.2_5'Flank|TRPM1_uc001zfn.3_Missense_Mutation_p.S43Y|uc010ubn.1_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	43	Extracellular (Potential).				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)														---	---	---	---
FMN1	342184	broad.mit.edu	37	15	33256409	33256409	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33256409G>A	uc001zhf.3	-	5	2368	c.2368C>T	c.(2368-2370)CGG>TGG	p.R790W		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	1013	FH2.				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)														---	---	---	---
RYR3	6263	broad.mit.edu	37	15	33962765	33962765	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33962765A>G	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)														---	---	---	---
RYR3	6263	broad.mit.edu	37	15	34072492	34072492	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34072492G>A	uc001zhi.2	+	65	9288	c.9218G>A	c.(9217-9219)CGC>CAC	p.R3073H	RYR3_uc010bar.2_Missense_Mutation_p.R3073H	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3073					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)														---	---	---	---
RYR3	6263	broad.mit.edu	37	15	34130165	34130165	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34130165C>T	uc001zhi.2	+	89	12054	c.11984C>T	c.(11983-11985)GCT>GTT	p.A3995V	RYR3_uc010bar.2_Missense_Mutation_p.A3990V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3995					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)														---	---	---	---
RYR3	6263	broad.mit.edu	37	15	34134153	34134153	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34134153C>T	uc001zhi.2	+	91	13196	c.13126C>T	c.(13126-13128)CGG>TGG	p.R4376W	RYR3_uc010bar.2_Missense_Mutation_p.R4371W	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4376					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)														---	---	---	---
C15orf24	56851	broad.mit.edu	37	15	34393956	34393956	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34393956C>T	uc001zhm.2	-	1	98	c.85G>A	c.(85-87)GCT>ACT	p.A29T	C15orf24_uc001zhn.2_5'UTR|PGBD4_uc001zho.2_5'Flank	NM_020154	NP_064539	Q9NPA0	CO024_HUMAN	chromosome 15 open reading frame 24 precursor	29	Extracellular (Potential).					cytoplasm|integral to membrane	carbohydrate binding|carboxypeptidase activity|purine nucleotide binding				0		all_lung(180;1.76e-08)		all cancers(64;2.02e-17)|GBM - Glioblastoma multiforme(113;2.15e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)														---	---	---	---
SLC12A6	9990	broad.mit.edu	37	15	34610834	34610834	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34610834C>T	uc001zhw.2	-						SLC12A6_uc001zhv.2_Missense_Mutation_p.A16T|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	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)													---	---	---	---
AQR	9716	broad.mit.edu	37	15	35182477	35182477	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35182477G>A	uc001ziv.2	-	24	2801	c.2620C>T	c.(2620-2622)CGC>TGC	p.R874C		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	874						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)														---	---	---	---
AQR	9716	broad.mit.edu	37	15	35235398	35235398	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35235398C>T	uc001ziv.2	-							NM_014691	NP_055506			aquarius							catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)														---	---	---	---
ZNF770	54989	broad.mit.edu	37	15	35274899	35274899	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35274899G>A	uc001ziw.2	-	3	1048	c.737C>T	c.(736-738)GCT>GTT	p.A246V		NM_014106	NP_054825	Q6IQ21	ZN770_HUMAN	zinc finger protein 770	246					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(122;4.59e-10)|all_lung(180;8.78e-09)		all cancers(64;1.97e-18)|GBM - Glioblastoma multiforme(113;2.11e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0643)														---	---	---	---
MEIS2	4212	broad.mit.edu	37	15	37184485	37184485	+	Silent	SNP	G	A	A	rs139991974		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:37184485G>A	uc001zjr.2	-	12	2360	c.1323C>T	c.(1321-1323)CAC>CAT	p.H441H	MEIS2_uc001zjl.2_3'UTR|MEIS2_uc010ucj.1_Silent_p.H421H|MEIS2_uc001zjm.2_3'UTR|MEIS2_uc001zjn.2_3'UTR|MEIS2_uc001zjo.2_3'UTR|MEIS2_uc001zjp.2_3'UTR|MEIS2_uc001zjs.2_Silent_p.H434H|MEIS2_uc001zju.2_3'UTR|MEIS2_uc001zjt.2_Silent_p.H434H|MEIS2_uc001zjj.2_Silent_p.H137H|MEIS2_uc001zjk.2_Silent_p.H130H	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c	441					negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)														---	---	---	---
RASGRP1	10125	broad.mit.edu	37	15	38800067	38800067	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:38800067C>A	uc001zke.3	-	9	1280	c.1102G>T	c.(1102-1104)GCC>TCC	p.A368S	RASGRP1_uc010bbe.2_RNA|RASGRP1_uc010bbf.2_Missense_Mutation_p.A230S|RASGRP1_uc010bbg.2_Missense_Mutation_p.A230S|RASGRP1_uc001zkd.3_Missense_Mutation_p.A368S	NM_005739	NP_005730	O95267	GRP1_HUMAN	RAS guanyl releasing protein 1 isoform a	368	Ras-GEF.				cell differentiation|platelet activation|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol|endoplasmic reticulum membrane|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|lipid binding|protein binding			large_intestine(1)|ovary(1)	2		all_cancers(109;6.38e-17)|all_epithelial(112;5.51e-15)|Lung NSC(122;2.12e-11)|all_lung(180;5.63e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;1.97e-07)|BRCA - Breast invasive adenocarcinoma(123;0.00248)														---	---	---	---
C15orf53	400359	broad.mit.edu	37	15	38990598	38990598	+	Missense_Mutation	SNP	G	A	A	rs143270407	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:38990598G>A	uc001zkf.1	+	2	402	c.392G>A	c.(391-393)CGC>CAC	p.R131H		NM_207444	NP_997327	Q8NAA6	CO053_HUMAN	hypothetical protein LOC400359	131											0		all_cancers(109;1.75e-13)|all_epithelial(112;1.02e-11)|Lung NSC(122;1.9e-09)|all_lung(180;4.04e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)		GBM - Glioblastoma multiforme(113;8.39e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0321)														---	---	---	---
THBS1	7057	broad.mit.edu	37	15	39885659	39885659	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:39885659C>T	uc001zkh.2	+	19	3236	c.3057C>T	c.(3055-3057)GAC>GAT	p.D1019D	THBS1_uc010bbi.2_Silent_p.D491D	NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	1019	TSP C-terminal.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)													---	---	---	---
GPR176	11245	broad.mit.edu	37	15	40094085	40094085	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40094085C>T	uc001zkj.1	-	3	1662	c.796G>A	c.(796-798)GCC>ACC	p.A266T	GPR176_uc010uck.1_Missense_Mutation_p.A206T	NM_007223	NP_009154	Q14439	GP176_HUMAN	G protein-coupled receptor 176	266	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		all_cancers(109;4.05e-15)|all_epithelial(112;2.96e-13)|Lung NSC(122;8.53e-11)|all_lung(180;2.71e-09)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;4.4e-06)|BRCA - Breast invasive adenocarcinoma(123;0.123)												OREG0023053	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
PLCB2	5330	broad.mit.edu	37	15	40585208	40585208	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40585208C>T	uc001zld.2	-	21	2546	c.2245G>A	c.(2245-2247)GCC>ACC	p.A749T	PLCB2_uc001zlc.2_5'Flank|PLCB2_uc010bbo.2_Missense_Mutation_p.A745T|PLCB2_uc010ucm.1_Missense_Mutation_p.A749T	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	749	C2.				activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)														---	---	---	---
PLCB2	5330	broad.mit.edu	37	15	40591154	40591154	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40591154G>A	uc001zld.2	-	9	996	c.695C>T	c.(694-696)GCC>GTC	p.A232V	PLCB2_uc010bbo.2_Missense_Mutation_p.A232V|PLCB2_uc010ucm.1_Missense_Mutation_p.A232V	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	232					activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)														---	---	---	---
CASC5	57082	broad.mit.edu	37	15	40937938	40937938	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40937938G>A	uc010bbs.1	+	17	6213	c.6052G>A	c.(6052-6054)GCT>ACT	p.A2018T	CASC5_uc010bbt.1_Missense_Mutation_p.A1992T	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	2018	Necessary for kinetochore localization and for interaction with NSL1 and DSN1.|Potential.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)														---	---	---	---
INO80	54617	broad.mit.edu	37	15	41276493	41276493	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41276493T>C	uc001zni.2	-	33	4192	c.3979A>G	c.(3979-3981)ATC>GTC	p.I1327V	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	1327	Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
NUSAP1	51203	broad.mit.edu	37	15	41643280	41643280	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41643280C>A	uc001zns.3	+	4	631	c.401C>A	c.(400-402)CCT>CAT	p.P134H	NUSAP1_uc001znq.3_5'UTR|NUSAP1_uc001znr.3_Missense_Mutation_p.P134H|NUSAP1_uc010bce.2_Missense_Mutation_p.P134H|NUSAP1_uc001znt.3_Missense_Mutation_p.P119H|NUSAP1_uc001znv.3_Missense_Mutation_p.P133H|NUSAP1_uc001znu.3_Missense_Mutation_p.P133H|NUSAP1_uc010ucw.1_Missense_Mutation_p.P111H|NUSAP1_uc001znw.3_5'UTR	NM_016359	NP_057443	Q9BXS6	NUSAP_HUMAN	nucleolar and spindle associated protein 1	134					cytokinesis after mitosis|establishment of mitotic spindle localization|mitotic chromosome condensation|positive regulation of mitosis	chromosome|cytoplasm|nucleolus	DNA binding				0		all_cancers(109;5.07e-19)|all_epithelial(112;2.43e-16)|Lung NSC(122;1.81e-11)|all_lung(180;4.81e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;9.63e-17)|GBM - Glioblastoma multiforme(113;1.59e-06)|BRCA - Breast invasive adenocarcinoma(123;0.168)														---	---	---	---
RPAP1	26015	broad.mit.edu	37	15	41829150	41829150	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41829150C>G	uc001zod.2	-	2	298	c.174G>C	c.(172-174)ATG>ATC	p.M58I		NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	58						nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)														---	---	---	---
MGA	23269	broad.mit.edu	37	15	41961288	41961288	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41961288C>T	uc001zog.1	+	2	287	c.196C>T	c.(196-198)CTT>TTT	p.L66F	MGA_uc010ucy.1_Missense_Mutation_p.L66F|MGA_uc010ucz.1_Missense_Mutation_p.L66F	NM_001080541	NP_001074010	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 2	66						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)														---	---	---	---
MAPKBP1	23005	broad.mit.edu	37	15	42105237	42105237	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42105237T>A	uc001zok.3	+	8	1043	c.757T>A	c.(757-759)TCC>ACC	p.S253T	MAPKBP1_uc001zoj.3_Missense_Mutation_p.S253T|MAPKBP1_uc010bcj.2_5'UTR|MAPKBP1_uc010bci.2_Missense_Mutation_p.S253T|MAPKBP1_uc010udb.1_Missense_Mutation_p.S141T|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_5'UTR	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	253										central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)														---	---	---	---
JMJD7-PLA2G4B	8681	broad.mit.edu	37	15	42132384	42132384	+	Missense_Mutation	SNP	C	T	T	rs149781451	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42132384C>T	uc010bco.2	+	2	139	c.38C>T	c.(37-39)ACG>ATG	p.T13M	JMJD7-PLA2G4B_uc001zoo.3_Missense_Mutation_p.T244M|JMJD7-PLA2G4B_uc010bcn.2_Missense_Mutation_p.T244M|JMJD7-PLA2G4B_uc001zoq.3_Translation_Start_Site|JMJD7-PLA2G4B_uc001zor.1_5'Flank	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	13	C2.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1																		---	---	---	---
JMJD7-PLA2G4B	8681	broad.mit.edu	37	15	42139574	42139574	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42139574A>G	uc010bco.2	+	19	2088	c.1987A>G	c.(1987-1989)ATC>GTC	p.I663V	JMJD7-PLA2G4B_uc001zoo.3_Missense_Mutation_p.I894V|JMJD7-PLA2G4B_uc010bcn.2_Intron|JMJD7-PLA2G4B_uc001zoq.3_Missense_Mutation_p.I364V	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	663	PLA2c.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1																		---	---	---	---
PLA2G4F	255189	broad.mit.edu	37	15	42436328	42436328	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42436328C>T	uc001zoz.2	-	18	2053	c.1990G>A	c.(1990-1992)GCC>ACC	p.A664T	PLA2G4F_uc010bcq.2_Intron|PLA2G4F_uc001zoy.2_Missense_Mutation_p.A296T|PLA2G4F_uc010bcr.2_Missense_Mutation_p.A415T|PLA2G4F_uc001zpa.2_Missense_Mutation_p.A415T|PLA2G4F_uc010bcs.2_Missense_Mutation_p.A451T	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	664	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)														---	---	---	---
TGM5	9333	broad.mit.edu	37	15	43552444	43552444	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43552444C>T	uc001zrd.1	-	3	250	c.242G>A	c.(241-243)CGC>CAC	p.R81H	TGM5_uc001zre.1_Intron	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	81					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)													---	---	---	---
TUBGCP4	27229	broad.mit.edu	37	15	43696001	43696001	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43696001C>T	uc001zro.2	+						TUBGCP4_uc001zrn.2_Intron|TUBGCP4_uc010bdh.2_Intron	NM_014444	NP_055259			tubulin, gamma complex associated protein 4						G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	structural constituent of cytoskeleton			ovary(3)	3		all_cancers(109;1.27e-10)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.72e-06)|all_lung(180;1.59e-05)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;3.53e-07)														---	---	---	---
TP53BP1	7158	broad.mit.edu	37	15	43748457	43748457	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43748457C>A	uc001zrs.2	-	12	2482	c.2334G>T	c.(2332-2334)GTG>GTT	p.V778V	TP53BP1_uc010udp.1_Silent_p.V778V|TP53BP1_uc001zrq.3_Silent_p.V783V|TP53BP1_uc001zrr.3_Silent_p.V783V|TP53BP1_uc010udq.1_Silent_p.V783V	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	778					double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)									Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					---	---	---	---
PPIP5K1	9677	broad.mit.edu	37	15	43826900	43826900	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43826900G>A	uc001zrw.2	-	31	4457	c.4274C>T	c.(4273-4275)GCC>GTC	p.A1425V	PPIP5K1_uc001zrx.1_Missense_Mutation_p.A1398V|PPIP5K1_uc001zru.2_Missense_Mutation_p.A1400V|PPIP5K1_uc001zry.3_Missense_Mutation_p.A1400V|PPIP5K1_uc001zrv.2_Missense_Mutation_p.A1186V	NM_001130858	NP_001124330	Q6PFW1	VIP1_HUMAN	histidine acid phosphatase domain containing 2A	1425					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity				0																		---	---	---	---
CATSPER2	117155	broad.mit.edu	37	15	43924939	43924939	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43924939C>T	uc001zsh.2	-	11	1587	c.1372G>A	c.(1372-1374)GAA>AAA	p.E458K	STRC_uc010udz.1_5'Flank|CATSPER2_uc010bdm.2_Intron|CATSPER2_uc001zsi.2_Missense_Mutation_p.E456K|CATSPER2_uc001zsj.2_Missense_Mutation_p.E456K	NM_172095	NP_742093	Q96P56	CTSR2_HUMAN	sperm-associated cation channel 2 isoform 2	458	Cytoplasmic (Potential).|Ser-rich.				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|protein binding|voltage-gated ion channel activity			ovary(1)	1		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)														---	---	---	---
WDR76	79968	broad.mit.edu	37	15	44120406	44120406	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44120406T>A	uc001zti.1	+	2	327	c.304T>A	c.(304-306)TCT>ACT	p.S102T		NM_024908	NP_079184	Q9H967	WDR76_HUMAN	WD repeat domain 76	102											0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		all cancers(107;3.78e-21)|GBM - Glioblastoma multiforme(94;5.04e-07)														---	---	---	---
SPG11	80208	broad.mit.edu	37	15	44892659	44892659	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44892659A>G	uc001ztx.2	-						SPG11_uc010ueh.1_Intron|SPG11_uc010uei.1_Intron|SPG11_uc001zty.1_Intron	NM_025137	NP_079413			spatacsin isoform 1						cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)														---	---	---	---
DUOX2	50506	broad.mit.edu	37	15	45391910	45391910	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45391910G>A	uc010bea.2	-	25	3568	c.3365C>T	c.(3364-3366)GCC>GTC	p.A1122V	DUOX2_uc001zun.2_Missense_Mutation_p.A1122V	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	1122	Interaction with TXNDC11 (By similarity).|Cytoplasmic (Potential).|Ferric oxidoreductase.				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)														---	---	---	---
SLC30A4	7782	broad.mit.edu	37	15	45777398	45777398	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45777398T>C	uc001zvj.2	-	8	1565	c.1253A>G	c.(1252-1254)GAC>GGC	p.D418G		NM_013309	NP_037441	O14863	ZNT4_HUMAN	solute carrier family 30 (zinc transporter),	418	Cytoplasmic (Potential).				regulation of sequestering of zinc ion|response to toxin	endosome membrane|integral to membrane|late endosome	zinc ion transmembrane transporter activity				0		Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.58e-16)|GBM - Glioblastoma multiforme(94;2.15e-06)														---	---	---	---
SEMA6D	80031	broad.mit.edu	37	15	48052028	48052028	+	Silent	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48052028G>C	uc010bek.2	+	2	393	c.33G>C	c.(31-33)CTG>CTC	p.L11L	SEMA6D_uc001zvw.2_Silent_p.L11L|SEMA6D_uc001zvx.1_Silent_p.L11L|SEMA6D_uc001zvy.2_Silent_p.L11L|SEMA6D_uc001zvz.2_Silent_p.L11L|SEMA6D_uc001zwa.2_Silent_p.L11L|SEMA6D_uc001zwb.2_Silent_p.L11L|SEMA6D_uc001zwc.2_Silent_p.L11L	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	11					axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)														---	---	---	---
SEMA6D	80031	broad.mit.edu	37	15	48054484	48054484	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48054484G>A	uc010bek.2	+	8	986	c.626G>A	c.(625-627)CGC>CAC	p.R209H	SEMA6D_uc001zvw.2_Missense_Mutation_p.R209H|SEMA6D_uc001zvx.1_Missense_Mutation_p.R209H|SEMA6D_uc001zvy.2_Missense_Mutation_p.R209H|SEMA6D_uc001zvz.2_Missense_Mutation_p.R209H|SEMA6D_uc001zwa.2_Missense_Mutation_p.R209H|SEMA6D_uc001zwb.2_Missense_Mutation_p.R209H|SEMA6D_uc001zwc.2_Missense_Mutation_p.R209H	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	209	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)														---	---	---	---
SLC12A1	6557	broad.mit.edu	37	15	48518712	48518712	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48518712C>A	uc001zwn.3	+	5	884	c.668C>A	c.(667-669)ACT>AAT	p.T223N	SLC12A1_uc010uew.1_Missense_Mutation_p.T29N|SLC12A1_uc010bem.2_Intron|SLC12A1_uc010uex.1_Missense_Mutation_p.T223N|SLC12A1_uc001zwq.3_5'UTR|SLC12A1_uc001zwr.3_5'UTR	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	223	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)													---	---	---	---
FBN1	2200	broad.mit.edu	37	15	48791196	48791196	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48791196G>A	uc001zwx.1	-	18	2481	c.2153C>T	c.(2152-2154)ACG>ATG	p.T718M		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	718					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)														---	---	---	---
FBN1	2200	broad.mit.edu	37	15	48936939	48936939	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48936939C>T	uc001zwx.1	-	2	356	c.28G>A	c.(28-30)GCC>ACC	p.A10T		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	10					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)														---	---	---	---
SECISBP2L	9728	broad.mit.edu	37	15	49304895	49304895	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49304895C>T	uc001zxe.1	-	12	1815	c.1681G>A	c.(1681-1683)GGA>AGA	p.G561R	SECISBP2L_uc001zxd.1_Missense_Mutation_p.G516R|SECISBP2L_uc010bep.1_Missense_Mutation_p.G323R	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	561										breast(1)|skin(1)	2																		---	---	---	---
C15orf33	196951	broad.mit.edu	37	15	49903459	49903459	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49903459G>A	uc001zxl.2	-	3	352	c.58C>T	c.(58-60)CAA>TAA	p.Q20*	C15orf33_uc001zxm.2_Nonsense_Mutation_p.Q20*	NM_152647	NP_689860	Q96M60	CO033_HUMAN	hypothetical protein LOC196951	20										ovary(1)	1		all_lung(180;0.00187)		all cancers(107;3.45e-08)|GBM - Glioblastoma multiforme(94;0.000124)														---	---	---	---
DTWD1	56986	broad.mit.edu	37	15	49924402	49924402	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49924402G>A	uc001zxq.2	+	4	588	c.311G>A	c.(310-312)GGC>GAC	p.G104D	DTWD1_uc001zxs.2_Missense_Mutation_p.G104D|DTWD1_uc001zxr.2_Missense_Mutation_p.G17D|DTWD1_uc001zxo.2_Missense_Mutation_p.G104D	NM_020234	NP_064619	Q8N5C7	DTWD1_HUMAN	DTW domain containing 1	104											0		all_lung(180;0.0384)		all cancers(107;3.27e-08)|GBM - Glioblastoma multiforme(94;7.6e-05)														---	---	---	---
SLC27A2	11001	broad.mit.edu	37	15	50494717	50494717	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:50494717G>A	uc001zxw.2	+	3	954	c.722G>A	c.(721-723)CGC>CAC	p.R241H	SLC27A2_uc010bes.2_Intron|SLC27A2_uc001zxx.2_Missense_Mutation_p.R6H	NM_003645	NP_003636	O14975	S27A2_HUMAN	solute carrier family 27 (fatty acid	241	Lumenal (Potential).				bile acid biosynthetic process|fatty acid alpha-oxidation	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity|phytanate-CoA ligase activity|pristanate-CoA ligase activity			ovary(1)|skin(1)	2		all_lung(180;0.00177)		all cancers(107;1.16e-06)|GBM - Glioblastoma multiforme(94;0.000113)														---	---	---	---
SCG3	29106	broad.mit.edu	37	15	51975601	51975601	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:51975601A>G	uc002abh.2	+	4	775	c.367A>G	c.(367-369)ACT>GCT	p.T123A	SCG3_uc010ufz.1_5'UTR	NM_013243	NP_037375	Q8WXD2	SCG3_HUMAN	secretogranin III isoform 1 precursor	123					platelet activation|platelet degranulation	extracellular region|stored secretory granule				ovary(1)	1				all cancers(107;0.00488)														---	---	---	---
MAPK6	5597	broad.mit.edu	37	15	52356133	52356133	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52356133C>T	uc002abp.2	+	6	1896	c.1102C>T	c.(1102-1104)CCT>TCT	p.P368S		NM_002748	NP_002739	Q16659	MK06_HUMAN	mitogen-activated protein kinase 6	368					cell cycle		ATP binding|MAP kinase activity			lung(3)|ovary(1)	4				all cancers(107;0.0028)														---	---	---	---
BCL2L10	10017	broad.mit.edu	37	15	52402115	52402115	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52402115T>C	uc002abq.2	-	2	594	c.545A>G	c.(544-546)CAG>CGG	p.Q182R		NM_020396	NP_065129	Q9HD36	B2L10_HUMAN	BCL2-like 10 (apoptosis facilitator)	172					activation of caspase activity|anti-apoptosis|female gamete generation|spermatogenesis	cytosol|integral to membrane|membrane fraction|mitochondrion|nuclear membrane	protein binding				0				all cancers(107;0.0148)														---	---	---	---
MYO5C	55930	broad.mit.edu	37	15	52497304	52497304	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52497304G>A	uc010bff.2	-	38	4715	c.4578C>T	c.(4576-4578)TCC>TCT	p.S1526S	MYO5C_uc010uga.1_RNA|uc002abv.2_RNA	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	1526	Dilute.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)														---	---	---	---
MYO5C	55930	broad.mit.edu	37	15	52571811	52571811	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52571811C>T	uc010bff.2	-	3	336	c.199G>A	c.(199-201)GTG>ATG	p.V67M	MYO5C_uc010uga.1_RNA|MYO5C_uc010ugb.1_RNA|MYO5C_uc010ugc.1_Missense_Mutation_p.V30M|MIR1266_hsa-mir-1266|MI0006403_5'Flank	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	67	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)														---	---	---	---
DYX1C1	161582	broad.mit.edu	37	15	55724799	55724799	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:55724799G>A	uc002adc.2	-	9	1417	c.1049C>T	c.(1048-1050)GCA>GTA	p.A350V	CCPG1_uc002acy.2_5'UTR|DYX1C1_uc010ugh.1_Intron|DYX1C1_uc010ugi.1_RNA|DYX1C1_uc002adb.2_Intron|DYX1C1_uc002add.2_Intron	NM_130810	NP_570722	Q8WXU2	DYXC1_HUMAN	dyslexia susceptibility 1 candidate 1 isoform a	350	TPR 2.				neuron migration|regulation of estrogen receptor signaling pathway|regulation of proteasomal protein catabolic process	cytoplasm|nucleus	estrogen receptor binding			skin(1)	1				all cancers(107;0.0118)|GBM - Glioblastoma multiforme(80;0.171)														---	---	---	---
NEDD4	4734	broad.mit.edu	37	15	56144736	56144736	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:56144736C>T	uc002adj.2	-	9	2589	c.2289G>A	c.(2287-2289)TTG>TTA	p.L763L	NEDD4_uc002adl.2_Silent_p.L344L|NEDD4_uc002adi.2_Silent_p.L691L|NEDD4_uc010ugj.1_Silent_p.L747L|NEDD4_uc010bfm.2_Silent_p.L746L|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	763	Mediates interaction with TNIK (By similarity).				development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)														---	---	---	---
RFX7	64864	broad.mit.edu	37	15	56386815	56386815	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:56386815G>A	uc010bfn.2	-	9	3111	c.3111C>T	c.(3109-3111)GAC>GAT	p.D1037D	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Silent_p.D851D	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	940					regulation of transcription, DNA-dependent	nucleus	DNA binding				0																		---	---	---	---
GCOM1	145781	broad.mit.edu	37	15	57913876	57913876	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:57913876G>A	uc002aei.2	+	4	508	c.389G>A	c.(388-390)CGA>CAA	p.R130Q	GCOM1_uc002aej.2_Missense_Mutation_p.R130Q|GCOM1_uc002aek.2_Intron|GCOM1_uc002ael.2_Intron|GCOM1_uc002aem.2_Missense_Mutation_p.R130Q|GCOM1_uc002aeq.2_RNA|GCOM1_uc002aen.2_RNA|GCOM1_uc010bfy.2_RNA|GCOM1_uc002aeo.2_Missense_Mutation_p.R130Q|GCOM1_uc002aep.2_RNA|GCOM1_uc010bfx.2_RNA	NM_001018100	NP_001018110	P0CAP1	GCOM1_HUMAN	GRINL1A upstream protein isoform 7	130	Potential.				intracellular signal transduction	extrinsic to internal side of plasma membrane|I band				ovary(1)	1																		---	---	---	---
GCOM1	145781	broad.mit.edu	37	15	57929897	57929897	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:57929897G>A	uc002aei.2	+	9	1057	c.938G>A	c.(937-939)CGT>CAT	p.R313H	GCOM1_uc002aej.2_Missense_Mutation_p.R313H|GCOM1_uc002aek.2_RNA|GCOM1_uc002ael.2_RNA|GCOM1_uc002aem.2_Missense_Mutation_p.R313H|GCOM1_uc002aeq.2_RNA|GCOM1_uc002aen.2_RNA|GCOM1_uc010bfy.2_RNA|GCOM1_uc002aeo.2_Missense_Mutation_p.R313H|GCOM1_uc002aep.2_RNA|GCOM1_uc010bfx.2_RNA	NM_001018100	NP_001018110	P0CAP1	GCOM1_HUMAN	GRINL1A upstream protein isoform 7	313	Potential.				intracellular signal transduction	extrinsic to internal side of plasma membrane|I band				ovary(1)	1																		---	---	---	---
ALDH1A2	8854	broad.mit.edu	37	15	58357819	58357819	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:58357819G>A	uc002aex.2	-	1	88	c.30C>T	c.(28-30)GGC>GGT	p.G10G	ALDH1A2_uc002aey.2_Silent_p.G10G|ALDH1A2_uc010ugv.1_5'UTR|ALDH1A2_uc010ugw.1_Intron	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	10					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)													---	---	---	---
RNF111	54778	broad.mit.edu	37	15	59323599	59323599	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59323599C>T	uc002afv.2	+	2	857	c.578C>T	c.(577-579)TCG>TTG	p.S193L	RNF111_uc002afs.2_Missense_Mutation_p.S193L|RNF111_uc002aft.2_Missense_Mutation_p.S193L|RNF111_uc002afu.2_Missense_Mutation_p.S193L|RNF111_uc002afw.2_Missense_Mutation_p.S193L	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	193					multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)														---	---	---	---
CCNB2	9133	broad.mit.edu	37	15	59407086	59407086	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59407086C>A	uc002afz.2	+						CCNB2_uc010bge.2_Intron	NM_004701	NP_004692			cyclin B2						cell cycle checkpoint|cell division|G2/M transition of mitotic cell cycle|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	centrosome|cytosol|nucleus	protein kinase binding				0																		---	---	---	---
LDHAL6B	92483	broad.mit.edu	37	15	59499582	59499582	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59499582G>A	uc002agb.2	+	1	541	c.443G>A	c.(442-444)CGC>CAC	p.R148H	MYO1E_uc002aga.2_Intron	NM_033195	NP_149972	Q9BYZ2	LDH6B_HUMAN	lactate dehydrogenase A-like 6B	148		NAD (By similarity).			glycolysis	cytoplasm	L-lactate dehydrogenase activity|protein binding				0					NADH(DB00157)													---	---	---	---
TLN2	83660	broad.mit.edu	37	15	63009877	63009877	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63009877C>T	uc002alb.3	+	21	2866	c.2866C>T	c.(2866-2868)CAG>TAG	p.Q956*		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	956	Ala-rich.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11																		---	---	---	---
TLN2	83660	broad.mit.edu	37	15	63019352	63019352	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63019352C>T	uc002alb.3	+	25	3322	c.3322C>T	c.(3322-3324)CTG>TTG	p.L1108L		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1108	Ala-rich.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11																		---	---	---	---
TLN2	83660	broad.mit.edu	37	15	63092928	63092928	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63092928C>T	uc002alb.3	+	47	6437	c.6437C>T	c.(6436-6438)GCG>GTG	p.A2146V	TLN2_uc002alc.3_Missense_Mutation_p.A539V	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	2146					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11																		---	---	---	---
HERC1	8925	broad.mit.edu	37	15	63943555	63943555	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63943555C>T	uc002amp.2	-	53	10591	c.10443G>A	c.(10441-10443)CTG>CTA	p.L3481L		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	3481					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																		---	---	---	---
HERC1	8925	broad.mit.edu	37	15	63961733	63961733	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63961733G>A	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	64701939	64701939	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:64701939G>A	uc002anm.2	+	7	998	c.955G>A	c.(955-957)GCC>ACC	p.A319T		NM_016213	NP_057297	Q15650	TRIP4_HUMAN	thyroid hormone receptor interactor 4	319					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																		---	---	---	---
PIF1	80119	broad.mit.edu	37	15	65114700	65114700	+	Missense_Mutation	SNP	C	T	T	rs139868280	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65114700C>T	uc002ant.2	-	3	734	c.668G>A	c.(667-669)AGC>AAC	p.S223N	PIF1_uc002anr.2_5'Flank|PIF1_uc002ans.2_5'Flank|PIF1_uc010uiq.1_Missense_Mutation_p.S223N|PIF1_uc002anu.2_Missense_Mutation_p.S223N	NM_025049	NP_079325	Q9H611	PIF1_HUMAN	DNA helicase homolog PIF1	223	Hydrolyzes ATP in the presence of both magnesium and single-stranded DNA; weak activity in the presence of RNA or double-stranded DNA; No unwinding activity.				negative regulation of telomerase activity|regulation of telomere maintenance|viral genome replication	nuclear chromosome, telomeric region	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' DNA/RNA helicase activity|magnesium ion binding|single-stranded DNA-dependent ATP-dependent DNA helicase activity|telomeric DNA binding				0																		---	---	---	---
PLEKHO2	80301	broad.mit.edu	37	15	65152201	65152201	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65152201C>T	uc002anv.2	+						PLEKHO2_uc010bgz.2_Intron|PLEKHO2_uc002anw.2_Intron	NM_025201	NP_079477			pleckstrin homology domain containing, family O											ovary(1)|lung(1)	2																		---	---	---	---
DPP8	54878	broad.mit.edu	37	15	65790263	65790263	+	Silent	SNP	G	A	A	rs147893429		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65790263G>A	uc002aov.2	-	5	2280	c.702C>T	c.(700-702)AAC>AAT	p.N234N	DPP8_uc002aow.2_Silent_p.N234N|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Silent_p.N218N|DPP8_uc002aoy.2_Silent_p.N234N|DPP8_uc002aoz.2_Silent_p.N218N|DPP8_uc010bhj.2_Silent_p.N234N|DPP8_uc002apa.2_Silent_p.N131N	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	234					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1																		---	---	---	---
C15orf44	81556	broad.mit.edu	37	15	65892135	65892135	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65892135T>C	uc002apd.2	-	4	799	c.463A>G	c.(463-465)ATG>GTG	p.M155V	C15orf44_uc010uix.1_Missense_Mutation_p.M191V|C15orf44_uc010uiz.1_Missense_Mutation_p.M119V|C15orf44_uc010uja.1_Missense_Mutation_p.M106V|C15orf44_uc010ujb.1_Missense_Mutation_p.M76V|C15orf44_uc002ape.3_Missense_Mutation_p.M155V|C15orf44_uc010uiy.1_Missense_Mutation_p.M76V|C15orf44_uc010ujc.1_Missense_Mutation_p.M155V	NM_030800	NP_110427	Q96SY0	CO044_HUMAN	hypothetical protein LOC81556 isoform 2	155	VWFA.									ovary(1)	1																		---	---	---	---
RAB11A	8766	broad.mit.edu	37	15	66180171	66180171	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:66180171A>G	uc002apk.2	+	5	772	c.644A>G	c.(643-645)AAC>AGC	p.N215S	RAB11A_uc010ujk.1_3'UTR	NM_004663	NP_004654	P62491	RB11A_HUMAN	Ras-related protein Rab-11A	215					cell cycle|cytokinesis|neuron projection development|plasma membrane to endosome transport|protein localization in plasma membrane|small GTPase mediated signal transduction|vesicle-mediated transport	cleavage furrow|plasma membrane|recycling endosome membrane|trans-Golgi network	GTP binding|GTPase activity|syntaxin binding				0																		---	---	---	---
MEGF11	84465	broad.mit.edu	37	15	66416298	66416298	+	Missense_Mutation	SNP	C	T	T	rs142845610	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:66416298C>T	uc002apm.2	-	3	280	c.139G>A	c.(139-141)GAT>AAT	p.D47N	MEGF11_uc002apl.2_Silent_p.S5S|MEGF11_uc002apn.1_Missense_Mutation_p.D47N	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	47	EMI.					basolateral plasma membrane|integral to membrane				pancreas(1)	1																		---	---	---	---
ZWILCH	55055	broad.mit.edu	37	15	66813467	66813467	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:66813467C>T	uc002aqb.2	+	7	917	c.671C>T	c.(670-672)GCG>GTG	p.A224V	RPL4_uc002apx.2_Intron|ZWILCH_uc010bhu.1_Missense_Mutation_p.A110V|ZWILCH_uc002aqa.2_Missense_Mutation_p.A110V|ZWILCH_uc010bhv.2_Missense_Mutation_p.A110V	NM_017975	NP_060445	Q9H900	ZWILC_HUMAN	Zwilch	224					cell division|mitotic cell cycle checkpoint|mitotic prometaphase	condensed chromosome kinetochore|cytosol	protein binding			ovary(1)	1																		---	---	---	---
LCTL	197021	broad.mit.edu	37	15	66844070	66844070	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:66844070C>T	uc002aqc.2	-	11	1586	c.1454G>A	c.(1453-1455)CGC>CAC	p.R485H	LCTL_uc002aqd.3_Missense_Mutation_p.R312H|LCTL_uc010bhw.2_Intron	NM_207338	NP_997221	Q6UWM7	LCTL_HUMAN	lactase-like precursor	485	Extracellular (Potential).				carbohydrate metabolic process	endoplasmic reticulum membrane|integral to membrane	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(2)	2																		---	---	---	---
CLN6	54982	broad.mit.edu	37	15	68500592	68500592	+	Silent	SNP	C	T	T	rs151186473	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:68500592C>T	uc002arf.2	-	7	980	c.822G>A	c.(820-822)GCG>GCA	p.A274A	CALML4_uc002arb.2_5'Flank|CALML4_uc002arc.2_5'Flank|CALML4_uc002ard.2_5'Flank|CALML4_uc002are.2_5'Flank|CALML4_uc010bhz.2_5'Flank|CLN6_uc010ujy.1_Silent_p.A145A|CLN6_uc010ujz.1_Silent_p.A306A	NM_017882	NP_060352	Q9NWW5	CLN6_HUMAN	CLN6 protein	274	Helical; (Potential).				cell death|cholesterol metabolic process|ganglioside metabolic process|glycosaminoglycan metabolic process|lysosomal lumen acidification|positive regulation of proteolysis|protein catabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	protein homodimerization activity				0																		---	---	---	---
KIF23	9493	broad.mit.edu	37	15	69728955	69728955	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69728955C>T	uc002asb.2	+	14	1566	c.1449C>T	c.(1447-1449)TGC>TGT	p.C483C	KIF23_uc002asc.2_Silent_p.C483C|KIF23_uc010bii.2_Silent_p.C373C|KIF23_uc010ukc.1_Silent_p.C300C	NM_138555	NP_612565	Q02241	KIF23_HUMAN	kinesin family member 23 isoform 1	483					blood coagulation|cytokinesis|microtubule-based movement|mitosis|mitotic spindle elongation	cytosol|kinesin complex|microtubule|midbody|nucleoplasm|spindle	ATP binding|microtubule motor activity|protein binding				0																		---	---	---	---
TLE3	7090	broad.mit.edu	37	15	70346947	70346947	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:70346947C>T	uc002asm.2	-	16	2784	c.1665G>A	c.(1663-1665)ACG>ACA	p.T555T	TLE3_uc002ask.2_Silent_p.T482T|TLE3_uc002asl.2_Silent_p.T555T|TLE3_uc010ukd.1_Silent_p.T545T|TLE3_uc010bik.1_Silent_p.T136T|TLE3_uc010bil.1_Silent_p.T552T|TLE3_uc002asn.2_Silent_p.T543T|TLE3_uc002asp.2_Silent_p.T547T|TLE3_uc002aso.2_Silent_p.T550T	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a	555	WD 2.				organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2																		---	---	---	---
LRRC49	54839	broad.mit.edu	37	15	71305222	71305222	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:71305222A>G	uc002asw.2	+	14	1920	c.1673A>G	c.(1672-1674)TAT>TGT	p.Y558C	LRRC49_uc002asu.2_Missense_Mutation_p.Y548C|LRRC49_uc002asx.2_Missense_Mutation_p.Y514C|LRRC49_uc010ukf.1_Missense_Mutation_p.Y563C|LRRC49_uc002asy.2_Missense_Mutation_p.Y264C|LRRC49_uc002asz.2_Missense_Mutation_p.Y530C	NM_017691	NP_060161	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49	558						cytoplasm|microtubule				ovary(1)	1																		---	---	---	---
THSD4	79875	broad.mit.edu	37	15	71549040	71549040	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:71549040A>G	uc002atb.1	+	5	1080	c.1001A>G	c.(1000-1002)GAA>GGA	p.E334G	THSD4_uc002atd.1_Missense_Mutation_p.E8G	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	334						proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2																		---	---	---	---
THSD4	79875	broad.mit.edu	37	15	71633657	71633657	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:71633657G>A	uc002atb.1	+						THSD4_uc002atd.1_Intron	NM_024817	NP_079093			thrombospondin, type I, domain containing 4							proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2																		---	---	---	---
MYO9A	4649	broad.mit.edu	37	15	72119009	72119009	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72119009A>G	uc002atl.3	-	42	8032	c.7559T>C	c.(7558-7560)GTC>GCC	p.V2520A	MYO9A_uc002atj.2_Missense_Mutation_p.V451A|MYO9A_uc002atk.2_Missense_Mutation_p.V1315A	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	2520					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3																		---	---	---	---
PKM2	5315	broad.mit.edu	37	15	72494822	72494822	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72494822G>A	uc002atx.1	-						PKM2_uc002atr.1_5'UTR|PKM2_uc002ats.1_Missense_Mutation_p.A94V|PKM2_uc002att.1_Intron|PKM2_uc002atu.1_Missense_Mutation_p.A193V|PKM2_uc010bit.1_Intron|PKM2_uc010uki.1_Intron|PKM2_uc002atv.1_Intron|PKM2_uc002atw.1_Intron|PKM2_uc002aty.1_Missense_Mutation_p.A427V|PKM2_uc010ukj.1_Missense_Mutation_p.A412V|PKM2_uc010ukk.1_Missense_Mutation_p.A353V|PKM2_uc010biu.1_Intron|PKM2_uc002atz.1_RNA	NM_182471	NP_872271			pyruvate kinase, muscle isoform M1						glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)													---	---	---	---
PKM2	5315	broad.mit.edu	37	15	72502791	72502791	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72502791C>T	uc002atx.1	-	4	516	c.275G>A	c.(274-276)CGC>CAC	p.R92H	PKM2_uc002att.1_5'Flank|PKM2_uc002atu.1_5'Flank|PKM2_uc010bit.1_Missense_Mutation_p.R97H|PKM2_uc010uki.1_Missense_Mutation_p.R166H|PKM2_uc002atv.1_Missense_Mutation_p.R127H|PKM2_uc002atw.1_Missense_Mutation_p.R92H|PKM2_uc002aty.1_Missense_Mutation_p.R92H|PKM2_uc010ukj.1_Missense_Mutation_p.R77H|PKM2_uc010ukk.1_Intron|PKM2_uc010biu.1_Missense_Mutation_p.R113H|PKM2_uc002atz.1_RNA	NM_182471	NP_872271	P14618	KPYM_HUMAN	pyruvate kinase, muscle isoform M1	92					glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)													---	---	---	---
PARP6	56965	broad.mit.edu	37	15	72549731	72549731	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72549731G>A	uc002auc.2	-	12	1416	c.957C>T	c.(955-957)GGC>GGT	p.G319G	PARP6_uc002aua.2_Silent_p.G164G|PARP6_uc002aub.2_RNA|PARP6_uc002aud.3_RNA|PARP6_uc002auf.1_Silent_p.G319G	NM_020214	NP_064599	Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6	319							NAD+ ADP-ribosyltransferase activity				0																		---	---	---	---
TMEM202	338949	broad.mit.edu	37	15	72691176	72691176	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72691176C>T	uc002auq.2	+	2	264	c.264C>T	c.(262-264)GGC>GGT	p.G88G	TMEM202_uc002aur.2_Intron	NM_001080462	NP_001073931	A6NGA9	TM202_HUMAN	transmembrane protein 202	88						integral to membrane				central_nervous_system(1)|skin(1)	2																		---	---	---	---
NEO1	4756	broad.mit.edu	37	15	73528822	73528822	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73528822T>C	uc002avm.3	+	8	1568	c.1426T>C	c.(1426-1428)TTC>CTC	p.F476L	NEO1_uc010ukx.1_Missense_Mutation_p.F476L|NEO1_uc010uky.1_Missense_Mutation_p.F476L|NEO1_uc010ukz.1_5'UTR|NEO1_uc002avn.3_Missense_Mutation_p.F141L	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	476	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1																		---	---	---	---
NEO1	4756	broad.mit.edu	37	15	73542042	73542042	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73542042C>T	uc002avm.3	+	11	2016	c.1874C>T	c.(1873-1875)GCT>GTT	p.A625V	NEO1_uc010ukx.1_Missense_Mutation_p.A625V|NEO1_uc010uky.1_Missense_Mutation_p.A625V|NEO1_uc010ukz.1_Missense_Mutation_p.A49V|NEO1_uc002avn.3_Missense_Mutation_p.A290V	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	625	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1																		---	---	---	---
TBC1D21	161514	broad.mit.edu	37	15	74166049	74166049	+	5'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:74166049C>T	uc002avz.2	+	1					TBC1D21_uc010ulc.1_5'UTR	NM_153356	NP_699187			TBC1 domain family, member 21							intracellular	Rab GTPase activator activity			ovary(2)	2																OREG0023267	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
PML	5371	broad.mit.edu	37	15	74327751	74327751	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:74327751C>T	uc002awv.2	+						PML_uc002awm.2_3'UTR|PML_uc002awl.2_3'UTR|PML_uc002awj.1_3'UTR|PML_uc002awk.2_Missense_Mutation_p.A650V|PML_uc002awn.2_3'UTR|PML_uc002awo.2_Missense_Mutation_p.A602V|PML_uc002awp.2_Intron|PML_uc002awq.2_Intron|PML_uc002awr.2_Intron|PML_uc002aws.2_Intron|PML_uc002awt.2_Intron|PML_uc002awu.2_Intron|PML_uc010ule.1_Intron|PML_uc002awx.2_3'UTR|PML_uc002awy.2_Missense_Mutation_p.A79V	NM_033238	NP_150241			promyelocytic leukemia protein isoform 1						cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction resulting in induction of apoptosis|endoplasmic reticulum calcium ion homeostasis|induction of apoptosis|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|maintenance of protein location in nucleus|negative regulation of angiogenesis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of mitotic cell cycle|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|negative regulation of telomerase activity|negative regulation of telomere maintenance via telomerase|negative regulation of transcription, DNA-dependent|negative regulation of translation in response to oxidative stress|PML body organization|PML body organization|positive regulation of defense response to virus by host|positive regulation of histone deacetylation|protein complex assembly|protein stabilization|protein targeting|regulation of calcium ion transport into cytosol|regulation of protein phosphorylation|response to hypoxia|response to virus|transcription, DNA-dependent	cytoplasm|cytosol|early endosome membrane|extrinsic to endoplasmic reticulum membrane|insoluble fraction|nuclear matrix|nuclear membrane|nucleolus|nucleus|PML body	cobalt ion binding|DNA binding|protein binding|protein binding|protein heterodimerization activity|protein homodimerization activity|SUMO binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding|zinc ion binding			central_nervous_system(2)|kidney(2)|breast(1)	5								T	RARA|PAX5	APL|ALL								---	---	---	---
ISLR2	57611	broad.mit.edu	37	15	74426148	74426148	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:74426148C>T	uc002axd.2	+	4	1822	c.1053C>T	c.(1051-1053)GGC>GGT	p.G351G	ISLR2_uc002axe.2_Silent_p.G351G|ISLR2_uc010bjg.2_Silent_p.G351G|ISLR2_uc010bjf.2_Silent_p.G351G	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	351	Ig-like.|Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0																		---	---	---	---
CLK3	1198	broad.mit.edu	37	15	74919715	74919715	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:74919715C>T	uc010uln.1	+	8	1745	c.1284C>T	c.(1282-1284)ACC>ACT	p.T428T	CLK3_uc002ayg.3_Silent_p.T280T|CLK3_uc002ayh.3_Silent_p.T59T|CLK3_uc002ayj.3_Silent_p.T257T|CLK3_uc002ayk.3_Silent_p.T207T|CLK3_uc002ayl.3_Silent_p.T113T	NM_001130028	NP_001123500	P49761	CLK3_HUMAN	CDC-like kinase 3 isoform a	428	Protein kinase.					acrosomal vesicle|nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)	2																		---	---	---	---
SCAMP5	192683	broad.mit.edu	37	15	75311250	75311250	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75311250G>A	uc002azk.1	+	7	796	c.634G>A	c.(634-636)GCC>ACC	p.A212T	SCAMP5_uc002azl.1_Missense_Mutation_p.A212T|SCAMP5_uc002azm.1_Missense_Mutation_p.A212T|SCAMP5_uc002azn.1_Missense_Mutation_p.A220T|SCAMP5_uc010uly.1_Missense_Mutation_p.A141T	NM_138967	NP_620417	Q8TAC9	SCAM5_HUMAN	secretory carrier membrane protein 5	212	Cytoplasmic (Potential).				exocytosis|negative regulation of endocytosis|positive regulation of calcium ion-dependent exocytosis|positive regulation of cytokine secretion|protein transport|response to endoplasmic reticulum stress	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane|trans-Golgi network membrane	protein binding			ovary(1)	1																		---	---	---	---
C15orf39	56905	broad.mit.edu	37	15	75499456	75499456	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75499456G>A	uc002azp.3	+	2	1387	c.1067G>A	c.(1066-1068)GGC>GAC	p.G356D	C15orf39_uc002azq.3_Missense_Mutation_p.G356D|C15orf39_uc002azr.3_5'Flank	NM_015492	NP_056307	Q6ZRI6	CO039_HUMAN	hypothetical protein LOC56905	356											0																		---	---	---	---
SIN3A	25942	broad.mit.edu	37	15	75664419	75664419	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75664419G>A	uc002bai.2	-	21	3982	c.3723C>T	c.(3721-3723)GGC>GGT	p.G1241G	SIN3A_uc002baj.2_Silent_p.G1241G|SIN3A_uc010uml.1_Silent_p.G1241G	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	1241					blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5																		---	---	---	---
SIN3A	25942	broad.mit.edu	37	15	75692389	75692389	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75692389G>A	uc002bai.2	-	12	2105	c.1846C>T	c.(1846-1848)CGC>TGC	p.R616C	SIN3A_uc002baj.2_Missense_Mutation_p.R616C|SIN3A_uc010uml.1_Missense_Mutation_p.R616C	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	616	Interactions with SUDS3 and SAP130.|Interaction with NCOR1 (By similarity).				blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5																		---	---	---	---
IMP3	55272	broad.mit.edu	37	15	75932221	75932221	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75932221G>T	uc002bat.2	-	2	1233	c.289C>A	c.(289-291)CTC>ATC	p.L97I	IMP3_uc010bkl.1_Missense_Mutation_p.L97I	NM_018285	NP_060755	Q9NV31	IMP3_HUMAN	IMP3, U3 small nucleolar ribonucleoprotein	97					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding|rRNA binding				0																		---	---	---	---
SNX33	257364	broad.mit.edu	37	15	75949483	75949483	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75949483G>A	uc002bau.2	+	2	1748	c.1652G>A	c.(1651-1653)CGC>CAC	p.R551H	SNX33_uc002bav.2_Missense_Mutation_p.R164H	NM_153271	NP_695003	Q8WV41	SNX33_HUMAN	sorting nexin 33	551	BAR.				cell communication		phosphatidylinositol binding|protein binding			ovary(1)	1																		---	---	---	---
CSPG4	1464	broad.mit.edu	37	15	75968093	75968093	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75968093T>C	uc002baw.2	-	10	6860	c.6767A>G	c.(6766-6768)GAC>GGC	p.D2256G		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	2256	Cytoplasmic (Potential).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3																		---	---	---	---
CSPG4	1464	broad.mit.edu	37	15	75968836	75968836	+	Silent	SNP	G	A	A	rs150399169		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75968836G>A	uc002baw.2	-	10	6117	c.6024C>T	c.(6022-6024)GGC>GGT	p.G2008G		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	2008	Extracellular (Potential).|CSPG 14.|Cysteine-containing.|Neurite growth inhibition (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3																		---	---	---	---
FBXO22	26263	broad.mit.edu	37	15	76205620	76205620	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76205620G>A	uc002bbk.2	+	3	461	c.356G>A	c.(355-357)GGC>GAC	p.G119D	FBXO22_uc002bbj.1_Missense_Mutation_p.G119D|FBXO22_uc002bbl.2_Missense_Mutation_p.G15D	NM_147188	NP_671717	Q8NEZ5	FBX22_HUMAN	F-box only protein 22 isoform a	119					ubiquitin-dependent protein catabolic process		ubiquitin-protein ligase activity				0																		---	---	---	---
SCAPER	49855	broad.mit.edu	37	15	76696913	76696913	+	Missense_Mutation	SNP	G	A	A	rs149493455	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76696913G>A	uc002bby.2	-	26	3478	c.3419C>T	c.(3418-3420)GCA>GTA	p.A1140V	SCAPER_uc010bkr.2_Missense_Mutation_p.A448V|SCAPER_uc002bbx.2_Missense_Mutation_p.A894V|SCAPER_uc002bbz.1_Missense_Mutation_p.A1011V	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	1139						endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3																		---	---	---	---
ACSBG1	23205	broad.mit.edu	37	15	78466056	78466056	+	Silent	SNP	G	A	A	rs149258367	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78466056G>A	uc002bdh.2	-	13	2024	c.1968C>T	c.(1966-1968)GCC>GCT	p.A656A	ACSBG1_uc010umw.1_Silent_p.A652A|ACSBG1_uc010umx.1_Silent_p.A414A	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	656					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1																		---	---	---	---
ACSBG1	23205	broad.mit.edu	37	15	78485913	78485913	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78485913C>T	uc002bdh.2	-	5	654	c.598G>A	c.(598-600)GCT>ACT	p.A200T	ACSBG1_uc010umw.1_Missense_Mutation_p.A196T|ACSBG1_uc010umx.1_Intron|ACSBG1_uc010umy.1_Missense_Mutation_p.A93T	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	200					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1																		---	---	---	---
DNAJA4	55466	broad.mit.edu	37	15	78566648	78566648	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78566648C>T	uc002bdj.1	+	4	645	c.528C>T	c.(526-528)ACC>ACT	p.T176T	DNAJA4_uc002bdi.2_Silent_p.T205T|DNAJA4_uc002bdk.2_Silent_p.T149T|DNAJA4_uc002bdl.2_Silent_p.T91T|DNAJA4_uc002bdm.1_5'Flank	NM_001130182	NP_001123654	Q8WW22	DNJA4_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 4	176	CR-type.				protein folding|response to heat	membrane	ATP binding|heat shock protein binding|metal ion binding|unfolded protein binding			skin(1)	1																		---	---	---	---
CRABP1	1381	broad.mit.edu	37	15	78635882	78635882	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78635882G>A	uc002bdp.2	+	3	396	c.291G>A	c.(289-291)ACG>ACA	p.T97T		NM_004378	NP_004369	P29762	RABP1_HUMAN	cellular retinoic acid binding protein 1	97					multicellular organismal development|signal transduction	cytoplasm	retinal binding|retinol binding|transporter activity				0					Alitretinoin(DB00523)|Etretinate(DB00926)													---	---	---	---
CTSH	1512	broad.mit.edu	37	15	79229690	79229690	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79229690C>T	uc002ben.2	-	4	260	c.163G>A	c.(163-165)GCC>ACC	p.A55T	CTSH_uc010unf.1_RNA|CTSH_uc010bll.1_Intron|CTSH_uc010ung.1_Missense_Mutation_p.A67T	NM_148979	NP_683880	P09668	CATH_HUMAN	cathepsin H isoform b precursor	67					protein destabilization|proteolysis	lysosome	cysteine-type endopeptidase activity			central_nervous_system(2)|large_intestine(1)	3																		---	---	---	---
RASGRF1	5923	broad.mit.edu	37	15	79382811	79382811	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79382811G>A	uc002beq.2	-	1	405	c.30C>T	c.(28-30)GGC>GGT	p.G10G	RASGRF1_uc002bep.2_Silent_p.G10G|RASGRF1_uc002ber.3_Silent_p.G10G	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	10					activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6																		---	---	---	---
KIAA1024	23251	broad.mit.edu	37	15	79749839	79749839	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79749839A>G	uc002bew.1	+	2	1425	c.1350A>G	c.(1348-1350)GAA>GAG	p.E450E	KIAA1024_uc010unk.1_Silent_p.E450E	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	450						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4																		---	---	---	---
ZFAND6	54469	broad.mit.edu	37	15	80423565	80423565	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:80423565C>T	uc002bfe.1	+	6	719	c.408C>T	c.(406-408)AGC>AGT	p.S136S	ZFAND6_uc002bff.1_Silent_p.S136S|ZFAND6_uc002bfg.1_Silent_p.S124S|ZFAND6_uc002bfh.1_Silent_p.S136S|ZFAND6_uc002bfi.1_Silent_p.S136S	NM_019006	NP_061879	Q6FIF0	ZFAN6_HUMAN	zinc finger, AN1-type domain 6	136							DNA binding|zinc ion binding				0																		---	---	---	---
KIAA1199	57214	broad.mit.edu	37	15	81172107	81172107	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:81172107C>T	uc002bfw.1	+	4	552	c.292C>T	c.(292-294)CAC>TAC	p.H98Y	KIAA1199_uc010unn.1_Missense_Mutation_p.H98Y	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	98	G8.									upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3																		---	---	---	---
KIAA1199	57214	broad.mit.edu	37	15	81173308	81173308	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:81173308G>A	uc002bfw.1	+	5	708	c.448G>A	c.(448-450)GCT>ACT	p.A150T	KIAA1199_uc010unn.1_Missense_Mutation_p.A150T	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	150	G8.									upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3																		---	---	---	---
KIAA1199	57214	broad.mit.edu	37	15	81213380	81213380	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:81213380T>C	uc002bfw.1	+	15	2271	c.2011T>C	c.(2011-2013)TCC>CCC	p.S671P	KIAA1199_uc010unn.1_Missense_Mutation_p.S671P	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	671										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3																		---	---	---	---
EFTUD1	79631	broad.mit.edu	37	15	82520574	82520574	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:82520574C>T	uc002bgt.1	-	10	1196	c.1027G>A	c.(1027-1029)GCC>ACC	p.A343T	EFTUD1_uc002bgu.1_Missense_Mutation_p.A292T	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	343					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1																		---	---	---	---
FSD2	123722	broad.mit.edu	37	15	83455633	83455633	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83455633C>A	uc002bjd.2	-	2	677	c.510G>T	c.(508-510)GAG>GAT	p.E170D	FSD2_uc010uol.1_Missense_Mutation_p.E170D|FSD2_uc010uom.1_Missense_Mutation_p.E170D	NM_001007122	NP_001007123	A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing	170										central_nervous_system(1)	1																		---	---	---	---
BTBD1	53339	broad.mit.edu	37	15	83698894	83698894	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83698894C>G	uc002bjn.2	-	5	1252	c.1049G>C	c.(1048-1050)CGA>CCA	p.R350P	BTBD1_uc002bjo.2_Missense_Mutation_p.R350P	NM_025238	NP_079514	Q9H0C5	BTBD1_HUMAN	BTB (POZ) domain containing 1 isoform 1	350						cytoplasmic mRNA processing body|protein complex	protein binding			ovary(1)|central_nervous_system(1)	2				all cancers(203;0.000186)														---	---	---	---
ADAMTSL3	57188	broad.mit.edu	37	15	84639399	84639399	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84639399C>T	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)															---	---	---	---
ALPK3	57538	broad.mit.edu	37	15	85400381	85400381	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:85400381G>A	uc002ble.2	+	6	3185	c.3018G>A	c.(3016-3018)CCG>CCA	p.P1006P		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1006					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)															---	---	---	---
SLC28A1	9154	broad.mit.edu	37	15	85478614	85478614	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:85478614C>T	uc002blg.2	+	15	1648	c.1446C>T	c.(1444-1446)TGC>TGT	p.C482C	SLC28A1_uc010bnb.2_Silent_p.C482C|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Silent_p.C482C|SLC28A1_uc010upg.1_Silent_p.C482C	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	482					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)															---	---	---	---
AGBL1	123624	broad.mit.edu	37	15	87099509	87099509	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:87099509G>A	uc002blz.1	+	21	2992	c.2912G>A	c.(2911-2913)GGC>GAC	p.G971D		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	971					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0																		---	---	---	---
NTRK3	4916	broad.mit.edu	37	15	88483952	88483952	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:88483952G>T	uc002bme.1	-	14	1780	c.1618C>A	c.(1618-1620)CTG>ATG	p.L540M	NTRK3_uc002bmh.2_Missense_Mutation_p.L532M|NTRK3_uc002bmf.1_Missense_Mutation_p.L540M|NTRK3_uc010upl.1_Missense_Mutation_p.L442M|NTRK3_uc010bnh.1_Missense_Mutation_p.L532M	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	540	Cytoplasmic (Potential).|Protein kinase.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)					T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			---	---	---	---
MRPL46	26589	broad.mit.edu	37	15	89002999	89002999	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89002999C>T	uc002bmj.2	-	4	710	c.685G>A	c.(685-687)GCC>ACC	p.A229T	MRPL46_uc002bmi.1_3'UTR|MRPL46_uc002bmk.2_Missense_Mutation_p.A228T	NM_022163	NP_071446	Q9H2W6	RM46_HUMAN	mitochondrial ribosomal protein L46 precursor	229						mitochondrion|ribosome	hydrolase activity			central_nervous_system(1)	1	Lung NSC(78;0.203)		BRCA - Breast invasive adenocarcinoma(143;0.188)															---	---	---	---
AEN	64782	broad.mit.edu	37	15	89172498	89172498	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89172498G>A	uc002bmt.2	+	3	733	c.582G>A	c.(580-582)GCG>GCA	p.A194A	AEN_uc010bnm.1_Silent_p.A194A	NM_022767	NP_073604	Q8WTP8	AEN_HUMAN	interferon stimulated exonuclease gene	194	Exonuclease.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|response to ionizing radiation	nucleolus|nucleoplasm	exonuclease activity|nucleic acid binding				0																		---	---	---	---
ACAN	176	broad.mit.edu	37	15	89382100	89382100	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89382100C>T	uc010upo.1	+	3	651	c.277C>T	c.(277-279)CGC>TGC	p.R93C	ACAN_uc002bmx.2_Missense_Mutation_p.R93C|ACAN_uc010upp.1_Missense_Mutation_p.R93C|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	93					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)															---	---	---	---
RHCG	51458	broad.mit.edu	37	15	90039664	90039664	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:90039664C>T	uc002bnz.2	-	1	136	c.112G>A	c.(112-114)GCC>ACC	p.A38T	RHCG_uc002boa.2_RNA|RHCG_uc010bnq.1_5'UTR	NM_016321	NP_057405	Q9UBD6	RHCG_HUMAN	Rh family, C glycoprotein	38	Extracellular (Potential).				amine transport|cellular ion homeostasis|epithelial cell differentiation|transepithelial ammonium transport	apical plasma membrane|basolateral plasma membrane|cytoplasmic vesicle|integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			kidney(1)	1	Lung NSC(78;0.0237)|all_lung(78;0.0478)																	---	---	---	---
FES	2242	broad.mit.edu	37	15	91436365	91436365	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91436365G>A	uc002bpv.2	+	15	1958	c.1862G>A	c.(1861-1863)CGT>CAT	p.R621H	FES_uc010uqj.1_Missense_Mutation_p.R493H|FES_uc010uqk.1_Missense_Mutation_p.R603H|FES_uc002bpw.2_RNA|FES_uc010bny.2_Intron|FES_uc002bpx.2_Missense_Mutation_p.R551H|FES_uc002bpy.2_Missense_Mutation_p.R563H	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	621	Protein kinase.				axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)															---	---	---	---
MAN2A2	4122	broad.mit.edu	37	15	91453478	91453478	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91453478G>T	uc010bnz.2	+	10	1648	c.1533G>T	c.(1531-1533)CGG>CGT	p.R511R	MAN2A2_uc010boa.2_Silent_p.R553R|MAN2A2_uc002bqc.2_Silent_p.R511R|MAN2A2_uc010uql.1_Silent_p.R173R|MAN2A2_uc010uqm.1_Intron|MAN2A2_uc010uqn.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	511	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)															---	---	---	---
MAN2A2	4122	broad.mit.edu	37	15	91461902	91461902	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91461902G>A	uc010bnz.2	+	22	3332	c.3217G>A	c.(3217-3219)GCA>ACA	p.A1073T	MAN2A2_uc002bqc.2_Missense_Mutation_p.A1073T|MAN2A2_uc010uql.1_Missense_Mutation_p.A735T|MAN2A2_uc010uqm.1_Missense_Mutation_p.A652T|MAN2A2_uc010uqn.1_RNA	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	1073					mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)															---	---	---	---
UNC45A	55898	broad.mit.edu	37	15	91483621	91483621	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91483621G>A	uc002bqg.2	+	6	945	c.605G>A	c.(604-606)CGT>CAT	p.R202H	UNC45A_uc002bqd.2_Missense_Mutation_p.R187H|UNC45A_uc010uqo.1_Missense_Mutation_p.R194H|UNC45A_uc010uqp.1_RNA|UNC45A_uc010uqq.1_Missense_Mutation_p.R202H	NM_018671	NP_061141	Q9H3U1	UN45A_HUMAN	smooth muscle cell associated protein-1 isoform	202					cell differentiation|muscle organ development	nucleus|perinuclear region of cytoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)															---	---	---	---
PRC1	9055	broad.mit.edu	37	15	91517404	91517404	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91517404G>A	uc002bqm.2	-	11	1580	c.1423C>T	c.(1423-1425)CGA>TGA	p.R475*	PRC1_uc002bqn.2_Nonsense_Mutation_p.R475*|PRC1_uc002bqo.2_Nonsense_Mutation_p.R475*|PRC1_uc010uqs.1_Nonsense_Mutation_p.R434*	NM_003981	NP_003972	O43663	PRC1_HUMAN	protein regulator of cytokinesis 1 isoform 1	475	Unstructured, Arg/Lys rich.				cytokinesis|mitotic spindle elongation	cytoplasm|nucleus|spindle microtubule|spindle pole	protein binding			ovary(1)|skin(1)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)																	---	---	---	---
SV2B	9899	broad.mit.edu	37	15	91769547	91769547	+	Silent	SNP	C	T	T	rs147933433	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91769547C>T	uc002bqv.2	+	1	445	c.54C>T	c.(52-54)GGC>GGT	p.G18G	SV2B_uc002bqt.2_Silent_p.G18G|SV2B_uc010uqv.1_Intron|SV2B_uc002bqu.3_RNA	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	18	Cytoplasmic (Potential).				neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)															---	---	---	---
SLCO3A1	28232	broad.mit.edu	37	15	92669301	92669301	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:92669301G>A	uc002bqx.2	+	6	1386	c.1185G>A	c.(1183-1185)GCG>GCA	p.A395A	SLCO3A1_uc002bqy.2_Silent_p.A395A|SLCO3A1_uc010boc.1_RNA|SLCO3A1_uc002bqz.1_Silent_p.A337A	NM_013272	NP_037404	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family,	395	Helical; Name=8; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	sodium-independent organic anion transmembrane transporter activity			skin(1)	1	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)															---	---	---	---
C15orf32	145858	broad.mit.edu	37	15	93015523	93015523	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93015523C>T	uc002brc.1	+	1	617	c.145C>T	c.(145-147)CCA>TCA	p.P49S	C15orf32_uc010bod.1_RNA	NM_153040	NP_694585	Q32M92	CO032_HUMAN	hypothetical protein LOC145858	49										ovary(1)	1	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0493)|OV - Ovarian serous cystadenocarcinoma(32;0.125)															---	---	---	---
CHD2	1106	broad.mit.edu	37	15	93527700	93527700	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93527700G>A	uc002bsp.2	+	25	3782	c.3207G>A	c.(3205-3207)ATG>ATA	p.M1069I	CHD2_uc002bso.1_Missense_Mutation_p.M1069I	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	1069					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)															---	---	---	---
CHD2	1106	broad.mit.edu	37	15	93540578	93540578	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93540578G>A	uc002bsp.2	+	30	4405	c.3830G>A	c.(3829-3831)GGC>GAC	p.G1277D	CHD2_uc002bso.1_Missense_Mutation_p.G1277D	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	1277					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)															---	---	---	---
NR2F2	7026	broad.mit.edu	37	15	96875556	96875556	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:96875556G>A	uc010uri.1	+	1	1446	c.222G>A	c.(220-222)CAG>CAA	p.Q74Q	NR2F2_uc002btp.2_Intron|NR2F2_uc010urj.1_5'Flank|MIR1469_hsa-mir-1469|MI0007074_5'Flank|NR2F2_uc010urk.1_5'Flank	NM_021005	NP_066285	P24468	COT2_HUMAN	nuclear receptor subfamily 2, group F, member 2	74	Poly-Gln.				lipid metabolic process|negative regulation of cyclin-dependent protein kinase activity|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment	nucleus	ligand-regulated transcription factor activity|protein homodimerization activity|retinoic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(1)	3	Lung NSC(78;0.0186)|Melanoma(26;0.0195)|all_lung(78;0.0297)		OV - Ovarian serous cystadenocarcinoma(32;0.0856)															---	---	---	---
IGF1R	3480	broad.mit.edu	37	15	99486223	99486223	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99486223C>T	uc002bul.2	+	19	3579	c.3529C>T	c.(3529-3531)CGC>TGC	p.R1177C	IGF1R_uc010bon.2_Missense_Mutation_p.R1176C	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	1177	Protein kinase.|Cytoplasmic (Potential).				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)													---	---	---	---
IGF1R	3480	broad.mit.edu	37	15	99500550	99500550	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99500550G>A	uc002bul.2	+	21	4033	c.3983G>A	c.(3982-3984)GGC>GAC	p.G1328D	IGF1R_uc010bon.2_Missense_Mutation_p.G1327D	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	1328	Cytoplasmic (Potential).				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)													---	---	---	---
SYNM	23336	broad.mit.edu	37	15	99653893	99653893	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99653893G>A	uc002bup.2	+	4	1028	c.908G>A	c.(907-909)GGC>GAC	p.G303D	SYNM_uc002buo.2_Missense_Mutation_p.G303D|SYNM_uc002buq.2_RNA	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	303	Interaction with DMD and UTRN.|Tail.				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																		---	---	---	---
SYNM	23336	broad.mit.edu	37	15	99671250	99671250	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99671250G>A	uc002bup.2	+	6	2805	c.2685G>A	c.(2683-2685)GCG>GCA	p.A895A	SYNM_uc002buo.2_Silent_p.A895A|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	895	Tail.				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																		---	---	---	---
C15orf51	196968	broad.mit.edu	37	15	100332384	100332384	+	RNA	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:100332384C>A	uc010urx.1	-	5		c.1808G>T			C15orf51_uc010ury.1_RNA	NR_003260				Homo sapiens cDNA FLJ43799 fis, clone TESTI4000288.												0																		---	---	---	---
LRRK1	79705	broad.mit.edu	37	15	101567506	101567506	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101567506C>T	uc002bwr.2	+	18	2765	c.2446C>T	c.(2446-2448)CGA>TGA	p.R816*	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	816	Roc.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)															---	---	---	---
PDIA2	64714	broad.mit.edu	37	16	335204	335204	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:335204C>T	uc002cgn.1	+						PDIA2_uc010bqt.1_Intron|PDIA2_uc002cgo.1_Intron	NM_006849	NP_006840			protein disulfide isomerase A2 precursor						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)																---	---	---	---
AXIN1	8312	broad.mit.edu	37	16	339492	339492	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:339492C>T	uc002cgp.1	-	10	2587	c.2410G>A	c.(2410-2412)GCT>ACT	p.A804T	AXIN1_uc002cgq.1_Missense_Mutation_p.A768T	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	804	DIX.				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)																---	---	---	---
RAB11FIP3	9727	broad.mit.edu	37	16	511442	511442	+	Silent	SNP	C	T	T	rs149492456		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:511442C>T	uc002chf.2	+	2	1092	c.753C>T	c.(751-753)CTC>CTT	p.L251L		NM_014700	NP_055515	O75154	RFIP3_HUMAN	rab11-family interacting protein 3 isoform 1	251	EF-hand 2.|2 (Potential).				cell cycle|cytokinesis|endocytic recycling|protein transport	centrosome|cleavage furrow|midbody|recycling endosome membrane	ADP-ribosylation factor binding|calcium ion binding|protein homodimerization activity|Rab GTPase binding				0		Hepatocellular(16;0.0218)																---	---	---	---
WDR90	197335	broad.mit.edu	37	16	716352	716352	+	Splice_Site	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:716352T>C	uc002cii.1	+	37	4794	c.4740_splice	c.e37+2	p.E1580_splice	WDR90_uc002cij.1_Intron|WDR90_uc002cil.1_Splice_Site|WDR90_uc002cin.1_Splice_Site_p.E195_splice|WDR90_uc010uul.1_Splice_Site_p.E179_splice|WDR90_uc002cio.1_Splice_Site_p.E179_splice|WDR90_uc010bqx.1_Splice_Site_p.E179_splice|RHOT2_uc010uum.1_5'Flank|RHOT2_uc002cip.2_5'Flank|RHOT2_uc002ciq.2_5'Flank	NM_145294	NP_660337			WD repeat domain 90											ovary(1)	1		Hepatocellular(780;0.0218)																---	---	---	---
RHOT2	89941	broad.mit.edu	37	16	721922	721922	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:721922G>A	uc002cip.2	+	13	1084	c.1017G>A	c.(1015-1017)GCG>GCA	p.A339A	RHOT2_uc002ciq.2_Silent_p.A232A|RHOT2_uc010bqy.2_Silent_p.A118A	NM_138769	NP_620124	Q8IXI1	MIRO2_HUMAN	ras homolog gene family, member T2	339	EF-hand 2.|Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			pancreas(1)	1		Hepatocellular(780;0.0218)																---	---	---	---
NARFL	64428	broad.mit.edu	37	16	780500	780500	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:780500C>T	uc002cjr.2	-	11	1360	c.1348G>A	c.(1348-1350)GAC>AAC	p.D450N	NARFL_uc002cjp.2_Missense_Mutation_p.D348N|NARFL_uc002cjq.2_Missense_Mutation_p.D348N|NARFL_uc002cjs.2_Missense_Mutation_p.D232N	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	450					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)																---	---	---	---
BAIAP3	8938	broad.mit.edu	37	16	1394700	1394700	+	Splice_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1394700G>A	uc002clk.1	+	19	1862	c.1862_splice	c.e19+1	p.S621_splice	BAIAP3_uc002clj.2_Splice_Site_p.S603_splice|BAIAP3_uc010uuz.1_Splice_Site_p.S586_splice|BAIAP3_uc010uva.1_Splice_Site_p.S558_splice|BAIAP3_uc010uvc.1_Splice_Site_p.S550_splice	NM_003933	NP_003924			BAI1-associated protein 3						G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)																---	---	---	---
CLCN7	1186	broad.mit.edu	37	16	1510842	1510842	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1510842G>A	uc002clv.2	-	5	569	c.459C>T	c.(457-459)GGC>GGT	p.G153G	CLCN7_uc002clw.2_Silent_p.G129G	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a	153	Helical; (By similarity).					integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Hepatocellular(780;0.0893)																---	---	---	---
EME2	197342	broad.mit.edu	37	16	1825067	1825067	+	Missense_Mutation	SNP	C	T	T	rs148313225	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1825067C>T	uc002cmq.1	+	4	503	c.503C>T	c.(502-504)CCC>CTC	p.P168L	MRPS34_uc002cmn.2_5'Flank|MRPS34_uc002cmo.2_5'Flank|MRPS34_uc002cmp.1_5'Flank|EME2_uc010brw.1_Missense_Mutation_p.P168L	NM_001010865	NP_001010865	A4GXA9	EME2_HUMAN	essential meiotic endonuclease 1 homolog 2	168					DNA recombination|DNA repair	nucleus	DNA binding|endonuclease activity			lung(1)|central_nervous_system(1)|pancreas(1)	3													Direct_reversal_of_damage|Homologous_recombination					---	---	---	---
ZNF598	90850	broad.mit.edu	37	16	2048277	2048277	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2048277C>T	uc002cof.1	-	14	2686	c.2671G>A	c.(2671-2673)GAC>AAC	p.D891N	ZNF598_uc002coe.1_Missense_Mutation_p.D255N	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598	891						intracellular	zinc ion binding			lung(1)|breast(1)	2																		---	---	---	---
TSC2	7249	broad.mit.edu	37	16	2126084	2126084	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2126084C>A	uc002con.2	+	24	2761	c.2655C>A	c.(2653-2655)ATC>ATA	p.I885I	TSC2_uc010bsd.2_Silent_p.I885I|TSC2_uc002coo.2_Silent_p.I885I|TSC2_uc010uvv.1_Silent_p.I848I|TSC2_uc010uvw.1_Silent_p.I836I|TSC2_uc002cop.2_Silent_p.I685I	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	885					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)						D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				---	---	---	---
PKD1	5310	broad.mit.edu	37	16	2152614	2152614	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2152614C>T	uc002cos.1	-	25	9178	c.8969G>A	c.(8968-8970)AGT>AAT	p.S2990N	PKD1_uc002cot.1_Missense_Mutation_p.S2990N|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2990	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3																		---	---	---	---
PKD1	5310	broad.mit.edu	37	16	2162937	2162937	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2162937C>T	uc002cos.1	-	13	3222	c.3013G>A	c.(3013-3015)GTC>ATC	p.V1005I	PKD1_uc002cot.1_Missense_Mutation_p.V1005I	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1005	Extracellular (Potential).|PKD 4.				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																		---	---	---	---
MLST8	64223	broad.mit.edu	37	16	2258304	2258304	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2258304G>A	uc002coz.2	+	7	786	c.667G>A	c.(667-669)GCC>ACC	p.A223T	MLST8_uc002coy.2_Missense_Mutation_p.A223T|MLST8_uc002cpa.2_Missense_Mutation_p.A39T|MLST8_uc002cpb.2_Missense_Mutation_p.A222T|MLST8_uc010uvx.1_Missense_Mutation_p.A157T|MLST8_uc002cpc.2_Missense_Mutation_p.A223T|MLST8_uc002cpd.2_Missense_Mutation_p.A157T|MLST8_uc002cpe.2_Missense_Mutation_p.A223T|MLST8_uc002cpg.2_Missense_Mutation_p.A242T|MLST8_uc002cph.2_Intron|MLST8_uc002cpf.2_Missense_Mutation_p.A223T	NM_022372	NP_071767	Q9BVC4	LST8_HUMAN	G protein beta subunit-like	223	WD 6.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|T cell costimulation	cytosol	protein binding				0																		---	---	---	---
E4F1	1877	broad.mit.edu	37	16	2284179	2284179	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2284179G>A	uc002cpm.2	+	10	1431	c.1383G>A	c.(1381-1383)AGG>AGA	p.R461R	E4F1_uc010bsi.2_Silent_p.R461R|E4F1_uc010bsj.2_Intron|DNASE1L2_uc002cpn.2_5'Flank|DNASE1L2_uc002cpo.2_5'Flank|DNASE1L2_uc002cpp.2_5'Flank|DNASE1L2_uc002cpq.2_5'Flank	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	461	Mediates interaction with CDKN2A.|Interaction with BMI1.				cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1																		---	---	---	---
SRRM2	23524	broad.mit.edu	37	16	2815022	2815022	+	Missense_Mutation	SNP	G	A	A	rs151214324		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2815022G>A	uc002crk.2	+	11	5042	c.4493G>A	c.(4492-4494)CGT>CAT	p.R1498H	SRRM2_uc002crj.1_Missense_Mutation_p.R1402H|SRRM2_uc002crl.1_Missense_Mutation_p.R1498H|SRRM2_uc010bsu.1_Missense_Mutation_p.R1402H	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1498	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
SRRM2	23524	broad.mit.edu	37	16	2816576	2816576	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2816576G>A	uc002crk.2	+	11	6596	c.6047G>A	c.(6046-6048)CGC>CAC	p.R2016H	SRRM2_uc002crj.1_Missense_Mutation_p.R1920H|SRRM2_uc002crl.1_Missense_Mutation_p.R2016H|SRRM2_uc010bsu.1_Missense_Mutation_p.R1920H	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	2016	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
PRSS22	64063	broad.mit.edu	37	16	2906266	2906266	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2906266G>A	uc002cry.1	-						PRSS22_uc002crz.1_Intron	NM_022119	NP_071402			protease, serine, 22 precursor						proteolysis	extracellular region	serine-type endopeptidase activity			central_nervous_system(1)	1																		---	---	---	---
FLYWCH1	84256	broad.mit.edu	37	16	2988353	2988353	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2988353G>A	uc002csd.2	+	8	2309	c.1946G>A	c.(1945-1947)CGC>CAC	p.R649H	FLYWCH1_uc002csb.2_Missense_Mutation_p.R648H|FLYWCH1_uc002csc.2_Missense_Mutation_p.R648H|FLYWCH1_uc010bsv.2_Missense_Mutation_p.R373H|FLYWCH1_uc002cse.2_Missense_Mutation_p.R104H	NM_032296	NP_115672	Q4VC44	FWCH1_HUMAN	FLYWCH-type zinc finger 1 isoform a	649	FLYWCH-type 5.					nucleus	DNA binding|metal ion binding				0																		---	---	---	---
ZNF205	7755	broad.mit.edu	37	16	3169748	3169748	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3169748C>T	uc002cub.2	+	7	1222	c.1087C>T	c.(1087-1089)CCC>TCC	p.P363S	ZNF205_uc002cua.2_Missense_Mutation_p.P363S	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	363					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0																		---	---	---	---
ZNF75A	7627	broad.mit.edu	37	16	3367335	3367335	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3367335G>A	uc002cut.3	+	6	883	c.357G>A	c.(355-357)ATG>ATA	p.M119I	ZNF75A_uc002cuv.3_RNA	NM_153028	NP_694573	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	119					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1																		---	---	---	---
OR2C1	4993	broad.mit.edu	37	16	3406131	3406131	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3406131G>T	uc002cuw.1	+	1	243	c.191G>T	c.(190-192)AGC>ATC	p.S64I		NM_012368	NP_036500	O95371	OR2C1_HUMAN	olfactory receptor, family 2, subfamily C,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1																		---	---	---	---
ZNF434	54925	broad.mit.edu	37	16	3434741	3434741	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3434741G>A	uc002cuz.2	-	5	1118	c.316C>T	c.(316-318)CGC>TGC	p.R106C	ZNF434_uc002cux.3_Missense_Mutation_p.R317C|ZNF434_uc010uwx.1_Missense_Mutation_p.R29C|ZNF434_uc002cuy.3_Missense_Mutation_p.R29C|ZNF434_uc010uwy.1_Missense_Mutation_p.R29C|ZNF434_uc010uwz.1_Missense_Mutation_p.R317C|ZNF434_uc010uxa.1_Missense_Mutation_p.R106C	NM_017810	NP_060280	Q9NX65	ZN434_HUMAN	zinc finger protein 434	106					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2																		---	---	---	---
BTBD12	84464	broad.mit.edu	37	16	3640237	3640237	+	Silent	SNP	C	T	T	rs149748089		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3640237C>T	uc002cvp.2	-	12	4029	c.3402G>A	c.(3400-3402)TCG>TCA	p.S1134S		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1134	Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0													Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				---	---	---	---
CREBBP	1387	broad.mit.edu	37	16	3781373	3781373	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3781373G>A	uc002cvv.2	-	30	5196	c.4992C>T	c.(4990-4992)CGC>CGT	p.R1664R	CREBBP_uc002cvw.2_Silent_p.R1626R	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1664	Interaction with TRERF1.		R -> H (in RSTS1; abolishes acetyltransferase activity).		cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)				T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				---	---	---	---
DNAJA3	9093	broad.mit.edu	37	16	4491417	4491417	+	Silent	SNP	C	T	T	rs139524293		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4491417C>T	uc002cwk.2	+	4	496	c.471C>T	c.(469-471)TAC>TAT	p.Y157Y	DNAJA3_uc002cwl.2_Silent_p.Y157Y|DNAJA3_uc010uxk.1_Intron	NM_005147	NP_005138	Q96EY1	DNJA3_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 3	157	J.				activation of caspase activity|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of cell proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|neuromuscular junction development|positive regulation of apoptosis|positive regulation of protein ubiquitination|protein folding|protein folding|protein stabilization|response to heat|response to interferon-gamma	cytosol|mitochondrial matrix|mitochondrial nucleoid|nucleus	ATP binding|heat shock protein binding|interferon-gamma receptor binding|metal ion binding|NF-kappaB binding|protein kinase binding			ovary(2)|breast(2)	4																		---	---	---	---
NMRAL1	57407	broad.mit.edu	37	16	4513649	4513649	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4513649C>T	uc002cwm.2	-						NMRAL1_uc002cwn.2_Intron|NMRAL1_uc002cwo.2_Intron|NMRAL1_uc002cwp.2_Intron	NM_020677	NP_065728			NmrA-like family domain containing 1							nucleus|perinuclear region of cytoplasm	binding			kidney(1)	1																		---	---	---	---
GLYR1	84656	broad.mit.edu	37	16	4873830	4873830	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4873830C>T	uc002cxx.3	-	6	653	c.616G>A	c.(616-618)GCA>ACA	p.A206T	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_Missense_Mutation_p.A137T|GLYR1_uc002cya.2_Missense_Mutation_p.A206T|GLYR1_uc010uxv.1_Missense_Mutation_p.A125T	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	206					pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0																		---	---	---	---
PPL	5493	broad.mit.edu	37	16	4933784	4933784	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4933784C>T	uc002cyd.1	-	22	4962	c.4872G>A	c.(4870-4872)AGG>AGA	p.R1624R		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1624	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6																		---	---	---	---
ALG1	56052	broad.mit.edu	37	16	5129739	5129739	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:5129739C>T	uc002cym.2	+						ALG1_uc002cyj.2_Intron|ALG1_uc002cyn.2_Intron|ALG1_uc010bue.2_Intron|ALG1_uc010uxy.1_Intron	NM_019109	NP_061982			beta-1,4-mannosyltransferase						dolichol-linked oligosaccharide biosynthetic process|lipopolysaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	chitobiosyldiphosphodolichol beta-mannosyltransferase activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(90;0.0164)																---	---	---	---
USP7	7874	broad.mit.edu	37	16	8994445	8994445	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:8994445C>T	uc002czl.2	-	21	2450	c.2251G>A	c.(2251-2253)GTG>ATG	p.V751M	USP7_uc010uyk.1_Missense_Mutation_p.V652M|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Missense_Mutation_p.V652M|USP7_uc002czk.2_Missense_Mutation_p.V735M	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	751	Interaction with ICP0/VMW110.				interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3																		---	---	---	---
ATF7IP2	80063	broad.mit.edu	37	16	10524906	10524906	+	Silent	SNP	C	T	T	rs114568129	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10524906C>T	uc002czu.2	+	3	656	c.429C>T	c.(427-429)AAC>AAT	p.N143N	ATF7IP2_uc002czv.2_Silent_p.N143N|ATF7IP2_uc010uyo.1_RNA|ATF7IP2_uc010uyp.1_Intron|ATF7IP2_uc002czw.2_Silent_p.N143N|ATF7IP2_uc010uyq.1_RNA	NM_024997	NP_079273	Q5U623	MCAF2_HUMAN	activating transcription factor 7 interacting	143					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0																		---	---	---	---
CIITA	4261	broad.mit.edu	37	16	11001033	11001033	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:11001033G>A	uc002dai.3	+	11	1817	c.1684G>A	c.(1684-1686)GCC>ACC	p.A562T	CIITA_uc002daj.3_Missense_Mutation_p.A563T|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Missense_Mutation_p.A562T|CIITA_uc002dah.2_Missense_Mutation_p.A514T|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	562	NACHT.				interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1								T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								---	---	---	---
PRM3	58531	broad.mit.edu	37	16	11367303	11367303	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:11367303G>A	uc002dat.1	-	1	150	c.150C>T	c.(148-150)GGC>GGT	p.G50G	C16orf75_uc002daq.1_Intron	NM_021247	NP_067070	Q9NNZ6	PRM3_HUMAN	protamine 3	50					cell differentiation|chromosome condensation|multicellular organismal development|spermatogenesis	nucleosome|nucleus	DNA binding				0																		---	---	---	---
TXNDC11	51061	broad.mit.edu	37	16	11815525	11815525	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:11815525G>T	uc010buu.1	-	5	763	c.701C>A	c.(700-702)CCT>CAT	p.P234H	TXNDC11_uc002dbg.1_Missense_Mutation_p.P234H	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	234					cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0																		---	---	---	---
SNX29	92017	broad.mit.edu	37	16	12220513	12220513	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12220513G>T	uc002dby.3	+	5	327	c.271G>T	c.(271-273)GCC>TCC	p.A91S	SNX29_uc010uyx.1_Missense_Mutation_p.A118S	NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	91	Potential.				cell communication		phosphatidylinositol binding			ovary(1)	1																		---	---	---	---
SNX29	92017	broad.mit.edu	37	16	12618607	12618607	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12618607C>T	uc002dby.3	+	13	1128	c.1072C>T	c.(1072-1074)CGC>TGC	p.R358C		NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	358	PX.				cell communication		phosphatidylinositol binding			ovary(1)	1																		---	---	---	---
MKL2	57496	broad.mit.edu	37	16	14339521	14339521	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14339521A>G	uc010uza.1	+						MKL2_uc002dcg.2_Intron|MKL2_uc002dcj.2_5'Flank	NM_014048	NP_054767			megakaryoblastic leukemia 2 protein						cell differentiation|muscle organ development|positive regulation of striated muscle tissue development|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		identical protein binding|nucleic acid binding|transcription coactivator activity			ovary(3)|kidney(1)|pancreas(1)	5																		---	---	---	---
PARN	5073	broad.mit.edu	37	16	14576504	14576504	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14576504C>T	uc010uzd.1	-	22	1803	c.1661G>A	c.(1660-1662)CGC>CAC	p.R554H	PARN_uc010uzc.1_Missense_Mutation_p.R493H|PARN_uc010uze.1_Missense_Mutation_p.R508H|PARN_uc010uzf.1_Missense_Mutation_p.R379H	NM_002582	NP_002573	O95453	PARN_HUMAN	poly(A)-specific ribonuclease (deadenylation	554					female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2																		---	---	---	---
PARN	5073	broad.mit.edu	37	16	14676033	14676033	+	Intron	SNP	C	T	T	rs144238272	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14676033C>T	uc010uzd.1	-						PARN_uc010uzc.1_Intron|PARN_uc010uze.1_Intron|PARN_uc010uzf.1_Intron	NM_002582	NP_002573			poly(A)-specific ribonuclease (deadenylation						female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2																		---	---	---	---
PARN	5073	broad.mit.edu	37	16	14687198	14687198	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14687198A>G	uc010uzd.1	-	13	1020	c.878T>C	c.(877-879)GTC>GCC	p.V293A	PARN_uc010uzc.1_Missense_Mutation_p.V232A|PARN_uc010uze.1_Missense_Mutation_p.V247A|PARN_uc010uzf.1_Missense_Mutation_p.V118A	NM_002582	NP_002573	O95453	PARN_HUMAN	poly(A)-specific ribonuclease (deadenylation	293					female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2																		---	---	---	---
KIAA0430	9665	broad.mit.edu	37	16	15714321	15714321	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:15714321T>C	uc002ddr.2	-	13	2900	c.2707A>G	c.(2707-2709)ATC>GTC	p.I903V	KIAA0430_uc002ddq.2_Missense_Mutation_p.I737V|KIAA0430_uc010uzv.1_Missense_Mutation_p.I899V|KIAA0430_uc010uzw.1_Missense_Mutation_p.I902V	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	902						peroxisome	nucleotide binding|RNA binding				0																		---	---	---	---
ABCC1	4363	broad.mit.edu	37	16	16208889	16208889	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:16208889G>A	uc010bvi.2	+	23	3521	c.3346G>A	c.(3346-3348)GCC>ACC	p.A1116T	ABCC1_uc010bvj.2_Missense_Mutation_p.A1057T|ABCC1_uc010bvk.2_Missense_Mutation_p.A1060T|ABCC1_uc010bvl.2_Missense_Mutation_p.A1116T|ABCC1_uc010bvm.2_Missense_Mutation_p.A1001T|ABCC1_uc002del.3_Missense_Mutation_p.A1010T	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	1116	Helical; Name=15.|ABC transmembrane type-1 2.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)													---	---	---	---
XYLT1	64131	broad.mit.edu	37	16	17294440	17294440	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:17294440C>T	uc002dfa.2	-	4	1070	c.985G>A	c.(985-987)GCC>ACC	p.A329T		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	329	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4																		---	---	---	---
TMC5	79838	broad.mit.edu	37	16	19483429	19483429	+	Missense_Mutation	SNP	G	A	A	rs141710338	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:19483429G>A	uc002dgc.3	+	11	2551	c.1802G>A	c.(1801-1803)CGT>CAT	p.R601H	TMC5_uc010vaq.1_Intron|TMC5_uc002dgb.3_Missense_Mutation_p.R601H|TMC5_uc010var.1_Missense_Mutation_p.R601H|TMC5_uc002dgd.1_Missense_Mutation_p.R355H|TMC5_uc002dge.3_Missense_Mutation_p.R355H|TMC5_uc002dgf.3_Missense_Mutation_p.R284H|TMC5_uc002dgg.3_Missense_Mutation_p.R242H	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	601	Cytoplasmic (Potential).					integral to membrane				skin(1)	1																		---	---	---	---
GPRC5B	51704	broad.mit.edu	37	16	19884011	19884011	+	Missense_Mutation	SNP	C	T	T	rs137970804	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:19884011C>T	uc002dgt.2	-	2	265	c.157G>A	c.(157-159)GCC>ACC	p.A53T	GPRC5B_uc010vav.1_Missense_Mutation_p.A79T	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	53	Extracellular (Potential).									lung(1)|breast(1)|skin(1)	3																		---	---	---	---
UMOD	7369	broad.mit.edu	37	16	20362068	20362068	+	5'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20362068C>T	uc002dgz.2	-	2					UMOD_uc002dha.2_5'UTR|UMOD_uc002dhb.2_5'UTR	NM_003361	NP_003352			uromodulin precursor						cellular defense response|negative regulation of cell proliferation	anchored to membrane|apical plasma membrane|basolateral plasma membrane|cilium membrane|extrinsic to membrane|primary cilium|spindle pole	calcium ion binding			ovary(1)|skin(1)	2																		---	---	---	---
PDILT	204474	broad.mit.edu	37	16	20410510	20410510	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20410510T>C	uc002dhc.1	-	2	336	c.113A>G	c.(112-114)CAC>CGC	p.H38R		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	38					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1																		---	---	---	---
DNAH3	55567	broad.mit.edu	37	16	21033308	21033308	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21033308A>G	uc010vbe.1	-	40	5761	c.5761T>C	c.(5761-5763)TAC>CAC	p.Y1921H		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1921					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)														---	---	---	---
VWA3A	146177	broad.mit.edu	37	16	22144298	22144298	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:22144298C>T	uc010vbq.1	+	20	2046	c.1950C>T	c.(1948-1950)GGC>GGT	p.G650G	VWA3A_uc010bxd.2_RNA|VWA3A_uc010bxc.2_Silent_p.G658G	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	650	VWFA 1.					extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)														---	---	---	---
EEF2K	29904	broad.mit.edu	37	16	22260086	22260086	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:22260086G>A	uc002dki.2	+	4	843	c.358G>A	c.(358-360)GTC>ATC	p.V120I	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	120	Alpha-type protein kinase.				insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)														---	---	---	---
USP31	57478	broad.mit.edu	37	16	23079707	23079707	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23079707C>T	uc002dll.2	-	16	3719	c.3719G>A	c.(3718-3720)CGC>CAC	p.R1240H	USP31_uc002dlk.2_Missense_Mutation_p.R512H|USP31_uc010vca.1_Missense_Mutation_p.R543H|USP31_uc010bxm.2_Missense_Mutation_p.R528H	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	1240					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)														---	---	---	---
SCNN1G	6340	broad.mit.edu	37	16	23197805	23197805	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23197805C>T	uc002dlm.1	+	2	352	c.213C>T	c.(211-213)TGC>TGT	p.C71C		NM_001039	NP_001030	P51170	SCNNG_HUMAN	sodium channel, nonvoltage-gated 1, gamma	71	Helical; (By similarity).				excretion|sensory perception of taste	apical plasma membrane|integral to plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(48;0.0366)	Amiloride(DB00594)|Triamterene(DB00384)													---	---	---	---
SCNN1B	6338	broad.mit.edu	37	16	23364329	23364329	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23364329C>T	uc002dln.2	+	3	695	c.519C>T	c.(517-519)GGC>GGT	p.G173G		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	173	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)													---	---	---	---
COG7	91949	broad.mit.edu	37	16	23421653	23421653	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23421653G>A	uc002dlo.2	-	11	1626	c.1438C>T	c.(1438-1440)CGG>TGG	p.R480W		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	480					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)														---	---	---	---
DCTN5	84516	broad.mit.edu	37	16	23652875	23652875	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23652875C>T	uc002dly.1	+	1	69	c.12C>T	c.(10-12)GGC>GGT	p.G4G	PALB2_uc002dlx.1_5'Flank	NM_032486	NP_115875	Q9BTE1	DCTN5_HUMAN	dynactin 5	4						centrosome	transferase activity			upper_aerodigestive_tract(1)	1				GBM - Glioblastoma multiforme(48;0.0156)														---	---	---	---
PRKCB	5579	broad.mit.edu	37	16	23847557	23847557	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23847557G>A	uc002dmd.2	+	1	258	c.61G>A	c.(61-63)GCC>ACC	p.A21T	PRKCB_uc002dme.2_Missense_Mutation_p.A21T	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	21					apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)													---	---	---	---
RBBP6	5930	broad.mit.edu	37	16	24567768	24567768	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24567768C>T	uc002dmh.2	+	7	1714	c.674C>T	c.(673-675)GCA>GTA	p.A225V	RBBP6_uc010vcb.1_Missense_Mutation_p.A92V|RBBP6_uc002dmi.2_Missense_Mutation_p.A225V|RBBP6_uc010bxr.2_Missense_Mutation_p.A225V|RBBP6_uc002dmk.2_Missense_Mutation_p.A92V	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	225					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)														---	---	---	---
RBBP6	5930	broad.mit.edu	37	16	24583525	24583525	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24583525G>A	uc002dmh.2	+	18	6178	c.5138G>A	c.(5137-5139)AGC>AAC	p.S1713N	RBBP6_uc002dmi.2_Missense_Mutation_p.S1679N|RBBP6_uc010bxr.2_Missense_Mutation_p.S873N|RBBP6_uc002dmk.2_Missense_Mutation_p.S1546N	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1713					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)														---	---	---	---
TNRC6A	27327	broad.mit.edu	37	16	24818069	24818069	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24818069C>T	uc002dmm.2	+	17	4618	c.4504C>T	c.(4504-4506)CCA>TCA	p.P1502S	TNRC6A_uc010bxs.2_Missense_Mutation_p.P1249S|TNRC6A_uc002dmn.2_Missense_Mutation_p.P1200S|TNRC6A_uc002dmo.2_Missense_Mutation_p.P1141S|TNRC6A_uc002dmp.2_Missense_Mutation_p.P103S|TNRC6A_uc002dmq.2_Missense_Mutation_p.P169S	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1502					negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)														---	---	---	---
TNRC6A	27327	broad.mit.edu	37	16	24830031	24830031	+	Intron	SNP	G	A	A	rs75997926	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24830031G>A	uc002dmm.2	+						TNRC6A_uc010bxs.2_Intron|TNRC6A_uc002dmn.2_Intron|TNRC6A_uc002dmo.2_Intron	NM_014494	NP_055309			trinucleotide repeat containing 6A						negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)														---	---	---	---
ARHGAP17	55114	broad.mit.edu	37	16	24942549	24942549	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24942549C>T	uc002dnb.2	-	19	2164	c.2071G>A	c.(2071-2073)GCC>ACC	p.A691T	ARHGAP17_uc002dmx.2_5'UTR|ARHGAP17_uc002dmw.2_5'UTR|ARHGAP17_uc002dmy.2_Missense_Mutation_p.A136T|ARHGAP17_uc002dmz.2_Missense_Mutation_p.A215T|ARHGAP17_uc002dna.2_Missense_Mutation_p.A418T|ARHGAP17_uc002dnc.2_Missense_Mutation_p.A613T|ARHGAP17_uc010vcf.1_Missense_Mutation_p.A434T|ARHGAP17_uc002dne.1_5'UTR	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	691	Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)														---	---	---	---
IL4R	3566	broad.mit.edu	37	16	27370284	27370284	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27370284G>A	uc002don.2	+	9	1060	c.818G>A	c.(817-819)CGC>CAC	p.R273H	IL4R_uc002dop.3_Missense_Mutation_p.R258H|IL4R_uc010bxy.2_Missense_Mutation_p.R273H|IL4R_uc002doo.2_Missense_Mutation_p.R113H	NM_000418	NP_000409	P24394	IL4RA_HUMAN	interleukin 4 receptor alpha chain isoform a	273	Cytoplasmic (Potential).				immune response|production of molecular mediator involved in inflammatory response	integral to plasma membrane	identical protein binding|interleukin-4 receptor activity|receptor signaling protein activity			ovary(1)|skin(1)	2																		---	---	---	---
KIAA0556	23247	broad.mit.edu	37	16	27709701	27709701	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27709701C>T	uc002dow.2	+	9	1017	c.993C>T	c.(991-993)TGC>TGT	p.C331C	KIAA0556_uc002dox.1_Silent_p.C239C	NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	331										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8																		---	---	---	---
SEZ6L2	26470	broad.mit.edu	37	16	29889661	29889661	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:29889661G>A	uc002duq.3	-	10	1899	c.1659C>T	c.(1657-1659)TGC>TGT	p.C553C	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Silent_p.C483C|SEZ6L2_uc002dur.3_Silent_p.C483C|SEZ6L2_uc002dus.3_Silent_p.C439C|SEZ6L2_uc010vec.1_Silent_p.C553C|SEZ6L2_uc010ved.1_Silent_p.C509C	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	553	CUB 3.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2																		---	---	---	---
ZNF764	92595	broad.mit.edu	37	16	30569345	30569345	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30569345G>A	uc002dyq.2	-	1	240	c.159C>T	c.(157-159)GAC>GAT	p.D53D	ZNF764_uc002dyr.1_Silent_p.D53D	NM_033410	NP_219363	Q96H86	ZN764_HUMAN	zinc finger protein 764	53	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
SRCAP	10847	broad.mit.edu	37	16	30732759	30732759	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30732759G>A	uc002dze.1	+	21	3888	c.3503G>A	c.(3502-3504)CGC>CAC	p.R1168H	SRCAP_uc002dzf.2_Intron|SRCAP_uc002dzg.1_Missense_Mutation_p.R1025H|SRCAP_uc010bzz.1_Missense_Mutation_p.R738H	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1168	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)															---	---	---	---
RNF40	9810	broad.mit.edu	37	16	30780692	30780692	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30780692C>T	uc002dzq.2	+	16	2556	c.2433C>T	c.(2431-2433)GGC>GGT	p.G811G	RNF40_uc010caa.2_Silent_p.G811G|RNF40_uc010cab.2_Silent_p.G711G|RNF40_uc010vfa.1_Silent_p.G143G|RNF40_uc002dzr.2_Silent_p.G811G|RNF40_uc010vfb.1_Silent_p.G503G|RNF40_uc010vfc.1_Silent_p.G143G	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	811	Potential.				histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)															---	---	---	---
ZNF629	23361	broad.mit.edu	37	16	30794300	30794300	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30794300C>T	uc002dzs.1	-	3	1557	c.1349G>A	c.(1348-1350)CGC>CAC	p.R450H		NM_001080417	NP_001073886	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	450	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)															---	---	---	---
ZNF629	23361	broad.mit.edu	37	16	30794364	30794364	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30794364G>A	uc002dzs.1	-	3	1493	c.1285C>T	c.(1285-1287)CCC>TCC	p.P429S		NM_001080417	NP_001073886	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	429					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)															---	---	---	---
SETD1A	9739	broad.mit.edu	37	16	30976445	30976445	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30976445G>A	uc002ead.1	+	7	2068	c.1382G>A	c.(1381-1383)CGC>CAC	p.R461H		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	461	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3																		---	---	---	---
ZNF668	79759	broad.mit.edu	37	16	31075337	31075337	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31075337G>T	uc010caf.2	-	2	801	c.444C>A	c.(442-444)GCC>GCA	p.A148A	ZNF668_uc002eao.2_Silent_p.A148A|ZNF668_uc010cag.1_Silent_p.A148A	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	148	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4																		---	---	---	---
C16orf58	64755	broad.mit.edu	37	16	31501559	31501559	+	3'UTR	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31501559A>G	uc002eci.1	-	13					SLC5A2_uc002ecf.3_Intron|SLC5A2_uc010car.2_Intron|C16orf58_uc002ecg.2_5'Flank|C16orf58_uc002ech.1_3'UTR	NM_022744	NP_073581			hypothetical protein LOC64755							integral to membrane				ovary(1)|breast(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	33020872	33020872	+	IGR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33020872G>A								SLC6A10P (124409 upstream) : MIR1826 (944636 downstream)																																			---	---	---	---
VPS35	55737	broad.mit.edu	37	16	46712899	46712899	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:46712899G>A	uc002eef.3	-	6	775	c.676C>T	c.(676-678)CGC>TGC	p.R226C	VPS35_uc002eed.2_Missense_Mutation_p.R47C|VPS35_uc002eee.2_Missense_Mutation_p.R187C	NM_018206	NP_060676	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35	226					protein transport|retrograde transport, endosome to Golgi	cytosol|endosome|membrane	protein binding				0		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)																---	---	---	---
NETO2	81831	broad.mit.edu	37	16	47117246	47117246	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:47117246T>C	uc002eer.1	-	9	1849	c.1464A>G	c.(1462-1464)GGA>GGG	p.G488G	NETO2_uc002eeq.1_Silent_p.G223G|NETO2_uc010vgf.1_Silent_p.G345G	NM_018092	NP_060562	Q8NC67	NETO2_HUMAN	neuropilin- and tolloid-like protein 2	488	Cytoplasmic (Potential).					integral to membrane	receptor activity				0		all_cancers(37;0.00114)|all_lung(18;0.00432)|Lung NSC(13;0.0384)|Breast(268;0.174)													HNSCC(25;0.065)			---	---	---	---
ITFG1	81533	broad.mit.edu	37	16	47294547	47294547	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:47294547G>A	uc002eet.2	-	11	1192	c.1130C>T	c.(1129-1131)GCG>GTG	p.A377V	ITFG1_uc010vgg.1_Missense_Mutation_p.A122V|ITFG1_uc010vgh.1_Missense_Mutation_p.A264V	NM_030790	NP_110417	Q8TB96	TIP_HUMAN	integrin alpha FG-GAP repeat containing 1	377						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)																---	---	---	---
ABCC12	94160	broad.mit.edu	37	16	48134814	48134814	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:48134814C>T	uc002efc.1	-	21	3353	c.3007G>A	c.(3007-3009)GCC>ACC	p.A1003T	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	1003	ABC transmembrane type-1 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)																---	---	---	---
ABCC11	85320	broad.mit.edu	37	16	48250120	48250120	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:48250120C>T	uc002eff.1	-	6	1206	c.856G>A	c.(856-858)GCA>ACA	p.A286T	ABCC11_uc002efg.1_Missense_Mutation_p.A286T|ABCC11_uc002efh.1_Missense_Mutation_p.A286T|ABCC11_uc010vgk.1_5'Flank|ABCC11_uc010vgl.1_Missense_Mutation_p.A286T	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	286	ABC transmembrane type-1 1.|Helical; (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)												Cerumen_Type				---	---	---	---
LONP2	83752	broad.mit.edu	37	16	48381516	48381516	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:48381516C>T	uc002efi.1	+	13	2126	c.2037C>T	c.(2035-2037)GGC>GGT	p.G679G	LONP2_uc010vgm.1_RNA|LONP2_uc002efj.1_Silent_p.G635G	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	679					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0																		---	---	---	---
CBLN1	869	broad.mit.edu	37	16	49315138	49315138	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:49315138C>T	uc002efq.2	-	1	578	c.239G>A	c.(238-240)CGC>CAC	p.R80H		NM_004352	NP_004343	P23435	CBLN1_HUMAN	cerebellin 1 precursor	80	C1q.|Necessary for interaction with CBLN3, and homotrimerization (By similarity).				nervous system development|synaptic transmission	cell junction|extracellular region|synapse					0		all_cancers(37;0.0766)|all_lung(18;0.24)																---	---	---	---
ADCY7	113	broad.mit.edu	37	16	50342601	50342601	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:50342601G>A	uc002egd.1	+	16	2227	c.1959G>A	c.(1957-1959)ACG>ACA	p.T653T	ADCY7_uc002egc.1_Silent_p.T653T	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	653					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)													---	---	---	---
BRD7	29117	broad.mit.edu	37	16	50388806	50388806	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:50388806G>A	uc002egf.1	-	4	353	c.286C>T	c.(286-288)CGG>TGG	p.R96W	BRD7_uc002ege.1_Missense_Mutation_p.R96W	NM_013263	NP_037395	Q9NPI1	BRD7_HUMAN	bromodomain containing 7	96	Nuclear localization signal.			R -> Q (in Ref. 1; AAF19526).	cell cycle|negative regulation of cell proliferation|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of histone acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleus	histone acetyl-lysine binding|p53 binding|transcription coactivator activity|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding				0		all_cancers(37;0.0127)																---	---	---	---
NKD1	85407	broad.mit.edu	37	16	50659407	50659407	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:50659407C>T	uc002egg.1	+	6	602	c.378C>T	c.(376-378)TGC>TGT	p.C126C		NM_033119	NP_149110	Q969G9	NKD1_HUMAN	naked cuticle homolog 1	126	Interaction with DVL1, DVL2 and DVL3 (By similarity).				Wnt receptor signaling pathway	cytoplasm|plasma membrane	calcium ion binding|protein binding				0		all_cancers(37;0.229)		GBM - Glioblastoma multiforme(240;0.243)														---	---	---	---
NOD2	64127	broad.mit.edu	37	16	50763760	50763760	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:50763760G>T	uc002egm.1	+	11	3103	c.2998G>T	c.(2998-3000)GCA>TCA	p.A1000S	NOD2_uc010vgq.1_Missense_Mutation_p.A45S	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	1000	LRR 8.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|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	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)																---	---	---	---
CHD9	80205	broad.mit.edu	37	16	53331022	53331022	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:53331022G>A	uc002ehb.2	+	29	5829	c.5665G>A	c.(5665-5667)GCA>ACA	p.A1889T	CHD9_uc002egy.2_Missense_Mutation_p.A1889T|CHD9_uc002ehc.2_Missense_Mutation_p.A1889T|CHD9_uc002ehf.2_Missense_Mutation_p.A1003T|CHD9_uc010cbw.2_Missense_Mutation_p.A257T	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	1889					cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)																---	---	---	---
CHD9	80205	broad.mit.edu	37	16	53358035	53358035	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:53358035C>T	uc002ehb.2	+	38	8086	c.7922C>T	c.(7921-7923)GCC>GTC	p.A2641V	CHD9_uc002egy.2_Missense_Mutation_p.A2625V|CHD9_uc002ehc.2_Missense_Mutation_p.A2626V|CHD9_uc002ehf.2_Missense_Mutation_p.A1739V|CHD9_uc010cbw.2_Missense_Mutation_p.A707V	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	2641	Poly-Ala.				cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding	p.K2641T(1)		lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)																---	---	---	---
RPGRIP1L	23322	broad.mit.edu	37	16	53675004	53675004	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:53675004G>A	uc002ehp.2	-	19	2963	c.2899C>T	c.(2899-2901)CGT>TGT	p.R967C	RPGRIP1L_uc002eho.3_Missense_Mutation_p.R967C|RPGRIP1L_uc010vgy.1_Missense_Mutation_p.R967C|RPGRIP1L_uc010cbx.2_Missense_Mutation_p.R967C|RPGRIP1L_uc010vgz.1_Missense_Mutation_p.R967C	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	967					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)																---	---	---	---
LPCAT2	54947	broad.mit.edu	37	16	55613142	55613142	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:55613142A>G	uc002eie.3	+	13	1617	c.1436A>G	c.(1435-1437)GAC>GGC	p.D479G	LPCAT2_uc002eic.2_Missense_Mutation_p.D209G	NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	479	Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0																		---	---	---	---
SLC6A2	6530	broad.mit.edu	37	16	55730216	55730216	+	Silent	SNP	C	T	T	rs149035289		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:55730216C>T	uc002eif.2	+	9	1338	c.1227C>T	c.(1225-1227)TTC>TTT	p.F409F	SLC6A2_uc010ccd.2_Silent_p.F409F|SLC6A2_uc002eig.2_Silent_p.F409F|SLC6A2_uc002eih.2_Silent_p.F409F|SLC6A2_uc002eii.2_Silent_p.F304F|SLC6A2_uc002eij.2_Silent_p.F123F	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	409	Helical; Name=8; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)													---	---	---	---
CES1	1066	broad.mit.edu	37	16	55855375	55855375	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:55855375G>A	uc002eim.2	-	5	703	c.595C>T	c.(595-597)CGC>TGC	p.R199C	CES1_uc002eil.2_Missense_Mutation_p.R200C|CES1_uc002ein.2_Missense_Mutation_p.R199C	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	199					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)													---	---	---	---
CES1	1066	broad.mit.edu	37	16	55862794	55862794	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:55862794C>T	uc002eim.2	-	2	250	c.142G>A	c.(142-144)GCC>ACC	p.A48T	CES1_uc002eil.2_Missense_Mutation_p.A49T|CES1_uc002ein.2_Missense_Mutation_p.A48T	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	48					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)													---	---	---	---
CES7	221223	broad.mit.edu	37	16	55883567	55883567	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:55883567A>G	uc002eip.2	-	11	1541	c.1392T>C	c.(1390-1392)GGT>GGC	p.G464G	CES7_uc002eio.2_Intron|CES7_uc002eiq.2_Silent_p.G225G|CES7_uc002eir.2_Silent_p.G358G	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	464						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)														---	---	---	---
CES7	221223	broad.mit.edu	37	16	55907786	55907786	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:55907786C>T	uc002eip.2	-	2	386	c.237G>A	c.(235-237)TCG>TCA	p.S79S	CES7_uc002eio.2_Silent_p.S79S|CES7_uc002eiq.2_5'UTR|CES7_uc002eir.2_5'UTR	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	79						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)														---	---	---	---
MT1F	4494	broad.mit.edu	37	16	56693075	56693075	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56693075G>A	uc002ejt.2	+	3	301	c.185G>A	c.(184-186)TGA>TAA	p.*62*		NM_005949	NP_005940	P04733	MT1F_HUMAN	metallothionein 1F	62						cytoplasm	cadmium ion binding|copper ion binding|zinc ion binding				0																		---	---	---	---
SLC12A3	6559	broad.mit.edu	37	16	56899142	56899142	+	5'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56899142G>A	uc010ccm.2	+	1					SLC12A3_uc002ekd.3_5'UTR|SLC12A3_uc010ccn.2_5'UTR	NM_001126108	NP_001119580			solute carrier family 12, member 3 isoform 3						sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)													---	---	---	---
NLRC5	84166	broad.mit.edu	37	16	57060066	57060066	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57060066C>T	uc002ekk.1	+	6	1436	c.1211C>T	c.(1210-1212)GCG>GTG	p.A404V	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.A209V|NLRC5_uc002ekl.2_Missense_Mutation_p.A209V|NLRC5_uc002ekm.2_Missense_Mutation_p.A209V|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	404	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	57060074	57060074	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57060074G>A	uc002ekk.1	+	6	1444	c.1219G>A	c.(1219-1221)GCA>ACA	p.A407T	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.A212T|NLRC5_uc002ekl.2_Missense_Mutation_p.A212T|NLRC5_uc002ekm.2_Missense_Mutation_p.A212T|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	407	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	57092979	57092979	+	Intron	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57092979G>T	uc002ekk.1	+						NLRC5_uc002ekn.2_Intron|NLRC5_uc002ekl.2_Intron|NLRC5_uc002ekm.2_Intron|NLRC5_uc010ccr.1_Intron|NLRC5_uc010ccs.1_Intron|NLRC5_uc002eko.1_Intron|NLRC5_uc002ekp.1_Intron|NLRC5_uc002ekq.1_Intron|NLRC5_uc002ekr.1_Intron	NM_032206	NP_115582			nucleotide-binding oligomerization domains 27						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	57092985	57092985	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57092985T>C	uc002ekk.1	+						NLRC5_uc002ekn.2_Intron|NLRC5_uc002ekl.2_Intron|NLRC5_uc002ekm.2_Intron|NLRC5_uc010ccr.1_Intron|NLRC5_uc010ccs.1_Intron|NLRC5_uc002eko.1_Intron|NLRC5_uc002ekp.1_Intron|NLRC5_uc002ekq.1_Intron|NLRC5_uc002ekr.1_Intron	NM_032206	NP_115582			nucleotide-binding oligomerization domains 27						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)																---	---	---	---
POLR2C	5432	broad.mit.edu	37	16	57503154	57503154	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57503154G>A	uc002elt.1	+	5	422	c.336G>A	c.(334-336)ACG>ACA	p.T112T	POLR2C_uc010vhq.1_Silent_p.T112T	NM_032940	NP_116558	P19387	RPB3_HUMAN	DNA directed RNA polymerase II polypeptide C	112					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|protein dimerization activity				0																		---	---	---	---
CCDC135	84229	broad.mit.edu	37	16	57735853	57735853	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57735853G>A	uc002emi.2	+	5	599	c.510G>A	c.(508-510)TCG>TCA	p.S170S	CCDC135_uc002emj.2_Silent_p.S170S|CCDC135_uc002emk.2_Intron	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	170						cytoplasm				central_nervous_system(1)	1																		---	---	---	---
KIFC3	3801	broad.mit.edu	37	16	57805529	57805529	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57805529G>A	uc002emp.2	-	5	648	c.451C>T	c.(451-453)CGG>TGG	p.R151W	KIFC3_uc010vhw.1_Missense_Mutation_p.R49W|KIFC3_uc002emn.2_RNA|KIFC3_uc002emm.2_Missense_Mutation_p.R12W|KIFC3_uc010vhx.1_Missense_Mutation_p.R12W|KIFC3_uc010cdf.2_Missense_Mutation_p.R12W|KIFC3_uc002emo.3_Missense_Mutation_p.R12W|KIFC3_uc010vhy.1_Missense_Mutation_p.R93W|KIFC3_uc002emq.2_Missense_Mutation_p.R151W|KIFC3_uc010vhz.1_Missense_Mutation_p.R173W|KIFC3_uc002emr.1_Intron|KIFC3_uc010cdg.1_RNA	NM_005550	NP_005541	Q9BVG8	KIFC3_HUMAN	kinesin family member C3 isoform 1	151	Potential.				epithelial cell-cell adhesion|microtubule-based movement|visual perception|zonula adherens maintenance	centrosome|cytoplasmic vesicle membrane|kinesin complex|microtubule|zonula adherens	ATP binding|microtubule motor activity			central_nervous_system(2)|ovary(1)	3		all_neural(199;0.224)																---	---	---	---
CNGB1	1258	broad.mit.edu	37	16	57957240	57957240	+	Missense_Mutation	SNP	G	A	A	rs78292723	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57957240G>A	uc002emt.2	-	18	1645	c.1580C>T	c.(1579-1581)GCG>GTG	p.A527V	CNGB1_uc010cdh.2_Missense_Mutation_p.A521V	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	527	Cytoplasmic (Potential).				sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4																		---	---	---	---
ZNF319	57567	broad.mit.edu	37	16	58031051	58031051	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58031051G>A	uc002emx.1	-	2	1742	c.1119C>T	c.(1117-1119)TGC>TGT	p.C373C		NM_020807	NP_065858	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	373	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
ZNF319	57567	broad.mit.edu	37	16	58031575	58031575	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58031575C>T	uc002emx.1	-	2	1218	c.595G>A	c.(595-597)GAC>AAC	p.D199N		NM_020807	NP_065858	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	199					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
CNOT1	23019	broad.mit.edu	37	16	58570932	58570932	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58570932G>A	uc002env.2	-	39	5900	c.5607C>T	c.(5605-5607)GGC>GGT	p.G1869G	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Silent_p.G1864G|CNOT1_uc010vik.1_Silent_p.G826G	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1869					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	58620473	58620473	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58620473C>T	uc002env.2	-	7	906	c.613G>A	c.(613-615)GCT>ACT	p.A205T	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.A205T|CNOT1_uc002enx.2_Missense_Mutation_p.A205T|CNOT1_uc002enz.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	205					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	58622736	58622736	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58622736G>A	uc002env.2	-	3	470	c.177C>T	c.(175-177)GGC>GGT	p.G59G	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Silent_p.G59G|CNOT1_uc002enx.2_Silent_p.G59G|CNOT1_uc002enz.1_5'UTR	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	59					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)														---	---	---	---
SLC38A7	55238	broad.mit.edu	37	16	58712668	58712668	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58712668G>A	uc002eod.1	-	4	794	c.401C>T	c.(400-402)GCC>GTC	p.A134V	SLC38A7_uc002eob.1_RNA|SLC38A7_uc002eoc.1_Missense_Mutation_p.A134V|SLC38A7_uc010vil.1_Missense_Mutation_p.A45V|SLC38A7_uc002eoe.1_Missense_Mutation_p.A134V	NM_018231	NP_060701	Q9NVC3	S38A7_HUMAN	solute carrier family 38, member 7	134	Helical; (Potential).				amino acid transport|sodium ion transport	integral to membrane				ovary(1)	1																		---	---	---	---
LOC283867	283867	broad.mit.edu	37	16	65319329	65319329	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:65319329C>T	uc010cdo.1	-	6		c.493G>A			LOC283867_uc010cdp.1_RNA|LOC283867_uc002eol.1_RNA					Homo sapiens cDNA clone IMAGE:5276218.												0				OV - Ovarian serous cystadenocarcinoma(108;0.17)														---	---	---	---
CDH5	1003	broad.mit.edu	37	16	66420974	66420974	+	Missense_Mutation	SNP	C	T	T	rs150311666		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66420974C>T	uc002eom.3	+	3	629	c.473C>T	c.(472-474)GCG>GTG	p.A158V	CDH5_uc002eon.1_Missense_Mutation_p.A158V	NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	158	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)														---	---	---	---
CMTM2	146225	broad.mit.edu	37	16	66613521	66613521	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66613521A>C	uc002ept.2	+	1	171	c.11A>C	c.(10-12)AAG>ACG	p.K4T	CMTM2_uc010cdu.2_Missense_Mutation_p.K4T	NM_144673	NP_653274	Q8TAZ6	CKLF2_HUMAN	chemokine-like factor superfamily 2	4					chemotaxis	extracellular space|integral to membrane	cytokine activity			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.068)|Epithelial(162;0.212)														---	---	---	---
NAE1	8883	broad.mit.edu	37	16	66852491	66852491	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66852491C>T	uc002eqf.2	-	8	638	c.561G>A	c.(559-561)AAG>AAA	p.K187K	NAE1_uc002eqe.2_Silent_p.K181K|NAE1_uc002eqg.2_Silent_p.K98K|NAE1_uc010cdv.2_Silent_p.K190K|NAE1_uc010cdw.1_Silent_p.K98K	NM_003905	NP_003896	Q13564	ULA1_HUMAN	NEDD8 activating enzyme E1 subunit 1 isoform a	187					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)													---	---	---	---
CBFB	865	broad.mit.edu	37	16	67116168	67116168	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67116168G>A	uc002era.2	+	5	713	c.452G>A	c.(451-453)CGC>CAC	p.R151H	CBFB_uc002erb.2_Missense_Mutation_p.R151H|CBFB_uc010vja.1_Intron	NM_001755	NP_001746	Q13951	PEBB_HUMAN	core-binding factor, beta subunit isoform 2	151					transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			breast(2)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00189)|Epithelial(162;0.00755)|all cancers(182;0.066)				T	MYH11	AML								---	---	---	---
C16orf70	80262	broad.mit.edu	37	16	67168349	67168349	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67168349C>T	uc002erc.2	+	9	724	c.640C>T	c.(640-642)CGA>TGA	p.R214*	C16orf70_uc002erd.2_Nonsense_Mutation_p.R214*|C16orf70_uc002ere.1_3'UTR	NM_025187	NP_079463	Q9BSU1	CP070_HUMAN	lin-10	214										ovary(2)	2		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0017)|Epithelial(162;0.00655)|all cancers(182;0.0579)														---	---	---	---
ELMO3	79767	broad.mit.edu	37	16	67234673	67234673	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67234673C>T	uc002esa.2	+	7	829	c.786C>T	c.(784-786)AGC>AGT	p.S262S	ELMO3_uc002esb.2_Silent_p.S245S|ELMO3_uc002esc.2_Silent_p.S96S	NM_024712	NP_078988	Q96BJ8	ELMO3_HUMAN	engulfment and cell motility 3	209					apoptosis|phagocytosis	cytoplasm|cytoskeleton	SH3 domain binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)														---	---	---	---
TPPP3	51673	broad.mit.edu	37	16	67424250	67424250	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67424250C>T	uc002esz.2	-	3	1193	c.358G>A	c.(358-360)GGT>AGT	p.G120S	TPPP3_uc002eta.2_Missense_Mutation_p.G120S|TPPP3_uc002etb.2_Missense_Mutation_p.G120S	NM_016140	NP_057224	Q9BW30	TPPP3_HUMAN	tubulin polymerization-promoting protein family	120					microtubule bundle formation	cytoplasm|microtubule	calcium ion binding|tubulin binding			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0336)|Epithelial(162;0.0781)														---	---	---	---
ZDHHC1	29800	broad.mit.edu	37	16	67432185	67432185	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67432185C>T	uc010vjm.1	-	8	1161	c.857G>A	c.(856-858)CGC>CAC	p.R286H		NM_013304	NP_037436	Q8WTX9	ZDHC1_HUMAN	zinc finger, DHHC-type containing 1	286						integral to membrane	DNA binding|zinc ion binding				0		Ovarian(137;0.223)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0178)|all cancers(182;5.71e-53)|Epithelial(162;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(108;1.53e-29)|Kidney(780;4.37e-05)|BRCA - Breast invasive adenocarcinoma(181;5.8e-05)|GBM - Glioblastoma multiforme(240;0.0022)														---	---	---	---
HSD11B2	3291	broad.mit.edu	37	16	67470767	67470767	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67470767G>A	uc002etd.2	+	5	1195	c.1079G>A	c.(1078-1080)CGC>CAC	p.R360H		NM_000196	NP_000187	P80365	DHI2_HUMAN	hydroxysteroid (11-beta) dehydrogenase 2	360					glucocorticoid biosynthetic process	endoplasmic reticulum|microsome					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0401)|Epithelial(162;0.0891)	NADH(DB00157)													---	---	---	---
CTCF	10664	broad.mit.edu	37	16	67670763	67670763	+	Intron	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67670763T>G	uc002etl.2	+						CTCF_uc010cek.2_Intron|CTCF_uc002etm.1_Intron	NM_006565	NP_006556			CCCTC-binding factor						chromatin modification|chromosome segregation|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|regulation of centromeric sister chromatid cohesion|regulation of molecular function, epigenetic	chromosome, centromeric region|condensed chromosome|nucleolus|nucleoplasm	chromatin insulator sequence binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0166)|Epithelial(162;0.0577)														---	---	---	---
RANBP10	57610	broad.mit.edu	37	16	67763353	67763353	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67763353C>T	uc002eud.2	-	10	1298	c.1182G>A	c.(1180-1182)GCG>GCA	p.A394A	RANBP10_uc010ceo.2_Silent_p.A165A|RANBP10_uc010vju.1_Silent_p.A338A|RANBP10_uc010vjv.1_Silent_p.A277A|RANBP10_uc010vjw.1_Silent_p.A55A	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	394	Ser-rich.									ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)														---	---	---	---
CTRL	1506	broad.mit.edu	37	16	67964654	67964654	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67964654G>T	uc002euw.2	-	4	303	c.293C>A	c.(292-294)CCC>CAC	p.P98H		NM_001907	NP_001898	P40313	CTRL_HUMAN	chymotrypsin-like precursor	98	Peptidase S1.				digestion|proteolysis	extracellular space	serine-type endopeptidase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00412)|Epithelial(162;0.018)|all cancers(182;0.118)														---	---	---	---
NFATC3	4775	broad.mit.edu	37	16	68160498	68160498	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68160498A>G	uc002evo.1	+	3	1596	c.1386A>G	c.(1384-1386)GGA>GGG	p.G462G	NFATC3_uc010vkl.1_5'UTR|NFATC3_uc010vkm.1_5'UTR|NFATC3_uc010vkn.1_5'UTR|NFATC3_uc010vko.1_5'UTR|NFATC3_uc010vkp.1_5'UTR|NFATC3_uc010vkq.1_5'UTR|NFATC3_uc002evl.2_Intron|NFATC3_uc002evk.2_Silent_p.G462G|NFATC3_uc002evm.1_Silent_p.G462G|NFATC3_uc002evn.1_Silent_p.G462G|NFATC3_uc010vkr.1_5'UTR|NFATC3_uc010vks.1_5'UTR|NFATC3_uc010vkt.1_5'UTR|NFATC3_uc010vku.1_5'UTR|NFATC3_uc010vkv.1_5'UTR|NFATC3_uc010vkw.1_5'UTR|NFATC3_uc010vkx.1_5'UTR|NFATC3_uc010vky.1_5'UTR|NFATC3_uc010vkz.1_5'UTR|NFATC3_uc010vla.1_5'UTR|NFATC3_uc010vlb.1_5'UTR|NFATC3_uc010vlc.1_5'UTR	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	462	RHD.				inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)														---	---	---	---
PLA2G15	23659	broad.mit.edu	37	16	68289879	68289879	+	Missense_Mutation	SNP	G	A	A	rs140788278		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68289879G>A	uc002evr.2	+	5	796	c.713G>A	c.(712-714)CGC>CAC	p.R238H	PLA2G15_uc010vld.1_Silent_p.A196A|PLA2G15_uc010vle.1_Missense_Mutation_p.R144H|PLA2G15_uc010vlf.1_Intron|PLA2G15_uc002evs.2_Missense_Mutation_p.R59H	NM_012320	NP_036452	Q8NCC3	PAG15_HUMAN	lysophospholipase 3 (lysosomal phospholipase A2)	238					fatty acid catabolic process	extracellular region|lysosome	lysophospholipase activity|phosphatidylcholine-sterol O-acyltransferase activity|phospholipid binding			ovary(1)	1																		---	---	---	---
SLC7A6OS	84138	broad.mit.edu	37	16	68336334	68336334	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68336334C>T	uc002evw.1	-	4	768	c.749G>A	c.(748-750)CGC>CAC	p.R250H		NM_032178	NP_115554	Q96CW6	S7A6O_HUMAN	solute carrier family 7, member 6 opposite	250					protein transport	cytoplasm|nucleus				ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.106)														---	---	---	---
CDH3	1001	broad.mit.edu	37	16	68725731	68725731	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68725731C>T	uc002ewf.2	+	13	3036	c.1904C>T	c.(1903-1905)GCC>GTC	p.A635V	CDH3_uc010vli.1_Missense_Mutation_p.A580V	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	635	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)														---	---	---	---
TERF2	7014	broad.mit.edu	37	16	69390889	69390889	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:69390889G>A	uc002exd.2	-	10	1540	c.1415C>T	c.(1414-1416)GCC>GTC	p.A472V		NM_005652	NP_005643	Q15554	TERF2_HUMAN	telomeric repeat binding factor 2	472	HTH myb-type.|H-T-H motif.				age-dependent telomere shortening|cell cycle|cellular senescence|negative regulation of telomere maintenance via semi-conservative replication|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of transcription, DNA-dependent|telomeric loop formation	Golgi apparatus|nuclear telomere cap complex|nucleoplasm	double-stranded telomeric DNA binding|protein C-terminus binding|protein homodimerization activity			lung(1)	1		Ovarian(137;0.101)																---	---	---	---
WWP2	11060	broad.mit.edu	37	16	69874131	69874131	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:69874131T>G	uc002exu.1	+	6	532	c.443T>G	c.(442-444)CTG>CGG	p.L148R	WWP2_uc002ext.2_Missense_Mutation_p.L148R|WWP2_uc002exv.1_Missense_Mutation_p.L148R|WWP2_uc010vlm.1_Missense_Mutation_p.L32R	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	148					entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6																		---	---	---	---
WWP2	11060	broad.mit.edu	37	16	69942692	69942692	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:69942692C>T	uc002exu.1	+	10	1032	c.943C>T	c.(943-945)CGT>TGT	p.R315C	WWP2_uc002ext.2_Missense_Mutation_p.R315C|WWP2_uc002exv.1_Missense_Mutation_p.R315C|WWP2_uc010vlm.1_Missense_Mutation_p.R199C	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	315	WW 1.				entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6																		---	---	---	---
WWP2	11060	broad.mit.edu	37	16	69968042	69968042	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:69968042C>T	uc002exu.1	+						WWP2_uc002exv.1_Intron|WWP2_uc010vlm.1_Intron|WWP2_uc010vln.1_Intron|WWP2_uc002exw.1_Intron	NM_007014	NP_008945			WW domain containing E3 ubiquitin protein ligase						entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6																		---	---	---	---
DDX19A	55308	broad.mit.edu	37	16	70395422	70395422	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70395422G>A	uc002eyv.2	+						DDX19B_uc010vly.1_Intron|DDX19A_uc002eys.2_Intron|DDX19A_uc010cfq.1_Intron|DDX19A_uc010cfr.2_5'UTR|DDX19A_uc010cfs.2_Intron|DDX19A_uc010vlz.1_Intron|DDX19A_uc010vma.1_Intron	NM_018332	NP_060802			DDX19-like protein						mRNA transport|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|RNA binding				0		Ovarian(137;0.221)																---	---	---	---
HYDIN	54768	broad.mit.edu	37	16	70867804	70867804	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70867804G>A	uc002ezr.2	-	79	13790	c.13662C>T	c.(13660-13662)GGC>GGT	p.G4554G	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4555										ovary(1)|skin(1)	2		Ovarian(137;0.0654)																---	---	---	---
CHST4	10164	broad.mit.edu	37	16	71570901	71570901	+	Silent	SNP	C	T	T	rs146763647	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:71570901C>T	uc002fan.2	+	2	502	c.321C>T	c.(319-321)AGC>AGT	p.S107S	CHST4_uc002fao.2_Silent_p.S107S	NM_005769	NP_005760	Q8NCG5	CHST4_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	107	Lumenal (Potential).				cell-cell signaling|immune response|inflammatory response|N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity				0																		---	---	---	---
DHX38	9785	broad.mit.edu	37	16	72130190	72130190	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72130190G>A	uc002fcb.2	+	2	489	c.134G>A	c.(133-135)CGC>CAC	p.R45H	TXNL4B_uc010cgl.2_5'Flank|TXNL4B_uc002fca.2_5'Flank|TXNL4B_uc010vmn.1_5'Flank|TXNL4B_uc010vmo.1_5'Flank|DHX38_uc010vmp.1_Missense_Mutation_p.R45H|DHX38_uc010cgn.1_5'Flank	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	45					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)																---	---	---	---
DHX38	9785	broad.mit.edu	37	16	72130838	72130838	+	Silent	SNP	G	A	A	rs148616280		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72130838G>A	uc002fcb.2	+	3	796	c.441G>A	c.(439-441)TCG>TCA	p.S147S	TXNL4B_uc010vmo.1_5'Flank|DHX38_uc010vmp.1_Intron|DHX38_uc010cgn.1_RNA	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	147					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)																---	---	---	---
DHX38	9785	broad.mit.edu	37	16	72138392	72138392	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72138392C>T	uc002fcb.2	+	15	2373	c.2018C>T	c.(2017-2019)GCT>GTT	p.A673V	DHX38_uc010vmp.1_Intron	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	673	Helicase ATP-binding.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)																---	---	---	---
PMFBP1	83449	broad.mit.edu	37	16	72162994	72162994	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72162994G>A	uc002fcc.3	-	13	2108	c.1936C>T	c.(1936-1938)CGG>TGG	p.R646W	PMFBP1_uc002fcd.2_Missense_Mutation_p.R641W|PMFBP1_uc002fce.2_Intron|PMFBP1_uc002fcf.2_Missense_Mutation_p.R496W|PMFBP1_uc010cgo.1_5'Flank	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	646	Potential.									ovary(2)	2		Ovarian(137;0.179)																---	---	---	---
ZFHX3	463	broad.mit.edu	37	16	72821829	72821829	+	Missense_Mutation	SNP	G	A	A	rs140437495		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72821829G>A	uc002fck.2	-	10	11019	c.10346C>T	c.(10345-10347)GCG>GTG	p.A3449V	ZFHX3_uc002fcl.2_Missense_Mutation_p.A2535V	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3449					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)																---	---	---	---
ZFHX3	463	broad.mit.edu	37	16	72822480	72822480	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72822480C>T	uc002fck.2	-	10	10368	c.9695G>A	c.(9694-9696)CGC>CAC	p.R3232H	ZFHX3_uc002fcl.2_Missense_Mutation_p.R2318H	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3232					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)																---	---	---	---
ZFHX3	463	broad.mit.edu	37	16	72991508	72991508	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72991508C>T	uc002fck.2	-	2	3210	c.2537G>A	c.(2536-2538)CGC>CAC	p.R846H	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	846				RHLG -> HHRV (in Ref. 1).	muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)																---	---	---	---
LDHD	197257	broad.mit.edu	37	16	75149234	75149234	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:75149234G>A	uc002fdm.2	-	3	236	c.189C>T	c.(187-189)TGC>TGT	p.C63C	LDHD_uc002fdn.2_Silent_p.C63C	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	63	FAD-binding PCMH-type.						D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0																		---	---	---	---
ADAT1	23536	broad.mit.edu	37	16	75654554	75654554	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:75654554G>A	uc002feo.1	-	3	246	c.144C>T	c.(142-144)TGC>TGT	p.C48C	ADAT1_uc002fep.1_5'UTR	NM_012091	NP_036223	Q9BUB4	ADAT1_HUMAN	adenosine deaminase, tRNA-specific 1	48					tRNA processing		metal ion binding|RNA binding|tRNA-specific adenosine deaminase activity			ovary(1)|skin(1)	2																		---	---	---	---
CNTNAP4	85445	broad.mit.edu	37	16	76569665	76569665	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:76569665G>A	uc002feu.1	+	20	3364	c.2979G>A	c.(2977-2979)GGG>GGA	p.G993G	CNTNAP4_uc002fev.1_Silent_p.G857G|CNTNAP4_uc010chb.1_Silent_p.G920G|CNTNAP4_uc002fex.1_Silent_p.G996G	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	993	Extracellular (Potential).|EGF-like 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2																		---	---	---	---
C16orf46	123775	broad.mit.edu	37	16	81095510	81095510	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81095510G>A	uc002fgc.3	-	4	703	c.444C>T	c.(442-444)AGC>AGT	p.S148S	C16orf46_uc010chf.2_Silent_p.S148S|C16orf46_uc010vno.1_5'UTR	NM_152337	NP_689550	Q6P387	CP046_HUMAN	chromosome 16 open reading frame 46 isoform 2	148											0																		---	---	---	---
BCMO1	53630	broad.mit.edu	37	16	81279097	81279097	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81279097C>T	uc002fgn.1	+	2	300	c.82C>T	c.(82-84)CTG>TTG	p.L28L	BCMO1_uc002fgm.1_Silent_p.L28L|BCMO1_uc010vnp.1_Missense_Mutation_p.A2V	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	28					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0																		---	---	---	---
GAN	8139	broad.mit.edu	37	16	81397555	81397555	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81397555A>G	uc002fgo.2	+							NM_022041	NP_071324			gigaxonin						cell death	cytoplasm|neurofilament	protein binding			ovary(2)	2		Colorectal(91;0.153)																---	---	---	---
PLCG2	5336	broad.mit.edu	37	16	81973507	81973507	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81973507C>T	uc002fgt.2	+	30	3476	c.3324C>T	c.(3322-3324)GGC>GGT	p.G1108G		NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	1108	C2.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8																		---	---	---	---
HSD17B2	3294	broad.mit.edu	37	16	82131906	82131906	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:82131906C>T	uc002fgv.2	+	5	1201	c.1029C>T	c.(1027-1029)GGC>GGT	p.G343G		NM_002153	NP_002144	P37059	DHB2_HUMAN	hydroxysteroid (17-beta) dehydrogenase 2	343					response to retinoic acid|steroid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity|binding|estradiol 17-beta-dehydrogenase activity|testosterone 17-beta-dehydrogenase (NAD+) activity			ovary(1)|central_nervous_system(1)	2					NADH(DB00157)													---	---	---	---
MBTPS1	8720	broad.mit.edu	37	16	84096907	84096907	+	Intron	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84096907T>A	uc002fhi.2	-						MBTPS1_uc002fhh.2_Intron	NM_003791	NP_003782			membrane-bound transcription factor site-1						cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2																OREG0023981	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
IRF8	3394	broad.mit.edu	37	16	85954892	85954892	+	3'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:85954892C>T	uc002fjh.2	+	9					IRF8_uc010chp.2_RNA	NM_002163	NP_002154			interferon regulatory factor 8						interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleus	DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			breast(2)|ovary(1)	3		Prostate(104;0.0771)																---	---	---	---
FOXF1	2294	broad.mit.edu	37	16	86544554	86544554	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:86544554G>A	uc002fjl.2	+	1	422	c.379G>A	c.(379-381)GCC>ACC	p.A127T	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	127	Fork-head.				branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0																		---	---	---	---
MTHFSD	64779	broad.mit.edu	37	16	86575334	86575334	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:86575334C>T	uc002fjn.2	-	7	701	c.650G>A	c.(649-651)CGC>CAC	p.R217H	MTHFSD_uc010voo.1_Missense_Mutation_p.R197H|MTHFSD_uc002fjo.2_Missense_Mutation_p.R54H|MTHFSD_uc002fjm.2_Missense_Mutation_p.R216H|MTHFSD_uc010vop.1_Missense_Mutation_p.R54H|MTHFSD_uc010voq.1_Missense_Mutation_p.R216H|MTHFSD_uc010vor.1_Missense_Mutation_p.R217H|MTHFSD_uc002fjp.2_Missense_Mutation_p.R197H	NM_001159377	NP_001152849	Q2M296	MTHSD_HUMAN	methenyltetrahydrofolate synthetase domain	217					folic acid-containing compound biosynthetic process		5-formyltetrahydrofolate cyclo-ligase activity|ATP binding|RNA binding				0																		---	---	---	---
FOXL1	2300	broad.mit.edu	37	16	86612374	86612374	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:86612374G>A	uc002fjr.2	+	1	260	c.45G>A	c.(43-45)TCG>TCA	p.S15S		NM_005250	NP_005241	Q12952	FOXL1_HUMAN	forkhead box L1	15					brain development|camera-type eye development|cartilage development|embryo development|forelimb morphogenesis|heart development|organ morphogenesis|pattern specification process|proteoglycan biosynthetic process|regulation of sequence-specific DNA binding transcription factor activity|regulation of Wnt receptor signaling pathway|visceral mesoderm-endoderm interaction involved in midgut development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1																		---	---	---	---
ZCCHC14	23174	broad.mit.edu	37	16	87445771	87445771	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:87445771C>T	uc002fjz.1	-	12	2172	c.2145G>A	c.(2143-2145)ACG>ACA	p.T715T	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Silent_p.T491T	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	715	Ser-rich.				cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)														---	---	---	---
CA5A	763	broad.mit.edu	37	16	87938382	87938382	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:87938382G>A	uc002fkn.1	-							NM_001739	NP_001730			carbonic anhydrase VA, mitochondrial precursor						one-carbon metabolic process	mitochondrial matrix	carbonate dehydratase activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0513)														---	---	---	---
SNAI3	333929	broad.mit.edu	37	16	88744868	88744868	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88744868G>A	uc002flj.2	-	3	935	c.867C>T	c.(865-867)TGC>TGT	p.C289C	MGC23284_uc002fli.3_Intron	NM_178310	NP_840101	Q3KNW1	SNAI3_HUMAN	snail homolog 3	289					oxidation-reduction process		copper ion binding|DNA binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.048)														---	---	---	---
CDT1	81620	broad.mit.edu	37	16	88872194	88872194	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88872194G>A	uc002flu.2	+	5	803	c.749G>A	c.(748-750)CGC>CAC	p.R250H		NM_030928	NP_112190	Q9H211	CDT1_HUMAN	chromatin licensing and DNA replication factor	250					DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|regulation of DNA-dependent DNA replication initiation|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0476)														---	---	---	---
APRT	353	broad.mit.edu	37	16	88876190	88876190	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88876190G>A	uc002flv.2	-	5	494	c.459C>T	c.(457-459)TGC>TGT	p.C153C	APRT_uc002flw.2_Intron	NM_000485	NP_000476	P07741	APT_HUMAN	adenine phosphoribosyltransferase isoform a	153			C -> R (in APRTD).		purine ribonucleoside salvage	cytosol|nucleus	adenine phosphoribosyltransferase activity|AMP binding|protein binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0477)	Adenine(DB00173)|Adenosine monophosphate(DB00131)													---	---	---	---
ANKRD11	29123	broad.mit.edu	37	16	89348895	89348895	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89348895T>C	uc002fmx.1	-	9	4516	c.4055A>G	c.(4054-4056)CAC>CGC	p.H1352R	ANKRD11_uc002fmy.1_Missense_Mutation_p.H1352R|ANKRD11_uc002fnc.1_Missense_Mutation_p.H1352R|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Missense_Mutation_p.H1309R	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1352	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)														---	---	---	---
ANKRD11	29123	broad.mit.edu	37	16	89350221	89350221	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89350221C>A	uc002fmx.1	-	9	3190	c.2729G>T	c.(2728-2730)AGG>ATG	p.R910M	ANKRD11_uc002fmy.1_Missense_Mutation_p.R910M|ANKRD11_uc002fnc.1_Missense_Mutation_p.R910M|ANKRD11_uc002fnb.1_Missense_Mutation_p.R867M	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	910	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)														---	---	---	---
FANCA	2175	broad.mit.edu	37	16	89857839	89857839	+	Missense_Mutation	SNP	G	A	A	rs144234991		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89857839G>A	uc002fou.1	-	14	1373	c.1331C>T	c.(1330-1332)GCG>GTG	p.A444V	FANCA_uc010vpn.1_Missense_Mutation_p.A444V	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	444					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)				D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				---	---	---	---
TCF25	22980	broad.mit.edu	37	16	89967183	89967183	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89967183G>A	uc002fpb.2	+	12	1444	c.1362G>A	c.(1360-1362)GCG>GCA	p.A454A	TCF25_uc002fpc.2_Silent_p.A219A	NM_014972	NP_055787	Q9BQ70	TCF25_HUMAN	NULP1	454					heart development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(9;4.71e-08)|Lung NSC(15;0.000192)|all_lung(18;0.000319)|all_neural(9;0.0122)|all_hematologic(23;0.027)		BRCA - Breast invasive adenocarcinoma(80;0.0288)														---	---	---	---
TUBB3	10381	broad.mit.edu	37	16	89986038	89986038	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89986038C>A	uc002fpf.2	+	1	780	c.372C>A	c.(370-372)ACC>ACA	p.T124T	MC1R_uc002fpe.3_Silent_p.T124T|TUBB3_uc010ciz.1_5'Flank	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	Error:Variant_position_missing_in_Q13509_after_alignment					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)														---	---	---	---
TUBB3	10381	broad.mit.edu	37	16	90001913	90001913	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:90001913G>A	uc002fph.1	+	4	1119	c.1054G>A	c.(1054-1056)GCC>ACC	p.A352T	TUBB3_uc002fpf.2_Missense_Mutation_p.A699T|TUBB3_uc010ciz.1_Missense_Mutation_p.A280T|TUBB3_uc002fpg.1_Missense_Mutation_p.A206T|TUBB3_uc002fpi.1_Missense_Mutation_p.A280T|TUBB3_uc002fpj.1_Missense_Mutation_p.A280T|TUBB3_uc010cjb.1_Missense_Mutation_p.A206T|TUBB3_uc002fpk.1_Missense_Mutation_p.A206T	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	352					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)														---	---	---	---
GAS8	2622	broad.mit.edu	37	16	90099232	90099232	+	Missense_Mutation	SNP	G	A	A	rs145845004		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:90099232G>A	uc002fqi.1	+	4	517	c.395G>A	c.(394-396)CGC>CAC	p.R132H	GAS8_uc010vps.1_Missense_Mutation_p.R107H|GAS8_uc002fqh.2_Missense_Mutation_p.R49H|GAS8_uc010vpt.1_Missense_Mutation_p.R132H|GAS8_uc010vpu.1_Missense_Mutation_p.R49H|GAS8_uc010vpv.1_Missense_Mutation_p.R103H|GAS8_uc010cjc.1_Missense_Mutation_p.R49H|GAS8_uc010vpw.1_Missense_Mutation_p.R49H|GAS8_uc002fqj.1_5'UTR|C16orf3_uc002fqk.1_5'Flank	NM_001481	NP_001472	O95995	GAS8_HUMAN	growth arrest-specific 8	132	Microtubule-binding.				negative regulation of cell proliferation|sperm motility	cilium|Golgi apparatus|microtubule|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.029)														---	---	---	---
C17orf97	400566	broad.mit.edu	37	17	263122	263122	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:263122C>T	uc002frh.2	+	2	504	c.488C>T	c.(487-489)GCG>GTG	p.A163V	C17orf97_uc010vpz.1_5'Flank	NM_001013672	NP_001013694	Q6ZQX7	CQ097_HUMAN	hypothetical protein LOC400566	163										ovary(1)	1																		---	---	---	---
C17orf97	400566	broad.mit.edu	37	17	263194	263194	+	Missense_Mutation	SNP	G	A	A	rs141704289		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:263194G>A	uc002frh.2	+	2	576	c.560G>A	c.(559-561)CGC>CAC	p.R187H	C17orf97_uc010vpz.1_5'Flank	NM_001013672	NP_001013694	Q6ZQX7	CQ097_HUMAN	hypothetical protein LOC400566	187										ovary(1)	1																		---	---	---	---
VPS53	55275	broad.mit.edu	37	17	526892	526892	+	Missense_Mutation	SNP	G	A	A	rs145041715		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:526892G>A	uc002frn.2	-	11	1144	c.997C>T	c.(997-999)CGT>TGT	p.R333C	VPS53_uc002frk.2_5'UTR|VPS53_uc010cjo.1_Missense_Mutation_p.R333C|VPS53_uc002frl.2_RNA|VPS53_uc002frm.2_Missense_Mutation_p.R304C|VPS53_uc002fro.2_Missense_Mutation_p.R135C|VPS53_uc010cjp.1_Intron	NM_018289	NP_060759	Q5VIR6	VPS53_HUMAN	vacuolar protein sorting 53 isoform 2	333					protein transport	endosome membrane|Golgi apparatus					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0265)														---	---	---	---
GEMIN4	50628	broad.mit.edu	37	17	650203	650203	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:650203C>T	uc002frs.1	-	2	1199	c.1080G>A	c.(1078-1080)ACG>ACA	p.T360T	GEMIN4_uc010vqa.1_3'UTR	NM_015721	NP_056536	P57678	GEMI4_HUMAN	gemin 4	360					rRNA processing|spliceosomal snRNP assembly	Cajal body|cytosol|nucleolus|small nuclear ribonucleoprotein complex|spliceosomal complex	protein binding			ovary(2)|kidney(1)|skin(1)	4		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.022)														---	---	---	---
RNMTL1	55178	broad.mit.edu	37	17	694821	694821	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:694821G>A	uc002frw.2	+	4	881	c.775G>A	c.(775-777)GCA>ACA	p.A259T		NM_018146	NP_060616	Q9HC36	RMTL1_HUMAN	RNA methyltransferase like 1	259					RNA processing		protein binding|RNA binding|RNA methyltransferase activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0219)														---	---	---	---
TIMM22	29928	broad.mit.edu	37	17	902137	902137	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:902137G>A	uc002fsc.2	+	2	383	c.357G>A	c.(355-357)GGG>GGA	p.G119G		NM_013337	NP_037469	Q9Y584	TIM22_HUMAN	translocase of inner mitochondrial membrane 22	119					transmembrane transport	integral to membrane|mitochondrial inner membrane	protein transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.022)														---	---	---	---
ABR	29	broad.mit.edu	37	17	1028590	1028590	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1028590C>T	uc002fsd.2	-	2	284	c.174G>A	c.(172-174)CCG>CCA	p.P58P	ABR_uc002fse.2_Silent_p.P12P|ABR_uc010cjq.1_Silent_p.P70P	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	58					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)														---	---	---	---
ABR	29	broad.mit.edu	37	17	1028600	1028600	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1028600G>A	uc002fsd.2	-	2	274	c.164C>T	c.(163-165)ACC>ATC	p.T55I	ABR_uc002fse.2_Missense_Mutation_p.T9I|ABR_uc010cjq.1_Missense_Mutation_p.T67I	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	55					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)														---	---	---	---
WDR81	124997	broad.mit.edu	37	17	1634494	1634494	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1634494C>T	uc002fti.2	+	4	679	c.418C>T	c.(418-420)CGG>TGG	p.R140W	WDR81_uc002fth.2_Missense_Mutation_p.R316W|WDR81_uc010vqp.1_Missense_Mutation_p.R164W|WDR81_uc002ftj.2_Missense_Mutation_p.R1367W|WDR81_uc010vqq.1_Intron	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	140										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)														---	---	---	---
WDR81	124997	broad.mit.edu	37	17	1636038	1636038	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1636038G>A	uc002fti.2	+	6	982	c.721G>A	c.(721-723)GTG>ATG	p.V241M	WDR81_uc002fth.2_Missense_Mutation_p.V417M|WDR81_uc010vqp.1_Missense_Mutation_p.V265M|WDR81_uc002ftj.2_Missense_Mutation_p.V1468M|WDR81_uc010vqq.1_Missense_Mutation_p.V99M	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	241										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)														---	---	---	---
SMYD4	114826	broad.mit.edu	37	17	1703996	1703996	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1703996G>A	uc002ftm.3	-	5	860	c.692C>T	c.(691-693)GCC>GTC	p.A231V	SMYD4_uc002ftn.1_Missense_Mutation_p.A86V	NM_052928	NP_443160	Q8IYR2	SMYD4_HUMAN	SET and MYND domain containing 4	231							zinc ion binding			skin(3)|kidney(2)	5																		---	---	---	---
SMG6	23293	broad.mit.edu	37	17	1964860	1964860	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1964860G>A	uc002fub.1	-	19	4241	c.4186C>T	c.(4186-4188)CGT>TGT	p.R1396C	SMG6_uc010vqv.1_Missense_Mutation_p.R488C	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	1396	PINc.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4																		---	---	---	---
SMG6	23293	broad.mit.edu	37	17	2202208	2202208	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2202208C>T	uc002fub.1	-	2	1894	c.1839G>A	c.(1837-1839)GCG>GCA	p.A613A	SMG6_uc002fud.1_Silent_p.A582A	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	613	Potential.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4																		---	---	---	---
RAP1GAP2	23108	broad.mit.edu	37	17	2898752	2898752	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2898752G>A	uc010ckd.2	+	13	1126	c.1036G>A	c.(1036-1038)GCC>ACC	p.A346T	RAP1GAP2_uc010cke.2_Missense_Mutation_p.A331T	NM_015085	NP_055900	Q684P5	RPGP2_HUMAN	RAP1 GTPase activating protein 2 isoform 1	346	Rap-GAP.				regulation of small GTPase mediated signal transduction	centrosome|cytosol|perinuclear region of cytoplasm	GTPase activator activity			ovary(1)	1																		---	---	---	---
OR1G1	8390	broad.mit.edu	37	17	3030350	3030350	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3030350G>A	uc002fvc.1	-	1	496	c.496C>T	c.(496-498)CTG>TTG	p.L166L		NM_003555	NP_003546	P47890	OR1G1_HUMAN	olfactory receptor, family 1, subfamily G,	166	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0																		---	---	---	---
OR3A2	4995	broad.mit.edu	37	17	3181297	3181297	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3181297C>T	uc002fvg.2	-	1	972	c.933G>A	c.(931-933)TGG>TGA	p.W311*		NM_002551	NP_002542	P47893	OR3A2_HUMAN	olfactory receptor, family 3, subfamily A,	311	Cytoplasmic (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			ovary(1)	1																		---	---	---	---
OR3A3	8392	broad.mit.edu	37	17	3324325	3324325	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3324325C>A	uc010vrd.1	+	1	464	c.464C>A	c.(463-465)GCT>GAT	p.A155D		NM_012373	NP_036505	P47888	OR3A3_HUMAN	olfactory receptor, family 3, subfamily A,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0																		---	---	---	---
OR1E2	8388	broad.mit.edu	37	17	3336709	3336709	+	Missense_Mutation	SNP	C	T	T	rs112466079		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3336709C>T	uc010vre.1	-	1	427	c.427G>A	c.(427-429)GCC>ACC	p.A143T		NM_003554	NP_003545	P47887	OR1E2_HUMAN	olfactory receptor, family 1, subfamily E,	143	Cytoplasmic (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			large_intestine(1)	1																		---	---	---	---
TRPV1	7442	broad.mit.edu	37	17	3476959	3476959	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3476959C>T	uc010vrr.1	-	12	2598	c.2071G>A	c.(2071-2073)GCA>ACA	p.A691T	TRPV1_uc010vro.1_Missense_Mutation_p.A702T|TRPV1_uc010vrp.1_Missense_Mutation_p.A631T|TRPV1_uc010vrq.1_Missense_Mutation_p.A689T|TRPV1_uc010vrs.1_Missense_Mutation_p.A691T|TRPV1_uc010vrt.1_Missense_Mutation_p.A691T|TRPV1_uc010vru.1_Missense_Mutation_p.A691T	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	691	AD (By similarity).|Cytoplasmic (Potential).				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)													---	---	---	---
TRPV1	7442	broad.mit.edu	37	17	3489183	3489183	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3489183C>T	uc010vrr.1	-	7	1789	c.1262G>A	c.(1261-1263)CGA>CAA	p.R421Q	TRPV1_uc010vro.1_Missense_Mutation_p.R432Q|TRPV1_uc010vrp.1_Missense_Mutation_p.R361Q|TRPV1_uc010vrq.1_Missense_Mutation_p.R419Q|TRPV1_uc010vrs.1_Missense_Mutation_p.R421Q|TRPV1_uc010vrt.1_Missense_Mutation_p.R421Q|TRPV1_uc010vru.1_Missense_Mutation_p.R421Q	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	421	Cytoplasmic (Potential).				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)													---	---	---	---
ITGAE	3682	broad.mit.edu	37	17	3665218	3665218	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3665218G>A	uc002fwo.3	-	4	405	c.306C>T	c.(304-306)CAC>CAT	p.H102H		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	102	FG-GAP 2.|Extracellular (Potential).				cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)														---	---	---	---
CAMKK1	84254	broad.mit.edu	37	17	3773157	3773157	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3773157C>T	uc002fwt.2	-	13	1244	c.1150G>A	c.(1150-1152)GAC>AAC	p.D384N	CAMKK1_uc002fwu.2_Missense_Mutation_p.D384N|CAMKK1_uc002fwv.2_Missense_Mutation_p.D422N	NM_172206	NP_757343	Q8N5S9	KKCC1_HUMAN	calcium/calmodulin-dependent protein kinase 1	384	Protein kinase.				synaptic transmission	cytosol|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1				LUAD - Lung adenocarcinoma(2;2.11e-05)|Lung(3;0.0176)														---	---	---	---
PLD2	5338	broad.mit.edu	37	17	4713066	4713066	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4713066G>A	uc002fzc.2	+	8	796	c.695G>A	c.(694-696)CGC>CAC	p.R232H	PLD2_uc010vsj.1_Missense_Mutation_p.R89H|PLD2_uc002fzd.2_Missense_Mutation_p.R232H	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	232	PH.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)													---	---	---	---
PLD2	5338	broad.mit.edu	37	17	4718853	4718853	+	Missense_Mutation	SNP	C	T	T	rs143765886	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4718853C>T	uc002fzc.2	+	13	1357	c.1256C>T	c.(1255-1257)GCG>GTG	p.A419V	PLD2_uc010vsj.1_Missense_Mutation_p.A276V|PLD2_uc002fzd.2_Missense_Mutation_p.A419V	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	419					cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)											OREG0024105	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
KIF1C	10749	broad.mit.edu	37	17	4917019	4917019	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4917019C>T	uc002gan.1	+	17	1889	c.1563C>T	c.(1561-1563)GGC>GGT	p.G521G		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	521					microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2																		---	---	---	---
USP6	9098	broad.mit.edu	37	17	5041523	5041523	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5041523T>G	uc002gau.1	+	21	3263	c.1033T>G	c.(1033-1035)TCT>GCT	p.S345A	USP6_uc002gav.1_Missense_Mutation_p.S345A|USP6_uc010ckz.1_5'UTR|uc002gbd.2_5'Flank	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	345					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5								T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								---	---	---	---
RABEP1	9135	broad.mit.edu	37	17	5264580	5264580	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5264580T>C	uc002gbm.3	+	9	1397	c.1173T>C	c.(1171-1173)AGT>AGC	p.S391S	RABEP1_uc010clc.1_Silent_p.S384S|RABEP1_uc010cld.1_Silent_p.S348S|RABEP1_uc010vsw.1_Silent_p.S348S|RABEP1_uc002gbl.3_Silent_p.S391S|NUP88_uc002gbn.2_RNA	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	391					apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2																		---	---	---	---
RABEP1	9135	broad.mit.edu	37	17	5264866	5264866	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5264866G>T	uc002gbm.3	+	9	1683	c.1459G>T	c.(1459-1461)GCG>TCG	p.A487S	RABEP1_uc010clc.1_Missense_Mutation_p.A480S|RABEP1_uc010cld.1_Missense_Mutation_p.A444S|RABEP1_uc010vsw.1_Missense_Mutation_p.A444S|RABEP1_uc002gbl.3_Missense_Mutation_p.A487S|NUP88_uc002gbn.2_RNA	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	487					apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2																		---	---	---	---
RABEP1	9135	broad.mit.edu	37	17	5280477	5280477	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5280477G>A	uc002gbm.3	+	14	2316	c.2092G>A	c.(2092-2094)GTA>ATA	p.V698I	RABEP1_uc010clc.1_Missense_Mutation_p.V691I|RABEP1_uc010cld.1_Missense_Mutation_p.V655I|RABEP1_uc010vsw.1_Missense_Mutation_p.V655I|RABEP1_uc002gbl.3_Missense_Mutation_p.V698I|NUP88_uc002gbn.2_Intron	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	698	Potential.				apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2																		---	---	---	---
NUP88	4927	broad.mit.edu	37	17	5312224	5312224	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5312224G>A	uc002gbo.1	-	5	712	c.686C>T	c.(685-687)GCG>GTG	p.A229V	NUP88_uc010vsx.1_Missense_Mutation_p.A229V|NUP88_uc010cle.1_Missense_Mutation_p.A228V|NUP88_uc010vsy.1_Missense_Mutation_p.A229V	NM_002532	NP_002523	Q99567	NUP88_HUMAN	nucleoporin 88kDa	229					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	transporter activity			kidney(1)	1																		---	---	---	---
DHX33	56919	broad.mit.edu	37	17	5364373	5364373	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									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																		---	---	---	---
DHX33	56919	broad.mit.edu	37	17	5365851	5365851	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5365851G>A	uc002gca.2	-	3	468	c.466C>T	c.(466-468)CGC>TGC	p.R156C	DHX33_uc002gbz.2_5'Flank|DHX33_uc002gcb.2_5'UTR|DHX33_uc010clf.2_Intron	NM_020162	NP_064547	Q9H6R0	DHX33_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 33	156	Helicase ATP-binding.					nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|pancreas(1)	2																		---	---	---	---
NLRP1	22861	broad.mit.edu	37	17	5436264	5436264	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5436264G>A	uc002gci.2	-	11	3729	c.3174C>T	c.(3172-3174)TGC>TGT	p.C1058C	NLRP1_uc002gcg.1_Silent_p.C1062C|NLRP1_uc002gck.2_Silent_p.C1058C|NLRP1_uc002gcj.2_Silent_p.C1028C|NLRP1_uc002gcl.2_Silent_p.C1028C|NLRP1_uc002gch.3_Silent_p.C1058C|NLRP1_uc010clh.2_Silent_p.C1058C	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	1058					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)																---	---	---	---
WSCD1	23302	broad.mit.edu	37	17	6023723	6023723	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6023723C>T	uc010cli.2	+	9	1849	c.1470C>T	c.(1468-1470)TAC>TAT	p.Y490Y	WSCD1_uc002gcn.2_Silent_p.Y490Y|WSCD1_uc002gco.2_Silent_p.Y490Y|WSCD1_uc010clj.2_Silent_p.Y181Y	NM_015253	NP_056068	Q658N2	WSCD1_HUMAN	WSC domain containing 1	490						integral to membrane	sulfotransferase activity				0																		---	---	---	---
PITPNM3	83394	broad.mit.edu	37	17	6358942	6358942	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6358942C>T	uc002gdd.3	-	20	2792	c.2641G>A	c.(2641-2643)GCA>ACA	p.A881T	PITPNM3_uc010cln.2_Missense_Mutation_p.A845T|PITPNM3_uc010clm.2_Missense_Mutation_p.A364T|PITPNM3_uc002gdc.3_Missense_Mutation_p.A472T	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	881					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)														---	---	---	---
KIAA0753	9851	broad.mit.edu	37	17	6524322	6524322	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6524322C>T	uc002gde.3	-						KIAA0753_uc010vtd.1_5'Flank|KIAA0753_uc010clo.2_Intron|KIAA0753_uc010vte.1_Intron	NM_014804	NP_055619			hypothetical protein LOC9851							centrosome					0				COAD - Colon adenocarcinoma(228;0.157)														---	---	---	---
TXNDC17	84817	broad.mit.edu	37	17	6544532	6544532	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6544532C>T	uc002gdf.3	+	1	311	c.130C>T	c.(130-132)CCC>TCC	p.P44S	KIAA0753_uc002gde.3_5'Flank|KIAA0753_uc010vte.1_5'Flank	NM_032731	NP_116120	Q9BRA2	TXD17_HUMAN	thioredoxin-like 5	44	Thioredoxin.	Contributes to redox potential value.			tumor necrosis factor-mediated signaling pathway	cytosol	electron carrier activity|peroxidase activity|protein binding|protein-disulfide reductase activity			ovary(1)	1																		---	---	---	---
BCL6B	255877	broad.mit.edu	37	17	6927466	6927466	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6927466G>T	uc002geg.2	+	3	301	c.244G>T	c.(244-246)GGG>TGG	p.G82W	BCL6B_uc010clt.1_Missense_Mutation_p.G82W	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	82	BTB.					nucleus	zinc ion binding			skin(1)	1																		---	---	---	---
BCL6B	255877	broad.mit.edu	37	17	6927806	6927806	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6927806G>A	uc002geg.2	+	4	545	c.488G>A	c.(487-489)CGC>CAC	p.R163H	BCL6B_uc010clt.1_Missense_Mutation_p.R163H	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	163	Pro-rich.					nucleus	zinc ion binding			skin(1)	1																		---	---	---	---
ASGR1	432	broad.mit.edu	37	17	7077269	7077269	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7077269C>T	uc002ges.3	-						ASGR1_uc010clx.1_3'UTR	NM_001671	NP_001662			asialoglycoprotein receptor 1						receptor-mediated endocytosis	integral to plasma membrane	asialoglycoprotein receptor activity|metal ion binding|sugar binding			breast(1)|central_nervous_system(1)	2																		---	---	---	---
NEURL4	84461	broad.mit.edu	37	17	7226176	7226176	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7226176G>A	uc002gga.1	-	16	2610	c.2603C>T	c.(2602-2604)GCG>GTG	p.A868V	NEURL4_uc002ggb.1_Missense_Mutation_p.A866V|NEURL4_uc002ggc.1_Missense_Mutation_p.A214V	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	868	NHR 4.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2																		---	---	---	---
NEURL4	84461	broad.mit.edu	37	17	7228773	7228773	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7228773C>T	uc002gga.1	-	8	1393	c.1386G>A	c.(1384-1386)ACG>ACA	p.T462T	NEURL4_uc002ggb.1_Silent_p.T462T|NEURL4_uc002ggc.1_5'UTR	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	462	NHR 2.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2																		---	---	---	---
CHRNB1	1140	broad.mit.edu	37	17	7350413	7350413	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7350413C>T	uc002ghb.2	+	5	446	c.405C>T	c.(403-405)TCC>TCT	p.S135S	CHRNB1_uc010vty.1_Silent_p.S63S|CHRNB1_uc010vtz.1_5'UTR	NM_000747	NP_000738	P11230	ACHB_HUMAN	nicotinic acetylcholine receptor beta 1 subunit	135	Extracellular (Potential).				behavioral response to nicotine|muscle contraction|muscle fiber development|neuromuscular synaptic transmission|postsynaptic membrane organization|regulation of membrane potential|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine binding|receptor activity			ovary(2)	2		Prostate(122;0.157)																---	---	---	---
POLR2A	5430	broad.mit.edu	37	17	7401440	7401440	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7401440G>A	uc002ghf.3	+	8	1480	c.1246G>A	c.(1246-1248)GCC>ACC	p.A416T	POLR2A_uc002ghe.2_Missense_Mutation_p.A416T	NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	416					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)																---	---	---	---
POLR2A	5430	broad.mit.edu	37	17	7406984	7406984	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7406984G>A	uc002ghf.3	+	19	3348	c.3114G>A	c.(3112-3114)ACG>ACA	p.T1038T		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	1038					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)																---	---	---	---
TP53	7157	broad.mit.edu	37	17	7577548	7577548	+	Missense_Mutation	SNP	C	G	G	rs28934575		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7577548C>G	uc002gim.2	-	7	927	c.733G>C	c.(733-735)GGC>CGC	p.G245R	TP53_uc002gig.1_Missense_Mutation_p.G245R|TP53_uc002gih.2_Missense_Mutation_p.G245R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.G113R|TP53_uc010cng.1_Missense_Mutation_p.G113R|TP53_uc002gii.1_Missense_Mutation_p.G113R|TP53_uc010cnh.1_Missense_Mutation_p.G245R|TP53_uc010cni.1_Missense_Mutation_p.G245R|TP53_uc002gij.2_Missense_Mutation_p.G245R|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.G152R|TP53_uc002gio.2_Missense_Mutation_p.G113R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	245	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		G -> N (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> A (in sporadic cancers; somatic mutation).|G -> V (in LFS; germline mutation and in sporadic cancers; somatic mutation).|G -> F (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> R (in sporadic cancers; somatic mutation).|G -> E (in a sporadic cancer; somatic mutation).|G -> D (in LFS; germline mutation and in sporadic cancers; somatic mutation).|G -> H (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|G -> L (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G245S(274)|p.G245D(93)|p.G245V(50)|p.G245C(47)|p.G245R(10)|p.G245A(8)|p.0?(7)|p.G245G(3)|p.G245fs*2(3)|p.G245N(2)|p.G245H(1)|p.G245L(1)|p.G244fs*17(1)|p.G245F(1)|p.G245E(1)|p.C242_M246>L(1)|p.C238_M246delCNSSCMGGM(1)|p.S241_G245delSCMGG(1)|p.C242fs*98(1)|p.G245fs*22(1)|p.M243fs*18(1)|p.G245del(1)|p.G245fs*14(1)|p.G245fs*17(1)|p.G245fs*16(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		G245S(SKLMS1_SOFT_TISSUE)|G245S(LS1034_LARGE_INTESTINE)|G245S(NUGC2_STOMACH)|G245S(PANC0403_PANCREAS)|G245S(SKMEL2_SKIN)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			---	---	---	---
WRAP53	55135	broad.mit.edu	37	17	7604990	7604990	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7604990G>A	uc010vuh.1	+	7	993	c.838G>A	c.(838-840)GCC>ACC	p.A280T	WRAP53_uc010vui.1_Missense_Mutation_p.A280T|WRAP53_uc002gip.2_Missense_Mutation_p.A280T|WRAP53_uc002gir.2_Missense_Mutation_p.A280T|WRAP53_uc002giq.2_RNA|WRAP53_uc010cnl.2_Missense_Mutation_p.A247T|WRAP53_uc010vuj.1_Missense_Mutation_p.A61T	NM_001143990	NP_001137462	Q9BUR4	WAP53_HUMAN	WD repeat domain 79 isoform 2	280	WD 3.				positive regulation of telomerase activity|telomere formation via telomerase	Cajal body|cytoplasm|telomerase holoenzyme complex	protein binding|RNA binding				0																		---	---	---	---
DNAH2	146754	broad.mit.edu	37	17	7646274	7646274	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7646274G>A	uc002giu.1	+	11	1732	c.1718G>A	c.(1717-1719)CGT>CAT	p.R573H	DNAH2_uc002git.2_Missense_Mutation_p.R655H|DNAH2_uc010vuk.1_Missense_Mutation_p.R573H	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	573	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)																---	---	---	---
DNAH2	146754	broad.mit.edu	37	17	7661926	7661926	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7661926C>T	uc002giu.1	+	13	2179	c.2165C>T	c.(2164-2166)GCC>GTC	p.A722V		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	722	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)																---	---	---	---
DNAH2	146754	broad.mit.edu	37	17	7682557	7682557	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7682557G>A	uc002giu.1	+							NM_020877	NP_065928			dynein heavy chain domain 3						ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)																---	---	---	---
KDM6B	23135	broad.mit.edu	37	17	7751760	7751760	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7751760C>T	uc002giw.1	+	11	2530	c.2154C>T	c.(2152-2154)GGC>GGT	p.G718G	KDM6B_uc002gix.2_Silent_p.G20G	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	718	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2																		---	---	---	---
CHD3	1107	broad.mit.edu	37	17	7812021	7812021	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7812021C>T	uc002gje.2	+	36	5418	c.5268C>T	c.(5266-5268)GGC>GGT	p.G1756G	CHD3_uc002gjd.2_Silent_p.G1815G|CHD3_uc002gjf.2_Silent_p.G1722G|CHD3_uc002gjh.2_Silent_p.G333G|CHD3_uc002gjj.2_5'Flank	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1756	Required for interaction with PCNT.				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|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)																---	---	---	---
KCNAB3	9196	broad.mit.edu	37	17	7826435	7826435	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7826435C>T	uc002gjm.1	-	14	1200	c.1200G>A	c.(1198-1200)CCG>CCA	p.P400P	KCNAB3_uc010vul.1_RNA	NM_004732	NP_004723	O43448	KCAB3_HUMAN	potassium voltage-gated channel, shaker-related	400						cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(1)	1		Prostate(122;0.157)																---	---	---	---
C17orf68	80169	broad.mit.edu	37	17	8141902	8141902	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8141902G>A	uc002gkq.3	-	3	302	c.243C>T	c.(241-243)TGC>TGT	p.C81C	C17orf68_uc010cnv.2_RNA	NM_025099	NP_079375	Q2NKJ3	CTC1_HUMAN	alpha accessory factor 132	81					positive regulation of DNA replication|telomere maintenance	Stn1-Ten1 complex	protein binding|single-stranded DNA binding				0																		---	---	---	---
MYH10	4628	broad.mit.edu	37	17	8526285	8526285	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8526285T>C	uc002gll.2	-	2	376	c.280A>G	c.(280-282)ACA>GCA	p.T94A	MYH10_uc002glm.2_Missense_Mutation_p.T94A|MYH10_uc010cnx.2_Missense_Mutation_p.T94A	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	94	Myosin head-like.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2																		---	---	---	---
PIK3R5	23533	broad.mit.edu	37	17	8789551	8789551	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8789551G>A	uc002glt.2	-	14	2190	c.2123C>T	c.(2122-2124)GCG>GTG	p.A708V	PIK3R5_uc010vuz.1_Missense_Mutation_p.A708V|PIK3R5_uc002glu.3_Missense_Mutation_p.A322V	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	708	Interaction with G beta gamma proteins (By similarity).				platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5																		---	---	---	---
PIK3R5	23533	broad.mit.edu	37	17	8791611	8791611	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8791611C>T	uc002glt.2	-	10	1560	c.1493G>A	c.(1492-1494)CGC>CAC	p.R498H	PIK3R5_uc010vuz.1_Missense_Mutation_p.R498H|PIK3R5_uc002glu.3_Missense_Mutation_p.R112H|PIK3R5_uc010coa.1_3'UTR|PIK3R5_uc010cob.1_Missense_Mutation_p.R112H	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	498					platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5																		---	---	---	---
NTN1	9423	broad.mit.edu	37	17	8926018	8926018	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8926018G>A	uc002glw.3	+	2	435	c.328G>A	c.(328-330)GAC>AAC	p.D110N		NM_004822	NP_004813	O95631	NET1_HUMAN	netrin 1 precursor	110	Laminin N-terminal.				apoptosis|axon guidance		protein binding				0																		---	---	---	---
USP43	124739	broad.mit.edu	37	17	9559771	9559771	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9559771G>A	uc010cod.2	+	2	556	c.556G>A	c.(556-558)GCC>ACC	p.A186T	USP43_uc002gma.3_5'UTR|USP43_uc010vva.1_Missense_Mutation_p.A186T|USP43_uc010coe.2_Silent_p.T17T	NM_153210	NP_694942	Q70EL4	UBP43_HUMAN	ubiquitin specific protease 43	186					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5																		---	---	---	---
DHRS7C	201140	broad.mit.edu	37	17	9674988	9674988	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9674988G>A	uc010vvb.1	-	6	756	c.756C>T	c.(754-756)GGC>GGT	p.G252G	DHRS7C_uc010cof.2_Silent_p.G251G	NM_001105571	NP_001099041	A6NNS2	DRS7C_HUMAN	dehydrogenase/reductase (SDR family) member 7C	252						extracellular region	binding|oxidoreductase activity				0																		---	---	---	---
GLP2R	9340	broad.mit.edu	37	17	9739794	9739794	+	Splice_Site	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9739794T>C	uc002gmd.1	+	3	382	c.382_splice	c.e3+2	p.E128_splice	GLP2R_uc010cog.1_Splice_Site	NM_004246	NP_004237			glucagon-like peptide 2 receptor precursor						G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)													---	---	---	---
GAS7	8522	broad.mit.edu	37	17	9828828	9828828	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9828828T>C	uc002gmg.1	-	11	1264	c.1103A>G	c.(1102-1104)GAC>GGC	p.D368G	GAS7_uc010vvc.1_Missense_Mutation_p.D182G|GAS7_uc002gmh.1_Missense_Mutation_p.D228G|GAS7_uc010vvd.1_Missense_Mutation_p.D320G|GAS7_uc002gmi.2_Missense_Mutation_p.D304G|GAS7_uc002gmj.1_Missense_Mutation_p.D308G|GAS7_uc010coh.1_Missense_Mutation_p.D308G	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	368	Potential.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2								T	MLL	AML*						OREG0024170	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
MYH13	8735	broad.mit.edu	37	17	10231321	10231321	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10231321C>A	uc002gmk.1	-	22	2643	c.2553G>T	c.(2551-2553)AAG>AAT	p.K851N		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	851	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6																OREG0024177	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
MYH4	4622	broad.mit.edu	37	17	10353795	10353795	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10353795G>A	uc002gmn.2	-	30	4267	c.4156C>T	c.(4156-4158)CGC>TGC	p.R1386C	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1386	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13																		---	---	---	---
MYH4	4622	broad.mit.edu	37	17	10364241	10364241	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10364241C>T	uc002gmn.2	-	12	1250	c.1139G>A	c.(1138-1140)GGC>GAC	p.G380D	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	380	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13																		---	---	---	---
MYH2	4620	broad.mit.edu	37	17	10438444	10438444	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10438444C>T	uc010coi.2	-	19	2254	c.2126G>A	c.(2125-2127)CGC>CAC	p.R709H	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.R709H|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	709	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle	p.R709C(1)		ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14																		---	---	---	---
MYH2	4620	broad.mit.edu	37	17	10442798	10442798	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10442798C>T	uc010coi.2	-	13	1357	c.1229G>A	c.(1228-1230)GGC>GAC	p.G410D	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.G410D|MYH2_uc010coj.2_Missense_Mutation_p.G410D	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	410	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14																		---	---	---	---
MYH3	4621	broad.mit.edu	37	17	10532947	10532947	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10532947G>T	uc002gmq.1	-	39	5840	c.5763C>A	c.(5761-5763)CTC>CTA	p.L1921L		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1921	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7																		---	---	---	---
MYH3	4621	broad.mit.edu	37	17	10554850	10554850	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10554850C>T	uc002gmq.1	-	4	561	c.484G>A	c.(484-486)GCC>ACC	p.A162T		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	162	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7																		---	---	---	---
TMEM220	388335	broad.mit.edu	37	17	10629579	10629579	+	Silent	SNP	C	A	A	rs80037051	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10629579C>A	uc002gmx.2	-	3	583	c.105G>T	c.(103-105)GTG>GTT	p.V35V	TMEM220_uc002gmy.2_Silent_p.V25V	NM_001004313	NP_001004313	Q6QAJ8	TM220_HUMAN	transmembrane protein 220	35	Helical; (Potential).					integral to membrane					0																		---	---	---	---
DNAH9	1770	broad.mit.edu	37	17	11597320	11597320	+	Intron	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11597320G>T	uc002gne.2	+						DNAH9_uc010coo.2_Intron	NM_001372	NP_001363			dynein, axonemal, heavy chain 9 isoform 2						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)														---	---	---	---
MYOCD	93649	broad.mit.edu	37	17	12656117	12656117	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:12656117C>T	uc002gnn.2	+	10	1811	c.1512C>T	c.(1510-1512)GGC>GGT	p.G504G	MYOCD_uc002gno.2_Silent_p.G504G|MYOCD_uc002gnp.1_Silent_p.G408G|MYOCD_uc002gnq.2_Silent_p.G223G	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	504	Ser-rich.				cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)														---	---	---	---
MYOCD	93649	broad.mit.edu	37	17	12666430	12666430	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:12666430A>G	uc002gnn.2	+	13	2585	c.2286A>G	c.(2284-2286)CAA>CAG	p.Q762Q	MYOCD_uc002gno.2_Silent_p.Q810Q|MYOCD_uc002gnq.2_Silent_p.Q486Q	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	762					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)														---	---	---	---
RICH2	9912	broad.mit.edu	37	17	12812300	12812300	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:12812300C>T	uc002gnr.3	+						RICH2_uc010vvk.1_Intron|RICH2_uc010vvl.1_Intron|RICH2_uc002gns.3_Intron|RICH2_uc010vvm.1_Intron|RICH2_uc010vvn.1_Intron	NM_014859	NP_055674			Rho GTPase-activating protein RICH2						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0																		---	---	---	---
TRIM16	10626	broad.mit.edu	37	17	15532000	15532000	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15532000C>T	uc002gox.2	-	9	2181	c.1624G>A	c.(1624-1626)GCC>ACC	p.A542T	TRIM16_uc002gor.1_Intron|TRIM16_uc002gow.2_Missense_Mutation_p.A326T|TRIM16_uc002goy.2_Missense_Mutation_p.A412T	NM_006470	NP_006461	O95361	TRI16_HUMAN	tripartite motif-containing 16	542	B30.2/SPRY.				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)														---	---	---	---
NCOR1	9611	broad.mit.edu	37	17	15961846	15961846	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15961846C>T	uc002gpo.2	-	38	6189	c.5949G>A	c.(5947-5949)GCG>GCA	p.A1983A	NCOR1_uc002gpn.2_Silent_p.A1880A|NCOR1_uc002gpl.2_5'Flank|NCOR1_uc002gpm.2_Silent_p.A503A|NCOR1_uc010vwb.1_Silent_p.A567A|NCOR1_uc010coy.2_Silent_p.A891A|NCOR1_uc010vwc.1_Silent_p.A793A	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1983	Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)														---	---	---	---
NCOR1	9611	broad.mit.edu	37	17	15968937	15968937	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15968937C>T	uc002gpo.2	-	33	5053	c.4813G>A	c.(4813-4815)GCA>ACA	p.A1605T	NCOR1_uc002gpn.2_Missense_Mutation_p.A1621T|NCOR1_uc002gpm.2_Missense_Mutation_p.A125T|NCOR1_uc010vwb.1_Missense_Mutation_p.A189T|NCOR1_uc010coy.2_Missense_Mutation_p.A513T|NCOR1_uc010vwc.1_Missense_Mutation_p.A415T	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1605	Interaction with ETO.|Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)														---	---	---	---
NCOR1	9611	broad.mit.edu	37	17	15974755	15974755	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15974755T>C	uc002gpo.2	-	30	4360	c.4120A>G	c.(4120-4122)ACA>GCA	p.T1374A	NCOR1_uc002gpn.2_Missense_Mutation_p.T1390A|NCOR1_uc002gpp.1_Missense_Mutation_p.T1281A|NCOR1_uc010vwb.1_Intron|NCOR1_uc010coy.2_Missense_Mutation_p.T282A|NCOR1_uc010vwc.1_Missense_Mutation_p.T185A	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1374	Interaction with ETO.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)														---	---	---	---
NCOR1	9611	broad.mit.edu	37	17	15976737	15976737	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15976737C>T	uc002gpo.2	-						NCOR1_uc002gpn.2_Intron|NCOR1_uc002gpp.1_Intron|NCOR1_uc010vwb.1_Intron|NCOR1_uc010coy.2_Intron|NCOR1_uc010vwc.1_Intron	NM_006311	NP_006302			nuclear receptor co-repressor 1						cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)														---	---	---	---
MPRIP	23164	broad.mit.edu	37	17	17062260	17062260	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17062260G>A	uc002gqu.1	+	14	2046	c.1990G>A	c.(1990-1992)GAA>AAA	p.E664K	MPRIP_uc002gqv.1_Missense_Mutation_p.E664K|MPRIP_uc002gqw.1_Missense_Mutation_p.E419K	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	664	Interaction with RHOA.					cytoplasm|cytoskeleton	actin binding				0																		---	---	---	---
TOM1L2	146691	broad.mit.edu	37	17	17766053	17766053	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17766053C>T	uc002grz.3	-	11	1351	c.1194G>A	c.(1192-1194)CAG>CAA	p.Q398Q	TOM1L2_uc002gry.3_Silent_p.Q348Q|TOM1L2_uc010vwy.1_Silent_p.Q345Q|TOM1L2_uc010cpr.2_Silent_p.Q353Q|TOM1L2_uc010vwz.1_Silent_p.Q250Q|TOM1L2_uc010vxa.1_Silent_p.Q300Q|TOM1L2_uc002grv.3_Silent_p.Q131Q	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3	398					intracellular protein transport	intracellular					0	all_neural(463;0.228)																	---	---	---	---
MYO15A	51168	broad.mit.edu	37	17	18023355	18023355	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18023355T>C	uc010vxh.1	+	2	1579	c.1241T>C	c.(1240-1242)GTA>GCA	p.V414A		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	414	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)																	---	---	---	---
MYO15A	51168	broad.mit.edu	37	17	18039937	18039937	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18039937C>T	uc010vxh.1	+	14	5054	c.4716C>T	c.(4714-4716)AAC>AAT	p.N1572N		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1572	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)																	---	---	---	---
MYO15A	51168	broad.mit.edu	37	17	18054496	18054496	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18054496G>T	uc010vxh.1	+	38	7884	c.7546G>T	c.(7546-7548)GCC>TCC	p.A2516S	MYO15A_uc010vxi.1_5'Flank|MYO15A_uc010vxj.1_5'Flank|MYO15A_uc010vxk.1_5'Flank	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	2516	Tail.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)																	---	---	---	---
ALKBH5	54890	broad.mit.edu	37	17	18111722	18111722	+	3'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18111722G>A	uc010cpw.2	+	4					ALKBH5_uc010cpx.2_RNA	NM_017758	NP_060228			alkB, alkylation repair homolog 5							integral to membrane	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0	all_neural(463;0.228)																	---	---	---	---
TOP3A	7156	broad.mit.edu	37	17	18205934	18205934	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18205934G>A	uc002gsx.1	-	6	832	c.603C>T	c.(601-603)AGC>AGT	p.S201S	TOP3A_uc010vxr.1_5'Flank|TOP3A_uc002gsw.1_5'UTR|TOP3A_uc010vxs.1_Silent_p.S99S|TOP3A_uc010cqa.1_RNA	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	201					DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3																		---	---	---	---
TBC1D28	254272	broad.mit.edu	37	17	18542476	18542476	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18542476A>G	uc002gud.2	-							NM_001039397	NP_001034486			TBC1 domain family, member 28							intracellular	Rab GTPase activator activity			ovary(1)	1																		---	---	---	---
FBXW10	10517	broad.mit.edu	37	17	18668087	18668087	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18668087G>A	uc002guk.2	+	8	1698	c.1466G>A	c.(1465-1467)CGA>CAA	p.R489Q	FBXW10_uc002guj.2_Missense_Mutation_p.R489Q|FBXW10_uc002gul.2_Missense_Mutation_p.R518Q|FBXW10_uc010cqh.1_Missense_Mutation_p.R489Q	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	489	WD 3.									ovary(1)	1																		---	---	---	---
PRPSAP2	5636	broad.mit.edu	37	17	18770597	18770597	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18770597G>A	uc002gup.1	+	4	333	c.122G>A	c.(121-123)CGG>CAG	p.R41Q	PRPSAP2_uc002guo.1_Intron|PRPSAP2_uc010vyi.1_Intron|PRPSAP2_uc010vyj.1_Intron|PRPSAP2_uc010vyk.1_Missense_Mutation_p.R29Q	NM_002767	NP_002758	O60256	KPRB_HUMAN	phosphoribosyl pyrophosphate	41					nucleotide biosynthetic process		enzyme inhibitor activity|magnesium ion binding|ribose phosphate diphosphokinase activity			skin(1)	1																		---	---	---	---
PRPSAP2	5636	broad.mit.edu	37	17	18781095	18781095	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18781095A>G	uc002gup.1	+	6	535	c.324A>G	c.(322-324)ATA>ATG	p.I108M	PRPSAP2_uc002guo.1_Missense_Mutation_p.I22M|PRPSAP2_uc010vyi.1_Missense_Mutation_p.I56M|PRPSAP2_uc010vyj.1_Missense_Mutation_p.I22M|PRPSAP2_uc010vyk.1_Missense_Mutation_p.I96M	NM_002767	NP_002758	O60256	KPRB_HUMAN	phosphoribosyl pyrophosphate	108					nucleotide biosynthetic process		enzyme inhibitor activity|magnesium ion binding|ribose phosphate diphosphokinase activity			skin(1)	1																		---	---	---	---
MAPK7	5598	broad.mit.edu	37	17	19283208	19283208	+	Missense_Mutation	SNP	G	A	A	rs147142467	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:19283208G>A	uc002gvn.2	+	3	732	c.346G>A	c.(346-348)GCC>ACC	p.A116T	B9D1_uc010cqm.1_5'Flank|B9D1_uc002gvl.3_5'Flank|MAPK7_uc002gvo.2_Intron|MAPK7_uc002gvq.2_Missense_Mutation_p.A116T|MAPK7_uc002gvp.2_Missense_Mutation_p.A116T	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	116	Required for binding to MAP2K5 (By similarity).|Protein kinase.				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)																	---	---	---	---
MAPK7	5598	broad.mit.edu	37	17	19284190	19284190	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:19284190C>T	uc002gvn.2	+	4	1054	c.668C>T	c.(667-669)GCC>GTC	p.A223V	B9D1_uc010cqm.1_5'Flank|B9D1_uc002gvl.3_5'Flank|MAPK7_uc002gvo.2_Missense_Mutation_p.A84V|MAPK7_uc002gvq.2_Missense_Mutation_p.A223V|MAPK7_uc002gvp.2_Missense_Mutation_p.A223V	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	223	Necessary for oligomerization (By similarity).|Protein kinase.				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)																	---	---	---	---
MAPK7	5598	broad.mit.edu	37	17	19286236	19286236	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:19286236C>T	uc002gvn.2	+	6	2660	c.2274C>T	c.(2272-2274)GGC>GGT	p.G758G	MAPK7_uc002gvo.2_Silent_p.G619G|MAPK7_uc002gvq.2_Silent_p.G758G|MAPK7_uc002gvp.2_Silent_p.G758G|uc010vyt.1_5'Flank	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	758	May not be required for kinase activity; required to stimulate MEF2C activity (By similarity).				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)																	---	---	---	---
SLC47A2	146802	broad.mit.edu	37	17	19584902	19584902	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:19584902C>T	uc002gwe.3	-	14	1529	c.1354G>A	c.(1354-1356)GGC>AGC	p.G452S	SLC47A2_uc002gwg.3_Missense_Mutation_p.G416S|SLC47A2_uc002gwf.3_Missense_Mutation_p.G430S|SLC47A2_uc002gwh.3_RNA|SLC47A2_uc002gwi.2_RNA|SLC47A2_uc010cqs.1_RNA	NM_152908	NP_690872	Q86VL8	S47A2_HUMAN	solute carrier family 47, member 2 isoform 1	452	Helical; (Potential).					integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.3e-05)|all_epithelial(12;0.0024)|Breast(13;0.245)																	---	---	---	---
USP22	23326	broad.mit.edu	37	17	20922459	20922459	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:20922459C>T	uc002gym.3	-	4	662	c.458G>A	c.(457-459)CGG>CAG	p.R153Q	USP22_uc002gyn.3_Missense_Mutation_p.R141Q|USP22_uc002gyl.3_Missense_Mutation_p.R48Q	NM_015276	NP_056091	Q9UPT9	UBP22_HUMAN	ubiquitin thiolesterase 22	153					cell cycle|embryo development|histone deubiquitination|histone H4 acetylation|histone ubiquitination|positive regulation of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1																		---	---	---	---
TMEM11	8834	broad.mit.edu	37	17	21101798	21101798	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21101798C>T	uc002gyp.2	-	2	861	c.418G>A	c.(418-420)GCC>ACC	p.A140T	TMEM11_uc002gyq.2_3'UTR	NM_003876	NP_003867	P17152	TMM11_HUMAN	transmembrane protein 11	140					mitochondrion organization	integral to mitochondrial inner membrane|integral to plasma membrane	protein binding				0																		---	---	---	---
KCNJ12	3768	broad.mit.edu	37	17	21319358	21319358	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21319358C>T	uc002gyv.1	+	3	1409	c.704C>T	c.(703-705)CCG>CTG	p.P235L		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	235	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)			---	---	---	---
KSR1	8844	broad.mit.edu	37	17	25910117	25910117	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25910117C>T	uc010crg.2	+	5	1000	c.555C>T	c.(553-555)GAC>GAT	p.D185D	KSR1_uc002gzj.1_RNA	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	kinase suppressor of ras	320					Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)														---	---	---	---
KSR1	8844	broad.mit.edu	37	17	25934953	25934953	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25934953C>T	uc010crg.2	+	16	2108	c.1663C>T	c.(1663-1665)CGG>TGG	p.R555W	KSR1_uc002gzm.2_Missense_Mutation_p.R334W|KSR1_uc002gzn.2_5'Flank	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	kinase suppressor of ras	690	Protein kinase.				Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)														---	---	---	---
KSR1	8844	broad.mit.edu	37	17	25950388	25950388	+	3'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25950388C>T	uc010crg.2	+	21					KSR1_uc002gzo.1_5'Flank|KSR1_uc002gzm.2_3'UTR|KSR1_uc002gzn.2_3'UTR	NM_014238	NP_055053			kinase suppressor of ras						Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)														---	---	---	---
ERAL1	26284	broad.mit.edu	37	17	27187476	27187476	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27187476G>A	uc002hcy.1	+	10	1229	c.1219G>A	c.(1219-1221)GTG>ATG	p.V407M	ERAL1_uc002hcz.1_RNA|ERAL1_uc002hda.1_Missense_Mutation_p.V214M|ERAL1_uc002hdb.1_Missense_Mutation_p.V290M	NM_005702	NP_005693	O75616	ERAL1_HUMAN	Era-like 1	407	KH type-2.				ribosomal small subunit assembly	mitochondrial inner membrane|mitochondrial matrix	GTP binding|ribosomal small subunit binding|rRNA binding			skin(1)	1	all_cancers(5;2.12e-15)|all_epithelial(6;3.44e-19)|Lung NSC(42;0.01)		Epithelial(11;1.12e-05)|all cancers(11;5.32e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000272)|OV - Ovarian serous cystadenocarcinoma(11;0.105)															---	---	---	---
CPD	1362	broad.mit.edu	37	17	28754503	28754503	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:28754503G>A	uc002hfb.1	+	7	1959	c.1944G>A	c.(1942-1944)ACG>ACA	p.T648T	CPD_uc010wbo.1_Silent_p.T401T|CPD_uc010wbp.1_RNA	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	648	Extracellular (Potential).|Carboxypeptidase-like 2.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2																		---	---	---	---
EVI2A	2123	broad.mit.edu	37	17	29645508	29645508	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:29645508C>T	uc002hgm.2	-	2	739	c.524G>A	c.(523-525)CGT>CAT	p.R175H	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2A_uc002hgl.2_Missense_Mutation_p.R198H	NM_014210	NP_055025	P22794	EVI2A_HUMAN	ecotropic viral integration site 2A isoform 2	175	Cytoplasmic (Potential).					integral to membrane	transmembrane receptor activity			ovary(1)|breast(1)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;5.94e-13)|Epithelial(4;7.98e-12)|OV - Ovarian serous cystadenocarcinoma(4;9.4e-12)|GBM - Glioblastoma multiforme(4;0.18)														---	---	---	---
EVI2A	2123	broad.mit.edu	37	17	29645522	29645522	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:29645522T>A	uc002hgm.2	-	2	725	c.510A>T	c.(508-510)AAA>AAT	p.K170N	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2A_uc002hgl.2_Missense_Mutation_p.K193N	NM_014210	NP_055025	P22794	EVI2A_HUMAN	ecotropic viral integration site 2A isoform 2	170	Cytoplasmic (Potential).					integral to membrane	transmembrane receptor activity			ovary(1)|breast(1)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;5.94e-13)|Epithelial(4;7.98e-12)|OV - Ovarian serous cystadenocarcinoma(4;9.4e-12)|GBM - Glioblastoma multiforme(4;0.18)														---	---	---	---
LRRC37B	114659	broad.mit.edu	37	17	30362634	30362634	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:30362634C>T	uc002hgu.2	+	7	2110	c.2099C>T	c.(2098-2100)ACG>ATG	p.T700M	LRRC37B_uc010wbx.1_Missense_Mutation_p.T618M|LRRC37B_uc010csu.2_Missense_Mutation_p.T649M	NM_052888	NP_443120	Q96QE4	LR37B_HUMAN	leucine rich repeat containing 37B precursor	700	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.111)|Ovarian(249;0.182)|Breast(31;0.244)																---	---	---	---
MYO1D	4642	broad.mit.edu	37	17	31087608	31087608	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:31087608C>T	uc002hho.1	-	9	1085	c.1073G>A	c.(1072-1074)CGC>CAC	p.R358H	MYO1D_uc002hhp.1_Missense_Mutation_p.R358H|MYO1D_uc010wcb.1_Missense_Mutation_p.R358H	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	358	Myosin head-like.					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)															---	---	---	---
MYO1D	4642	broad.mit.edu	37	17	31087632	31087632	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:31087632C>T	uc002hho.1	-	9	1061	c.1049G>A	c.(1048-1050)CGC>CAC	p.R350H	MYO1D_uc002hhp.1_Missense_Mutation_p.R350H|MYO1D_uc010wcb.1_Missense_Mutation_p.R350H	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	350	Myosin head-like.					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)															---	---	---	---
CCT6B	10693	broad.mit.edu	37	17	33266272	33266272	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:33266272C>A	uc002hig.2	-	10	1237	c.1143G>T	c.(1141-1143)AAG>AAT	p.K381N	CCT6B_uc010ctg.2_Missense_Mutation_p.K344N|CCT6B_uc010wcc.1_Missense_Mutation_p.K336N	NM_006584	NP_006575	Q92526	TCPW_HUMAN	chaperonin containing TCP1, subunit 6B	381					chaperone-mediated protein complex assembly|protein folding|spermatogenesis	cytoplasm	ATP binding|protein transporter activity|unfolded protein binding			pancreas(1)	1		Ovarian(249;0.17)																---	---	---	---
LIG3	3980	broad.mit.edu	37	17	33326437	33326437	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:33326437A>G	uc002hik.1	+	15	2333	c.2225A>G	c.(2224-2226)CAG>CGG	p.Q742R	LIG3_uc002hij.2_Missense_Mutation_p.Q742R	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	742					base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)								Other_BER_factors					---	---	---	---
SLFN5	162394	broad.mit.edu	37	17	33586592	33586592	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:33586592G>A	uc002hjf.3	+	2	1000	c.883G>A	c.(883-885)GCA>ACA	p.A295T	SLFN5_uc002hje.2_Missense_Mutation_p.A295T|SLFN5_uc010wcg.1_Missense_Mutation_p.A295T	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	295					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)														---	---	---	---
SLFN5	162394	broad.mit.edu	37	17	33591298	33591298	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:33591298G>A	uc002hjf.3	+	4	1352	c.1235G>A	c.(1234-1236)CGC>CAC	p.R412H	SLFN5_uc010wcg.1_Intron	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	412					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)														---	---	---	---
RASL10B	91608	broad.mit.edu	37	17	34068171	34068171	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34068171C>T	uc002hju.2	+	4	825	c.459C>T	c.(457-459)TGC>TGT	p.C153C		NM_033315	NP_201572	Q96S79	RSLAB_HUMAN	RAS-like, family 10, member B precursor	153	Small GTPase-like.				small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			lung(2)|breast(2)	4				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)														---	---	---	---
MMP28	79148	broad.mit.edu	37	17	34097268	34097268	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34097268C>T	uc002hjy.1	-	7	927	c.668G>A	c.(667-669)CGC>CAC	p.R223H	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	223					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)														---	---	---	---
MMP28	79148	broad.mit.edu	37	17	34106032	34106032	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34106032C>T	uc002hjy.1	-	3	498	c.239G>A	c.(238-240)CGC>CAC	p.R80H	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA|MMP28_uc002hka.2_Missense_Mutation_p.R80H	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	80					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)														---	---	---	---
TBC1D3B	414059	broad.mit.edu	37	17	34499219	34499219	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34499219T>C	uc002hky.2	-	7	642	c.492A>G	c.(490-492)GGA>GGG	p.G164G	uc002hla.1_5'Flank|uc002hlc.2_5'Flank	NM_001001417	NP_001001417	Q8IZP1	TBC3A_HUMAN	TBC1 domain family, member 3B	164	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0		Breast(25;0.102)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)														---	---	---	---
ACACA	31	broad.mit.edu	37	17	35470018	35470018	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35470018G>A	uc002hnm.2	-						ACACA_uc002hnk.2_Intron|ACACA_uc002hnl.2_Intron|ACACA_uc002hnn.2_Intron|ACACA_uc002hno.2_Intron|ACACA_uc010cuy.2_Intron|ACACA_uc010wdb.1_Intron|ACACA_uc010wdc.1_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)													---	---	---	---
ACACA	31	broad.mit.edu	37	17	35478337	35478337	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35478337G>A	uc002hnm.2	-	50	6294	c.6103C>T	c.(6103-6105)CGG>TGG	p.R2035W	ACACA_uc002hnk.2_Missense_Mutation_p.R1957W|ACACA_uc002hnl.2_Missense_Mutation_p.R1977W|ACACA_uc002hnn.2_Missense_Mutation_p.R2035W|ACACA_uc002hno.2_Missense_Mutation_p.R2072W|ACACA_uc010cuy.2_Missense_Mutation_p.R680W|ACACA_uc010wdb.1_Missense_Mutation_p.R73W|ACACA_uc010wdc.1_Missense_Mutation_p.R161W	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	2035	Carboxyltransferase.				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)													---	---	---	---
ACACA	31	broad.mit.edu	37	17	35603887	35603887	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35603887C>T	uc002hnm.2	-	19	2395	c.2204G>A	c.(2203-2205)CGC>CAC	p.R735H	ACACA_uc002hnk.2_Missense_Mutation_p.R657H|ACACA_uc002hnl.2_Missense_Mutation_p.R677H|ACACA_uc002hnn.2_Missense_Mutation_p.R735H|ACACA_uc002hno.2_Missense_Mutation_p.R772H|ACACA_uc010cuz.2_Missense_Mutation_p.R735H	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	735					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)													---	---	---	---
HNF1B	6928	broad.mit.edu	37	17	36099531	36099531	+	Silent	SNP	C	T	T	rs147218489		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36099531C>T	uc002hok.3	-	2	665	c.444G>A	c.(442-444)TCG>TCA	p.S148S	HNF1B_uc010wdi.1_Silent_p.S148S	NM_000458	NP_000449	P35680	HNF1B_HUMAN	hepatocyte nuclear factor 1-beta isoform 1	148			S -> W (in RCAD).|S -> L (in RCAD).		endocrine pancreas development|genitalia development|kidney development|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric nephron tubule development|regulation of pronephros size	nucleus	DNA binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(25;0.00765)|Ovarian(249;0.15)	STAD - Stomach adenocarcinoma(1;0.0142)											Hereditary_Prostate_Cancer				---	---	---	---
MED1	5469	broad.mit.edu	37	17	37565282	37565282	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:37565282A>G	uc002hrv.3	-	17	3404	c.3192T>C	c.(3190-3192)ACT>ACC	p.T1064T	MED1_uc010wee.1_Silent_p.T892T|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1064	Interaction with ESR1.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)											HNSCC(31;0.082)			---	---	---	---
CDK12	51755	broad.mit.edu	37	17	37682159	37682159	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:37682159C>T	uc010cvv.2	+	13	3936	c.3350C>T	c.(3349-3351)GCA>GTA	p.A1117V	CDK12_uc010wef.1_Missense_Mutation_p.A1116V|CDK12_uc002hrw.3_Missense_Mutation_p.A1117V	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	1117					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19															TCGA Ovarian(9;0.13)			---	---	---	---
IKZF3	22806	broad.mit.edu	37	17	37948990	37948990	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:37948990G>A	uc002hsu.2	-	4	422	c.360C>T	c.(358-360)TGC>TGT	p.C120C	IKZF3_uc002htd.2_Silent_p.C86C|IKZF3_uc010cwd.2_Intron|IKZF3_uc002hsv.2_Silent_p.C86C|IKZF3_uc010cwe.2_Silent_p.C120C|IKZF3_uc010cwf.2_Intron|IKZF3_uc010cwg.2_Intron|IKZF3_uc002hsw.2_Silent_p.C120C|IKZF3_uc002hsx.2_Silent_p.C120C|IKZF3_uc002hsy.2_Silent_p.C120C|IKZF3_uc002hsz.2_Silent_p.C120C|IKZF3_uc002hta.2_Silent_p.C120C|IKZF3_uc002htb.2_RNA|IKZF3_uc010cwh.2_Intron|IKZF3_uc002htc.2_5'UTR	NM_012481	NP_036613	Q9UKT9	IKZF3_HUMAN	aiolos isoform 1	120	C2H2-type 1.				B cell activation|mesoderm development|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)|kidney(2)|skin(2)	6	Breast(7;4.5e-103)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)															---	---	---	---
CASC3	22794	broad.mit.edu	37	17	38319959	38319959	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38319959C>A	uc010cwt.1	+	7	1306	c.1011C>A	c.(1009-1011)GGC>GGA	p.G337G	CASC3_uc010cws.1_Silent_p.G337G|CASC3_uc002hue.2_Silent_p.G337G	NM_007359	NP_031385	O15234	CASC3_HUMAN	metastatic lymph node 51	337					mRNA processing|mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translation|response to stress|RNA splicing	exon-exon junction complex|nuclear speck|perinuclear region of cytoplasm	identical protein binding|RNA binding|ubiquitin protein ligase binding			ovary(1)	1																		---	---	---	---
CDC6	990	broad.mit.edu	37	17	38450699	38450699	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38450699T>C	uc002huj.1	+	7	1237	c.1027T>C	c.(1027-1029)TTC>CTC	p.F343L		NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein	343					cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3																		---	---	---	---
TOP2A	7153	broad.mit.edu	37	17	38557134	38557134	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38557134G>A	uc002huq.2	-	21	2758	c.2632C>T	c.(2632-2634)CGT>TGT	p.R878C		NM_001067	NP_001058	P11388	TOP2A_HUMAN	DNA topoisomerase II, alpha isozyme	878					apoptotic chromosome condensation|DNA ligation|DNA repair|DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|phosphatidylinositol-mediated signaling|positive regulation of apoptosis|positive regulation of retroviral genome replication|resolution of meiotic recombination intermediates|sister chromatid segregation	cytoplasm|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|drug binding|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity|ubiquitin binding			ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00183)		Amsacrine(DB00276)|Ciprofloxacin(DB00537)|Dexrazoxane(DB00380)|Doxorubicin(DB00997)|Enoxacin(DB00467)|Epirubicin(DB00445)|Etoposide(DB00773)|Fleroxacin(DB04576)|Gatifloxacin(DB01044)|Idarubicin(DB01177)|Levofloxacin(DB01137)|Lomefloxacin(DB00978)|Lucanthone(DB04967)|Mitoxantrone(DB01204)|Moxifloxacin(DB00218)|Norfloxacin(DB01059)|Ofloxacin(DB01165)|Pefloxacin(DB00487)|Podofilox(DB01179)|Sparfloxacin(DB01208)|Teniposide(DB00444)|Trovafloxacin(DB00685)|Valrubicin(DB00385)													---	---	---	---
CCR7	1236	broad.mit.edu	37	17	38710992	38710992	+	3'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38710992G>A	uc002huw.2	-	3						NM_001838	NP_001829			chemokine (C-C motif) receptor 7 precursor						cell maturation|immunological synapse formation|inflammatory response|interleukin-12 secretion|lymphocyte migration into lymph node|positive regulation of dendritic cell antigen processing and presentation|positive regulation of glycoprotein biosynthetic process|positive regulation of humoral immune response|positive regulation of hypersensitivity|positive regulation of interleukin-12 production|positive regulation of neutrophil chemotaxis|regulation of interferon-gamma production|regulation of interleukin-1 beta secretion|T cell costimulation	integral to membrane|intracellular	C-C chemokine receptor activity|chemokine (C-C motif) ligand 19 binding|chemokine (C-C motif) ligand 21 binding			breast(1)	1		Breast(137;0.000496)																---	---	---	---
KRT222	125113	broad.mit.edu	37	17	38818220	38818220	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38818220G>A	uc002hvc.2	-	2	238	c.173C>T	c.(172-174)GCC>GTC	p.A58V	KRT222_uc010wfk.1_RNA|KRT222_uc002hvb.2_Missense_Mutation_p.A18V|KRT222_uc010cxc.2_Missense_Mutation_p.A18V	NM_152349	NP_689562	Q8N1A0	KT222_HUMAN	truncated type I keratin KA21	58	Potential.					intermediate filament	structural molecule activity			central_nervous_system(1)|skin(1)	2																		---	---	---	---
KRT27	342574	broad.mit.edu	37	17	38936056	38936056	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38936056C>A	uc002hvg.2	-	4	783	c.742G>T	c.(742-744)GCC>TCC	p.A248S		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	248	Rod.|Linker 12.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)																---	---	---	---
KRTAP1-3	81850	broad.mit.edu	37	17	39191019	39191019	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39191019T>C	uc002hvv.2	-	1	89	c.55A>G	c.(55-57)ACA>GCA	p.T19A		NM_030966	NP_112228	Q8IUG1	KRA13_HUMAN	keratin associated protein 1-3	19						extracellular region|keratin filament	structural constituent of epidermis				0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)															---	---	---	---
KRTAP9-9	81870	broad.mit.edu	37	17	39411940	39411940	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39411940C>T	uc010wfq.1	+	3	260	c.258C>T	c.(256-258)GGC>GGT	p.G86G		NM_030975	NP_112237	B5MDD6	B5MDD6_HUMAN	keratin associated protein 9-9	101						keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)															---	---	---	---
KRT33A	3883	broad.mit.edu	37	17	39502732	39502732	+	Silent	SNP	C	T	T	rs57495682	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39502732C>T	uc002hwk.1	-	6	1102	c.1065G>A	c.(1063-1065)ACG>ACA	p.T355T		NM_004138	NP_004129	O76009	KT33A_HUMAN	keratin 33A	355	Coil 2.|Rod.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)																---	---	---	---
KRT36	8689	broad.mit.edu	37	17	39645870	39645870	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39645870A>G	uc002hwt.2	-	1	247	c.247T>C	c.(247-249)TGG>CGG	p.W83R		NM_003771	NP_003762	O76013	KRT36_HUMAN	keratin 36	83	Head.					intermediate filament	protein binding|structural constituent of epidermis				0		Breast(137;0.000286)																---	---	---	---
KRT13	3860	broad.mit.edu	37	17	39658842	39658842	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39658842G>A	uc002hwu.1	-	6	1091	c.1028C>T	c.(1027-1029)GCG>GTG	p.A343V	KRT13_uc002hwv.1_Missense_Mutation_p.A343V|KRT13_uc002hww.2_Missense_Mutation_p.A236V|KRT13_uc010wfr.1_Missense_Mutation_p.A236V|KRT13_uc010cxo.2_Missense_Mutation_p.A343V|KRT13_uc002hwx.1_Missense_Mutation_p.A331V	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	343	Rod.|Coil 2.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)																---	---	---	---
KRT13	3860	broad.mit.edu	37	17	39661466	39661466	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39661466C>T	uc002hwu.1	-	1	400	c.337G>A	c.(337-339)GAC>AAC	p.D113N	KRT13_uc002hwv.1_Missense_Mutation_p.D113N|KRT13_uc002hww.2_Missense_Mutation_p.D6N|KRT13_uc010wfr.1_Missense_Mutation_p.D6N|KRT13_uc010cxo.2_Missense_Mutation_p.D113N|KRT13_uc002hwx.1_Missense_Mutation_p.D101N	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	113	Coil 1A.|Rod.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)																---	---	---	---
KLHL11	55175	broad.mit.edu	37	17	40009980	40009980	+	3'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40009980G>A	uc002hyf.1	-	2						NM_018143	NP_060613			kelch-like 11 precursor							extracellular region					0		Breast(137;0.00156)																---	---	---	---
KAT2A	2648	broad.mit.edu	37	17	40265766	40265766	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40265766G>A	uc002hyx.2	-	18	2475	c.2415C>T	c.(2413-2415)CGC>CGT	p.R805R	DHX58_uc002hyv.3_5'Flank|DHX58_uc002hyw.3_5'Flank|DHX58_uc010wgf.1_5'Flank	NM_021078	NP_066564	Q92830	KAT2A_HUMAN	general control of amino acid synthesis 5-like	805	Bromo.				chromatin remodeling|histone deubiquitination|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	H3 histone acetyltransferase activity|histone deacetylase binding|protein binding|transcription coactivator activity			upper_aerodigestive_tract(1)|lung(1)	2																		---	---	---	---
RAB5C	5878	broad.mit.edu	37	17	40280741	40280741	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40280741G>A	uc002hyz.2	-	4	561	c.244C>T	c.(244-246)CGG>TGG	p.R82W	RAB5C_uc002hza.2_Missense_Mutation_p.R82W|RAB5C_uc010cxx.2_Missense_Mutation_p.R115W|RAB5C_uc010cxy.2_5'UTR	NM_201434	NP_958842	P51148	RAB5C_HUMAN	RAB5C, member RAS oncogene family isoform a	82					protein transport|small GTPase mediated signal transduction	early endosome membrane|melanosome|plasma membrane	GTP binding|GTPase activity|protein binding			large_intestine(1)|skin(1)	2		all_cancers(22;1.24e-06)|all_epithelial(22;4.33e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.128)														---	---	---	---
STAT3	6774	broad.mit.edu	37	17	40476753	40476753	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40476753T>C	uc002hzl.1	-	17	1816	c.1576A>G	c.(1576-1578)ACT>GCT	p.T526A	STAT3_uc002hzk.1_Missense_Mutation_p.T526A|STAT3_uc002hzm.1_Missense_Mutation_p.T526A|STAT3_uc010wgh.1_Missense_Mutation_p.T428A|STAT3_uc002hzn.1_Missense_Mutation_p.T526A	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	526					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				---	---	---	---
STAT3	6774	broad.mit.edu	37	17	40481600	40481600	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40481600C>T	uc002hzl.1	-	13	1445	c.1205G>A	c.(1204-1206)GGC>GAC	p.G402D	STAT3_uc002hzk.1_Missense_Mutation_p.G402D|STAT3_uc002hzm.1_Missense_Mutation_p.G402D|STAT3_uc010wgh.1_Missense_Mutation_p.G304D|STAT3_uc002hzn.1_Missense_Mutation_p.G402D	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	402					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	p.G402C(1)		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				---	---	---	---
STAT3	6774	broad.mit.edu	37	17	40489528	40489528	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40489528G>T	uc002hzl.1	-	8	962	c.722C>A	c.(721-723)GCT>GAT	p.A241D	STAT3_uc002hzk.1_Missense_Mutation_p.A241D|STAT3_uc002hzm.1_Missense_Mutation_p.A241D|STAT3_uc010wgh.1_Missense_Mutation_p.A143D|STAT3_uc002hzn.1_Missense_Mutation_p.A241D	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	241					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				---	---	---	---
CNTNAP1	8506	broad.mit.edu	37	17	40843540	40843540	+	Intron	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40843540G>T	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)														---	---	---	---
CNTNAP1	8506	broad.mit.edu	37	17	40845456	40845456	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40845456G>A	uc002iay.2	+	18	3110	c.2894G>A	c.(2893-2895)CGG>CAG	p.R965Q	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	965	EGF-like 2.|Extracellular (Potential).				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)														---	---	---	---
WNK4	65266	broad.mit.edu	37	17	40947525	40947525	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40947525C>T	uc002ibj.2	+	15	3029	c.3008C>T	c.(3007-3009)GCG>GTG	p.A1003V	WNK4_uc010wgx.1_Missense_Mutation_p.A667V|CCDC56_uc010wgz.1_3'UTR	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	1003					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)														---	---	---	---
CNTD1	124817	broad.mit.edu	37	17	40958800	40958800	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40958800C>T	uc002ibm.3	+	5	921	c.689C>T	c.(688-690)GCT>GTT	p.A230V	CNTD1_uc010wha.1_Missense_Mutation_p.A147V	NM_173478	NP_775749	Q8N815	CNTD1_HUMAN	cyclin N-terminal domain containing 1	230										central_nervous_system(1)	1		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0749)														---	---	---	---
BECN1	8678	broad.mit.edu	37	17	40968083	40968083	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40968083C>A	uc002ibo.3	-						BECN1_uc010whb.1_Intron|BECN1_uc010whc.1_Intron|BECN1_uc002ibn.2_Intron	NM_003766	NP_003757			beclin 1						anti-apoptosis|cell cycle|cellular defense response|cytokinesis|response to virus	membrane	protein binding			ovary(1)	1		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0745)														---	---	---	---
MPP3	4356	broad.mit.edu	37	17	41891392	41891392	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:41891392G>A	uc002iei.3	-	16	1408	c.1242C>T	c.(1240-1242)GGC>GGT	p.G414G	MPP3_uc002ieh.2_Silent_p.G439G|MPP3_uc002iej.2_RNA	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	414	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)														---	---	---	---
C17orf53	78995	broad.mit.edu	37	17	42232005	42232005	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42232005G>A	uc002ifi.1	+	6	1719	c.1534G>A	c.(1534-1536)GCC>ACC	p.A512T	C17orf53_uc010czq.1_Missense_Mutation_p.A511T|C17orf53_uc002ifj.1_Missense_Mutation_p.A436T|C17orf53_uc002ifk.1_RNA	NM_024032	NP_076937	Q8N3J3	CQ053_HUMAN	hypothetical protein LOC78995	512											0		Breast(137;0.0364)|Prostate(33;0.0376)		BRCA - Breast invasive adenocarcinoma(366;0.114)														---	---	---	---
SLC4A1	6521	broad.mit.edu	37	17	42335832	42335832	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42335832G>A	uc002igf.3	-	10	1185	c.1036C>T	c.(1036-1038)CGC>TGC	p.R346C	SLC4A1_uc002igg.3_Missense_Mutation_p.R346C	NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	346	Cytoplasmic.				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)														---	---	---	---
GPATCH8	23131	broad.mit.edu	37	17	42476588	42476588	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42476588G>A	uc002igw.1	-	8	2921	c.2857C>T	c.(2857-2859)CGC>TGC	p.R953C	GPATCH8_uc002igv.1_Missense_Mutation_p.R875C|GPATCH8_uc010wiz.1_Missense_Mutation_p.R875C	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	953	Ser-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)														---	---	---	---
GPATCH8	23131	broad.mit.edu	37	17	42476724	42476724	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42476724G>A	uc002igw.1	-	8	2785	c.2721C>T	c.(2719-2721)CGC>CGT	p.R907R	GPATCH8_uc002igv.1_Silent_p.R829R|GPATCH8_uc010wiz.1_Silent_p.R829R	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	907	Ser-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)														---	---	---	---
GPATCH8	23131	broad.mit.edu	37	17	42580708	42580708	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42580708C>T	uc002igw.1	-	1	95	c.31G>A	c.(31-33)GAC>AAC	p.D11N	GPATCH8_uc010wiz.1_5'UTR	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	11						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)														---	---	---	---
EFTUD2	9343	broad.mit.edu	37	17	42956967	42956967	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42956967C>T	uc002ihn.2	-	9	920	c.659G>A	c.(658-660)CGC>CAC	p.R220H	EFTUD2_uc010wje.1_Missense_Mutation_p.R185H|EFTUD2_uc010wjf.1_Missense_Mutation_p.R210H	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	220						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)																---	---	---	---
FMNL1	752	broad.mit.edu	37	17	43315992	43315992	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43315992A>G	uc002iin.2	+	10	1156	c.956A>G	c.(955-957)AAC>AGC	p.N319S	FMNL1_uc002iiq.2_5'Flank	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	319	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1																		---	---	---	---
MAP3K14	9020	broad.mit.edu	37	17	43351908	43351908	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43351908G>A	uc002iiw.1	-	8	1452	c.1343C>T	c.(1342-1344)ACC>ATC	p.T448I	MAP3K14_uc002iiu.1_5'Flank|MAP3K14_uc010daj.1_RNA|MAP3K14_uc002iiv.1_Missense_Mutation_p.T32I	NM_003954	NP_003945	Q99558	M3K14_HUMAN	mitogen-activated protein kinase kinase kinase	448	Interaction with ZFP91.|Protein kinase.				cellular response to mechanical stimulus|I-kappaB kinase/NF-kappaB cascade|immune response|positive regulation of I-kappaB kinase/NF-kappaB cascade|T cell costimulation	cytosol	ATP binding|MAP kinase kinase kinase activity|NF-kappaB-inducing kinase activity|protein binding			central_nervous_system(3)|breast(2)|lung(1)|ovary(1)|stomach(1)	8																		---	---	---	---
KIAA1267	284058	broad.mit.edu	37	17	44115975	44115975	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:44115975G>A	uc002ikb.2	-	9	2555	c.2470C>T	c.(2470-2472)CGA>TGA	p.R824*	KIAA1267_uc002ikc.2_Nonsense_Mutation_p.R824*|KIAA1267_uc002ikd.2_Nonsense_Mutation_p.R824*|KIAA1267_uc010dav.2_Nonsense_Mutation_p.R824*|KIAA1267_uc010wkb.1_Nonsense_Mutation_p.R155*|KIAA1267_uc010wkc.1_Nonsense_Mutation_p.R92*	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	824						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)																---	---	---	---
NSF	4905	broad.mit.edu	37	17	44828941	44828941	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:44828941G>T	uc002iku.2	+	19	2220	c.2116G>T	c.(2116-2118)GGA>TGA	p.G706*	NSF_uc010wke.1_Nonsense_Mutation_p.G612*|NSF_uc010wkf.1_Nonsense_Mutation_p.G612*|NSF_uc010wkg.1_Nonsense_Mutation_p.G701*	NM_006178	NP_006169	P46459	NSF_HUMAN	vesicle-fusing ATPase	706					protein transport|synaptic transmission	cytosol	ATP binding|metal ion binding			ovary(1)	1		Melanoma(429;0.203)	BRCA - Breast invasive adenocarcinoma(9;0.0257)	BRCA - Breast invasive adenocarcinoma(366;0.241)														---	---	---	---
WNT3	7473	broad.mit.edu	37	17	44845861	44845861	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:44845861C>T	uc002ikv.2	-	4	1012	c.893G>A	c.(892-894)CGG>CAG	p.R298Q		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	298					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)															---	---	---	---
WNT3	7473	broad.mit.edu	37	17	44846086	44846086	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:44846086G>A	uc002ikv.2	-	4	787	c.668C>T	c.(667-669)GCG>GTG	p.A223V		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	223					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)															---	---	---	---
WNT3	7473	broad.mit.edu	37	17	44851186	44851186	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:44851186C>T	uc002ikv.2	-	2	289	c.170G>A	c.(169-171)CGC>CAC	p.R57H		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	57					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)															---	---	---	---
ITGB3	3690	broad.mit.edu	37	17	45368350	45368350	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45368350C>T	uc002ilj.2	+	9	1176	c.1156C>T	c.(1156-1158)CGT>TGT	p.R386C	ITGB3_uc002ili.1_Missense_Mutation_p.R386C|ITGB3_uc010wkr.1_RNA	NM_000212	NP_000203	P05106	ITB3_HUMAN	integrin beta chain, beta 3 precursor	386	Extracellular (Potential).				activation of protein kinase activity|angiogenesis involved in wound healing|axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|platelet activation|platelet degranulation|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|regulation of bone resorption|smooth muscle cell migration|tube development	alphav-beta3 integrin-vitronectin complex|integrin complex|platelet alpha granule membrane	cell adhesion molecule binding|identical protein binding|platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			central_nervous_system(5)|large_intestine(1)	6					Abciximab(DB00054)|Tirofiban(DB00775)													---	---	---	---
SCRN2	90507	broad.mit.edu	37	17	45915225	45915225	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45915225G>A	uc002imd.2	-	8	1389	c.1263C>T	c.(1261-1263)AGC>AGT	p.S421S	SCRN2_uc002imc.2_Silent_p.S429S|SCRN2_uc002imf.2_3'UTR|SCRN2_uc002ime.2_RNA	NM_138355	NP_612364	Q96FV2	SCRN2_HUMAN	secernin 2 isoform 1	421					proteolysis		dipeptidase activity			ovary(1)	1																		---	---	---	---
SCRN2	90507	broad.mit.edu	37	17	45915694	45915694	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45915694C>T	uc002imd.2	-	7	1187	c.1061G>A	c.(1060-1062)CGT>CAT	p.R354H	SCRN2_uc002imc.2_Missense_Mutation_p.R362H|SCRN2_uc002imf.2_Missense_Mutation_p.R354H|SCRN2_uc002ime.2_RNA	NM_138355	NP_612364	Q96FV2	SCRN2_HUMAN	secernin 2 isoform 1	354					proteolysis		dipeptidase activity			ovary(1)	1																		---	---	---	---
CDK5RAP3	80279	broad.mit.edu	37	17	46058523	46058523	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46058523G>A	uc002imr.2	+						CDK5RAP3_uc010wlc.1_Intron|CDK5RAP3_uc002imq.1_Intron|CDK5RAP3_uc002imu.2_Intron|CDK5RAP3_uc002ims.2_Intron|CDK5RAP3_uc002imv.2_Intron|CDK5RAP3_uc002imw.2_Intron|CDK5RAP3_uc002imx.2_Intron	NM_176096	NP_788276			CDK5 regulatory subunit associated protein 3						brain development|regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation		neuronal Cdc2-like kinase binding				0																		---	---	---	---
HOXB1	3211	broad.mit.edu	37	17	46607897	46607897	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46607897A>G	uc002ink.1	-	1	376	c.370T>C	c.(370-372)TCC>CCC	p.S124P		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	124						nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1																		---	---	---	---
HOXB8	3218	broad.mit.edu	37	17	46690756	46690756	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46690756C>T	uc002inw.2	-	2	775	c.540G>A	c.(538-540)TCG>TCA	p.S180S	HOXB7_uc002inv.2_5'Flank	NM_024016	NP_076921	P17481	HXB8_HUMAN	homeobox B8	180	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0																		---	---	---	---
ABI3	51225	broad.mit.edu	37	17	47295191	47295191	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47295191G>A	uc002iop.1	+	3	874	c.376G>A	c.(376-378)GCC>ACC	p.A126T	ABI3_uc002ioq.1_Missense_Mutation_p.A120T	NM_016428	NP_057512	Q9P2A4	ABI3_HUMAN	NESH protein isoform 1	126					cellular component movement|regulation of cell migration	cytoplasm|lamellipodium	protein binding				0			Epithelial(5;6.37e-06)|all cancers(6;6.36e-05)												HNSCC(55;0.14)			---	---	---	---
PHB	5245	broad.mit.edu	37	17	47486737	47486737	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47486737G>A	uc002iox.1	-	4	422	c.349C>T	c.(349-351)CGT>TGT	p.R117C		NM_002634	NP_002625	P35232	PHB_HUMAN	prohibitin	117					cellular response to interleukin-6|DNA replication|glucocorticoid receptor signaling pathway|histone deacetylation|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|progesterone receptor signaling pathway|regulation of apoptosis	integral to plasma membrane|mitochondrial inner membrane|nucleoplasm	histone deacetylase binding|transcription regulatory region DNA binding				0	all_cancers(4;2.62e-14)|Breast(4;4.21e-29)|all_epithelial(4;6.9e-18)		Epithelial(5;8.1e-06)|all cancers(6;7.71e-05)															---	---	---	---
NGFR	4804	broad.mit.edu	37	17	47583719	47583719	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47583719C>T	uc002ioz.3	+	3	392	c.267C>T	c.(265-267)TGC>TGT	p.C89C		NM_002507	NP_002498	P08138	TNR16_HUMAN	nerve growth factor receptor precursor	89	Extracellular (Potential).|TNFR-Cys 2.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|negative regulation of axonogenesis|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis	cell surface|cytosol|endosome|extracellular region|integral to plasma membrane|nucleoplasm				ovary(1)|lung(1)	2	all_cancers(4;1.45e-13)|Breast(4;6.34e-28)|all_epithelial(4;4.95e-17)																	---	---	---	---
MYST2	11143	broad.mit.edu	37	17	47898713	47898713	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47898713G>A	uc002ipm.2	+	10	1296	c.1170G>A	c.(1168-1170)TGG>TGA	p.W390*	MYST2_uc002ipl.1_Nonsense_Mutation_p.W360*|MYST2_uc010wma.1_Nonsense_Mutation_p.W251*|MYST2_uc010wmb.1_Nonsense_Mutation_p.W280*|MYST2_uc010wmc.1_Nonsense_Mutation_p.W221*|MYST2_uc010wmd.1_Nonsense_Mutation_p.W234*|MYST2_uc010wme.1_Nonsense_Mutation_p.W204*|MYST2_uc010wmf.1_Nonsense_Mutation_p.W55*|MYST2_uc010wmg.1_5'UTR	NM_007067	NP_008998	O95251	MYST2_HUMAN	MYST histone acetyltransferase 2	390					DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	histone acetyltransferase activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3																		---	---	---	---
ITGA3	3675	broad.mit.edu	37	17	48145498	48145498	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48145498C>T	uc010dbl.2	+	4	957	c.493C>T	c.(493-495)CGA>TGA	p.R165*	ITGA3_uc010dbm.2_Nonsense_Mutation_p.R165*	NM_002204	NP_002195	P26006	ITA3_HUMAN	integrin alpha 3 isoform a precursor	165	FG-GAP 2.|Extracellular (Potential).				blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3																		---	---	---	---
PPP1R9B	84687	broad.mit.edu	37	17	48212980	48212980	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48212980G>A	uc002iqh.3	-	11	2341	c.2338C>T	c.(2338-2340)CGT>TGT	p.R780C		NM_032595	NP_115984	Q96SB3	NEB2_HUMAN	protein phosphatase 1, regulatory subunit 9B	778	Potential.|Interacts with TGN38 (By similarity).				cell cycle arrest|cell differentiation|cell migration|filopodium assembly|negative regulation of cell growth|nervous system development|regulation of cell growth by extracellular stimulus|regulation of cell proliferation|regulation of exit from mitosis|RNA splicing	adherens junction|cytoskeleton|dendritic spine|filopodium|lamellipodium|nucleoplasm|protein phosphatase type 1 complex|ruffle membrane|synapse	actin binding|protein phosphatase 1 binding|protein phosphatase inhibitor activity				0																		---	---	---	---
COL1A1	1277	broad.mit.edu	37	17	48274561	48274561	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48274561G>A	uc002iqm.2	-	10	856	c.730C>T	c.(730-732)CGT>TGT	p.R244C		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	244	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding	p.R244H(1)	COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						---	---	---	---
XYLT2	64132	broad.mit.edu	37	17	48433538	48433538	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48433538C>A	uc002iqo.2	+	7	1507	c.1398C>A	c.(1396-1398)GGC>GGA	p.G466G	XYLT2_uc010dbo.2_RNA	NM_022167	NP_071450	Q9H1B5	XYLT2_HUMAN	xylosyltransferase II	466	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			pancreas(1)	1	Breast(11;7.18e-19)																	---	---	---	---
EPN3	55040	broad.mit.edu	37	17	48614339	48614339	+	Missense_Mutation	SNP	G	A	A	rs141722620	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48614339G>A	uc002ira.3	+	2	857	c.422G>A	c.(421-423)CGG>CAG	p.R141Q	EPN3_uc010wms.1_Missense_Mutation_p.R196Q|EPN3_uc010wmt.1_RNA|EPN3_uc010wmu.1_Missense_Mutation_p.R141Q	NM_017957	NP_060427	Q9H201	EPN3_HUMAN	epsin 3	141	ENTH.					clathrin-coated vesicle|nucleus|perinuclear region of cytoplasm	lipid binding			ovary(1)	1	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;2.88e-09)															---	---	---	---
ABCC3	8714	broad.mit.edu	37	17	48755223	48755223	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48755223G>A	uc002isl.2	+	24	3577	c.3497G>A	c.(3496-3498)CGC>CAC	p.R1166H	ABCC3_uc002isn.2_5'Flank	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	1166	ABC transmembrane type-1 2.|Cytoplasmic (By similarity).				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)													---	---	---	---
SPAG9	9043	broad.mit.edu	37	17	49091605	49091605	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:49091605C>A	uc002itc.2	-	9	1410	c.1201G>T	c.(1201-1203)GCA>TCA	p.A401S	SPAG9_uc002itb.2_Missense_Mutation_p.A387S|SPAG9_uc002itd.2_Missense_Mutation_p.A387S|SPAG9_uc002itf.2_Missense_Mutation_p.A222S|SPAG9_uc002ita.2_Missense_Mutation_p.A244S|SPAG9_uc002ite.2_Missense_Mutation_p.A231S	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	401					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)															---	---	---	---
SPAG9	9043	broad.mit.edu	37	17	49119004	49119004	+	Missense_Mutation	SNP	C	T	T	rs139684309		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:49119004C>T	uc002itc.2	-	5	808	c.599G>A	c.(598-600)CGC>CAC	p.R200H	SPAG9_uc002itb.2_Missense_Mutation_p.R200H|SPAG9_uc002itd.2_Missense_Mutation_p.R200H|SPAG9_uc002itf.2_Missense_Mutation_p.R35H|SPAG9_uc002ita.2_Missense_Mutation_p.R57H|SPAG9_uc002ite.2_Missense_Mutation_p.R30H|SPAG9_uc002itg.2_Missense_Mutation_p.R57H	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	200					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)															---	---	---	---
KIF2B	84643	broad.mit.edu	37	17	51901021	51901021	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:51901021G>A	uc002iua.2	+	1	783	c.627G>A	c.(625-627)CCG>CCA	p.P209P	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	209					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8																		---	---	---	---
TMEM100	55273	broad.mit.edu	37	17	53798230	53798230	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:53798230C>T	uc002iuj.3	-	2	513	c.202G>A	c.(202-204)GGC>AGC	p.G68S	TMEM100_uc002iuk.3_Missense_Mutation_p.G68S	NM_018286	NP_060756	Q9NV29	TM100_HUMAN	transmembrane protein 100	68	Helical; (Potential).					integral to membrane					0																		---	---	---	---
DGKE	8526	broad.mit.edu	37	17	54925404	54925404	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:54925404C>T	uc002iur.2	+	5	1046	c.866C>T	c.(865-867)GCA>GTA	p.A289V	DGKE_uc002ius.1_Missense_Mutation_p.A289V	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	289	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|phospholipid biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding|protein binding			breast(2)	2	Breast(9;3.59e-07)																	---	---	---	---
TRIM25	7706	broad.mit.edu	37	17	54976496	54976496	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:54976496C>T	uc002iut.2	-	5	1193	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H	TRIM25_uc010dcj.2_Missense_Mutation_p.R170H	NM_005082	NP_005073	Q14258	TRI25_HUMAN	tripartite motif-containing 25	378	Interaction with influenza A virus NS1.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|response to virus	cell junction|cytosol|nucleus	sequence-specific DNA binding transcription factor activity|ubiquitin-protein ligase activity|zinc ion binding			lung(1)|breast(1)|skin(1)	3	Breast(9;6.15e-08)																	---	---	---	---
LPO	4025	broad.mit.edu	37	17	56326511	56326511	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56326511G>A	uc002ivt.2	+	5	732	c.416G>A	c.(415-417)CGC>CAC	p.R139H	LPO_uc010dco.2_Missense_Mutation_p.R139H|LPO_uc010wnr.1_Missense_Mutation_p.R56H|LPO_uc010wns.1_Missense_Mutation_p.R80H|LPO_uc010dcp.2_Missense_Mutation_p.R56H|LPO_uc010dcq.2_5'UTR	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	139					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2																		---	---	---	---
RNF43	54894	broad.mit.edu	37	17	56440879	56440879	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56440879C>A	uc002iwf.2	-						RNF43_uc010wnv.1_Intron|RNF43_uc002iwh.3_Intron|RNF43_uc002iwg.3_Intron|RNF43_uc010dcw.2_Intron	NM_017763	NP_060233			ring finger protein 43 precursor							endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)																	---	---	---	---
TEX14	56155	broad.mit.edu	37	17	56738205	56738205	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56738205C>T	uc010dcz.1	-						TEX14_uc002iwr.1_Intron|TEX14_uc002iws.1_Intron|TEX14_uc010dda.1_Intron|TEX14_uc010wnz.1_Silent_p.A252A	NM_198393	NP_938207			testis expressed sequence 14 isoform a							cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)																	---	---	---	---
PPM1E	22843	broad.mit.edu	37	17	57058136	57058136	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57058136G>A	uc002iwx.2	+	7	2139	c.2012G>A	c.(2011-2013)CGC>CAC	p.R671H	PPM1E_uc010ddd.2_Missense_Mutation_p.R434H	NM_014906	NP_055721	Q8WY54	PPM1E_HUMAN	protein phosphatase 1E	680					protein dephosphorylation	cytoplasm|nucleolus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(3)|lung(1)|skin(1)	5	Medulloblastoma(34;0.127)|all_neural(34;0.237)		BRCA - Breast invasive adenocarcinoma(1;5.76e-11)															---	---	---	---
CLTC	1213	broad.mit.edu	37	17	57725723	57725723	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57725723G>A	uc002ixq.1	+	4	1085	c.642G>A	c.(640-642)ACG>ACA	p.T214T	CLTC_uc002ixp.2_Silent_p.T214T|CLTC_uc002ixr.1_Silent_p.T218T	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	214	Globular terminal domain.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)							T	ALK|TFE3	ALCL|renal 								---	---	---	---
CLTC	1213	broad.mit.edu	37	17	57743595	57743595	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57743595G>A	uc002ixq.1	+	11	2219	c.1776G>A	c.(1774-1776)GCG>GCA	p.A592A	CLTC_uc002ixp.2_Silent_p.A592A|CLTC_uc002ixr.1_Silent_p.A596A	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	592	Heavy chain arm.|Distal segment.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)							T	ALK|TFE3	ALCL|renal 								---	---	---	---
USP32	84669	broad.mit.edu	37	17	58332531	58332531	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58332531C>T	uc002iyo.1	-						USP32_uc002iyn.1_Intron|USP32_uc010wov.1_Intron	NM_032582	NP_115971			ubiquitin specific protease 32						protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)															---	---	---	---
USP32	84669	broad.mit.edu	37	17	58365944	58365944	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58365944T>C	uc002iyo.1	-	5	797	c.511A>G	c.(511-513)ACC>GCC	p.T171A	USP32_uc010wov.1_Missense_Mutation_p.T171A	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	171					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)															---	---	---	---
PPM1D	8493	broad.mit.edu	37	17	58740843	58740843	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58740843G>T	uc002iyt.1	+	6	1970	c.1748G>T	c.(1747-1749)AGA>ATA	p.R583I	PPM1D_uc010ddm.1_RNA	NM_003620	NP_003611	O15297	PPM1D_HUMAN	protein phosphatase 1D	583					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)													OREG0031485	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	---	---	---	---
PPM1D	8493	broad.mit.edu	37	17	58740851	58740851	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58740851G>A	uc002iyt.1	+	6	1978	c.1756G>A	c.(1756-1758)GGC>AGC	p.G586S	PPM1D_uc010ddm.1_RNA	NM_003620	NP_003611	O15297	PPM1D_HUMAN	protein phosphatase 1D	586					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)													OREG0031485	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	---	---	---	---
BCAS3	54828	broad.mit.edu	37	17	59147236	59147236	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59147236C>T	uc002iyv.3	+						BCAS3_uc002iyu.3_Intron|BCAS3_uc002iyw.3_Intron|BCAS3_uc002iyy.3_Intron|BCAS3_uc002iyz.3_Intron|BCAS3_uc002iza.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)															---	---	---	---
BCAS3	54828	broad.mit.edu	37	17	59155837	59155837	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59155837G>A	uc002iyv.3	+	22	2428	c.2319G>A	c.(2317-2319)ACG>ACA	p.T773T	BCAS3_uc002iyu.3_Silent_p.T758T|BCAS3_uc002iyw.3_Silent_p.T754T|BCAS3_uc002iyy.3_Silent_p.T529T|BCAS3_uc002iyz.3_Silent_p.T327T|BCAS3_uc002iza.3_Silent_p.T312T	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	773						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	59971251	59971251	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59971251C>T	uc002izn.2	-	13	1673	c.1597G>A	c.(1597-1599)GCT>ACT	p.A533T	INTS2_uc002izm.2_Missense_Mutation_p.A525T	NM_020748	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	533					snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3																		---	---	---	---
MED13	9969	broad.mit.edu	37	17	60087922	60087922	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60087922T>C	uc002izo.2	-	9	2033	c.1956A>G	c.(1954-1956)ACA>ACG	p.T652T	MED13_uc002izp.2_Silent_p.T268T	NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	652					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2																		---	---	---	---
TLK2	11011	broad.mit.edu	37	17	60673966	60673966	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60673966G>A	uc010ddp.2	+	18	1815	c.1547G>A	c.(1546-1548)CGG>CAG	p.R516Q	TLK2_uc002izx.3_Missense_Mutation_p.R342Q|TLK2_uc002izz.3_Missense_Mutation_p.R494Q|TLK2_uc002jaa.3_Missense_Mutation_p.R462Q|TLK2_uc010wpd.1_Missense_Mutation_p.R462Q	NM_006852	NP_006843	Q86UE8	TLK2_HUMAN	tousled-like kinase 2 isoform A	516	Protein kinase.				cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2																		---	---	---	---
MARCH10	162333	broad.mit.edu	37	17	60879031	60879031	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60879031C>T	uc010ddr.2	-	2	304	c.66G>A	c.(64-66)CAG>CAA	p.Q22Q	MARCH10_uc002jag.3_Silent_p.Q22Q|MARCH10_uc010dds.2_Silent_p.Q22Q|MARCH10_uc002jah.2_Silent_p.Q22Q	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	22							ligase activity|zinc ion binding				0																		---	---	---	---
ACE	1636	broad.mit.edu	37	17	61559950	61559950	+	Silent	SNP	C	T	T	rs138521921	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61559950C>T	uc002jau.1	+	8	1264	c.1242C>T	c.(1240-1242)CCC>CCT	p.P414P	ACE_uc010wpi.1_Silent_p.P414P|ACE_uc010ddu.1_Silent_p.P231P|ACE_uc002jav.1_5'Flank|ACE_uc010ddv.1_5'Flank|ACE_uc010wpj.1_5'Flank|ACE_uc002jaw.1_5'Flank|ACE_uc010wpk.1_5'Flank	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	414	Extracellular (Potential).|Peptidase M2 1.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)													---	---	---	---
ACE	1636	broad.mit.edu	37	17	61571353	61571353	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61571353C>T	uc002jau.1	+	21	3229	c.3207C>T	c.(3205-3207)GTC>GTT	p.V1069V	ACE_uc002jav.1_Silent_p.V495V|ACE_uc010ddv.1_Silent_p.V296V|ACE_uc010wpj.1_Silent_p.V495V|ACE_uc002jaw.1_RNA|ACE_uc010wpk.1_Silent_p.V315V	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	1069	Extracellular (Potential).|Peptidase M2 2.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)													---	---	---	---
KCNH6	81033	broad.mit.edu	37	17	61611628	61611628	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61611628G>A	uc002jay.2	+	5	1137	c.1057G>A	c.(1057-1059)GCC>ACC	p.A353T	KCNH6_uc002jax.1_Missense_Mutation_p.A353T|KCNH6_uc010wpl.1_Missense_Mutation_p.A230T|KCNH6_uc010wpm.1_Missense_Mutation_p.A353T|KCNH6_uc002jaz.1_Missense_Mutation_p.A353T	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	353	Helical; Name=Segment S3; (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)													---	---	---	---
DDX42	11325	broad.mit.edu	37	17	61895700	61895700	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61895700C>T	uc002jbu.2	+	19	3016	c.2759C>T	c.(2758-2760)GCT>GTT	p.A920V	DDX42_uc002jbv.2_Missense_Mutation_p.A920V|DDX42_uc002jbx.2_Missense_Mutation_p.A656V|DDX42_uc002jby.2_Missense_Mutation_p.A466V|DDX42_uc010wps.1_Missense_Mutation_p.A288V	NM_007372	NP_031398	Q86XP3	DDX42_HUMAN	DEAD box polypeptide 42 protein	920					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																		---	---	---	---
FTSJ3	117246	broad.mit.edu	37	17	61897319	61897319	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61897319C>T	uc002jbz.2	-	20	2465	c.2387G>A	c.(2386-2388)CGC>CAC	p.R796H	FTSJ3_uc002jca.2_Missense_Mutation_p.R796H	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	796					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1																		---	---	---	---
CSH1	1442	broad.mit.edu	37	17	61972426	61972426	+	Missense_Mutation	SNP	G	A	A	rs139446025	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61972426G>A	uc002jcs.1	-	5	726	c.610C>T	c.(610-612)CGC>TGC	p.R204C	CSH2_uc002jck.2_Intron|CSH1_uc002jcp.1_3'UTR|CSH1_uc002jcq.1_Missense_Mutation_p.R165C|CSH1_uc002jcr.1_3'UTR|CSH1_uc002jct.1_Missense_Mutation_p.R170C|CSH1_uc002jcu.1_3'UTR|CSH1_uc002jcv.1_Missense_Mutation_p.R109C|CSH1_uc002jcw.2_3'UTR	NM_001317	NP_001308	P01243	CSH_HUMAN	chorionic somatomammotropin hormone 1 isoform 1	204					female pregnancy|signal transduction	extracellular region	hormone activity|metal ion binding			skin(1)	1														Russell-Silver_syndrome				---	---	---	---
SCN4A	6329	broad.mit.edu	37	17	62026054	62026054	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62026054G>A	uc002jds.1	-	16	3138	c.3061C>T	c.(3061-3063)CGC>TGC	p.R1021C		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1021					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)													---	---	---	---
SMURF2	64750	broad.mit.edu	37	17	62574630	62574630	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62574630C>T	uc002jep.1	-	9	1225	c.837G>A	c.(835-837)TGG>TGA	p.W279*	SMURF2_uc002jeq.1_Nonsense_Mutation_p.W38*|SMURF2_uc002jer.1_Nonsense_Mutation_p.W38*	NM_022739	NP_073576	Q9HAU4	SMUF2_HUMAN	SMAD specific E3 ubiquitin protein ligase 2	279	WW 2.			Missing: Abolishes interaction with SMAD2 and SMAD7.	BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|membrane raft|nucleus|plasma membrane|ubiquitin ligase complex	identical protein binding|SMAD binding|ubiquitin-protein ligase activity			skin(3)|lung(1)	4	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;9.88e-12)															---	---	---	---
RGS9	8787	broad.mit.edu	37	17	63221135	63221135	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:63221135G>T	uc002jfe.2	+	18	1533	c.1423G>T	c.(1423-1425)GCT>TCT	p.A475S	RGS9_uc010dem.2_Missense_Mutation_p.A472S|RGS9_uc002jfd.2_Missense_Mutation_p.A472S|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Missense_Mutation_p.A246S	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	475					intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4																		---	---	---	---
HELZ	9931	broad.mit.edu	37	17	65184657	65184657	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65184657C>T	uc010wqk.1	-	12	1127	c.940G>A	c.(940-942)GCC>ACC	p.A314T	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.A314T	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)																	---	---	---	---
BPTF	2186	broad.mit.edu	37	17	65850239	65850239	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65850239G>A	uc002jgf.2	+	2	858	c.797G>A	c.(796-798)CGC>CAC	p.R266H	BPTF_uc002jge.2_Missense_Mutation_p.R266H|BPTF_uc010wqm.1_Missense_Mutation_p.R266H	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	266	DDT.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)															---	---	---	---
BPTF	2186	broad.mit.edu	37	17	65908478	65908478	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65908478C>T	uc002jgf.2	+	11	4539	c.4478C>T	c.(4477-4479)GCT>GTT	p.A1493V	BPTF_uc002jge.2_Missense_Mutation_p.A1619V	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1619					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)															---	---	---	---
BPTF	2186	broad.mit.edu	37	17	65916176	65916176	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65916176G>T	uc002jgf.2	+	13	5535	c.5474G>T	c.(5473-5475)AGA>ATA	p.R1825I	BPTF_uc002jge.2_Missense_Mutation_p.R1951I	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1951					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)															---	---	---	---
BPTF	2186	broad.mit.edu	37	17	65928049	65928049	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65928049G>A	uc002jgf.2	+	18	6234	c.6173G>A	c.(6172-6174)CGC>CAC	p.R2058H	BPTF_uc002jge.2_Missense_Mutation_p.R2184H	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2184					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)															---	---	---	---
ARSG	22901	broad.mit.edu	37	17	66343311	66343311	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66343311G>A	uc002jhc.2	+	4	1248	c.452G>A	c.(451-453)CGT>CAT	p.R151H	ARSG_uc002jhb.1_Translation_Start_Site	NM_014960	NP_055775	Q96EG1	ARSG_HUMAN	Arylsulfatase G precursor	151					sulfur compound metabolic process	endoplasmic reticulum|extracellular space|lysosome	arylsulfatase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;5.34e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)															---	---	---	---
WIPI1	55062	broad.mit.edu	37	17	66431771	66431771	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66431771G>A	uc010dey.2	-	6	702	c.611C>T	c.(610-612)GCG>GTG	p.A204V	WIPI1_uc002jhd.3_RNA|WIPI1_uc010wqo.1_Missense_Mutation_p.A122V|WIPI1_uc002jhe.3_RNA	NM_017983	NP_060453	Q5MNZ9	WIPI1_HUMAN	WD repeat domain, phosphoinositide interacting	204	WD 1.				macroautophagy|vesicle targeting, trans-Golgi to endosome	autophagic vacuole membrane|clathrin-coated vesicle|cytosol|endosome membrane|PAS complex|pre-autophagosomal structure membrane|trans-Golgi network	androgen receptor binding|estrogen receptor binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding				0																OREG0024688	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
PRKAR1A	5573	broad.mit.edu	37	17	66511578	66511578	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66511578G>A	uc002jhg.2	+	2	218	c.38G>A	c.(37-39)CGC>CAC	p.R13H	PRKAR1A_uc002jhh.2_Missense_Mutation_p.R13H|PRKAR1A_uc002jhi.2_Missense_Mutation_p.R13H|PRKAR1A_uc002jhj.2_Missense_Mutation_p.R13H|PRKAR1A_uc002jhk.2_5'UTR|PRKAR1A_uc002jhl.2_Missense_Mutation_p.R13H|PRKAR1A_uc002jhm.2_Missense_Mutation_p.R13H	NM_212471	NP_997636	P10644	KAP0_HUMAN	cAMP-dependent protein kinase, regulatory	13	Dimerization and phosphorylation.				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|regulation of transcription from RNA polymerase II promoter|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity|protein binding			adrenal_gland(4)|lung(3)|thyroid(2)|soft_tissue(2)|breast(1)	12	Breast(10;1.64e-13)							T|Mis|N|F|S	RET	papillary thyroid	myxoma|endocrine|papillary thyroid			Carney_Complex|Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial|Cardiac_Myxomas_Familial_Clustering_of				---	---	---	---
ABCA8	10351	broad.mit.edu	37	17	66864467	66864467	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66864467C>T	uc002jhp.2	-	37	4801	c.4622G>A	c.(4621-4623)AGC>AAC	p.S1541N	ABCA8_uc002jhq.2_Missense_Mutation_p.S1581N|ABCA8_uc010wqq.1_Missense_Mutation_p.S1576N	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	1541						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)																	---	---	---	---
ABCA9	10350	broad.mit.edu	37	17	67016615	67016615	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67016615G>A	uc002jhu.2	-	19	2657	c.2514C>T	c.(2512-2514)GGC>GGT	p.G838G	ABCA9_uc010dez.2_Silent_p.G838G	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	838					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	67096998	67096998	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67096998C>T	uc002jhw.1	-	22	3127	c.2952G>A	c.(2950-2952)GGG>GGA	p.G984G		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	984					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)																	---	---	---	---
ABCA6	23460	broad.mit.edu	37	17	67102220	67102220	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67102220G>A	uc002jhw.1	-	19	2697	c.2522C>T	c.(2521-2523)GCA>GTA	p.A841V	ABCA6_uc002jhx.1_Missense_Mutation_p.A294V	NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	841					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)																	---	---	---	---
ABCA10	10349	broad.mit.edu	37	17	67212456	67212456	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67212456A>G	uc010dfa.1	-	8	1453	c.574T>C	c.(574-576)TCC>CCC	p.S192P	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_5'Flank|ABCA10_uc010dfc.1_Missense_Mutation_p.S84P	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	192	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)																	---	---	---	---
ABCA5	23461	broad.mit.edu	37	17	67252377	67252377	+	Missense_Mutation	SNP	T	G	G	rs11544716		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67252377T>G	uc002jif.2	-	28	4997	c.3779A>C	c.(3778-3780)GAC>GCC	p.D1260A	ABCA5_uc002jib.2_Missense_Mutation_p.D226A|ABCA5_uc002jic.2_Missense_Mutation_p.D483A|ABCA5_uc002jid.2_Missense_Mutation_p.D177A|ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Missense_Mutation_p.D1260A	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	1260					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)																	---	---	---	---
KCNJ2	3759	broad.mit.edu	37	17	68172423	68172423	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:68172423C>T	uc010dfg.2	+	2	1644	c.1243C>T	c.(1243-1245)CCT>TCT	p.P415S	KCNJ2_uc002jir.2_Missense_Mutation_p.P415S	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	415	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)																	---	---	---	---
COG1	9382	broad.mit.edu	37	17	71197469	71197469	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71197469C>T	uc002jjg.2	+	7	1539	c.1503C>T	c.(1501-1503)AGC>AGT	p.S501S	COG1_uc002jjh.2_Silent_p.S501S|COG1_uc002jjf.1_Silent_p.S501S	NM_018714	NP_061184	Q8WTW3	COG1_HUMAN	component of oligomeric golgi complex 1	501					Golgi organization|intra-Golgi vesicle-mediated transport|protein transport	Golgi membrane|Golgi transport complex	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)															---	---	---	---
TTYH2	94015	broad.mit.edu	37	17	72248521	72248521	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72248521C>A	uc002jkc.2	+						TTYH2_uc010wqw.1_Intron|TTYH2_uc002jkd.2_Intron	NM_032646	NP_116035			tweety 2 isoform 1							chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4																		---	---	---	---
BTBD17	388419	broad.mit.edu	37	17	72352858	72352858	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72352858C>T	uc002jkn.2	-	3	1375	c.1375G>A	c.(1375-1377)GCC>ACC	p.A459T		NM_001080466	NP_001073935	A6NE02	BTBDH_HUMAN	BTB (POZ) domain containing 17 precursor	459						extracellular region					0																		---	---	---	---
NT5C	30833	broad.mit.edu	37	17	73126663	73126663	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73126663T>C	uc002jmx.2	-	5	601	c.526A>G	c.(526-528)ACA>GCA	p.T176A	NT5C_uc002jmy.2_RNA	NM_014595	NP_055410	Q8TCD5	NT5C_HUMAN	5',3'-nucleotidase, cytosolic	176					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine deoxyribonucleotide catabolic process|pyrimidine nucleoside catabolic process	cytosol|nucleus	5'-nucleotidase activity|metal ion binding|pyrimidine nucleotide binding				0	all_lung(278;0.14)|Lung NSC(278;0.168)		LUSC - Lung squamous cell carcinoma(166;0.162)|Lung(188;0.235)													OREG0024728	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
GGA3	23163	broad.mit.edu	37	17	73235918	73235918	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73235918G>A	uc002jni.1	-	13	1544	c.1535C>T	c.(1534-1536)GCG>GTG	p.A512V	GGA3_uc002jnj.1_Missense_Mutation_p.A479V|GGA3_uc010wrw.1_Missense_Mutation_p.A390V|GGA3_uc002jnk.1_Missense_Mutation_p.A440V|GGA3_uc010wrx.1_Missense_Mutation_p.A390V|GGA3_uc010wry.1_Missense_Mutation_p.A440V	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	512	Unstructured hinge.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)															---	---	---	---
GGA3	23163	broad.mit.edu	37	17	73236020	73236020	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73236020C>T	uc002jni.1	-	13	1442	c.1433G>A	c.(1432-1434)AGT>AAT	p.S478N	GGA3_uc002jnj.1_Missense_Mutation_p.S445N|GGA3_uc010wrw.1_Missense_Mutation_p.S356N|GGA3_uc002jnk.1_Missense_Mutation_p.S406N|GGA3_uc010wrx.1_Missense_Mutation_p.S356N|GGA3_uc010wry.1_Missense_Mutation_p.S406N	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	478	Unstructured hinge.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)															---	---	---	---
LLGL2	3993	broad.mit.edu	37	17	73566553	73566553	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73566553C>T	uc002joh.2	+	16	2153	c.1999C>T	c.(1999-2001)CGG>TGG	p.R667W	LLGL2_uc002joi.2_Missense_Mutation_p.R667W|LLGL2_uc010dgg.1_Missense_Mutation_p.R667W|LLGL2_uc002joj.2_Missense_Mutation_p.R656W|LLGL2_uc010wsd.1_Missense_Mutation_p.R294W	NM_001031803	NP_001026973	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 isoform c	667					cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)															---	---	---	---
WBP2	23558	broad.mit.edu	37	17	73844640	73844640	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73844640A>G	uc002jps.2	-						WBP2_uc002jpr.2_Intron|WBP2_uc010wsl.1_Intron|WBP2_uc002jpt.2_Intron|WBP2_uc002jpu.1_Intron|WBP2_uc010wsm.1_Intron|WBP2_uc010wsn.1_Intron	NM_012478	NP_036610			WW domain binding protein 2								protein binding				0			all cancers(21;2.61e-06)|Epithelial(20;2.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)													OREG0024743	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
EVPL	2125	broad.mit.edu	37	17	74005331	74005331	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74005331G>A	uc002jqi.2	-	22	4183	c.3955C>T	c.(3955-3957)CGC>TGC	p.R1319C	EVPL_uc010wss.1_Missense_Mutation_p.R1341C|EVPL_uc010wst.1_Missense_Mutation_p.R789C	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1319	Central fibrous rod domain.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
QRICH2	84074	broad.mit.edu	37	17	74287572	74287572	+	Missense_Mutation	SNP	G	A	A	rs144710718	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74287572G>A	uc002jrd.1	-	4	2918	c.2738C>T	c.(2737-2739)GCA>GTA	p.A913V	QRICH2_uc010wsz.1_Missense_Mutation_p.A839V|QRICH2_uc010dgw.1_Intron	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	913							protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5																		---	---	---	---
QRICH2	84074	broad.mit.edu	37	17	74289360	74289360	+	Missense_Mutation	SNP	C	T	T	rs144671527	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74289360C>T	uc002jrd.1	-	4	1130	c.950G>A	c.(949-951)CGC>CAC	p.R317H	QRICH2_uc010wsz.1_Missense_Mutation_p.R243H|QRICH2_uc010dgw.1_Intron	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	317							protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5																		---	---	---	---
CYGB	114757	broad.mit.edu	37	17	74527194	74527194	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74527194C>T	uc002jru.1	-	3	564	c.406G>A	c.(406-408)GCC>ACC	p.A136T	CYGB_uc002jrv.1_Missense_Mutation_p.A71T|PRCD_uc002jrw.1_Intron	NM_134268	NP_599030	Q8WWM9	CYGB_HUMAN	cytoglobin	136	Globin.				response to oxidative stress	cytoplasm	heme binding|oxygen binding|oxygen transporter activity|peroxidase activity				0																		---	---	---	---
TNRC6C	57690	broad.mit.edu	37	17	76046100	76046100	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76046100C>T	uc002jud.2	+	4	1557	c.957C>T	c.(955-957)GGC>GGT	p.G319G	TNRC6C_uc002juf.2_Silent_p.G319G|TNRC6C_uc002jue.2_Silent_p.G319G	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	319	Sufficient for interaction with argonaute family proteins.|Gly-rich.				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)															---	---	---	---
SOCS3	9021	broad.mit.edu	37	17	76354897	76354897	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76354897G>A	uc002jvl.2	-	2	696	c.280C>T	c.(280-282)CGC>TGC	p.R94C		NM_003955	NP_003946	O14543	SOCS3_HUMAN	suppressor of cytokine signaling 3	94	SH2.			R->E: Greatly impaired binding to Y429/Y431 phosphorylated EPOR.	anti-apoptosis|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|regulation of growth|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol	protein kinase inhibitor activity	p.R94L(1)		ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.000688)|OV - Ovarian serous cystadenocarcinoma(97;0.0554)															---	---	---	---
ENGASE	64772	broad.mit.edu	37	17	77082286	77082286	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:77082286G>A	uc002jwv.2	+	14	2095	c.2087G>A	c.(2086-2088)CGG>CAG	p.R696Q	ENGASE_uc002jww.2_Missense_Mutation_p.R401Q	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	696						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1																		---	---	---	---
CCDC40	55036	broad.mit.edu	37	17	78013765	78013765	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78013765C>T	uc010dht.2	+	3	275	c.248C>T	c.(247-249)GCT>GTT	p.A83V	CCDC40_uc010wub.1_Missense_Mutation_p.A83V	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	83					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	78055728	78055728	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78055728C>T	uc010dht.2	+	12	1887	c.1860C>T	c.(1858-1860)GGC>GGT	p.G620G	CCDC40_uc002jxm.3_Silent_p.G403G|CCDC40_uc002jxn.3_Silent_p.G16G	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	620	Potential.				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)															---	---	---	---
RNF213	57674	broad.mit.edu	37	17	78317021	78317021	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78317021G>A	uc002jyh.1	+	2	521	c.298G>A	c.(298-300)GAC>AAC	p.D100N		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)															---	---	---	---
RPTOR	57521	broad.mit.edu	37	17	78923244	78923244	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78923244C>T	uc002jyt.1	+	28	4072	c.3267C>T	c.(3265-3267)GAC>GAT	p.D1089D	RPTOR_uc010wug.1_Silent_p.D931D|RPTOR_uc002jyu.1_Translation_Start_Site	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	1089	WD 2.				cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6																		---	---	---	---
HGS	9146	broad.mit.edu	37	17	79652644	79652644	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79652644C>A	uc002kbg.2	+	2	124	c.47C>A	c.(46-48)ACC>AAC	p.T16N	ARL16_uc002kbe.2_5'Flank|ARL16_uc002kbf.2_5'Flank|HGS_uc010wus.1_Missense_Mutation_p.T16N	NM_004712	NP_004703	O14964	HGS_HUMAN	hepatocyte growth factor-regulated tyrosine	16	VHS.				cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of JAK-STAT cascade|regulation of protein catabolic process	cytosol|early endosome membrane|multivesicular body membrane	metal ion binding|protein domain specific binding			ovary(1)	1	all_neural(118;0.0878)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)															---	---	---	---
SLC25A10	1468	broad.mit.edu	37	17	79671731	79671731	+	Silent	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79671731T>A	uc010wut.1	+	3	455	c.330T>A	c.(328-330)GCT>GCA	p.A110A	MRPL12_uc002kbh.1_Silent_p.A110A	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;	Error:Variant_position_missing_in_Q9UBX3_after_alignment					gluconeogenesis|mitochondrial transport	integral to membrane|mitochondrial inner membrane|nucleus	protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0117)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)		Succinic acid(DB00139)													---	---	---	---
FASN	2194	broad.mit.edu	37	17	80037254	80037254	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80037254G>A	uc002kdu.2	-	42	7494	c.7377C>T	c.(7375-7377)GGC>GGT	p.G2459G	FASN_uc002kdv.1_RNA	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	2459	Thioesterase (By similarity).				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)													---	---	---	---
FASN	2194	broad.mit.edu	37	17	80038074	80038074	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80038074G>A	uc002kdu.2	-	41	7205	c.7088C>T	c.(7087-7089)GCT>GTT	p.A2363V	FASN_uc002kdv.1_RNA	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	2363	Thioesterase (By similarity).			A -> P (in Ref. 9; AAB35516).	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)													---	---	---	---
FASN	2194	broad.mit.edu	37	17	80040218	80040218	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80040218C>T	uc002kdu.2	-	35	6109	c.5992G>A	c.(5992-5994)GGC>AGC	p.G1998S	FASN_uc002kdv.1_5'Flank	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	1998	Beta-ketoacyl reductase (By similarity).				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)													---	---	---	---
HEXDC	284004	broad.mit.edu	37	17	80382265	80382265	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80382265C>A	uc002kew.2	+						HEXDC_uc002kev.3_Intron|HEXDC_uc010diq.2_Intron					SubName: Full=Hexosaminidase (Glycosyl hydrolase family 20, catalytic domain) containing, isoform CRA_c; SubName: Full=Hexosaminidase D;						carbohydrate metabolic process	cytoplasm|nucleus	beta-N-acetylhexosaminidase activity|cation binding			ovary(1)|skin(1)	2	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)															---	---	---	---
NARF	26502	broad.mit.edu	37	17	80430461	80430461	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80430461C>T	uc002kfg.3	+	5	547	c.407C>T	c.(406-408)ACG>ATG	p.T136M	NARF_uc002kff.3_Missense_Mutation_p.T77M|NARF_uc010wvo.1_Intron|NARF_uc010wvp.1_Intron|NARF_uc010dit.2_Missense_Mutation_p.T136M|NARF_uc002kfj.3_Missense_Mutation_p.T88M|NARF_uc002kfi.3_RNA|NARF_uc002kfh.3_Missense_Mutation_p.T136M|NARF_uc002kfk.2_RNA	NM_012336	NP_036468	Q9UHQ1	NARF_HUMAN	nuclear prelamin A recognition factor isoform a	136						lamin filament	lamin binding			skin(1)	1	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)															---	---	---	---
TBCD	6904	broad.mit.edu	37	17	80772782	80772782	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80772782C>T	uc002kfz.2	+	13	1420	c.1290C>T	c.(1288-1290)GGC>GGT	p.G430G	TBCD_uc002kfx.1_Silent_p.G413G|TBCD_uc002kfy.1_Silent_p.G430G	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	430					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)															---	---	---	---
ENOSF1	55556	broad.mit.edu	37	18	677835	677835	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:677835G>A	uc002kku.3	-	13	1031	c.956C>T	c.(955-957)GCG>GTG	p.A319V	ENOSF1_uc002kkt.3_Missense_Mutation_p.A237V|ENOSF1_uc010dke.2_RNA|ENOSF1_uc010dkf.2_Missense_Mutation_p.A326V|ENOSF1_uc002kkv.3_Missense_Mutation_p.A306V|ENOSF1_uc002kkw.3_Missense_Mutation_p.A138V|ENOSF1_uc002kkx.3_Missense_Mutation_p.A243V	NM_017512	NP_059982	Q7L5Y1	ENOF1_HUMAN	enolase superfamily 1 isoform rTS beta	319					cellular amino acid catabolic process	mitochondrion	isomerase activity|metal ion binding			ovary(1)	1																		---	---	---	---
METTL4	64863	broad.mit.edu	37	18	2544238	2544238	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:2544238A>G	uc002klh.3	-	8	2009	c.1229T>C	c.(1228-1230)GTC>GCC	p.V410A	METTL4_uc010dkj.2_Intron	NM_022840	NP_073751	Q8N3J2	METL4_HUMAN	methyltransferase like 4	410					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		methyltransferase activity|nucleic acid binding			kidney(1)|skin(1)	2																		---	---	---	---
SMCHD1	23347	broad.mit.edu	37	18	2724949	2724949	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:2724949C>T	uc002klm.3	+	21	2845	c.2656C>T	c.(2656-2658)CGA>TGA	p.R886*	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	886					chromosome organization		ATP binding				0																		---	---	---	---
LPIN2	9663	broad.mit.edu	37	18	2924406	2924406	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:2924406T>C	uc002klo.2	-	15	2316	c.2077A>G	c.(2077-2079)ACA>GCA	p.T693A		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	693	DXDXT motif.|C-LIP.				fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)														---	---	---	---
MYL12B	103910	broad.mit.edu	37	18	3277382	3277382	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3277382G>A	uc010dkl.2	+	3	475	c.316G>A	c.(316-318)GCC>ACC	p.A106T	MYL12B_uc002klt.3_Missense_Mutation_p.A84T|MYL12B_uc010wyv.1_Missense_Mutation_p.A106T	NM_001144944	NP_001138416	O14950	ML12B_HUMAN	myosin regulatory light chain MRCL2 isoform A	106	EF-hand 2.				axon guidance|muscle contraction	cytosol|myosin complex	calcium ion binding				0																		---	---	---	---
ZFP161	7541	broad.mit.edu	37	18	5292149	5292149	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:5292149T>C	uc002kmq.2	-	4	219	c.58A>G	c.(58-60)ACT>GCT	p.T20A	ZFP161_uc002kmr.2_Missense_Mutation_p.T20A|ZFP161_uc010dkp.2_Missense_Mutation_p.T20A	NM_003409	NP_003400	O43829	ZF161_HUMAN	zinc finger protein 161 homolog	20					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
EPB41L3	23136	broad.mit.edu	37	18	5407700	5407700	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:5407700C>A	uc002kmt.1	-	15	2243	c.2157G>T	c.(2155-2157)CAG>CAT	p.Q719H	EPB41L3_uc010wzh.1_Missense_Mutation_p.Q550H|EPB41L3_uc002kmu.1_Intron|EPB41L3_uc010dkq.1_Intron|EPB41L3_uc002kms.1_Intron|EPB41L3_uc010wze.1_Intron|EPB41L3_uc010wzf.1_Intron|EPB41L3_uc010wzg.1_Intron|EPB41L3_uc010dkr.2_Missense_Mutation_p.Q111H	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	719	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5																		---	---	---	---
TMEM200C	645369	broad.mit.edu	37	18	5892007	5892007	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:5892007C>T	uc002kmx.1	-	1	97	c.56G>A	c.(55-57)CGC>CAC	p.R19H		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	19						integral to membrane					0																		---	---	---	---
LAMA1	284217	broad.mit.edu	37	18	6964747	6964747	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6964747G>A	uc002knm.2	-	51	7345	c.7251C>T	c.(7249-7251)GGC>GGT	p.G2417G	LAMA1_uc002knl.2_5'UTR|LAMA1_uc010wzj.1_Silent_p.G1893G	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2417	Laminin G-like 2.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
LAMA1	284217	broad.mit.edu	37	18	7046313	7046313	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7046313G>A	uc002knm.2	-	6	916	c.822C>T	c.(820-822)GGC>GGT	p.G274G	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	274	Laminin EGF-like 1.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
PTPRM	5797	broad.mit.edu	37	18	8343455	8343455	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:8343455G>A	uc002knn.3	+	21	3455	c.2952G>A	c.(2950-2952)AGG>AGA	p.R984R	PTPRM_uc010dkv.2_Silent_p.R997R|PTPRM_uc010wzl.1_Silent_p.R771R	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	984	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)																---	---	---	---
KIAA0802	23255	broad.mit.edu	37	18	8720396	8720396	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:8720396G>A	uc002knr.2	+	4	401	c.259G>A	c.(259-261)GCT>ACT	p.A87T	KIAA0802_uc002knq.2_Missense_Mutation_p.A87T	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	438	Potential.										0																		---	---	---	---
TXNDC2	84203	broad.mit.edu	37	18	9886245	9886245	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:9886245G>A	uc002koi.3	+	1	523	c.74G>A	c.(73-75)GGC>GAC	p.G25D	TXNDC2_uc010wzq.1_Intron|TXNDC2_uc002koh.3_Intron	NM_001098529	NP_001091999	Q86VQ3	TXND2_HUMAN	thioredoxin domain-containing 2 isoform 2	25					cell differentiation|cell redox homeostasis|glycerol ether metabolic process|multicellular organismal development|spermatogenesis	cytoplasm	electron carrier activity|nutrient reservoir activity|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity			ovary(1)|pancreas(1)	2																		---	---	---	---
MPPE1	65258	broad.mit.edu	37	18	11884615	11884615	+	Silent	SNP	C	T	T	rs146567173		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11884615C>T	uc002kqf.2	-	11	1661	c.1020G>A	c.(1018-1020)ACG>ACA	p.T340T	MPPE1_uc002kqn.2_Silent_p.T277T|MPPE1_uc002kqg.2_RNA|MPPE1_uc002kqh.2_RNA|MPPE1_uc002kqi.2_RNA|MPPE1_uc002kqj.2_Silent_p.T341T|MPPE1_uc002kqk.2_Silent_p.T318T|MPPE1_uc002kql.2_Silent_p.T341T|MPPE1_uc002kqm.2_Silent_p.T277T	NM_023075	NP_075563	Q53F39	MPPE1_HUMAN	metallophosphoesterase 1 precursor	340					ER to Golgi vesicle-mediated transport|GPI anchor biosynthetic process	cis-Golgi network|endoplasmic reticulum exit site|ER-Golgi intermediate compartment membrane|integral to membrane	GPI anchor binding|manganese ion binding|phosphoric diester hydrolase activity				0																		---	---	---	---
PTPN2	5771	broad.mit.edu	37	18	12817195	12817195	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:12817195C>T	uc002krp.2	-	6	859	c.665G>A	c.(664-666)CGC>CAC	p.R222H	PTPN2_uc002krl.2_Missense_Mutation_p.R222H|PTPN2_uc002krn.2_Missense_Mutation_p.R245H|PTPN2_uc002kro.2_Missense_Mutation_p.R222H|PTPN2_uc002krm.2_Missense_Mutation_p.R222H	NM_002828	NP_002819	P17706	PTN2_HUMAN	protein tyrosine phosphatase, non-receptor type	222	Tyrosine-protein phosphatase.|Substrate binding (By similarity).				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway	endoplasmic reticulum|nucleoplasm	protein binding			skin(2)	2		Lung NSC(161;8.94e-06)																---	---	---	---
MC5R	4161	broad.mit.edu	37	18	13826231	13826231	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13826231C>T	uc010xaf.1	+	1	467	c.467C>T	c.(466-468)GCG>GTG	p.A156V		NM_005913	NP_005904	P33032	MC5R_HUMAN	melanocortin 5 receptor	156	Helical; Name=4; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocortin receptor activity|protein binding			ovary(3)|lung(2)|breast(1)	6																		---	---	---	---
ZNF519	162655	broad.mit.edu	37	18	14124358	14124358	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:14124358C>T	uc002kst.1	-	2	274	c.121G>A	c.(121-123)GTC>ATC	p.V41I	ZNF519_uc002ksq.1_RNA|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_RNA	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	41	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
ROCK1	6093	broad.mit.edu	37	18	18622132	18622132	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:18622132A>T	uc002kte.2	-	8	1826	c.885T>A	c.(883-885)AAT>AAA	p.N295K		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	295	Protein kinase.				actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)																	---	---	---	---
SNRPD1	6632	broad.mit.edu	37	18	19209061	19209061	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19209061C>T	uc002ktj.1	+	4	453	c.322C>T	c.(322-324)CGT>TGT	p.R108C		NM_006938	NP_008869	P62314	SMD1_HUMAN	small nuclear ribonucleoprotein D1 polypeptide	108	Arg/Lys-rich (basic).				ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding|RNA binding				0																		---	---	---	---
NPC1	4864	broad.mit.edu	37	18	21140277	21140277	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21140277C>T	uc002kum.3	-	6	1073	c.799G>A	c.(799-801)GCC>ACC	p.A267T	NPC1_uc010xaz.1_Missense_Mutation_p.A51T|NPC1_uc010xba.1_Missense_Mutation_p.A112T	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	267					autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)																	---	---	---	---
HRH4	59340	broad.mit.edu	37	18	22048786	22048786	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22048786G>A	uc002kvi.2	+	2	328	c.228G>A	c.(226-228)ACG>ACA	p.T76T	HRH4_uc010xbd.1_Intron|HRH4_uc010dlx.2_Intron	NM_021624	NP_067637	Q9H3N8	HRH4_HUMAN	histamine H4 receptor isoform 1	76	Extracellular (Potential).					integral to membrane|plasma membrane	histamine receptor activity			ovary(2)	2	all_cancers(21;0.000545)|all_epithelial(16;6.56e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)				Clozapine(DB00363)													---	---	---	---
CHST9	83539	broad.mit.edu	37	18	24497286	24497286	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:24497286A>G	uc002kwd.2	-	5	467	c.269T>C	c.(268-270)GTA>GCA	p.V90A	C18orf16_uc002kwb.2_Intron|C18orf16_uc010xbm.1_Intron|CHST9_uc002kwc.2_Missense_Mutation_p.V5A|CHST9_uc002kwe.2_Missense_Mutation_p.V90A	NM_031422	NP_113610	Q7L1S5	CHST9_HUMAN	GalNAc-4-sulfotransferase 2	90	Lumenal (Potential).				carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			ovary(2)|skin(1)	3	all_lung(6;0.0145)|Ovarian(20;0.124)																	---	---	---	---
DSC3	1825	broad.mit.edu	37	18	28602408	28602408	+	Missense_Mutation	SNP	C	T	T	rs145618008	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:28602408C>T	uc002kwj.3	-	7	991	c.836G>A	c.(835-837)CGC>CAC	p.R279H	DSC3_uc002kwi.3_Missense_Mutation_p.R279H	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	279	Extracellular (Potential).|Cadherin 2.				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)															---	---	---	---
DSC2	1824	broad.mit.edu	37	18	28662238	28662238	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:28662238G>A	uc002kwl.3	-	9	1683	c.1229C>T	c.(1228-1230)GCC>GTC	p.A410V	DSC2_uc002kwk.3_Missense_Mutation_p.A410V	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	410	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)															---	---	---	---
DSC2	1824	broad.mit.edu	37	18	28671070	28671070	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:28671070C>T	uc002kwl.3	-	4	849	c.395G>A	c.(394-396)CGC>CAC	p.R132H	DSC2_uc002kwk.3_Missense_Mutation_p.R132H	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	132					homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)															---	---	---	---
DSC1	1823	broad.mit.edu	37	18	28714691	28714691	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:28714691C>T	uc002kwn.2	-	12	1982	c.1720G>A	c.(1720-1722)GCA>ACA	p.A574T	DSC1_uc002kwm.2_Missense_Mutation_p.A574T	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	574	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)															---	---	---	---
DSG3	1830	broad.mit.edu	37	18	29049154	29049154	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29049154G>A	uc002kws.2	+	12	1848	c.1739G>A	c.(1738-1740)CGC>CAC	p.R580H		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	580	Extracellular (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)															---	---	---	---
DSG2	1829	broad.mit.edu	37	18	29125953	29125953	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29125953T>C	uc002kwu.3	+	15	2792	c.2604T>C	c.(2602-2604)CAT>CAC	p.H868H	uc002kwv.3_Intron	NM_001943	NP_001934	Q14126	DSG2_HUMAN	desmoglein 2 preproprotein	868	Cytoplasmic (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(2)|breast(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.0068)															---	---	---	---
KIAA1012	22878	broad.mit.edu	37	18	29412060	29412060	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29412060G>A	uc002kxc.3	-	28	4424	c.4060C>T	c.(4060-4062)CAT>TAT	p.H1354Y	KIAA1012_uc002kxb.3_Missense_Mutation_p.H1300Y|KIAA1012_uc002kxd.3_RNA	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	1354					ER to Golgi vesicle-mediated transport	cis-Golgi network					0																		---	---	---	---
KLHL14	57565	broad.mit.edu	37	18	30321990	30321990	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30321990G>A	uc002kxm.1	-	3	1358	c.970C>T	c.(970-972)CTG>TTG	p.L324L	KLHL14_uc010dmd.1_5'UTR	NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	324	Kelch 1.					cytosol|endoplasmic reticulum membrane				ovary(1)	1																		---	---	---	---
NOL4	8715	broad.mit.edu	37	18	31709979	31709979	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:31709979G>A	uc010dmi.2	-	2	499	c.270C>T	c.(268-270)GGC>GGT	p.G90G	NOL4_uc002kxr.3_5'UTR|NOL4_uc010xbt.1_Silent_p.G16G|NOL4_uc010dmh.2_Silent_p.G16G|NOL4_uc010xbu.1_Silent_p.G90G|NOL4_uc002kxt.3_Silent_p.G90G|NOL4_uc010xbw.1_5'UTR	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	90						nucleolus	RNA binding			ovary(3)	3																		---	---	---	---
GALNT1	2589	broad.mit.edu	37	18	33263470	33263470	+	Silent	SNP	G	A	A	rs144666262		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33263470G>A	uc010dmu.2	+	5	650	c.597G>A	c.(595-597)GTG>GTA	p.V199V	GALNT1_uc002kyz.3_Silent_p.V139V|GALNT1_uc002kzb.2_Silent_p.V199V	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	199	Lumenal (Potential).|Catalytic subdomain A.				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2																		---	---	---	---
MOCOS	55034	broad.mit.edu	37	18	33785068	33785068	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33785068C>A	uc002kzq.3	+	6	1070	c.1047C>A	c.(1045-1047)ACC>ACA	p.T349T		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	349					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)													---	---	---	---
MOCOS	55034	broad.mit.edu	37	18	33846728	33846728	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33846728A>G	uc002kzq.3	+	14	2449	c.2426A>G	c.(2425-2427)CAC>CGC	p.H809R		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	809	MOSC.				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)													---	---	---	---
FHOD3	80206	broad.mit.edu	37	18	34310720	34310720	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34310720G>A	uc002kzt.1	+	16	3050	c.2953G>A	c.(2953-2955)GCC>ACC	p.A985T	FHOD3_uc002kzs.1_Missense_Mutation_p.A1002T|FHOD3_uc010dmz.1_Missense_Mutation_p.A717T|FHOD3_uc010dnb.1_5'UTR	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	985	FH2.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)																---	---	---	---
FHOD3	80206	broad.mit.edu	37	18	34349305	34349305	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34349305C>T	uc002kzt.1	+	23	4199	c.4102C>T	c.(4102-4104)CGC>TGC	p.R1368C	FHOD3_uc002kzs.1_Missense_Mutation_p.R1385C|FHOD3_uc010dmz.1_Missense_Mutation_p.R1100C|FHOD3_uc010dnb.1_Silent_p.T305T	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	1368	DAD.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)																---	---	---	---
KIAA1328	57536	broad.mit.edu	37	18	34752963	34752963	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34752963C>T	uc002kzz.2	+	9	1464	c.1442C>T	c.(1441-1443)GCG>GTG	p.A481V	KIAA1328_uc002lab.2_Missense_Mutation_p.A233V|KIAA1328_uc002lac.1_Missense_Mutation_p.A340V|KIAA1328_uc010dnc.1_RNA	NM_020776	NP_065827	Q86T90	K1328_HUMAN	hypothetical protein LOC57536	481										central_nervous_system(1)	1				COAD - Colon adenocarcinoma(74;0.195)														---	---	---	---
CELF4	56853	broad.mit.edu	37	18	34854311	34854311	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:34854311G>A	uc002lae.2	-	6	1160	c.764C>T	c.(763-765)GCC>GTC	p.A255V	CELF4_uc010dnd.1_Missense_Mutation_p.A254V|CELF4_uc002lag.2_Missense_Mutation_p.A245V|CELF4_uc002laf.2_Missense_Mutation_p.A250V|CELF4_uc002lai.2_Missense_Mutation_p.A240V|CELF4_uc002lah.1_5'Flank|CELF4_uc002laj.1_Silent_p.G90G	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	255	Sufficient for RNA-binding and MSE- dependent splicing activity.|Necessary for TNNT2 exon 5 inclusion.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2																		---	---	---	---
PIK3C3	5289	broad.mit.edu	37	18	39575890	39575890	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:39575890C>T	uc002lap.2	+	8	881	c.823C>T	c.(823-825)CGG>TGG	p.R275W	PIK3C3_uc010xcl.1_Missense_Mutation_p.R212W	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	275					cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10															TSP Lung(28;0.18)			---	---	---	---
SETBP1	26040	broad.mit.edu	37	18	42531132	42531132	+	Silent	SNP	C	T	T	rs140403091		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:42531132C>T	uc010dni.2	+	4	2123	c.1827C>T	c.(1825-1827)CCC>CCT	p.P609P		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	609						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)										Schinzel-Giedion_syndrome				---	---	---	---
SLC14A2	8170	broad.mit.edu	37	18	43204637	43204637	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43204637A>G	uc010dnj.2	+	3	329	c.8A>G	c.(7-9)GAC>GGC	p.D3G	SLC14A2_uc002lbb.2_Missense_Mutation_p.D3G|SLC14A2_uc002lbe.2_Missense_Mutation_p.D3G	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	3						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4																		---	---	---	---
SLC14A1	6563	broad.mit.edu	37	18	43310355	43310355	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43310355C>T	uc010xcn.1	+	4	389	c.70C>T	c.(70-72)CCA>TCA	p.P24S	SLC14A1_uc010dnk.2_Missense_Mutation_p.P80S|SLC14A1_uc002lbf.3_Missense_Mutation_p.P24S|SLC14A1_uc002lbg.3_RNA|SLC14A1_uc010xco.1_Intron|SLC14A1_uc002lbh.3_Intron|SLC14A1_uc002lbi.3_Intron|SLC14A1_uc002lbj.3_Missense_Mutation_p.P80S|SLC14A1_uc002lbk.3_Missense_Mutation_p.P24S	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	24						integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2																		---	---	---	---
KIAA1632	57724	broad.mit.edu	37	18	43481010	43481010	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43481010C>T	uc002lbm.2	-	26	4697	c.4597G>A	c.(4597-4599)GCC>ACC	p.A1533T	KIAA1632_uc010xcq.1_Missense_Mutation_p.A87T|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.A408T	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1533					autophagy						0																		---	---	---	---
KATNAL2	83473	broad.mit.edu	37	18	44579417	44579417	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44579417G>T	uc002lco.2	+	2	267	c.73G>T	c.(73-75)GCA>TCA	p.A25S	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lcp.3_Intron	NM_031303	NP_112593	Q8IYT4	KATL2_HUMAN	katanin p60 subunit A-like 2	97						cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4																		---	---	---	---
SMAD2	4087	broad.mit.edu	37	18	45375067	45375067	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:45375067G>A	uc002lcy.2	-						SMAD2_uc002lcz.2_Intron|SMAD2_uc010xdc.1_Intron|SMAD2_uc010xdd.1_Intron	NM_005901	NP_005892			Sma- and Mad-related protein 2 isoform 1						anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			large_intestine(3)|lung(1)|central_nervous_system(1)	5																		---	---	---	---
SMAD2	4087	broad.mit.edu	37	18	45375068	45375068	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:45375068A>G	uc002lcy.2	-						SMAD2_uc002lcz.2_Intron|SMAD2_uc010xdc.1_Intron|SMAD2_uc010xdd.1_Intron	NM_005901	NP_005892			Sma- and Mad-related protein 2 isoform 1						anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			large_intestine(3)|lung(1)|central_nervous_system(1)	5																		---	---	---	---
ACAA2	10449	broad.mit.edu	37	18	47329200	47329200	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47329200G>A	uc002ldw.3	-	2	437	c.40C>T	c.(40-42)CGA>TGA	p.R14*	ACAA2_uc002ldx.3_Nonsense_Mutation_p.R11*	NM_006111	NP_006102	P42765	THIM_HUMAN	acetyl-coenzyme A acyltransferase 2	14					anti-apoptosis|cholesterol biosynthetic process		acetyl-CoA C-acyltransferase activity|protein binding			ovary(1)	1																		---	---	---	---
MYO5B	4645	broad.mit.edu	37	18	47566549	47566549	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47566549G>A	uc002leb.2	-	3	562	c.274C>T	c.(274-276)CGT>TGT	p.R92C	MYO5B_uc002lec.1_Missense_Mutation_p.R91C	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	92	Myosin head-like.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)														---	---	---	---
ME2	4200	broad.mit.edu	37	18	48458685	48458685	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48458685C>T	uc002ley.2	+	13	1628	c.1372C>T	c.(1372-1374)CGA>TGA	p.R458*	ME2_uc010dpd.2_Nonsense_Mutation_p.R458*	NM_002396	NP_002387	P23368	MAOM_HUMAN	malic enzyme 2, NAD(+)-dependent, mitochondrial	458					malate metabolic process	mitochondrial matrix	electron carrier activity|malate dehydrogenase (decarboxylating) activity|malate dehydrogenase (oxaloacetate-decarboxylating) activity|metal ion binding|NAD binding				0		Colorectal(6;0.0273)|all_epithelial(6;0.118)		Colorectal(21;0.0313)|READ - Rectum adenocarcinoma(32;0.105)|STAD - Stomach adenocarcinoma(97;0.184)	NADH(DB00157)													---	---	---	---
SMAD4	4089	broad.mit.edu	37	18	48593465	48593465	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48593465G>A	uc010xdp.1	+	10	1754	c.1216G>A	c.(1216-1218)GCG>ACG	p.A406T	SMAD4_uc002lfb.3_Missense_Mutation_p.A251T	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	406	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)|p.A406T(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)										Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				---	---	---	---
DCC	1630	broad.mit.edu	37	18	50923715	50923715	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:50923715G>A	uc002lfe.1	+	18	3313	c.2726G>A	c.(2725-2727)GGC>GAC	p.G909D	DCC_uc010xdr.1_Missense_Mutation_p.G737D|DCC_uc010dpf.1_Missense_Mutation_p.G544D	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	909	Extracellular (Potential).|Fibronectin type-III 5.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)														---	---	---	---
MBD2	8932	broad.mit.edu	37	18	51691025	51691025	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:51691025G>A	uc002lfg.1	-	5	1206	c.977C>T	c.(976-978)GCC>GTC	p.A326V		NM_003927	NP_003918	Q9UBB5	MBD2_HUMAN	methyl-CpG binding domain protein 2 isoform 1	326					transcription, DNA-dependent		C2H2 zinc finger domain binding|methyl-CpG binding|satellite DNA binding				0				Colorectal(16;0.0212)|READ - Rectum adenocarcinoma(32;0.188)	Hexobarbital(DB01355)													---	---	---	---
C18orf26	284254	broad.mit.edu	37	18	52262274	52262274	+	Silent	SNP	C	T	T	rs139420428	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:52262274C>T	uc002lfq.1	+	2	286	c.240C>T	c.(238-240)TGC>TGT	p.C80C	C18orf26_uc002lfp.1_Intron	NM_173629	NP_775900	Q8N1N2	CR026_HUMAN	hypothetical protein LOC284254	80						integral to membrane					0				Colorectal(16;0.0193)|READ - Rectum adenocarcinoma(59;0.178)														---	---	---	---
CCDC68	80323	broad.mit.edu	37	18	52609944	52609944	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:52609944A>G	uc002lfs.2	-	3	251	c.79T>C	c.(79-81)TCC>CCC	p.S27P	CCDC68_uc002lft.2_Missense_Mutation_p.S27P	NM_001143829	NP_001137301	Q9H2F9	CCD68_HUMAN	coiled-coil domain containing 68	27										skin(1)	1				Colorectal(16;0.0256)|READ - Rectum adenocarcinoma(59;0.21)														---	---	---	---
TCF4	6925	broad.mit.edu	37	18	52946880	52946880	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:52946880G>A	uc002lfz.2	-	9	1169	c.557C>T	c.(556-558)GCT>GTT	p.A186V	TCF4_uc002lfw.3_Missense_Mutation_p.A26V|TCF4_uc010xdu.1_Missense_Mutation_p.A56V|TCF4_uc010xdv.1_Missense_Mutation_p.A56V|TCF4_uc002lfx.2_Missense_Mutation_p.A115V|TCF4_uc010xdw.1_Missense_Mutation_p.A56V|TCF4_uc002lfy.2_Missense_Mutation_p.A144V|TCF4_uc010xdx.1_Missense_Mutation_p.A162V|TCF4_uc010dph.1_Missense_Mutation_p.A186V|TCF4_uc010xdy.1_Missense_Mutation_p.A162V|TCF4_uc002lga.2_Missense_Mutation_p.A288V|TCF4_uc002lgb.1_Missense_Mutation_p.A26V|TCF4_uc010dpi.2_Missense_Mutation_p.A192V|TCF4_uc002lgc.3_Missense_Mutation_p.A107V|TCF4_uc002lfv.2_5'UTR	NM_003199	NP_003190	P15884	ITF2_HUMAN	transcription factor 4 isoform b	186					positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|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|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)														---	---	---	---
WDR7	23335	broad.mit.edu	37	18	54603142	54603142	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:54603142C>T	uc002lgk.1	+						WDR7_uc002lgl.1_Intron	NM_015285	NP_056100			rabconnectin-3 beta isoform 1											ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)														---	---	---	---
ST8SIA3	51046	broad.mit.edu	37	18	55020138	55020138	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55020138G>A	uc002lgn.2	+	1	418	c.61G>A	c.(61-63)GCC>ACC	p.A21T		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	21	Helical; Signal-anchor for type II membrane protein; (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)														---	---	---	---
FECH	2235	broad.mit.edu	37	18	55218072	55218072	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55218072C>T	uc002lgq.3	-	11	1261	c.1144G>A	c.(1144-1146)GCC>ACC	p.A382T	FECH_uc002lgp.3_Missense_Mutation_p.A388T|FECH_uc002lgr.3_Missense_Mutation_p.A240T	NM_000140	NP_000131	P22830	HEMH_HUMAN	ferrochelatase isoform b precursor	382					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)																---	---	---	---
ALPK2	115701	broad.mit.edu	37	18	56205101	56205101	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56205101G>A	uc002lhj.3	-	5	2532	c.2318C>T	c.(2317-2319)GCT>GTT	p.A773V	ALPK2_uc002lhk.1_Missense_Mutation_p.A104V	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	773							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14																		---	---	---	---
MALT1	10892	broad.mit.edu	37	18	56412961	56412961	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56412961G>A	uc002lhm.1	+	16	2233	c.1975G>A	c.(1975-1977)GTA>ATA	p.V659I	MALT1_uc002lhn.1_Missense_Mutation_p.V648I	NM_006785	NP_006776	Q9UDY8	MALT1_HUMAN	mucosa associated lymphoid tissue lymphoma	659					activation of NF-kappaB-inducing kinase activity|anti-apoptosis|nuclear export|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of protein ubiquitination|positive regulation of T cell cytokine production|protein oligomerization|proteolysis|T cell receptor signaling pathway	CBM complex|cytosol|nucleus|perinuclear region of cytoplasm	cysteine-type endopeptidase activity|protein self-association|signal transducer activity|ubiquitin-protein ligase activity			ovary(2)|lung(1)|central_nervous_system(1)	4								T	BIRC3	MALT								---	---	---	---
ZNF532	55205	broad.mit.edu	37	18	56587202	56587202	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56587202G>A	uc002lho.2	+	4	2230	c.1683G>A	c.(1681-1683)TCG>TCA	p.S561S	ZNF532_uc002lhp.2_Silent_p.S559S|ZNF532_uc010xeg.1_Silent_p.S559S|ZNF532_uc002lhr.2_Silent_p.S559S|ZNF532_uc002lhs.2_Silent_p.S559S	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	561					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2																		---	---	---	---
MC4R	4160	broad.mit.edu	37	18	58038852	58038852	+	Missense_Mutation	SNP	G	A	A	rs13447335		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:58038852G>A	uc002lie.1	-	1	1150	c.731C>T	c.(730-732)GCG>GTG	p.A244V		NM_005912	NP_005903	P32245	MC4R_HUMAN	melanocortin 4 receptor	244	Cytoplasmic (Potential).				feeding behavior|G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of bone resorption|positive regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|ubiquitin protein ligase binding			lung(1)	1		Colorectal(73;0.0946)																---	---	---	---
CDH20	28316	broad.mit.edu	37	18	59195390	59195390	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:59195390C>T	uc010dps.1	+	6	1220	c.1208C>T	c.(1207-1209)GCG>GTG	p.A403V	CDH20_uc002lif.2_Missense_Mutation_p.A397V	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	403	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)																---	---	---	---
CDH20	28316	broad.mit.edu	37	18	59221532	59221532	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:59221532C>T	uc010dps.1	+	11	2022	c.2010C>T	c.(2008-2010)GGC>GGT	p.G670G	CDH20_uc002lif.2_Silent_p.G664G	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	670	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)																---	---	---	---
TNFRSF11A	8792	broad.mit.edu	37	18	60036437	60036437	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:60036437C>T	uc002lin.2	+	9	1325	c.1287C>T	c.(1285-1287)GGC>GGT	p.G429G	TNFRSF11A_uc010dpv.2_Intron	NM_003839	NP_003830	Q9Y6Q6	TNR11_HUMAN	tumor necrosis factor receptor superfamily,	429	Cytoplasmic (Potential).				adaptive immune response|cell-cell signaling|circadian temperature homeostasis|monocyte chemotaxis|osteoclast differentiation|positive regulation of cell proliferation|positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling|positive regulation of fever generation by positive regulation of prostaglandin secretion|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|response to interleukin-1|response to lipopolysaccharide	external side of plasma membrane|integral to membrane	metal ion binding|tumor necrosis factor receptor activity			breast(2)|lung(1)	3		Colorectal(73;0.188)												Paget_Disease_of_Bone				---	---	---	---
SERPINB2	5055	broad.mit.edu	37	18	61569049	61569049	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61569049T>G	uc010xeu.1	+	7	944	c.611T>G	c.(610-612)TTC>TGC	p.F204C	SERPINB2_uc002ljo.2_Missense_Mutation_p.F204C|SERPINB2_uc010dqh.2_Missense_Mutation_p.F134C|SERPINB2_uc002ljp.1_Missense_Mutation_p.F9C|SERPINB2_uc002ljq.1_Missense_Mutation_p.F9C	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	204					anti-apoptosis|blood coagulation|fibrinolysis|regulation of proteolysis	extracellular space|Golgi apparatus|plasma membrane	serine-type endopeptidase inhibitor activity			lung(1)|skin(1)	2		Esophageal squamous(42;0.131)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)													---	---	---	---
CDH7	1005	broad.mit.edu	37	18	63477140	63477140	+	Silent	SNP	G	A	A	rs140174290		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:63477140G>A	uc002ljz.2	+	3	736	c.411G>A	c.(409-411)TCG>TCA	p.S137S	CDH7_uc002lka.2_Silent_p.S137S|CDH7_uc002lkb.2_Silent_p.S137S	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	137	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)																---	---	---	---
CCDC102B	79839	broad.mit.edu	37	18	66513554	66513554	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:66513554C>T	uc002lkk.2	+	6	1055	c.832C>T	c.(832-834)CGC>TGC	p.R278C	CCDC102B_uc002lki.2_Missense_Mutation_p.R278C|CCDC102B_uc002lkj.1_Missense_Mutation_p.R278C	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B	278	Potential.									ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)																---	---	---	---
RTTN	25914	broad.mit.edu	37	18	67727254	67727254	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67727254C>T	uc002lkp.2	-	36	4840	c.4772G>A	c.(4771-4773)CGG>CAG	p.R1591Q	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.R679Q|RTTN_uc010dqp.2_5'UTR	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1591							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)																---	---	---	---
RTTN	25914	broad.mit.edu	37	18	67860572	67860572	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67860572C>T	uc002lkp.2	-	8	1027	c.959G>A	c.(958-960)GGC>GAC	p.G320D	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR|RTTN_uc002lkq.1_Missense_Mutation_p.G320D	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	320							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)																---	---	---	---
Unknown	0	broad.mit.edu	37	18	71442076	71442076	+	IGR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71442076G>A								NETO1 (907266 upstream) : FBXO15 (298512 downstream)																																			---	---	---	---
CNDP2	55748	broad.mit.edu	37	18	72173240	72173240	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72173240C>T	uc002llm.1	+	4	523	c.361C>T	c.(361-363)CGA>TGA	p.R121*	CNDP2_uc002lln.1_Intron|CNDP2_uc002llo.2_Nonsense_Mutation_p.R121*|CNDP2_uc002llp.1_5'Flank	NM_018235	NP_060705	Q96KP4	CNDP2_HUMAN	CNDP dipeptidase 2	121						cytoplasm	carboxypeptidase activity|metal ion binding|metallopeptidase activity|protein binding|tripeptidase activity			ovary(2)|skin(1)	3		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.22)														---	---	---	---
TSHZ1	10194	broad.mit.edu	37	18	72999217	72999217	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72999217G>A	uc002lly.2	+	2	2283	c.1720G>A	c.(1720-1722)GCC>ACC	p.A574T		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	619						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)														---	---	---	---
TSHZ1	10194	broad.mit.edu	37	18	72999371	72999371	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72999371C>T	uc002lly.2	+	2	2437	c.1874C>T	c.(1873-1875)GCG>GTG	p.A625V		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	670						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)														---	---	---	---
TSHZ1	10194	broad.mit.edu	37	18	72999579	72999579	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72999579G>A	uc002lly.2	+	2	2645	c.2082G>A	c.(2080-2082)GAG>GAA	p.E694E		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	739						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)														---	---	---	---
TSHZ1	10194	broad.mit.edu	37	18	72999867	72999867	+	Silent	SNP	C	T	T	rs142726083		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72999867C>T	uc002lly.2	+	2	2933	c.2370C>T	c.(2368-2370)AGC>AGT	p.S790S		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	835						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)														---	---	---	---
ZNF516	9658	broad.mit.edu	37	18	74154862	74154862	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74154862G>A	uc010dqx.1	-	2	384	c.149C>T	c.(148-150)TCG>TTG	p.S50L	ZNF516_uc002lme.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	50	C2H2-type 1.				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)														---	---	---	---
ZNF236	7776	broad.mit.edu	37	18	74593430	74593430	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74593430A>G	uc002lmi.2	+	9	1571	c.1373A>G	c.(1372-1374)GAA>GGA	p.E458G	ZNF236_uc002lmj.2_RNA|ZNF236_uc002lmk.1_Missense_Mutation_p.E458G	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	458					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)														---	---	---	---
ZNF236	7776	broad.mit.edu	37	18	74672821	74672821	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74672821C>T	uc002lmi.2	+						ZNF236_uc002lmj.2_Intron	NM_007345	NP_031371			zinc finger protein 236						cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)														---	---	---	---
ATP9B	374868	broad.mit.edu	37	18	77037168	77037168	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77037168C>T	uc002lmx.2	+	13	1397	c.1383C>T	c.(1381-1383)CGC>CGT	p.R461R	ATP9B_uc002lmv.1_RNA|ATP9B_uc002lmw.1_Silent_p.R461R|ATP9B_uc002lmy.1_RNA|ATP9B_uc002lmz.1_Silent_p.R155R	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	461	Cytoplasmic (Potential).				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)														---	---	---	---
ATP9B	374868	broad.mit.edu	37	18	77090061	77090061	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77090061C>T	uc002lmx.2	+	17	1999	c.1985C>T	c.(1984-1986)GCC>GTC	p.A662V	ATP9B_uc002lmw.1_Missense_Mutation_p.A662V|ATP9B_uc002lmz.1_Missense_Mutation_p.A356V	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	662	Cytoplasmic (Potential).				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)														---	---	---	---
ATP9B	374868	broad.mit.edu	37	18	77133950	77133950	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77133950C>T	uc002lmx.2	+	28	3137	c.3123C>T	c.(3121-3123)CAC>CAT	p.H1041H	ATP9B_uc002lmw.1_Silent_p.H1041H|ATP9B_uc002lna.2_Silent_p.H67H|ATP9B_uc002lnb.1_3'UTR|ATP9B_uc010drb.2_RNA	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	1041	Helical; (Potential).				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)														---	---	---	---
NFATC1	4772	broad.mit.edu	37	18	77246433	77246433	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77246433G>A	uc010xfg.1	+	9	2731	c.2278G>A	c.(2278-2280)GCG>ACG	p.A760T	NFATC1_uc002lnd.2_Missense_Mutation_p.A760T|NFATC1_uc002lne.2_Missense_Mutation_p.A288T|NFATC1_uc010xfh.1_Intron|NFATC1_uc010xfj.1_Missense_Mutation_p.A288T|NFATC1_uc002lnf.2_Missense_Mutation_p.A747T|NFATC1_uc002lng.2_Missense_Mutation_p.A747T|NFATC1_uc010xfk.1_Intron	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	760	Trans-activation domain B (TAD-B).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)														---	---	---	---
CTDP1	9150	broad.mit.edu	37	18	77474877	77474877	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77474877G>A	uc002lnh.1	+	8	1564	c.1417G>A	c.(1417-1419)GCC>ACC	p.A473T	CTDP1_uc002lni.1_Missense_Mutation_p.A473T|CTDP1_uc010drd.1_Missense_Mutation_p.A473T	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	473	Ser-rich.				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)														---	---	---	---
KCNG2	26251	broad.mit.edu	37	18	77659090	77659090	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77659090C>T	uc010xfl.1	+	2	675	c.675C>T	c.(673-675)TGC>TGT	p.C225C		NM_012283	NP_036415	Q9UJ96	KCNG2_HUMAN	potassium voltage-gated channel, subfamily G,	225	Helical; Name=Segment S2; (Potential).				energy reserve metabolic process|regulation of heart contraction|regulation of insulin secretion	voltage-gated potassium channel complex	delayed rectifier potassium channel activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;6.92e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0244)														---	---	---	---
PQLC1	80148	broad.mit.edu	37	18	77703340	77703340	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77703340C>T	uc002lnl.2	-	3	498	c.326G>A	c.(325-327)CGC>CAC	p.R109H	PQLC1_uc010dre.2_Missense_Mutation_p.R26H|PQLC1_uc002lnk.2_Missense_Mutation_p.R109H|PQLC1_uc010xfm.1_Missense_Mutation_p.R109H	NM_025078	NP_079354	Q8N2U9	PQLC1_HUMAN	PQ loop repeat containing 1 isoform 1	109						integral to membrane				large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0212)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;8.2e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0258)														---	---	---	---
ADNP2	22850	broad.mit.edu	37	18	77894583	77894583	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77894583C>T	uc002lnw.2	+	4	1742	c.1287C>T	c.(1285-1287)GTC>GTT	p.V429V		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	429					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)														---	---	---	---
ADNP2	22850	broad.mit.edu	37	18	77896106	77896106	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77896106G>A	uc002lnw.2	+	4	3265	c.2810G>A	c.(2809-2811)CGC>CAC	p.R937H		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	937					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)														---	---	---	---
PPAP2C	8612	broad.mit.edu	37	19	282274	282274	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:282274G>A	uc002loi.2	-	5	676	c.577C>T	c.(577-579)CGG>TGG	p.R193W	PPAP2C_uc002loh.2_Missense_Mutation_p.R214W|PPAP2C_uc002loj.2_Missense_Mutation_p.R137W	NM_003712	NP_003703	O43688	LPP2_HUMAN	phosphatidic acid phosphatase type 2C isoform 1	193					sphingolipid metabolic process	integral to membrane|plasma membrane	phosphatidate phosphatase activity|phosphoprotein phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)	1		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)														---	---	---	---
MIER2	54531	broad.mit.edu	37	19	312230	312230	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:312230C>T	uc002lok.1	-	9	859	c.850G>A	c.(850-852)GCC>ACC	p.A284T		NM_017550	NP_060020	Q8N344	MIER2_HUMAN	mesoderm induction early response 1, family	284	ELM2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		all_cancers(10;1.05e-30)|all_epithelial(18;3.04e-19)|Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;2.49e-05)|all_lung(49;4.36e-05)|Breast(49;0.000304)		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)														---	---	---	---
POLRMT	5442	broad.mit.edu	37	19	619582	619582	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:619582G>A	uc002lpf.1	-							NM_005035	NP_005026			mitochondrial DNA-directed RNA polymerase						transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-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)														---	---	---	---
C19orf21	126353	broad.mit.edu	37	19	757730	757730	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:757730C>T	uc002lpo.2	+	2	867	c.784C>T	c.(784-786)CGT>TGT	p.R262C		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	262										upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		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)														---	---	---	---
LPPR3	79948	broad.mit.edu	37	19	814918	814918	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:814918G>A	uc002lpx.1	-	5	631	c.567C>T	c.(565-567)TCC>TCT	p.S189S	LPPR3_uc010dru.1_Silent_p.S101S|LPPR3_uc002lpw.1_Silent_p.S189S|LPPR3_uc002lpy.1_5'UTR	NM_024888	NP_079164	Q6T4P5	LPPR3_HUMAN	plasticity-related protein 2	189						integral to membrane	phosphatidate phosphatase activity				0																		---	---	---	---
CFD	1675	broad.mit.edu	37	19	860951	860951	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:860951G>A	uc002lqc.2	+	3	328	c.303G>A	c.(301-303)GTG>GTA	p.V101V	CFD_uc010drv.2_Silent_p.V108V	NM_001928	NP_001919	P00746	CFAD_HUMAN	complement factor D preproprotein	101	Peptidase S1.				complement activation, alternative pathway|platelet activation|platelet degranulation|proteolysis	platelet alpha granule lumen	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;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)														---	---	---	---
GRIN3B	116444	broad.mit.edu	37	19	1005443	1005443	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1005443T>A	uc002lqo.1	+	3	1943	c.1943T>A	c.(1942-1944)CTC>CAC	p.L648H		NM_138690	NP_619635	O60391	NMD3B_HUMAN	glutamate receptor, ionotropic,	648	Cytoplasmic (Potential).				ionotropic glutamate receptor signaling pathway|protein insertion into membrane|regulation of calcium ion transport	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|ionotropic glutamate receptor activity|neurotransmitter receptor activity				0		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)	Glycine(DB00145)|L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)													---	---	---	---
HMHA1	23526	broad.mit.edu	37	19	1080047	1080047	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1080047C>T	uc002lqz.1	+	13	1864	c.1633C>T	c.(1633-1635)CGC>TGC	p.R545C	HMHA1_uc010xgd.1_Missense_Mutation_p.R561C|HMHA1_uc010xge.1_Missense_Mutation_p.R385C|HMHA1_uc002lra.1_Missense_Mutation_p.R385C|HMHA1_uc002lrb.1_Missense_Mutation_p.R428C|HMHA1_uc002lrc.1_Missense_Mutation_p.R180C|HMHA1_uc002lrd.1_5'Flank|HMHA1_uc010dsd.1_5'Flank	NM_012292	NP_036424	Q92619	HMHA1_HUMAN	minor histocompatibility antigen HA-1	545					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding			lung(1)	1		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)|STAD - Stomach adenocarcinoma(1328;0.18)														---	---	---	---
APC2	10297	broad.mit.edu	37	19	1460307	1460307	+	Silent	SNP	C	T	T	rs150932990		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1460307C>T	uc002lsr.1	+	11	1639	c.1431C>T	c.(1429-1431)GAC>GAT	p.D477D	APC2_uc002lss.1_Silent_p.D59D|APC2_uc002lst.1_Silent_p.D477D|APC2_uc002lsu.1_Silent_p.D476D|uc002lsv.2_5'Flank	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	477					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)														---	---	---	---
AP3D1	8943	broad.mit.edu	37	19	2114816	2114816	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2114816G>A	uc002luz.2	-	21	2577	c.2354C>T	c.(2353-2355)GCT>GTT	p.A785V	AP3D1_uc002luy.2_Missense_Mutation_p.A694V|AP3D1_uc002lva.2_Missense_Mutation_p.A785V	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	785					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		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)														---	---	---	---
AP3D1	8943	broad.mit.edu	37	19	2115209	2115209	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2115209G>A	uc002luz.2	-						AP3D1_uc002luy.2_Intron|AP3D1_uc002lva.2_Intron	NM_003938	NP_003929			adaptor-related protein complex 3, delta 1						eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		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)														---	---	---	---
DOT1L	84444	broad.mit.edu	37	19	2211140	2211140	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2211140C>T	uc002lvb.3	+	15	1430	c.1394C>T	c.(1393-1395)CCG>CTG	p.P465L	DOT1L_uc002lvc.1_5'UTR	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	465				RSPHSPFYQLPPSV -> TLRTPSGSPRRTKL (in Ref. 3).		nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		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)														---	---	---	---
ZNF554	115196	broad.mit.edu	37	19	2834253	2834253	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2834253C>T	uc002lwm.2	+	5	1218	c.1020C>T	c.(1018-1020)AGC>AGT	p.S340S	ZNF554_uc002lwl.2_Silent_p.S289S	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	340	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		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)														---	---	---	---
ZNF555	148254	broad.mit.edu	37	19	2852711	2852711	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2852711T>A	uc002lwo.2	+	4	737	c.648T>A	c.(646-648)AAT>AAA	p.N216K	ZNF555_uc002lwn.3_Missense_Mutation_p.N215K	NM_152791	NP_690004	Q8NEP9	ZN555_HUMAN	zinc finger protein 555	216	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)														---	---	---	---
ZNF555	148254	broad.mit.edu	37	19	2852932	2852932	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2852932C>T	uc002lwo.2	+	4	958	c.869C>T	c.(868-870)GCG>GTG	p.A290V	ZNF555_uc002lwn.3_Missense_Mutation_p.A289V	NM_152791	NP_690004	Q8NEP9	ZN555_HUMAN	zinc finger protein 555	290	C2H2-type 5.				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)														---	---	---	---
AES	166	broad.mit.edu	37	19	3057671	3057671	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3057671C>T	uc002lwy.1	-						AES_uc002lwx.1_5'Flank|AES_uc002lwz.1_Intron|AES_uc002lxa.1_Intron|AES_uc002lxb.1_Intron|AES_uc002lxc.2_Intron	NM_001130	NP_001121			amino-terminal enhancer of split isoform b						negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of response to cytokine stimulus|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|response to interleukin-1|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0		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)														---	---	---	---
GNA11	2767	broad.mit.edu	37	19	3115076	3115076	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3115076G>A	uc002lxd.2	+							NM_002067	NP_002058			guanine nucleotide binding protein (G protein),						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								---	---	---	---
DOHH	83475	broad.mit.edu	37	19	3496805	3496805	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3496805G>A	uc002lxs.2	-	2	171	c.8C>T	c.(7-9)ACG>ATG	p.T3M	DOHH_uc010xhl.1_Missense_Mutation_p.T3M	NM_031304	NP_112594	Q9BU89	DOHH_HUMAN	deoxyhypusine hydroxylase/monooxygenase	3					peptidyl-lysine modification to hypusine|post-translational protein modification	cytosol	deoxyhypusine monooxygenase activity|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)														---	---	---	---
FZR1	51343	broad.mit.edu	37	19	3523019	3523019	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3523019G>A	uc010dtk.2	+	1	66	c.32G>A	c.(31-33)CGC>CAC	p.R11H	FZR1_uc002lxt.2_Missense_Mutation_p.R11H|FZR1_uc002lxv.2_Missense_Mutation_p.R11H	NM_001136198	NP_001129670	Q9UM11	FZR_HUMAN	Fzr1 protein isoform 1	11					activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|DNA repair|G2/M transition DNA damage checkpoint|mitosis|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nucleoplasm	protein binding			lung(1)|kidney(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)														---	---	---	---
C19orf29	58509	broad.mit.edu	37	19	3624136	3624136	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3624136C>T	uc002lyh.2	-	2	245	c.192G>A	c.(190-192)TGG>TGA	p.W64*	C19orf29_uc002lyi.3_Nonsense_Mutation_p.W64*|C19orf29_uc010dto.2_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	64						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)														---	---	---	---
ZFR2	23217	broad.mit.edu	37	19	3813814	3813814	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3813814G>A	uc002lyw.2	-							NM_015174	NP_055989			zinc finger RNA binding protein 2 isoform 1							intracellular	nucleic acid binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)														---	---	---	---
ATCAY	85300	broad.mit.edu	37	19	3907775	3907775	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3907775C>T	uc002lyy.3	+	5	832	c.402C>T	c.(400-402)AGC>AGT	p.S134S	ATCAY_uc010xhz.1_Silent_p.S140S|ATCAY_uc010dts.2_5'Flank	NM_033064	NP_149053	Q86WG3	ATCAY_HUMAN	caytaxin	134					transport		protein binding			breast(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00485)|STAD - Stomach adenocarcinoma(1328;0.183)														---	---	---	---
CHAF1A	10036	broad.mit.edu	37	19	4409428	4409428	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4409428C>T	uc002mal.2	+	3	732	c.632C>T	c.(631-633)ACG>ATG	p.T211M		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	211	Binds to CBX1 chromo shadow domain.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)									Chromatin_Structure					---	---	---	---
HDGFRP2	84717	broad.mit.edu	37	19	4491837	4491837	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4491837C>T	uc002mao.2	+						HDGFRP2_uc002map.2_Intron|HDGFRP2_uc010dtz.1_Intron	NM_001001520	NP_001001520			hepatoma-derived growth factor-related protein 2						transcription, DNA-dependent	nucleus	DNA binding|protein binding				0																		---	---	---	---
FEM1A	55527	broad.mit.edu	37	19	4792951	4792951	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4792951C>T	uc002mbf.2	+	1	1224	c.1085C>T	c.(1084-1086)GCG>GTG	p.A362V	uc002mbg.1_RNA	NM_018708	NP_061178	Q9BSK4	FEM1A_HUMAN	fem-1 homolog a	362					regulation of ubiquitin-protein ligase activity	cytoplasm	binding|ubiquitin-protein ligase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)														---	---	---	---
TICAM1	148022	broad.mit.edu	37	19	4816588	4816588	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4816588G>A	uc002mbi.2	-	2	2053	c.1802C>T	c.(1801-1803)GCG>GTG	p.A601V		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	601	Sufficient to induce apoptosis.				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)														---	---	---	---
TICAM1	148022	broad.mit.edu	37	19	4818028	4818028	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4818028G>A	uc002mbi.2	-	2	613	c.362C>T	c.(361-363)GCC>GTC	p.A121V		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	121					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)														---	---	---	---
KDM4B	23030	broad.mit.edu	37	19	5041189	5041189	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5041189G>A	uc002mbq.3	+	5	585	c.359G>A	c.(358-360)CGC>CAC	p.R120H	KDM4B_uc010xil.1_Missense_Mutation_p.R120H|KDM4B_uc010xim.1_Missense_Mutation_p.R120H	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	120					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1																		---	---	---	---
PTPRS	5802	broad.mit.edu	37	19	5206828	5206828	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5206828G>A	uc002mbv.2	-	38	6038	c.5804C>T	c.(5803-5805)GCG>GTG	p.A1935V	PTPRS_uc002mbu.1_Intron|PTPRS_uc010xin.1_Missense_Mutation_p.A1477V|PTPRS_uc002mbw.2_Missense_Mutation_p.A1897V|PTPRS_uc002mbx.2_Missense_Mutation_p.A1492V|PTPRS_uc002mby.2_Missense_Mutation_p.A1488V	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1935	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				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)														---	---	---	---
PTPRS	5802	broad.mit.edu	37	19	5225734	5225734	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5225734A>G	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)														---	---	---	---
PTPRS	5802	broad.mit.edu	37	19	5244179	5244179	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5244179C>A	uc002mbv.2	-	11	1537	c.1303G>T	c.(1303-1305)GCC>TCC	p.A435S	PTPRS_uc002mbu.1_Missense_Mutation_p.A422S|PTPRS_uc010xin.1_Missense_Mutation_p.A422S|PTPRS_uc002mbw.2_Missense_Mutation_p.A422S|PTPRS_uc002mbx.2_Missense_Mutation_p.A426S|PTPRS_uc002mby.2_Missense_Mutation_p.A422S	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	435	Extracellular (Potential).|Fibronectin type-III 2.				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)														---	---	---	---
RFX2	5990	broad.mit.edu	37	19	6004294	6004294	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6004294G>A	uc002meb.2	-	13	1687	c.1418C>T	c.(1417-1419)GCC>GTC	p.A473V	RFX2_uc002mec.2_Missense_Mutation_p.A448V	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	473					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6																		---	---	---	---
KHSRP	8570	broad.mit.edu	37	19	6414136	6414136	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6414136G>A	uc002mer.3	-							NM_003685	NP_003676			KH-type splicing regulatory protein						mRNA processing|mRNA transport|regulation of transcription, DNA-dependent|RNA splicing, via transesterification reactions|transcription, DNA-dependent	cytosol|nucleus	DNA binding|protein binding|RNA binding			skin(1)	1																		---	---	---	---
DENND1C	79958	broad.mit.edu	37	19	6470300	6470300	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6470300C>T	uc002mfe.2	-						DENND1C_uc002mfb.2_Intron|DENND1C_uc002mfc.2_Intron|DENND1C_uc002mfd.2_Intron|DENND1C_uc010xje.1_Intron	NM_024898	NP_079174			DENN/MADD domain containing 1C							clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity			large_intestine(1)	1																		---	---	---	---
DENND1C	79958	broad.mit.edu	37	19	6481683	6481683	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6481683C>T	uc002mfe.2	-						DENND1C_uc002mfd.2_5'Flank|DENND1C_uc010xje.1_Intron	NM_024898	NP_079174			DENN/MADD domain containing 1C							clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity			large_intestine(1)	1																		---	---	---	---
C3	718	broad.mit.edu	37	19	6711033	6711033	+	Missense_Mutation	SNP	C	T	T	rs149692538		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6711033C>T	uc002mfm.2	-	12	1506	c.1444G>A	c.(1444-1446)GCC>ACC	p.A482T		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	482					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)														---	---	---	---
ZNF557	79230	broad.mit.edu	37	19	7076449	7076449	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7076449C>T	uc002mgb.2	+	5	642	c.157C>T	c.(157-159)CTG>TTG	p.L53L	ZNF557_uc002mga.2_Silent_p.L60L|ZNF557_uc002mgc.2_Silent_p.L60L	NM_001044388	NP_001037853	Q8N988	ZN557_HUMAN	zinc finger protein 557 isoform b	53	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2				Lung(535;0.179)														---	---	---	---
INSR	3643	broad.mit.edu	37	19	7141702	7141702	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7141702G>A	uc002mgd.1	-	13	2777	c.2668C>T	c.(2668-2670)CGA>TGA	p.R890*	INSR_uc002mge.1_Nonsense_Mutation_p.R878*	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	890	Fibronectin type-III 3.|Extracellular (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)													---	---	---	---
INSR	3643	broad.mit.edu	37	19	7170578	7170578	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7170578C>T	uc002mgd.1	-	6	1562	c.1453G>A	c.(1453-1455)GCC>ACC	p.A485T	INSR_uc002mge.1_Missense_Mutation_p.A485T|INSR_uc002mgf.2_Missense_Mutation_p.A485T	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	485					activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)													---	---	---	---
ARHGEF18	23370	broad.mit.edu	37	19	7509198	7509198	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7509198G>A	uc002mgi.2	+	4	1158	c.905G>A	c.(904-906)CGC>CAC	p.R302H	ARHGEF18_uc010xjm.1_Missense_Mutation_p.R144H|ARHGEF18_uc002mgh.2_Missense_Mutation_p.R144H|ARHGEF18_uc002mgj.1_5'Flank	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18	302	DH.				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)																---	---	---	---
PNPLA6	10908	broad.mit.edu	37	19	7614956	7614956	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7614956G>A	uc010xjq.1	+	16	1994	c.1799G>A	c.(1798-1800)CGC>CAC	p.R600H	PNPLA6_uc002mgq.1_Missense_Mutation_p.R552H|PNPLA6_uc010xjp.1_Missense_Mutation_p.R526H|PNPLA6_uc002mgr.1_Missense_Mutation_p.R552H|PNPLA6_uc002mgs.2_Missense_Mutation_p.R591H	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	591	cNMP 2.|Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3																		---	---	---	---
XAB2	56949	broad.mit.edu	37	19	7687312	7687312	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7687312C>T	uc002mgx.2	-	12	1548	c.1522G>A	c.(1522-1524)GAC>AAC	p.D508N		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	508	HAT 10.				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					---	---	---	---
STXBP2	6813	broad.mit.edu	37	19	7703933	7703933	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7703933G>A	uc002mha.3	+	3	161	c.116G>A	c.(115-117)CGC>CAC	p.R39H	STXBP2_uc002mhb.3_Missense_Mutation_p.R39H|STXBP2_uc010dvj.2_RNA|STXBP2_uc010xjr.1_Missense_Mutation_p.R39H|STXBP2_uc010dvk.2_Missense_Mutation_p.R7H|STXBP2_uc002mhc.3_5'UTR|STXBP2_uc010dvl.1_5'Flank	NM_006949	NP_008880	Q15833	STXB2_HUMAN	syntaxin binding protein 2 isoform a	39					leukocyte mediated cytotoxicity|neutrophil degranulation|protein transport|regulation of mast cell degranulation|vesicle docking involved in exocytosis	azurophil granule|cytolytic granule|cytosol|specific granule|tertiary granule	syntaxin-3 binding			central_nervous_system(1)	1																		---	---	---	---
CLEC4M	10332	broad.mit.edu	37	19	7831687	7831687	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7831687G>T	uc002mih.2	+	6	979	c.861G>T	c.(859-861)GAG>GAT	p.E287D	CLEC4M_uc010xjv.1_3'UTR|CLEC4M_uc002mhy.2_3'UTR|CLEC4M_uc010xjw.1_Missense_Mutation_p.E243D|CLEC4M_uc010dvt.2_Missense_Mutation_p.E264D|CLEC4M_uc010dvs.2_Missense_Mutation_p.E286D|CLEC4M_uc010xjx.1_Missense_Mutation_p.E259D|CLEC4M_uc002mhz.2_Missense_Mutation_p.E218D|CLEC4M_uc002mic.2_Missense_Mutation_p.E282D|CLEC4M_uc002mia.2_Missense_Mutation_p.E174D	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	310	Extracellular (Probable).|C-type lectin.				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1																		---	---	---	---
LRRC8E	80131	broad.mit.edu	37	19	7965043	7965043	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7965043G>A	uc002mir.2	+	3	1737	c.1636G>A	c.(1636-1638)GCC>ACC	p.A546T		NM_025061	NP_079337	Q6NSJ5	LRC8E_HUMAN	leucine rich repeat containing 8 family, member	546	LRR 2.					integral to membrane				lung(1)|pancreas(1)	2																		---	---	---	---
MAP2K7	5609	broad.mit.edu	37	19	7975375	7975375	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7975375G>A	uc002mit.2	+	5	550	c.485G>A	c.(484-486)CGC>CAC	p.R162H	MAP2K7_uc002miv.2_Missense_Mutation_p.R162H|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.R162H|MAP2K7_uc010dvv.2_Missense_Mutation_p.R37H	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	162	Protein kinase.		R -> H (in a colorectal adenocarcinoma sample; somatic mutation).|R -> C (in a colorectal adenocarcinoma sample; somatic mutation).		activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.R162H(1)|p.R162C(1)		large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)													---	---	---	---
FBN3	84467	broad.mit.edu	37	19	8136980	8136980	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8136980G>A	uc002mjf.2	-	62	8061	c.8040C>T	c.(8038-8040)GGC>GGT	p.G2680G	FBN3_uc002mje.2_Silent_p.G476G	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2680						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11																		---	---	---	---
HNRNPM	4670	broad.mit.edu	37	19	8551958	8551958	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8551958C>T	uc010dwe.2	+	15	2108	c.2028C>T	c.(2026-2028)TGC>TGT	p.C676C	HNRNPM_uc010dwd.2_Silent_p.C637C|HNRNPM_uc002mka.2_Silent_p.C541C|HNRNPM_uc002mkb.1_5'Flank	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	676	RRM 3.				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0																		---	---	---	---
PRAM1	84106	broad.mit.edu	37	19	8564042	8564042	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8564042G>A	uc002mkd.2	-	2	670	c.650C>T	c.(649-651)GCG>GTG	p.A217V	PRAM1_uc002mkc.2_Missense_Mutation_p.A217V	NM_032152	NP_115528	Q96QH2	PRAM_HUMAN	PML-RARA regulated adaptor molecule 1	265	Pro-rich.						lipid binding|protein binding				0																		---	---	---	---
MYO1F	4542	broad.mit.edu	37	19	8595407	8595407	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8595407T>C	uc002mkg.2	-	20	2208	c.2094A>G	c.(2092-2094)CGA>CGG	p.R698R		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	698	IQ.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3																		---	---	---	---
MYO1F	4542	broad.mit.edu	37	19	8604860	8604860	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8604860G>A	uc002mkg.2	-	16	1777	c.1663C>T	c.(1663-1665)CGC>TGC	p.R555C		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	555	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3																		---	---	---	---
MYO1F	4542	broad.mit.edu	37	19	8618252	8618252	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8618252G>A	uc002mkg.2	-	5	510	c.396C>T	c.(394-396)GGC>GGT	p.G132G	MYO1F_uc002mkh.2_Silent_p.G132G|MYO1F_uc010xkf.1_Silent_p.G132G	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	132	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3																		---	---	---	---
ADAMTS10	81794	broad.mit.edu	37	19	8662114	8662114	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8662114G>A	uc002mkj.1	-						ADAMTS10_uc002mkk.1_Intron	NM_030957	NP_112219			ADAM metallopeptidase with thrombospondin type 1						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4																		---	---	---	---
ZNF558	148156	broad.mit.edu	37	19	8932718	8932718	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8932718G>A	uc002mkn.1	-	2	311	c.81C>T	c.(79-81)GGC>GGT	p.G27G	ZNF558_uc010xkh.1_5'Flank|ZNF558_uc010dwg.1_Silent_p.G27G	NM_144693	NP_653294	Q96NG5	ZN558_HUMAN	zinc finger protein 558	27					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1																		---	---	---	---
MUC16	94025	broad.mit.edu	37	19	9047264	9047264	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9047264G>A	uc002mkp.2	-	5	34571	c.34367C>T	c.(34366-34368)GCA>GTA	p.A11456V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11458	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57																		---	---	---	---
MUC16	94025	broad.mit.edu	37	19	9067419	9067419	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9067419G>A	uc002mkp.2	-	3	20231	c.20027C>T	c.(20026-20028)GCT>GTT	p.A6676V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6678	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57																		---	---	---	---
MUC16	94025	broad.mit.edu	37	19	9070156	9070156	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9070156T>G	uc002mkp.2	-	3	17494	c.17290A>C	c.(17290-17292)ACT>CCT	p.T5764P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5766	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57																		---	---	---	---
MUC16	94025	broad.mit.edu	37	19	9070335	9070335	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9070335G>T	uc002mkp.2	-	3	17315	c.17111C>A	c.(17110-17112)ACT>AAT	p.T5704N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5706	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57																		---	---	---	---
MUC16	94025	broad.mit.edu	37	19	9071938	9071938	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9071938G>A	uc002mkp.2	-	3	15712	c.15508C>T	c.(15508-15510)CCA>TCA	p.P5170S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5172	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57																		---	---	---	---
MUC16	94025	broad.mit.edu	37	19	9075638	9075638	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9075638C>T	uc002mkp.2	-	3	12012	c.11808G>A	c.(11806-11808)GAG>GAA	p.E3936E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57																		---	---	---	---
OR7D2	162998	broad.mit.edu	37	19	9297198	9297198	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9297198C>A	uc002mkz.1	+	1	929	c.741C>A	c.(739-741)GTC>GTA	p.V247V		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	247	Helical; Name=6; (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3																		---	---	---	---
ZNF560	147741	broad.mit.edu	37	19	9577561	9577561	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9577561C>T	uc002mlp.1	-	10	2272	c.2062G>A	c.(2062-2064)GCA>ACA	p.A688T	ZNF560_uc010dwr.1_Missense_Mutation_p.A582T	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	688					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6																		---	---	---	---
FBXL12	54850	broad.mit.edu	37	19	9922250	9922250	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9922250G>A	uc002mme.2	-	3	545	c.303C>T	c.(301-303)TGC>TGT	p.C101C	FBXL12_uc002mmd.2_Silent_p.C48C|FBXL12_uc002mmf.2_Silent_p.C48C|FBXL12_uc002mmg.2_Silent_p.C48C|FBXL12_uc002mmh.2_Silent_p.C48C	NM_017703	NP_060173	Q9NXK8	FXL12_HUMAN	F-box and leucine-rich repeat protein 12	101	LRR 2.						protein binding			lung(1)|kidney(1)	2																		---	---	---	---
COL5A3	50509	broad.mit.edu	37	19	10073525	10073525	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10073525G>A	uc002mmq.1	-	65	4907	c.4821C>T	c.(4819-4821)GGC>GGT	p.G1607G		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1607	Fibrillar collagen NC1.				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)															---	---	---	---
C3P1	388503	broad.mit.edu	37	19	10157990	10157990	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10157990T>C	uc010dwx.1	+							NR_027300				Synthetic construct DNA, clone: pF1KB7402, Homo sapiens LOC388503 gene, without stop codon, in Flexi system.												0																		---	---	---	---
ANGPTL6	83854	broad.mit.edu	37	19	10203294	10203294	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10203294C>T	uc002mmx.1	-	6	1502	c.1384G>A	c.(1384-1386)GCC>ACC	p.A462T	C19orf66_uc002mmu.3_3'UTR|C19orf66_uc002mmv.3_3'UTR|C19orf66_uc002mmw.3_3'UTR|ANGPTL6_uc002mmy.1_Missense_Mutation_p.A462T	NM_031917	NP_114123	Q8NI99	ANGL6_HUMAN	angiopoietin-like 6 precursor	462	Fibrinogen C-terminal.				angiogenesis|cell differentiation|signal transduction	extracellular space	receptor binding				0			OV - Ovarian serous cystadenocarcinoma(20;3.58e-08)|Epithelial(33;2.5e-05)|all cancers(31;5.96e-05)															---	---	---	---
PPAN-P2RY11	692312	broad.mit.edu	37	19	10221526	10221526	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10221526C>T	uc002mna.2	+	11	1185	c.1185C>T	c.(1183-1185)GGC>GGT	p.G395G	PPAN-P2RY11_uc010xla.1_Silent_p.G395G|P2RY11_uc002mnc.2_5'Flank|PPAN_uc002mmz.1_Silent_p.G395G|PPAN_uc002mnb.1_Silent_p.G342G	NM_001040664	NP_001035754	Q9NQ55	SSF1_HUMAN	PPAN-P2RY11 protein	395					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	10252856	10252856	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10252856C>T	uc002mng.2	-	29	3289	c.3109G>A	c.(3109-3111)GCA>ACA	p.A1037T	DNMT1_uc002mne.2_5'Flank|DNMT1_uc002mnf.2_5'UTR|DNMT1_uc010xlc.1_Missense_Mutation_p.A1053T|DNMT1_uc002mnh.2_Missense_Mutation_p.A932T|DNMT1_uc010xld.1_Missense_Mutation_p.A1037T	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	1037	BAH 2.				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)													---	---	---	---
MRPL4	51073	broad.mit.edu	37	19	10367487	10367487	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10367487C>T	uc002mnm.2	+	6	585	c.431C>T	c.(430-432)CCG>CTG	p.P144L	MRPL4_uc002mnn.2_Missense_Mutation_p.P144L|MRPL4_uc002mno.2_Missense_Mutation_p.P144L	NM_146387	NP_666499	Q9BYD3	RM04_HUMAN	mitochondrial ribosomal protein L4 isoform a	144					translation	mitochondrion|ribosome	structural constituent of ribosome			ovary(1)	1		Renal(1328;0.0112)	OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;1.99e-06)|all cancers(31;4.81e-06)	Lung(535;0.00705)														---	---	---	---
MRPL4	51073	broad.mit.edu	37	19	10370451	10370451	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10370451G>A	uc002mnm.2	+	10	1052	c.898G>A	c.(898-900)GCT>ACT	p.A300T	MRPL4_uc002mnn.2_Missense_Mutation_p.A300T|MRPL4_uc002mno.2_3'UTR	NM_146387	NP_666499	Q9BYD3	RM04_HUMAN	mitochondrial ribosomal protein L4 isoform a	300					translation	mitochondrion|ribosome	structural constituent of ribosome			ovary(1)	1		Renal(1328;0.0112)	OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;1.99e-06)|all cancers(31;4.81e-06)	Lung(535;0.00705)														---	---	---	---
TYK2	7297	broad.mit.edu	37	19	10476334	10476334	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10476334G>T	uc002moc.3	-	7	1248	c.870C>A	c.(868-870)CCC>CCA	p.P290P	TYK2_uc010dxe.2_Silent_p.P105P|TYK2_uc002mod.2_Silent_p.P290P	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	290	FERM.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)															---	---	---	---
KEAP1	9817	broad.mit.edu	37	19	10610610	10610610	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10610610C>T	uc002moq.1	-	2	256	c.100G>A	c.(100-102)GCC>ACC	p.A34T	KEAP1_uc002mor.1_Missense_Mutation_p.A34T	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	34					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)															---	---	---	---
ATG4D	84971	broad.mit.edu	37	19	10663693	10663693	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10663693C>T	uc002mov.2	+	10	1495	c.1375C>T	c.(1375-1377)CGG>TGG	p.R459W	ATG4D_uc010xlh.1_Missense_Mutation_p.R396W|ATG4D_uc010dxh.2_RNA|ATG4D_uc010dxi.2_RNA|ATG4D_uc010dxj.2_Missense_Mutation_p.R126W	NM_032885	NP_116274	Q86TL0	ATG4D_HUMAN	APG4 autophagy 4 homolog D	459					autophagy|protein transport	cytoplasm	cysteine-type endopeptidase activity				0			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)															---	---	---	---
CDKN2D	1032	broad.mit.edu	37	19	10678072	10678072	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10678072C>T	uc002mpa.2	-	2	465	c.163G>A	c.(163-165)GCC>ACC	p.A55T	KRI1_uc002mox.1_5'Flank|KRI1_uc002moy.1_5'Flank|CDKN2D_uc002mpb.2_Missense_Mutation_p.A55T	NM_001800	NP_001791	P55273	CDN2D_HUMAN	cyclin-dependent kinase inhibitor 2D	55	ANK 1.				anti-apoptosis|autophagic cell death|cell cycle arrest|DNA synthesis involved in DNA repair|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|negative regulation of caspase activity|negative regulation of cell growth|negative regulation of cell proliferation|regulation of cyclin-dependent protein kinase activity|response to retinoic acid|response to UV|response to vitamin D	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|protein kinase binding				0			Epithelial(33;1.58e-05)|all cancers(31;6.36e-05)											Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System				---	---	---	---
ILF3	3609	broad.mit.edu	37	19	10793873	10793873	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10793873C>T	uc002mpn.2	+	14	1926	c.1609C>T	c.(1609-1611)CGT>TGT	p.R537C	ILF3_uc002mpm.2_Missense_Mutation_p.R541C|ILF3_uc002mpl.2_Missense_Mutation_p.R537C|ILF3_uc002mpk.2_Missense_Mutation_p.R537C|ILF3_uc010xli.1_Missense_Mutation_p.R135C|ILF3_uc002mpo.2_Missense_Mutation_p.R541C|ILF3_uc002mpp.2_Missense_Mutation_p.R362C|ILF3_uc002mpq.2_5'Flank	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	537	DRBM 2.				M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)															---	---	---	---
DNM2	1785	broad.mit.edu	37	19	10940929	10940929	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10940929G>A	uc002mps.1	+	20	2582	c.2418G>A	c.(2416-2418)GCG>GCA	p.A806A	DNM2_uc010dxk.2_Intron|DNM2_uc002mpt.1_Silent_p.A806A|DNM2_uc002mpv.1_Silent_p.A802A|DNM2_uc002mpu.1_Silent_p.A802A|DNM2_uc010dxl.1_Silent_p.A806A|DNM2_uc002mpw.2_Silent_p.A535A|DNM2_uc002mpx.1_Silent_p.A162A	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	806	Pro-rich.				G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)															---	---	---	---
YIPF2	78992	broad.mit.edu	37	19	11034602	11034602	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11034602C>T	uc002mqb.2	-	7	682	c.558G>A	c.(556-558)TGG>TGA	p.W186*	YIPF2_uc002mqc.2_Nonsense_Mutation_p.W186*	NM_024029	NP_076934	Q9BWQ6	YIPF2_HUMAN	Yip1 domain family, member 2	186	Cytoplasmic (Potential).					integral to membrane|transport vesicle					0																		---	---	---	---
RGL3	57139	broad.mit.edu	37	19	11505125	11505125	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11505125G>A	uc002mrp.2	-	19	2150	c.2086C>T	c.(2086-2088)CGG>TGG	p.R696W	RGL3_uc002mrn.2_Intron|RGL3_uc002mrm.2_Intron|RGL3_uc002mro.2_Missense_Mutation_p.R702W	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	696	Interaction with HRAS, MRAS and RIT1 (By similarity).|Ras-associating.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1																		---	---	---	---
CNN1	1264	broad.mit.edu	37	19	11658702	11658702	+	Missense_Mutation	SNP	C	T	T	rs148076740		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11658702C>T	uc002msc.1	+	5	645	c.481C>T	c.(481-483)CGG>TGG	p.R161W	CNN1_uc010xmb.1_Missense_Mutation_p.R111W|CNN1_uc010xmc.1_Missense_Mutation_p.R111W	NM_001299	NP_001290	P51911	CNN1_HUMAN	calponin 1, basic, smooth muscle	161					actomyosin structure organization|regulation of smooth muscle contraction	cytoskeleton	actin binding|calmodulin binding				0																		---	---	---	---
ZNF441	126068	broad.mit.edu	37	19	11891710	11891710	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11891710G>A	uc010dyj.2	+	4	1265	c.1071G>A	c.(1069-1071)ACG>ACA	p.T357T	ZNF441_uc002msn.3_Silent_p.T313T	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	357	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
ZNF440	126070	broad.mit.edu	37	19	11942881	11942881	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11942881G>A	uc002msp.1	+	4	1046	c.890G>A	c.(889-891)CGT>CAT	p.R297H		NM_152357	NP_689570	Q8IYI8	ZN440_HUMAN	zinc finger protein 440	297	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
ZNF439	90594	broad.mit.edu	37	19	11978739	11978739	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11978739T>C	uc002mss.2	+	3	983	c.855T>C	c.(853-855)TGT>TGC	p.C285C	ZNF439_uc002msr.2_Silent_p.C149C	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	285	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1																		---	---	---	---
ZNF763	284390	broad.mit.edu	37	19	12089891	12089891	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12089891A>G	uc002msw.2	+	4	1307	c.1152A>G	c.(1150-1152)ACA>ACG	p.T384T	ZNF763_uc010xmf.1_Silent_p.T404T|ZNF763_uc002msv.2_Silent_p.T387T|ZNF763_uc010xmg.1_Silent_p.T262T	NM_001012753	NP_001012771	Q0D2J5	ZN763_HUMAN	zinc finger protein 763	384					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1																		---	---	---	---
ZNF791	163049	broad.mit.edu	37	19	12739704	12739704	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12739704C>T	uc002mua.2	+	4	1523	c.1361C>T	c.(1360-1362)GCG>GTG	p.A454V	ZNF791_uc010xml.1_Missense_Mutation_p.A422V|ZNF791_uc010dyu.1_Missense_Mutation_p.A345V|ZNF791_uc010xmm.1_Missense_Mutation_p.A345V	NM_153358	NP_699189	Q3KP31	ZN791_HUMAN	zinc finger protein 791	454	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2																		---	---	---	---
MAN2B1	4125	broad.mit.edu	37	19	12776194	12776194	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12776194C>A	uc002mub.2	-	3	484	c.408G>T	c.(406-408)CAG>CAT	p.Q136H	MAN2B1_uc010dyv.1_Missense_Mutation_p.Q136H|WDR83_uc002mue.3_5'Flank|WDR83_uc002muc.2_5'Flank	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	136					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6																		---	---	---	---
C19orf56	51398	broad.mit.edu	37	19	12779185	12779185	+	Silent	SNP	C	T	T	rs143004772	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12779185C>T	uc002mud.2	-	4	557	c.309G>A	c.(307-309)ACG>ACA	p.T103T	MAN2B1_uc002mub.2_5'Flank|MAN2B1_uc010dyv.1_5'Flank|WDR83_uc002mue.3_Intron|WDR83_uc002muc.2_Intron|WDR83_uc010dyw.2_5'Flank	NM_016145	NP_057229	Q9Y284	CS056_HUMAN	hypothetical protein LOC51398	103						integral to membrane					0																		---	---	---	---
TNPO2	30000	broad.mit.edu	37	19	12812201	12812201	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12812201G>A	uc002muo.2	-	24	2838	c.2653C>T	c.(2653-2655)CCG>TCG	p.P885S	TNPO2_uc002mup.2_Missense_Mutation_p.P967S|TNPO2_uc002muq.2_Missense_Mutation_p.P875S|TNPO2_uc002mur.2_Missense_Mutation_p.P875S	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	885					intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1																		---	---	---	---
TNPO2	30000	broad.mit.edu	37	19	12826457	12826457	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12826457T>G	uc002muo.2	-	5	607	c.422A>C	c.(421-423)AAC>ACC	p.N141T	TNPO2_uc002mup.2_Missense_Mutation_p.N233T|TNPO2_uc002muq.2_Missense_Mutation_p.N141T|TNPO2_uc002mur.2_Missense_Mutation_p.N141T	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	141	HEAT 1.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1																		---	---	---	---
HOOK2	29911	broad.mit.edu	37	19	12875904	12875904	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12875904C>T	uc002muy.2	-						HOOK2_uc010xmq.1_Intron|HOOK2_uc002muz.2_Intron	NM_013312	NP_037444			hook homolog 2 isoform 1						early endosome to late endosome transport|endocytosis|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|protein transport	centrosome|FHF complex|microtubule	identical protein binding|microtubule binding			ovary(1)|breast(1)|skin(1)	3																OREG0025273	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
RNASEH2A	10535	broad.mit.edu	37	19	12924174	12924174	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12924174T>C	uc002mvg.1	+	8	854	c.794T>C	c.(793-795)CTC>CCC	p.L265P	RNASEH2A_uc002mvf.1_Missense_Mutation_p.L183P	NM_006397	NP_006388	O75792	RNH2A_HUMAN	ribonuclease H2, large subunit	265					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	13010517	13010517	+	3'UTR	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13010517T>G	uc002mvq.2	+	12					GCDH_uc002mvp.2_Missense_Mutation_p.V416G|GCDH_uc010xmt.1_3'UTR|GCDH_uc010xmu.1_3'UTR|SYCE2_uc002mvr.2_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																		---	---	---	---
LPHN1	22859	broad.mit.edu	37	19	14266322	14266322	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14266322G>A	uc010xnn.1	-	19	3454	c.3158C>T	c.(3157-3159)GCC>GTC	p.A1053V	LPHN1_uc010xno.1_Missense_Mutation_p.A1048V|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	1053	Helical; Name=6; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5																		---	---	---	---
CD97	976	broad.mit.edu	37	19	14518937	14518937	+	3'UTR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14518937C>T	uc002myl.2	+	20					CD97_uc002mym.2_3'UTR|CD97_uc002myn.2_3'UTR	NM_078481	NP_510966			CD97 antigen isoform 1 precursor						cell adhesion|cell-cell signaling|cellular component movement|immune response|inflammatory response|neuropeptide signaling pathway	extracellular space|integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(3)|breast(1)	4																		---	---	---	---
PKN1	5585	broad.mit.edu	37	19	14554393	14554393	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14554393C>T	uc002myp.2	+	3	602	c.434C>T	c.(433-435)GCG>GTG	p.A145V	PKN1_uc002myq.2_Missense_Mutation_p.A151V	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	145	REM 2.				activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8																		---	---	---	---
TECR	9524	broad.mit.edu	37	19	14674487	14674487	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14674487G>A	uc002mza.2	+	4	263	c.136G>A	c.(136-138)GCC>ACC	p.A46T	TECR_uc002mzb.2_Missense_Mutation_p.A61T|TECR_uc010xns.1_5'UTR|TECR_uc002mzc.2_5'UTR|TECR_uc002mzd.2_Missense_Mutation_p.A46T|TECR_uc002mze.2_5'Flank|TECR_uc002mzf.1_5'Flank	NM_138501	NP_612510	Q9NZ01	TECR_HUMAN	glycoprotein, synaptic 2	46					fatty acid elongation|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	integral to endoplasmic reticulum membrane	trans-2-enoyl-CoA reductase (NADPH) activity|very long-chain-acyl-CoA dehydrogenase activity				0																		---	---	---	---
ZNF333	84449	broad.mit.edu	37	19	14815942	14815942	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14815942G>A	uc002mzn.2	+	6	517	c.383G>A	c.(382-384)CGG>CAG	p.R128Q	ZNF333_uc010dzq.2_Missense_Mutation_p.R128Q|ZNF333_uc002mzk.3_Missense_Mutation_p.R19Q|ZNF333_uc002mzl.3_Missense_Mutation_p.R128Q|ZNF333_uc002mzm.2_Silent_p.P68P|ZNF333_uc010dzr.1_RNA	NM_032433	NP_115809	Q96JL9	ZN333_HUMAN	zinc finger protein 333	128					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3																		---	---	---	---
OR7C1	26664	broad.mit.edu	37	19	14910601	14910601	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14910601G>A	uc010xnz.1	-	1	348	c.348C>T	c.(346-348)ACC>ACT	p.T116T		NM_198944	NP_945182	O76099	OR7C1_HUMAN	olfactory receptor, family 7, subfamily C,	116	Helical; Name=3; (Potential).				sensory perception of smell|spermatogenesis	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2																		---	---	---	---
OR7C2	26658	broad.mit.edu	37	19	15052847	15052847	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15052847G>A	uc010xoc.1	+	1	547	c.547G>A	c.(547-549)GAA>AAA	p.E183K		NM_012377	NP_036509	O60412	OR7C2_HUMAN	olfactory receptor, family 7, subfamily C,	183	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	Ovarian(108;0.203)																	---	---	---	---
CASP14	23581	broad.mit.edu	37	19	15166245	15166245	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15166245C>T	uc010dzv.1	+	6	833	c.525C>T	c.(523-525)TAC>TAT	p.Y175Y	CASP14_uc002naf.2_Silent_p.Y175Y	NM_012114	NP_036246	P31944	CASPE_HUMAN	caspase 14 precursor	175					apoptosis|cell differentiation|epidermis development|proteolysis	cytoplasm|nucleus	cysteine-type endopeptidase activity			skin(2)|ovary(1)|lung(1)	4																		---	---	---	---
BRD4	23476	broad.mit.edu	37	19	15374225	15374225	+	Intron	SNP	C	T	T	rs28729313	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15374225C>T	uc002nar.2	-						BRD4_uc002nas.2_Intron|BRD4_uc002nat.3_Intron|BRD4_uc002nau.3_Intron	NM_058243	NP_490597			bromodomain-containing protein 4 isoform long						interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)					T	NUT|C15orf55	lethal midline carcinoma of young people								---	---	---	---
AKAP8	10270	broad.mit.edu	37	19	15472567	15472567	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15472567C>T	uc002nav.2	-	11	1430	c.1369G>A	c.(1369-1371)GCA>ACA	p.A457T	AKAP8_uc010dzy.2_Missense_Mutation_p.A6T|AKAP8_uc010dzz.1_RNA|AKAP8_uc010xog.1_Missense_Mutation_p.A271T	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	457					signal transduction	nuclear matrix				ovary(1)|breast(1)	2																		---	---	---	---
AKAP8L	26993	broad.mit.edu	37	19	15511828	15511828	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15511828G>A	uc002naw.1	-	6	942	c.843C>T	c.(841-843)GGC>GGT	p.G281G	AKAP8L_uc002nax.1_RNA|AKAP8L_uc010xoh.1_Silent_p.G220G|AKAP8L_uc002nay.1_Silent_p.G281G|AKAP8L_uc002naz.2_Silent_p.G129G	NM_014371	NP_055186	Q9ULX6	AKP8L_HUMAN	A kinase (PRKA) anchor protein 8-like	281						cytoplasm|nuclear matrix	DEAD/H-box RNA helicase binding|DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
CYP4F3	4051	broad.mit.edu	37	19	15759982	15759982	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15759982C>T	uc002nbj.2	+	6	588	c.538C>T	c.(538-540)CTC>TTC	p.L180F	CYP4F3_uc010xok.1_Missense_Mutation_p.L180F|CYP4F3_uc010xol.1_Missense_Mutation_p.L180F|CYP4F3_uc010xom.1_Missense_Mutation_p.L31F|CYP4F3_uc002nbk.2_Missense_Mutation_p.L180F|CYP4F3_uc010xon.1_5'Flank	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	180					leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3																		---	---	---	---
CYP4F12	66002	broad.mit.edu	37	19	15807839	15807839	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15807839C>T	uc002nbl.2	+	13	1580	c.1519C>T	c.(1519-1521)CGC>TGC	p.R507C		NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,											skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)																	---	---	---	---
TMEM38A	79041	broad.mit.edu	37	19	16790841	16790841	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16790841C>T	uc002nes.2	+	2	262	c.171C>T	c.(169-171)TGC>TGT	p.C57C		NM_024074	NP_076979	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A	57	Helical; (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			central_nervous_system(2)|ovary(1)	3																		---	---	---	---
NWD1	284434	broad.mit.edu	37	19	16918398	16918398	+	Silent	SNP	C	T	T	rs113245603		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16918398C>T	uc002neu.3	+	18	4160	c.3738C>T	c.(3736-3738)GGC>GGT	p.G1246G	NWD1_uc002net.3_Silent_p.G1111G|NWD1_uc002nev.3_Silent_p.G1040G			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1246	WD 10.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7																		---	---	---	---
MYO9B	4650	broad.mit.edu	37	19	17295741	17295741	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17295741C>T	uc010eak.2	+	17	2593	c.2441C>T	c.(2440-2442)TCC>TTC	p.S814F	MYO9B_uc002nfi.2_Missense_Mutation_p.S814F|MYO9B_uc002nfj.1_Missense_Mutation_p.S814F	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	814	Myosin head-like.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1																		---	---	---	---
USHBP1	83878	broad.mit.edu	37	19	17362446	17362446	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17362446G>A	uc002nfs.1	-	12	1980	c.1867C>T	c.(1867-1869)CGA>TGA	p.R623*	USHBP1_uc002nfr.1_Nonsense_Mutation_p.R249*|USHBP1_uc002nft.1_RNA|USHBP1_uc010xpk.1_Nonsense_Mutation_p.R559*	NM_031941	NP_114147	Q8N6Y0	USBP1_HUMAN	Usher syndrome 1C binding protein 1	623	Potential.						PDZ domain binding			ovary(1)	1																		---	---	---	---
ANO8	57719	broad.mit.edu	37	19	17444229	17444229	+	Splice_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17444229G>A	uc002ngf.2	-	3	509	c.350_splice	c.e3+1	p.S117_splice	ANO8_uc010eap.2_Splice_Site|GTPBP3_uc010xpo.1_5'Flank	NM_020959	NP_066010			anoctamin 8							chloride channel complex	chloride channel activity			ovary(3)	3																		---	---	---	---
ANO8	57719	broad.mit.edu	37	19	17444267	17444267	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17444267C>T	uc002ngf.2	-	3	473	c.314G>A	c.(313-315)CGT>CAT	p.R105H	ANO8_uc010eap.2_RNA|GTPBP3_uc010xpo.1_5'Flank	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	105	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3																		---	---	---	---
ANO8	57719	broad.mit.edu	37	19	17444269	17444269	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17444269C>T	uc002ngf.2	-	3	471	c.312G>A	c.(310-312)ACG>ACA	p.T104T	ANO8_uc010eap.2_RNA|GTPBP3_uc010xpo.1_5'Flank	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	104	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3																		---	---	---	---
PLVAP	83483	broad.mit.edu	37	19	17487766	17487766	+	Missense_Mutation	SNP	C	T	T	rs144117840		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17487766C>T	uc002ngk.1	-	1	382	c.332G>A	c.(331-333)CGC>CAC	p.R111H		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	111	Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0																		---	---	---	---
SLC27A1	376497	broad.mit.edu	37	19	17615413	17615413	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17615413G>A	uc002ngu.1	+	12	1983	c.1933G>A	c.(1933-1935)GCC>ACC	p.A645T	SLC27A1_uc010xpp.1_Missense_Mutation_p.A466T|SLC27A1_uc002ngv.1_Missense_Mutation_p.A247T	NM_198580	NP_940982	Q6PCB7	S27A1_HUMAN	solute carrier family 27, member 1	645	Cytoplasmic (Potential).				cardiolipin biosynthetic process|fatty acid metabolic process|long-chain fatty acid transport|negative regulation of phospholipid biosynthetic process|phosphatidic acid biosynthetic process|phosphatidylcholine biosynthetic process|phosphatidylethanolamine biosynthetic process|phosphatidylinositol biosynthetic process|phosphatidylserine biosynthetic process|transmembrane transport	endomembrane system|integral to membrane	fatty acid transporter activity|nucleotide binding				0																		---	---	---	---
GLT25D1	79709	broad.mit.edu	37	19	17678290	17678290	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17678290G>A	uc002nhc.1	+	4	577	c.565G>A	c.(565-567)GCC>ACC	p.A189T	GLT25D1_uc010eax.1_5'Flank	NM_024656	NP_078932	Q8NBJ5	GT251_HUMAN	glycosyltransferase 25 domain containing 1	189					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity				0																		---	---	---	---
RPL18A	6142	broad.mit.edu	37	19	17973433	17973433	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17973433C>T	uc002nhp.1	+						SNORA68_uc002nhq.1_RNA	NM_000980	NP_000971			ribosomal protein L18a						endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0																		---	---	---	---
SLC5A5	6528	broad.mit.edu	37	19	17983460	17983460	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17983460G>A	uc002nhr.3	+	1	679	c.332G>A	c.(331-333)CGC>CAC	p.R111H		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide	111	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|cellular response to cAMP|cellular response to gonadotropin stimulus|hormone biosynthetic process	integral to membrane|nucleus|plasma membrane	iodide transmembrane transporter activity|sodium:iodide symporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4																		---	---	---	---
KCNN1	3780	broad.mit.edu	37	19	18092607	18092607	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18092607C>T	uc002nht.2	+	5	898	c.588C>T	c.(586-588)TGC>TGT	p.C196C	KCNN1_uc010xqa.1_Silent_p.C196C	NM_002248	NP_002239	Q92952	KCNN1_HUMAN	potassium intermediate/small conductance	196	Helical; Name=Segment S3; (Potential).				synaptic transmission	voltage-gated potassium channel complex	calmodulin binding|small conductance calcium-activated potassium channel activity				0																		---	---	---	---
UPF1	5976	broad.mit.edu	37	19	18974986	18974986	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18974986G>A	uc002nkg.2	+	20	3091	c.2816G>A	c.(2815-2817)CGC>CAC	p.R939H	UPF1_uc002nkf.2_Missense_Mutation_p.R928H|UPF1_uc002nkh.2_Missense_Mutation_p.R183H	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	939					cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
DDX49	54555	broad.mit.edu	37	19	19033426	19033426	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19033426G>A	uc002nkq.1	+	6	706	c.649G>A	c.(649-651)GAG>AAG	p.E217K	HOMER3_uc002nko.1_Intron|HOMER3_uc002nkp.1_Intron|DDX49_uc002nkr.1_RNA|DDX49_uc002nks.1_Missense_Mutation_p.E110K|DDX49_uc002nkt.1_Missense_Mutation_p.E99K	NM_019070	NP_061943	Q9Y6V7	DDX49_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 49	217							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			Epithelial(12;0.0289)															---	---	---	---
SFRS14	10147	broad.mit.edu	37	19	19112441	19112441	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19112441C>T	uc002nkx.2	-	8	3118	c.2972G>A	c.(2971-2973)CGT>CAT	p.R991H	SFRS14_uc002nkz.1_Missense_Mutation_p.R1005H|SFRS14_uc002nla.1_Missense_Mutation_p.R991H|SFRS14_uc002nlb.2_Missense_Mutation_p.R991H|SFRS14_uc010xqk.1_Missense_Mutation_p.R760H	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	991					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	19153682	19153682	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19153682G>A	uc002nld.2	+	3	540	c.192G>A	c.(190-192)TCG>TCA	p.S64S	ARMC6_uc002nlc.2_Silent_p.S39S|ARMC6_uc010xql.1_Intron|ARMC6_uc002nle.2_Silent_p.S39S|ARMC6_uc010xqm.1_Silent_p.S64S	NM_033415	NP_219483	Q6NXE6	ARMC6_HUMAN	armadillo repeat containing 6	64							protein binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.66e-06)|Epithelial(12;0.000391)															---	---	---	---
NCAN	1463	broad.mit.edu	37	19	19337827	19337827	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19337827C>T	uc002nlz.2	+	7	1704	c.1605C>T	c.(1603-1605)GGC>GGT	p.G535G	NCAN_uc010ecc.1_Silent_p.G99G	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	535					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)															---	---	---	---
HAPLN4	404037	broad.mit.edu	37	19	19369400	19369400	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19369400C>T	uc002nmb.2	-	4	804	c.749G>A	c.(748-750)CGC>CAC	p.R250H	HAPLN4_uc002nmc.2_Missense_Mutation_p.R250H	NM_023002	NP_075378	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	250	Link 1.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			pancreas(1)	1			Epithelial(12;0.00575)															---	---	---	---
KIAA0892	23383	broad.mit.edu	37	19	19452166	19452166	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19452166C>T	uc002nmk.3	+	7	724	c.685C>T	c.(685-687)CGT>TGT	p.R229C	KIAA0892_uc002nml.3_5'Flank	NM_015329	NP_056144	Q9Y6X3	SCC4_HUMAN	hypothetical protein LOC23383 precursor	229					cell division|maintenance of mitotic sister chromatid cohesion	chromatin|nucleoplasm|SMC loading complex	protein N-terminus binding				0																		---	---	---	---
ATP13A1	57130	broad.mit.edu	37	19	19770544	19770544	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19770544G>A	uc002nnh.3	-	3	571	c.543C>T	c.(541-543)TAC>TAT	p.Y181Y	ATP13A1_uc002nng.2_Silent_p.Y63Y	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	181	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			ovary(3)|large_intestine(2)|central_nervous_system(1)	6																		---	---	---	---
ZNF253	56242	broad.mit.edu	37	19	19989293	19989293	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19989293C>T	uc002noj.2	+	2	99	c.7C>T	c.(7-9)CCA>TCA	p.P3S	ZNF253_uc002nok.2_Intron|ZNF253_uc002nol.2_Intron	NM_021047	NP_066385	O75346	ZN253_HUMAN	zinc finger protein 253	3					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
ZNF626	199777	broad.mit.edu	37	19	20807894	20807894	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:20807894G>A	uc002npb.1	-	4	939	c.789C>T	c.(787-789)GGC>GGT	p.G263G	ZNF626_uc002npc.1_Silent_p.G187G	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	263	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1																		---	---	---	---
ZNF493	284443	broad.mit.edu	37	19	21606712	21606712	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21606712T>C	uc002npx.2	+	2	1147	c.867T>C	c.(865-867)TCT>TCC	p.S289S	ZNF493_uc002npw.2_Silent_p.S417S|ZNF493_uc002npy.2_Silent_p.S289S	NM_175910	NP_787106	Q6ZR52	ZN493_HUMAN	zinc finger protein 493 isoform 1	289	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
CCNE1	898	broad.mit.edu	37	19	30313366	30313366	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:30313366C>T	uc002nsn.2	+	11	1149	c.966C>T	c.(964-966)TGC>TGT	p.C322C	CCNE1_uc002nso.2_Silent_p.C307C|CCNE1_uc002nsp.2_Silent_p.C69C	NM_001238	NP_001229	P24864	CCNE1_HUMAN	cyclin E1 isoform 1	322					androgen receptor signaling pathway|cell division|positive regulation of transcription, DNA-dependent|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm	androgen receptor binding|protein kinase binding|transcription coactivator activity			lung(2)	2	all_cancers(1;2.19e-31)|all_epithelial(1;1.49e-30)|all_lung(1;1.37e-11)|Lung NSC(1;2.35e-11)|Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|Epithelial(1;6.85e-98)|all cancers(1;1.38e-94)|OV - Ovarian serous cystadenocarcinoma(1;1.38e-90)|STAD - Stomach adenocarcinoma(5;5.8e-07)|GBM - Glioblastoma multiforme(4;0.0394)|Lung(7;0.092)|LUAD - Lung adenocarcinoma(5;0.115)|BRCA - Breast invasive adenocarcinoma(6;0.183)|COAD - Colon adenocarcinoma(1;0.188)|Colorectal(1;0.202)															---	---	---	---
CCNE1	898	broad.mit.edu	37	19	30313453	30313453	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:30313453C>T	uc002nsn.2	+	11	1236	c.1053C>T	c.(1051-1053)GGC>GGT	p.G351G	CCNE1_uc002nso.2_Silent_p.G336G|CCNE1_uc002nsp.2_Silent_p.G98G	NM_001238	NP_001229	P24864	CCNE1_HUMAN	cyclin E1 isoform 1	351					androgen receptor signaling pathway|cell division|positive regulation of transcription, DNA-dependent|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm	androgen receptor binding|protein kinase binding|transcription coactivator activity			lung(2)	2	all_cancers(1;2.19e-31)|all_epithelial(1;1.49e-30)|all_lung(1;1.37e-11)|Lung NSC(1;2.35e-11)|Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|Epithelial(1;6.85e-98)|all cancers(1;1.38e-94)|OV - Ovarian serous cystadenocarcinoma(1;1.38e-90)|STAD - Stomach adenocarcinoma(5;5.8e-07)|GBM - Glioblastoma multiforme(4;0.0394)|Lung(7;0.092)|LUAD - Lung adenocarcinoma(5;0.115)|BRCA - Breast invasive adenocarcinoma(6;0.183)|COAD - Colon adenocarcinoma(1;0.188)|Colorectal(1;0.202)															---	---	---	---
ZNF536	9745	broad.mit.edu	37	19	30935717	30935717	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:30935717C>T	uc002nsu.1	+	2	1386	c.1248C>T	c.(1246-1248)GGC>GGT	p.G416G	ZNF536_uc010edd.1_Silent_p.G416G	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	416					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)																	---	---	---	---
ANKRD27	84079	broad.mit.edu	37	19	33096798	33096798	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:33096798C>T	uc002ntn.1	-	24	2592	c.2436G>A	c.(2434-2436)ACG>ACA	p.T812T		NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	812	ANK 10.				early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)																	---	---	---	---
SLC7A9	11136	broad.mit.edu	37	19	33355554	33355554	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:33355554G>A	uc002ntv.3	-	3	333	c.216C>T	c.(214-216)TGC>TGT	p.C72C	SLC7A9_uc002ntt.3_Intron|SLC7A9_uc002ntu.3_Silent_p.C72C|SLC7A9_uc002ntw.3_Intron	NM_001126335	NP_001119807	P82251	BAT1_HUMAN	solute carrier family 7, member 9	72	Helical; (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	integral to plasma membrane	L-cystine transmembrane transporter activity|neutral amino acid transmembrane transporter activity|peptide antigen binding			skin(1)	1	Esophageal squamous(110;0.137)				L-Cystine(DB00138)													---	---	---	---
GPATCH1	55094	broad.mit.edu	37	19	33602674	33602674	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:33602674C>T	uc002nug.1	+	12	1944	c.1630C>T	c.(1630-1632)CGA>TGA	p.R544*	GPATCH1_uc002nuh.1_5'Flank	NM_018025	NP_060495	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1	544						catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)																	---	---	---	---
PEPD	5184	broad.mit.edu	37	19	34002042	34002042	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34002042G>A	uc002nur.3	-	3	356	c.221C>T	c.(220-222)GCG>GTG	p.A74V	PEPD_uc010xrr.1_Missense_Mutation_p.A74V|PEPD_uc010xrs.1_Intron	NM_000285	NP_000276	P12955	PEPD_HUMAN	prolidase isoform 1	74					cellular amino acid metabolic process|collagen catabolic process|proteolysis		aminopeptidase activity|dipeptidase activity|manganese ion binding|metallocarboxypeptidase activity			ovary(2)	2	Esophageal squamous(110;0.137)																	---	---	---	---
CHST8	64377	broad.mit.edu	37	19	34263263	34263263	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34263263C>T	uc002nus.3	+	5	1075	c.570C>T	c.(568-570)CAC>CAT	p.H190H	CHST8_uc002nut.3_Silent_p.H190H|CHST8_uc002nuu.2_Silent_p.H190H	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	190	Lumenal (Potential).				carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)																	---	---	---	---
CHST8	64377	broad.mit.edu	37	19	34263612	34263612	+	Missense_Mutation	SNP	C	T	T	rs148111362		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34263612C>T	uc002nus.3	+	5	1424	c.919C>T	c.(919-921)CGT>TGT	p.R307C	CHST8_uc002nut.3_Missense_Mutation_p.R307C|CHST8_uc002nuu.2_Missense_Mutation_p.R307C	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	307	Lumenal (Potential).				carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)																	---	---	---	---
KIAA0355	9710	broad.mit.edu	37	19	34818453	34818453	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34818453A>G	uc002nvd.3	+	4	1692	c.833A>G	c.(832-834)GAC>GGC	p.D278G		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	278										ovary(1)	1	Esophageal squamous(110;0.162)																	---	---	---	---
GPI	2821	broad.mit.edu	37	19	34856175	34856175	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34856175G>A	uc002nvg.1	+	1	107	c.4G>A	c.(4-6)GCC>ACC	p.A2T	GPI_uc002nvf.2_Missense_Mutation_p.A41T|GPI_uc010xrv.1_Missense_Mutation_p.A41T|GPI_uc010xrw.1_Missense_Mutation_p.A2T|GPI_uc010edl.1_Missense_Mutation_p.A2T|GPI_uc002nvh.1_5'UTR	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase	2					angiogenesis|gluconeogenesis|glycolysis|hemostasis|humoral immune response	cytosol|extracellular space|nucleus|plasma membrane	cytokine activity|glucose-6-phosphate isomerase activity|growth factor activity			ovary(1)|kidney(1)	2	Esophageal squamous(110;0.162)																	---	---	---	---
ZNF599	148103	broad.mit.edu	37	19	35250659	35250659	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35250659C>T	uc010edn.1	-	4	1435	c.1047G>A	c.(1045-1047)ACG>ACA	p.T349T	ZNF599_uc010edm.1_Silent_p.T312T	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	349	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)															---	---	---	---
ZNF30	90075	broad.mit.edu	37	19	35434572	35434572	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35434572C>T	uc010edp.1	+	5	1080	c.702C>T	c.(700-702)TGC>TGT	p.C234C	ZNF30_uc002nxf.2_Silent_p.C153C|ZNF30_uc010edq.1_Silent_p.C235C|ZNF30_uc010edr.1_Silent_p.C235C	NM_194325	NP_919306	P17039	ZNF30_HUMAN	zinc finger protein 30 isoform b	234	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_lung(56;8.38e-08)|Lung NSC(56;1.31e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)	GBM - Glioblastoma multiforme(1328;0.0265)														---	---	---	---
ATP4A	495	broad.mit.edu	37	19	36050941	36050941	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36050941G>A	uc002oal.1	-	7	851	c.822C>T	c.(820-822)GAC>GAT	p.D274D	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	274	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)													---	---	---	---
RBM42	79171	broad.mit.edu	37	19	36120532	36120532	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36120532C>T	uc002oan.2	+	2	315	c.239C>T	c.(238-240)GCT>GTT	p.A80V	RBM42_uc010xsx.1_Missense_Mutation_p.A80V|RBM42_uc010eef.2_Missense_Mutation_p.A80V|RBM42_uc002oao.2_Missense_Mutation_p.A80V|RBM42_uc002oap.2_Missense_Mutation_p.A80V|RBM42_uc002oaq.2_Missense_Mutation_p.A80V|RBM42_uc010eeg.2_Missense_Mutation_p.A80V	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	80						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)															---	---	---	---
MLL4	9757	broad.mit.edu	37	19	36219029	36219029	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36219029G>A	uc010eei.2	+	20	4528	c.4528G>A	c.(4528-4530)GCC>ACC	p.A1510T		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1510					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)															---	---	---	---
WDR62	284403	broad.mit.edu	37	19	36556874	36556874	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36556874C>T	uc002odc.2	+	4	438	c.347C>T	c.(346-348)GCT>GTT	p.A116V	WDR62_uc002odd.2_Missense_Mutation_p.A116V|WDR62_uc002odb.2_Missense_Mutation_p.A116V	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	116	WD 1.				cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)															---	---	---	---
WDR62	284403	broad.mit.edu	37	19	36583697	36583697	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36583697C>T	uc002odc.2	+	19	2408	c.2317C>T	c.(2317-2319)CGG>TGG	p.R773W	WDR62_uc002odd.2_Missense_Mutation_p.R773W	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	773					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)															---	---	---	---
WDR62	284403	broad.mit.edu	37	19	36594764	36594764	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36594764G>A	uc002odc.2	+	30	4110	c.4019G>A	c.(4018-4020)CGC>CAC	p.R1340H	WDR62_uc002odd.2_Missense_Mutation_p.R1345H	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	1340					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)															---	---	---	---
CAPNS1	826	broad.mit.edu	37	19	36634008	36634008	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36634008G>A	uc002odj.2	+	6	591	c.434G>A	c.(433-435)CGC>CAC	p.R145H	CAPNS1_uc002odi.1_Missense_Mutation_p.R145H|CAPNS1_uc002odk.2_Missense_Mutation_p.R145H|CAPNS1_uc002odl.2_Missense_Mutation_p.R145H	NM_001749	NP_001740	P04632	CPNS1_HUMAN	calpain, small subunit 1	145	EF-hand 2.				positive regulation of cell proliferation	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity				0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)															---	---	---	---
ZFP82	284406	broad.mit.edu	37	19	36884211	36884211	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36884211C>A	uc002ody.1	-	5	1266	c.1031G>T	c.(1030-1032)GGG>GTG	p.G344V		NM_133466	NP_597723	Q8N141	ZFP82_HUMAN	zinc finger protein 82 homolog	344	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2																		---	---	---	---
ZNF382	84911	broad.mit.edu	37	19	37118277	37118277	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37118277G>A	uc002oek.2	+	5	1591	c.1478G>A	c.(1477-1479)GGG>GAG	p.G493E	ZNF382_uc010efa.2_Missense_Mutation_p.G444E|ZNF382_uc010efb.2_Missense_Mutation_p.G492E|ZNF382_uc002oel.2_Missense_Mutation_p.G492E	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	493	Required for transcriptional repression activity; probably mediates sequence- specific DNA-binding (By similarity).|C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)															---	---	---	---
ZNF585A	199704	broad.mit.edu	37	19	37642515	37642515	+	Silent	SNP	G	A	A	rs1610559	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37642515G>A	uc002ofo.1	-	5	2517	c.2286C>T	c.(2284-2286)AGC>AGT	p.S762S	ZNF585A_uc002ofm.1_Silent_p.S707S|ZNF585A_uc002ofn.1_Silent_p.S707S	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	762	C2H2-type 22.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)															---	---	---	---
ZNF585A	199704	broad.mit.edu	37	19	37643373	37643373	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37643373G>A	uc002ofo.1	-	5	1659	c.1428C>T	c.(1426-1428)ACC>ACT	p.T476T	ZNF585A_uc002ofm.1_Silent_p.T421T|ZNF585A_uc002ofn.1_Silent_p.T421T	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	476	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)															---	---	---	---
ZNF570	148268	broad.mit.edu	37	19	37966838	37966838	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37966838G>A	uc002ogk.1	+	3	618	c.89G>A	c.(88-90)TGT>TAT	p.C30Y	ZNF570_uc010efl.1_Missense_Mutation_p.C86Y|ZNF570_uc010xtr.1_5'UTR	NM_144694	NP_653295	Q96NI8	ZN570_HUMAN	zinc finger protein 570	30	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)															---	---	---	---
ZNF607	84775	broad.mit.edu	37	19	38189610	38189610	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38189610C>T	uc002ohc.1	-	5	2018	c.1422G>A	c.(1420-1422)GAG>GAA	p.E474E	ZNF607_uc002ohb.1_Silent_p.E473E	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607	474					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)															---	---	---	---
SIPA1L3	23094	broad.mit.edu	37	19	38590640	38590640	+	Silent	SNP	G	A	A	rs142598144		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38590640G>A	uc002ohk.2	+	5	2213	c.1704G>A	c.(1702-1704)ACG>ACA	p.T568T		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	568					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)															---	---	---	---
SIPA1L3	23094	broad.mit.edu	37	19	38600928	38600928	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38600928C>T	uc002ohk.2	+	8	2704	c.2195C>T	c.(2194-2196)GCG>GTG	p.A732V		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	732	Rap-GAP.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)															---	---	---	---
YIF1B	90522	broad.mit.edu	37	19	38799966	38799966	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38799966G>A	uc002ohz.2	-	3	349	c.300C>T	c.(298-300)ATC>ATT	p.I100I	YIF1B_uc002ohw.2_Silent_p.I69I|YIF1B_uc002ohx.2_Silent_p.I85I|YIF1B_uc010xtx.1_Silent_p.I83I|YIF1B_uc010xty.1_Silent_p.I69I|YIF1B_uc002oia.2_Silent_p.I97I|YIF1B_uc002ohy.2_Silent_p.I97I|YIF1B_uc002oib.2_Silent_p.I97I	NM_001039672	NP_001034761	Q5BJH7	YIF1B_HUMAN	Yip1 interacting factor homolog B isoform 5	100	Cytoplasmic (Potential).					integral to membrane					0	all_cancers(60;1.07e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)															---	---	---	---
FAM98C	147965	broad.mit.edu	37	19	38895587	38895587	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38895587G>A	uc002oin.1	+	4	408	c.389G>A	c.(388-390)TGC>TAC	p.C130Y	FAM98C_uc002oio.1_Missense_Mutation_p.C130Y|FAM98C_uc010xtz.1_Intron	NM_174905	NP_777565	Q17RN3	FA98C_HUMAN	hypothetical protein LOC147965	130										skin(1)	1	all_cancers(60;3.95e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)															---	---	---	---
RASGRP4	115727	broad.mit.edu	37	19	38901885	38901885	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38901885G>A	uc002oir.2	-	15	1936	c.1722C>T	c.(1720-1722)TGC>TGT	p.C574C	RASGRP4_uc010efz.1_RNA|RASGRP4_uc010ega.1_RNA|RASGRP4_uc010xua.1_Silent_p.C505C|RASGRP4_uc010xub.1_Silent_p.C540C|RASGRP4_uc010xuc.1_Silent_p.C482C|RASGRP4_uc010xud.1_Silent_p.C477C|RASGRP4_uc010xue.1_Silent_p.C385C|RASGRP4_uc010egb.2_Silent_p.C560C	NM_170604	NP_733749	Q8TDF6	GRP4_HUMAN	RAS guanyl releasing protein 4 isoform a	574	Phorbol-ester/DAG-type.				activation of phospholipase C activity|cell growth|cell proliferation|myeloid cell differentiation|positive regulation of Ras protein signal transduction|regulation of G-protein coupled receptor protein signaling pathway|response to extracellular stimulus|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|membrane fraction|plasma membrane|soluble fraction	diacylglycerol binding|GTP-dependent protein binding|metal ion binding|Ras guanyl-nucleotide exchange factor activity			pancreas(1)|lung(1)|skin(1)	3	all_cancers(60;4.21e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)															---	---	---	---
RYR1	6261	broad.mit.edu	37	19	38945909	38945909	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38945909G>A	uc002oit.2	+	14	1605	c.1475G>A	c.(1474-1476)CGC>CAC	p.R492H	RYR1_uc002oiu.2_Missense_Mutation_p.R492H	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	492	Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)													---	---	---	---
RYR1	6261	broad.mit.edu	37	19	38958369	38958369	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38958369C>T	uc002oit.2	+	25	3428	c.3298C>T	c.(3298-3300)CGC>TGC	p.R1100C	RYR1_uc002oiu.2_Missense_Mutation_p.R1100C	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1100	6 X approximate repeats.|Cytoplasmic.|B30.2/SPRY 2.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)													---	---	---	---
RYR1	6261	broad.mit.edu	37	19	38976521	38976521	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38976521C>T	uc002oit.2	+	34	5356	c.5226C>T	c.(5224-5226)CGC>CGT	p.R1742R	RYR1_uc002oiu.2_Silent_p.R1742R	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1742	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)													---	---	---	---
RYR1	6261	broad.mit.edu	37	19	39052042	39052042	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39052042G>A	uc002oit.2	+	90	12702	c.12572G>A	c.(12571-12573)CGC>CAC	p.R4191H	RYR1_uc002oiu.2_Missense_Mutation_p.R4186H|RYR1_uc002oiv.1_Missense_Mutation_p.R1100H	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4191					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)													---	---	---	---
MAP4K1	11184	broad.mit.edu	37	19	39100670	39100670	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39100670C>T	uc002oix.1	-						MAP4K1_uc002oiw.1_5'Flank|MAP4K1_uc002oiy.1_Intron|MAP4K1_uc010xug.1_Intron	NM_007181	NP_009112			mitogen-activated protein kinase kinase kinase						activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)															---	---	---	---
MAP4K1	11184	broad.mit.edu	37	19	39104547	39104547	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39104547C>T	uc002oix.1	-	8	614	c.506G>A	c.(505-507)CGC>CAC	p.R169H	MAP4K1_uc002oiy.1_Missense_Mutation_p.R169H|MAP4K1_uc010xug.1_5'UTR	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	169	Protein kinase.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)															---	---	---	---
CAPN12	147968	broad.mit.edu	37	19	39229238	39229238	+	Silent	SNP	C	T	T	rs148191501	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39229238C>T	uc002ojd.1	-	6	1089	c.780G>A	c.(778-780)GCG>GCA	p.A260A	CAPN12_uc002ojc.1_5'Flank	NM_144691	NP_653292	Q6ZSI9	CAN12_HUMAN	calpain 12	260	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)															---	---	---	---
LGALS4	3960	broad.mit.edu	37	19	39293029	39293029	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39293029C>A	uc002ojg.2	-	8	800	c.586G>T	c.(586-588)GGG>TGG	p.G196W		NM_006149	NP_006140	P56470	LEG4_HUMAN	galectin-4	196	Galectin 2.				cell adhesion	cytosol|plasma membrane	sugar binding			ovary(1)|skin(1)	2	all_cancers(60;1.02e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)															---	---	---	---
SIRT2	22933	broad.mit.edu	37	19	39379720	39379720	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39379720C>T	uc002ojt.1	-						SIRT2_uc010egh.1_Intron|SIRT2_uc010egi.1_Intron|SIRT2_uc002ojs.1_Intron|SIRT2_uc002oju.1_Intron|SIRT2_uc010egj.1_Intron|SIRT2_uc002ojv.1_Intron	NM_012237	NP_036369			sirtuin 2 isoform 1						cell division|chromatin silencing at rDNA|chromatin silencing at telomere|mitosis|negative regulation of striated muscle tissue development|protein ADP-ribosylation|regulation of exit from mitosis|regulation of phosphorylation|response to redox state	chromatin silencing complex|cytoplasm|microtubule	histone acetyltransferase binding|histone deacetylase binding|NAD+ binding|NAD-dependent histone deacetylase activity|transcription factor binding|tubulin deacetylase activity|ubiquitin binding|zinc ion binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00125)|LUSC - Lung squamous cell carcinoma(53;0.00191)															---	---	---	---
NFKBIB	4793	broad.mit.edu	37	19	39399417	39399417	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39399417G>A	uc002ojw.2	+	6	1074	c.1016G>A	c.(1015-1017)CGG>CAG	p.R339Q	NFKBIB_uc002ojx.2_3'UTR|NFKBIB_uc002ojy.2_3'UTR	NM_002503	NP_002494	Q15653	IKBB_HUMAN	nuclear factor of kappa light polypeptide gene	339					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription, DNA-dependent	cytosol|nucleus	protein binding|signal transducer activity|transcription coactivator activity			lung(1)|kidney(1)	2	all_cancers(60;4.39e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)															---	---	---	---
FBXO27	126433	broad.mit.edu	37	19	39516156	39516156	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39516156G>A	uc002okh.2	-	6	829	c.747C>T	c.(745-747)CGC>CGT	p.R249R		NM_178820	NP_849142	Q8NI29	FBX27_HUMAN	F-box protein 27	249	FBA.				protein catabolic process	SCF ubiquitin ligase complex	glycoprotein binding			ovary(1)	1	all_cancers(60;3.79e-07)|all_lung(34;1.26e-07)|Lung NSC(34;1.46e-07)|all_epithelial(25;4.69e-07)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)															---	---	---	---
PAPL	390928	broad.mit.edu	37	19	39590899	39590899	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39590899G>A	uc002oki.2	+	5	812	c.538G>A	c.(538-540)GCC>ACC	p.A180T	PAPL_uc010egl.2_Intron	NM_001004318	NP_001004318	Q6ZNF0	PAPL_HUMAN	iron/zinc purple acid phosphatase-like protein	180						extracellular region	acid phosphatase activity|metal ion binding				0																		---	---	---	---
SAMD4B	55095	broad.mit.edu	37	19	39871413	39871413	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39871413C>T	uc002olb.2	+	13	2871	c.1836C>T	c.(1834-1836)GGC>GGT	p.G612G	SAMD4B_uc002ola.2_Silent_p.G612G	NM_018028	NP_060498	Q5PRF9	SMAG2_HUMAN	sterile alpha motif domain containing 4B	612							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)															---	---	---	---
SUPT5H	6829	broad.mit.edu	37	19	39949669	39949669	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39949669C>T	uc002olo.3	+	7	593	c.414C>T	c.(412-414)GGC>GGT	p.G138G	SUPT5H_uc002olp.3_Silent_p.G138G|SUPT5H_uc002olq.3_Silent_p.G134G|SUPT5H_uc002oln.3_Silent_p.G138G|SUPT5H_uc002olr.3_Silent_p.G138G	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	138					cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)															---	---	---	---
PSMC4	5704	broad.mit.edu	37	19	40486604	40486604	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40486604A>G	uc002omq.2	+	10	1160	c.1123A>G	c.(1123-1125)ATT>GTT	p.I375V	PSMC4_uc002omr.2_Missense_Mutation_p.I344V	NM_006503	NP_006494	P43686	PRS6B_HUMAN	proteasome 26S ATPase subunit 4 isoform 1	375					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	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding			ovary(1)	1	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)																	---	---	---	---
ZNF780B	163131	broad.mit.edu	37	19	40541185	40541185	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40541185C>T	uc002omu.2	-	5	1646	c.1581G>A	c.(1579-1581)AAG>AAA	p.K527K	ZNF780B_uc002omv.2_Silent_p.K379K	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	527					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)																	---	---	---	---
AKT2	208	broad.mit.edu	37	19	40747910	40747910	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40747910G>A	uc002onf.2	-	6	770	c.508C>T	c.(508-510)CGG>TGG	p.R170W	AKT2_uc010egs.2_Missense_Mutation_p.R170W|AKT2_uc010egt.2_Missense_Mutation_p.R108W|AKT2_uc010xvj.1_Missense_Mutation_p.R108W|AKT2_uc010egu.1_Missense_Mutation_p.R108W|AKT2_uc010xvk.1_Missense_Mutation_p.R170W|AKT2_uc002one.2_Missense_Mutation_p.R66W	NM_001626	NP_001617	P31751	AKT2_HUMAN	AKT2 kinase	170	Protein kinase.				insulin receptor signaling pathway|negative regulation of plasma membrane long-chain fatty acid transport|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)	2			Lung(22;0.000499)					A		ovarian|pancreatic 								---	---	---	---
HIPK4	147746	broad.mit.edu	37	19	40889788	40889788	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40889788C>T	uc002onp.2	-	2	1009	c.724G>A	c.(724-726)GCC>ACC	p.A242T		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	242	Protein kinase.					cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)															---	---	---	---
HIPK4	147746	broad.mit.edu	37	19	40895719	40895719	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40895719G>A	uc002onp.2	-	1	376	c.91C>T	c.(91-93)CGG>TGG	p.R31W		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	31	Protein kinase.					cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)															---	---	---	---
CYP2S1	29785	broad.mit.edu	37	19	41707284	41707284	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41707284G>A	uc002opw.2	+						CYP2F1_uc010xvw.1_Intron|CYP2S1_uc010xvx.1_Intron	NM_030622	NP_085125			cytochrome P450, family 2, subfamily S,						xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity			skin(1)	1																		---	---	---	---
HNRNPUL1	11100	broad.mit.edu	37	19	41810156	41810156	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41810156G>A	uc002oqb.3	+	13	2541	c.2252G>A	c.(2251-2253)AGC>AAC	p.S751N	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Missense_Mutation_p.S651N|HNRNPUL1_uc002oqa.3_Missense_Mutation_p.S651N|HNRNPUL1_uc010ehm.2_Missense_Mutation_p.S751N|HNRNPUL1_uc002oqc.3_Missense_Mutation_p.S637N|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Missense_Mutation_p.S651N|HNRNPUL1_uc010ehn.2_Missense_Mutation_p.S651N|HNRNPUL1_uc010eho.2_Missense_Mutation_p.S651N|HNRNPUL1_uc010xvy.1_Missense_Mutation_p.S651N|HNRNPUL1_uc010ehp.2_Missense_Mutation_p.S607N|HNRNPUL1_uc002oqf.3_Missense_Mutation_p.S275N	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	751	Pro-rich.|Necessary for interaction with TP53.				nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2																		---	---	---	---
BCKDHA	593	broad.mit.edu	37	19	41884222	41884222	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41884222G>A	uc002oqm.3	+	2	359	c.8G>A	c.(7-9)AGC>AAC	p.S3N	CYP2F1_uc010xvw.1_Intron|TMEM91_uc002oqi.2_Missense_Mutation_p.S3N|TMEM91_uc010ehq.2_Missense_Mutation_p.S3N|TMEM91_uc002oql.2_Missense_Mutation_p.S3N|TMEM91_uc010ehr.2_Missense_Mutation_p.S3N|TMEM91_uc010ehs.2_Missense_Mutation_p.S3N|TMEM91_uc010eht.2_Missense_Mutation_p.S3N|TMEM91_uc002oqk.3_Missense_Mutation_p.S3N|TMEM91_uc002oqn.2_Missense_Mutation_p.S3N	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	Error:Variant_position_missing_in_P12694_after_alignment					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0																		---	---	---	---
BCKDHA	593	broad.mit.edu	37	19	41916541	41916541	+	Splice_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41916541G>A	uc002oqq.2	+	2	138	c.109_splice	c.e2-1	p.H37_splice	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Splice_Site_p.H71_splice|BCKDHA_uc002oqp.1_Splice_Site|BCKDHA_uc002oqr.2_Splice_Site_p.H37_splice|BCKDHA_uc010xvz.1_Intron	NM_000709	NP_000700			branched chain keto acid dehydrogenase E1, alpha						branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0																		---	---	---	---
CD79A	973	broad.mit.edu	37	19	42383170	42383170	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42383170G>A	uc002orv.2	+	2	375	c.190G>A	c.(190-192)GTC>ATC	p.V64I	CD79A_uc002oru.2_Missense_Mutation_p.V64I	NM_001783	NP_001774	P11912	CD79A_HUMAN	CD79A antigen isoform 1 precursor	64	Ig-like C2-type.|Extracellular (Potential).				B cell differentiation|B cell proliferation|B cell receptor signaling pathway	B cell receptor complex|external side of plasma membrane|integral to membrane|membrane raft|multivesicular body	transmembrane receptor activity			ovary(2)|pancreas(1)	3								O|S		DLBCL								---	---	---	---
ARHGEF1	9138	broad.mit.edu	37	19	42398627	42398627	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42398627C>T	uc002orx.2	+						ARHGEF1_uc002orw.1_Intron|ARHGEF1_uc002ory.2_Intron|ARHGEF1_uc002orz.2_Intron|ARHGEF1_uc002osa.2_Intron|ARHGEF1_uc002osb.2_Intron|ARHGEF1_uc002osc.2_5'Flank|ARHGEF1_uc002osd.2_5'Flank	NM_004706	NP_004697			Rho guanine nucleotide exchange factor 1 isoform						cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)														---	---	---	---
ARHGEF1	9138	broad.mit.edu	37	19	42409386	42409386	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42409386G>A	uc002orx.2	+	24	2418	c.2309G>A	c.(2308-2310)CGC>CAC	p.R770H	ARHGEF1_uc002ory.2_Missense_Mutation_p.R737H|ARHGEF1_uc002orz.2_Missense_Mutation_p.R608H|ARHGEF1_uc002osa.2_Missense_Mutation_p.R785H|ARHGEF1_uc002osb.2_Missense_Mutation_p.R752H|ARHGEF1_uc002osc.2_Missense_Mutation_p.R524H|ARHGEF1_uc002osd.2_Missense_Mutation_p.R429H|ARHGEF1_uc002ose.2_Missense_Mutation_p.R214H	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	770					cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)														---	---	---	---
ZNF574	64763	broad.mit.edu	37	19	42584239	42584239	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42584239G>A	uc002osm.3	+	2	1650	c.1481G>A	c.(1480-1482)CGC>CAC	p.R494H	ZNF574_uc002osk.3_Missense_Mutation_p.R584H	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	494					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)																---	---	---	---
DEDD2	162989	broad.mit.edu	37	19	42703764	42703764	+	Silent	SNP	G	A	A	rs17852469	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42703764G>A	uc002osu.1	-	5	875	c.807C>T	c.(805-807)GGC>GGT	p.G269G	DEDD2_uc002osv.1_RNA|DEDD2_uc002osw.1_Silent_p.G264G|DEDD2_uc002osx.1_3'UTR|DEDD2_uc002osy.1_Silent_p.G269G	NM_133328	NP_579874	Q8WXF8	DEDD2_HUMAN	death effector domain-containing  DNA binding	269					activation of pro-apoptotic gene products|apoptotic nuclear change|cellular homeostasis|induction of apoptosis via death domain receptors|intracellular signal transduction|negative regulation of transcription, DNA-dependent|RNA processing|rRNA catabolic process|transcription, DNA-dependent	nucleolus	DNA binding|receptor signaling complex scaffold activity				0		Prostate(69;0.0704)																---	---	---	---
ZNF526	116115	broad.mit.edu	37	19	42729380	42729380	+	Silent	SNP	C	T	T	rs138082392	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42729380C>T	uc002osz.1	+	3	981	c.825C>T	c.(823-825)TGC>TGT	p.C275C		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	275					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)																---	---	---	---
ERF	2077	broad.mit.edu	37	19	42753169	42753169	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42753169C>T	uc002ote.3	-	4	1253	c.1095G>A	c.(1093-1095)TCG>TCA	p.S365S	ERF_uc002otd.3_Silent_p.S96S	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	365	Poly-Ser.				cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)																---	---	---	---
CIC	23152	broad.mit.edu	37	19	42797777	42797777	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42797777C>T	uc002otf.1	+	16	3869	c.3829C>T	c.(3829-3831)CGC>TGC	p.R1277C		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	1277	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								---	---	---	---
PRR19	284338	broad.mit.edu	37	19	42814738	42814738	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42814738C>T	uc002oti.2	+	3	1295	c.917C>T	c.(916-918)CCT>CTT	p.P306L	PRR19_uc002oth.1_3'UTR|PRR19_uc002otj.2_Missense_Mutation_p.P306L|TMEM145_uc002otk.1_5'Flank	NM_199285	NP_954979	A6NJB7	PRR19_HUMAN	proline rich 19	306	Pro-rich.										0		Prostate(69;0.00682)																---	---	---	---
PSG7	5676	broad.mit.edu	37	19	43439709	43439709	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:43439709G>A	uc002ovl.3	-	2	379	c.277C>T	c.(277-279)CCT>TCT	p.P93S	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Intron	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	93	Ig-like V-type.				female pregnancy	extracellular region					0		Prostate(69;0.00682)																---	---	---	---
XRCC1	7515	broad.mit.edu	37	19	44056177	44056177	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44056177C>T	uc002owt.2	-	9	1194	c.1074G>A	c.(1072-1074)ACG>ACA	p.T358T	XRCC1_uc010xwp.1_Silent_p.T327T	NM_006297	NP_006288	P18887	XRCC1_HUMAN	X-ray repair cross complementing protein 1	358	BRCT 1.				base-excision repair|single strand break repair	nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(2)|large_intestine(1)|prostate(1)|breast(1)	7		Prostate(69;0.0153)											Other_BER_factors					---	---	---	---
C19orf61	56006	broad.mit.edu	37	19	44251773	44251773	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44251773G>A	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)																---	---	---	---
ZNF230	7773	broad.mit.edu	37	19	44513032	44513032	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44513032G>A	uc002oyb.1	+	3	357	c.106G>A	c.(106-108)GTG>ATG	p.V36M		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	36	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)																---	---	---	---
ZNF234	10780	broad.mit.edu	37	19	44661004	44661004	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44661004C>T	uc002oym.2	+	6	1142	c.835C>T	c.(835-837)CAG>TAG	p.Q279*	ZNF234_uc002oyl.3_Nonsense_Mutation_p.Q279*	NM_006630	NP_006621	Q14588	ZN234_HUMAN	zinc finger protein 234	279	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)																---	---	---	---
ZNF233	353355	broad.mit.edu	37	19	44778756	44778756	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44778756A>G	uc002oyz.1	+	5	2070	c.1943A>G	c.(1942-1944)TAC>TGC	p.Y648C	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF233_uc002oyy.1_Missense_Mutation_p.Y463C	NM_181756	NP_861421	A6NK53	ZN233_HUMAN	zinc finger protein 233	648					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2		Prostate(69;0.0435)|all_neural(266;0.226)																---	---	---	---
CBLC	23624	broad.mit.edu	37	19	45284250	45284250	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45284250A>C	uc002ozs.2	+	2	505	c.442A>C	c.(442-444)ATG>CTG	p.M148L	CBLC_uc010ejt.2_Missense_Mutation_p.M148L	NM_012116	NP_036248	Q9ULV8	CBLC_HUMAN	Cas-Br-M (murine) ecotropic retroviral	148	EF-hand-like.|Cbl-PTB.				cell surface receptor linked signaling pathway|negative regulation of epidermal growth factor receptor activity|negative regulation of MAP kinase activity|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	calcium ion binding|epidermal growth factor receptor binding|phosphotyrosine binding|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|skin(1)	6	Lung NSC(12;0.00136)|all_lung(12;0.00371)	Ovarian(192;0.231)						M		AML								---	---	---	---
BCAM	4059	broad.mit.edu	37	19	45316510	45316510	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45316510G>A	uc002ozu.2	+	5	552	c.508G>A	c.(508-510)GCC>ACC	p.A170T	BCAM_uc002ozt.1_Missense_Mutation_p.A170T	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	170	Extracellular (Potential).|Ig-like V-type 2.				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)																---	---	---	---
CKM	1158	broad.mit.edu	37	19	45810786	45810786	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45810786C>T	uc002pbd.2	-	7	974	c.900G>A	c.(898-900)GCG>GCA	p.A300A		NM_001824	NP_001815	P06732	KCRM_HUMAN	muscle creatine kinase	300	Phosphagen kinase C-terminal.				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)													---	---	---	---
ERCC2	2068	broad.mit.edu	37	19	45872317	45872317	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45872317G>A	uc002pbj.2	-						ERCC2_uc010ejz.2_Intron|ERCC2_uc002pbk.2_Intron|ERCC2_uc002pbl.3_Intron|ERCC2_uc010xxj.1_Intron	NM_000400	NP_000391			excision repair cross-complementing rodent						cell cycle checkpoint|chromosome segregation|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|UV protection|viral reproduction	cytoplasm|holo TFIIH complex|MMXD complex	5'-3' DNA helicase activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding|protein C-terminus binding|protein N-terminus binding			lung(2)|pancreas(1)	3		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)				Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				---	---	---	---
OPA3	80207	broad.mit.edu	37	19	46032371	46032371	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46032371G>A	uc002pcj.3	-	2	586	c.486C>T	c.(484-486)CAC>CAT	p.H162H		NM_001017989	NP_001017989	Q9H6K4	OPA3_HUMAN	OPA3 protein isoform a	162	Potential.				response to stimulus|visual perception	mitochondrion					0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00778)|GBM - Glioblastoma multiforme(486;0.0976)|Epithelial(262;0.242)														---	---	---	---
QPCTL	54814	broad.mit.edu	37	19	46198688	46198688	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46198688C>T	uc010xxr.1	+						QPCTL_uc010ekn.2_Intron	NM_017659	NP_060129			glutaminyl-peptide cyclotransferase-like isoform						peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	Golgi membrane|integral to membrane	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|protein binding|zinc ion binding			skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0059)|GBM - Glioblastoma multiforme(486;0.0882)|Epithelial(262;0.208)														---	---	---	---
NANOS2	339345	broad.mit.edu	37	19	46417571	46417571	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46417571G>A	uc002pdu.2	-	1	466	c.381C>T	c.(379-381)AGC>AGT	p.S127S		NM_001029861	NP_001025032	P60321	NANO2_HUMAN	nanos homolog 2	127					germ-line stem cell maintenance|mRNA catabolic process|multicellular organismal development|negative regulation of meiosis|regulation of translation|spermatogenesis	cytoplasmic mRNA processing body|perinuclear region of cytoplasm	RNA binding|zinc ion binding				0		Ovarian(192;0.0308)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00442)|GBM - Glioblastoma multiforme(486;0.0668)|Epithelial(262;0.231)														---	---	---	---
STRN4	29888	broad.mit.edu	37	19	47225261	47225261	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47225261C>T	uc002pfl.2	-	16	2107	c.2074G>A	c.(2074-2076)GCA>ACA	p.A692T	STRN4_uc002pfm.2_Missense_Mutation_p.A699T|STRN4_uc010xyf.1_RNA	NM_013403	NP_037535	Q9NRL3	STRN4_HUMAN	zinedin isoform 1	692	WD 6.					cytoplasm|membrane	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000563)|all cancers(93;0.00138)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.035)														---	---	---	---
GRLF1	2909	broad.mit.edu	37	19	47423942	47423942	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47423942G>A	uc010ekv.2	+	1	2010	c.2010G>A	c.(2008-2010)TCG>TCA	p.S670S		NM_004491	NP_004482	Q9NRY4	RHG35_HUMAN	glucocorticoid receptor DNA binding factor 1	670					axon guidance|negative regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol	DNA binding|Rho GTPase activator activity|transcription corepressor activity			central_nervous_system(1)	1		all_cancers(25;1.51e-09)|all_epithelial(76;1.87e-07)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|Ovarian(192;0.0129)|all_neural(266;0.026)|Breast(70;0.077)		all cancers(93;2.03e-05)|OV - Ovarian serous cystadenocarcinoma(262;2.57e-05)|Epithelial(262;0.00135)|GBM - Glioblastoma multiforme(486;0.0289)														---	---	---	---
C5AR1	728	broad.mit.edu	37	19	47823356	47823356	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47823356G>A	uc002pgj.1	+	2	371	c.322G>A	c.(322-324)GCC>ACC	p.A108T		NM_001736	NP_001727	P21730	C5AR_HUMAN	complement component 5 receptor 1	108	Extracellular (Potential).				activation of MAPK activity|activation of phospholipase C activity|cellular defense response|elevation of cytosolic calcium ion concentration|immune response|sensory perception of chemical stimulus	integral to plasma membrane	C5a anaphylatoxin receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_cancers(25;2e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000267)|OV - Ovarian serous cystadenocarcinoma(262;0.000618)|Epithelial(262;0.0142)|GBM - Glioblastoma multiforme(486;0.0242)														---	---	---	---
DHX34	9704	broad.mit.edu	37	19	47876049	47876049	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47876049G>A	uc010xyn.1	+	8	2172	c.1831G>A	c.(1831-1833)GCA>ACA	p.A611T	DHX34_uc010elc.1_Missense_Mutation_p.A526T	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	611						intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)														---	---	---	---
DHX34	9704	broad.mit.edu	37	19	47884536	47884536	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47884536G>A	uc010xyn.1	+	16	3594	c.3253G>A	c.(3253-3255)GCC>ACC	p.A1085T	DHX34_uc010xyo.1_Missense_Mutation_p.A214T	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	1085						intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)														---	---	---	---
NAPA	8775	broad.mit.edu	37	19	47995277	47995277	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47995277C>T	uc002pha.1	-	8	961	c.661G>A	c.(661-663)GCC>ACC	p.A221T	uc002pgz.1_Intron|NAPA_uc002phb.1_Missense_Mutation_p.A182T|NAPA_uc002phc.1_Missense_Mutation_p.A108T|NAPA_uc002phd.1_Missense_Mutation_p.A221T	NM_003827	NP_003818	P54920	SNAA_HUMAN	N-ethylmaleimide-sensitive factor attachment	221					cellular membrane fusion|intra-Golgi vesicle-mediated transport|post-Golgi vesicle-mediated transport	cytosol					0		all_cancers(25;1.55e-10)|all_epithelial(76;3.4e-08)|all_lung(116;1.73e-07)|Lung NSC(112;3.95e-07)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		OV - Ovarian serous cystadenocarcinoma(262;0.000466)|all cancers(93;0.000739)|Epithelial(262;0.0168)|GBM - Glioblastoma multiforme(486;0.049)														---	---	---	---
ZNF114	163071	broad.mit.edu	37	19	48790081	48790081	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48790081G>A	uc002pil.1	+	6	1697	c.1200G>A	c.(1198-1200)TCG>TCA	p.S400S	ZNF114_uc010elv.1_Silent_p.S400S|ZNF114_uc002pim.1_Silent_p.S400S|ZNF114_uc002pin.2_Silent_p.S366S	NM_153608	NP_705836	Q8NC26	ZN114_HUMAN	zinc finger protein 114	400	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_epithelial(76;8.01e-05)|all_lung(116;0.000112)|Lung NSC(112;0.000192)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;7.56e-05)|all cancers(93;0.000113)|Epithelial(262;0.00962)|GBM - Glioblastoma multiforme(486;0.0153)														---	---	---	---
KDELR1	10945	broad.mit.edu	37	19	48887702	48887702	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48887702G>A	uc002pjb.1	-	4	584	c.389C>T	c.(388-390)GCC>GTC	p.A130V	KDELR1_uc002pja.1_Missense_Mutation_p.A68V	NM_006801	NP_006792	P24390	ERD21_HUMAN	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum	130	Helical; (Potential).				intracellular protein transport|protein retention in ER lumen|vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|integral to membrane|membrane fraction	KDEL sequence binding|protein binding|receptor activity				0		all_epithelial(76;2.48e-06)|all_lung(116;5.76e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Prostate(7;0.122)|Breast(70;0.203)		all cancers(93;0.000114)|OV - Ovarian serous cystadenocarcinoma(262;0.000136)|Epithelial(262;0.01)|GBM - Glioblastoma multiforme(486;0.0145)														---	---	---	---
RASIP1	54922	broad.mit.edu	37	19	49227759	49227759	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49227759G>A	uc002pki.2	-	10	2576	c.2379C>T	c.(2377-2379)GGC>GGT	p.G793G	RASIP1_uc002pkh.2_Silent_p.G54G	NM_017805	NP_060275	Q5U651	RAIN_HUMAN	Ras-interacting protein 1	793	Dilute.				signal transduction	Golgi stack|perinuclear region of cytoplasm				pancreas(1)	1		all_lung(116;4.89e-06)|all_epithelial(76;7.04e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;9.98e-05)|all cancers(93;0.000272)|Epithelial(262;0.0155)|GBM - Glioblastoma multiforme(486;0.0222)														---	---	---	---
NUCB1	4924	broad.mit.edu	37	19	49416353	49416353	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49416353G>A	uc002plb.3	+	6	638	c.566G>A	c.(565-567)CGT>CAT	p.R189H	NUCB1_uc002pla.2_Missense_Mutation_p.R189H|NUCB1_uc002plc.2_Missense_Mutation_p.R189H	NM_006184	NP_006175	Q02818	NUCB1_HUMAN	nucleobindin 1 precursor	189	Potential.|Potential.					ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|membrane|microtubule cytoskeleton	calcium ion binding|DNA binding				0		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)														---	---	---	---
DHDH	27294	broad.mit.edu	37	19	49442881	49442881	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49442881G>A	uc002ple.1	+	4	582	c.542G>A	c.(541-543)TGT>TAT	p.C181Y		NM_014475	NP_055290	Q9UQ10	DHDH_HUMAN	dimeric dihydrodiol dehydrogenase	181					carbohydrate metabolic process		binding|D-xylose 1-dehydrogenase (NADP+) activity|electron carrier activity|NAD(P)+ transhydrogenase activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000158)|all cancers(93;0.000258)|Epithelial(262;0.0173)|GBM - Glioblastoma multiforme(486;0.0179)														---	---	---	---
KCNA7	3743	broad.mit.edu	37	19	49575644	49575644	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49575644C>T	uc002pmg.2	-	1	555	c.199G>A	c.(199-201)GCC>ACC	p.A67T		NM_031886	NP_114092	Q96RP8	KCNA7_HUMAN	potassium voltage-gated channel, shaker-related	67						voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(1)	1		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000397)|OV - Ovarian serous cystadenocarcinoma(262;0.000519)|GBM - Glioblastoma multiforme(486;0.00541)|Epithelial(262;0.0441)														---	---	---	---
CD37	951	broad.mit.edu	37	19	49842133	49842133	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49842133G>A	uc002pnd.2	+	6	745	c.624G>A	c.(622-624)GCG>GCA	p.A208A	uc002pnb.1_Intron|CD37_uc002pnc.2_RNA|CD37_uc010yam.1_Silent_p.A208A|CD37_uc010yan.1_Silent_p.A140A|CD37_uc002pnf.3_Silent_p.A180A|CD37_uc002pne.2_Silent_p.A140A	NM_001774	NP_001765	P11049	CD37_HUMAN	CD37 antigen isoform A	208	Extracellular (Potential).					integral to membrane					0		all_lung(116;2.81e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00088)|GBM - Glioblastoma multiforme(486;0.0443)														---	---	---	---
TEAD2	8463	broad.mit.edu	37	19	49846621	49846621	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49846621G>A	uc002pnj.2	-	10	1035	c.944C>T	c.(943-945)GCA>GTA	p.A315V	TEAD2_uc002png.2_Missense_Mutation_p.A318V|TEAD2_uc002pnh.2_Missense_Mutation_p.A319V|TEAD2_uc002pni.2_Missense_Mutation_p.A318V|TEAD2_uc010yao.1_Missense_Mutation_p.A187V|TEAD2_uc010emw.2_Missense_Mutation_p.A318V	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	315	Transcriptional activation (Potential).				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)														---	---	---	---
SLC17A7	57030	broad.mit.edu	37	19	49934262	49934262	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49934262C>T	uc002pnp.2	-						SLC17A7_uc002pno.2_Intron	NM_020309	NP_064705			solute carrier family 17, member 7						glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)														---	---	---	---
RCN3	57333	broad.mit.edu	37	19	50040306	50040306	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50040306C>T	uc002poj.2	+	4	909	c.462C>T	c.(460-462)GAC>GAT	p.D154D		NM_020650	NP_065701	Q96D15	RCN3_HUMAN	reticulocalbin 3, EF-hand calcium binding domain	154						endoplasmic reticulum lumen	calcium ion binding|protein binding			ovary(1)	1		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00295)|GBM - Glioblastoma multiforme(134;0.0159)														---	---	---	---
FUZ	80199	broad.mit.edu	37	19	50314650	50314650	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50314650G>A	uc002ppq.1	-	5	567	c.462C>T	c.(460-462)TGC>TGT	p.C154C	FUZ_uc002ppr.1_Silent_p.C54C|FUZ_uc002pps.1_RNA|FUZ_uc002ppt.1_RNA|FUZ_uc002ppu.1_Silent_p.C118C|FUZ_uc002ppv.1_Silent_p.C104C|FUZ_uc010ybd.1_Silent_p.C154C	NM_025129	NP_079405	Q9BT04	FUZZY_HUMAN	fuzzy homolog	154					cilium assembly|embryonic body morphogenesis|embryonic skeletal system morphogenesis|establishment of planar polarity|hair follicle development|neural tube closure|protein transport|regulation of smoothened signaling pathway	cytoplasm|cytoskeleton					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00793)|GBM - Glioblastoma multiforme(134;0.0116)														---	---	---	---
MED25	81857	broad.mit.edu	37	19	50334046	50334046	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50334046G>A	uc002ppw.1	+	9	1056	c.1003G>A	c.(1003-1005)GCC>ACC	p.A335T	MED25_uc010ybe.1_Missense_Mutation_p.A122T|MED25_uc002ppx.1_Missense_Mutation_p.A116T	NM_030973	NP_112235	Q71SY5	MED25_HUMAN	mediator complex subunit 25	335	Pro-rich.		A -> V (in CMT2B2).		regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm				ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00822)|GBM - Glioblastoma multiforme(134;0.0122)														---	---	---	---
PNKP	11284	broad.mit.edu	37	19	50367620	50367620	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50367620C>T	uc002pqh.2	-	4	591	c.539G>A	c.(538-540)CGC>CAC	p.R180H	PNKP_uc002pqg.2_5'UTR|PNKP_uc002pqi.2_Missense_Mutation_p.R141H|PNKP_uc002pqj.2_Missense_Mutation_p.R180H|PNKP_uc010enm.2_Missense_Mutation_p.R180H|PNKP_uc002pqk.2_Missense_Mutation_p.R180H	NM_007254	NP_009185	Q96T60	PNKP_HUMAN	polynucleotide kinase 3' phosphatase	180					DNA damage response, detection of DNA damage|DNA-dependent DNA replication|nucleotide-excision repair, DNA damage removal|response to oxidative stress|response to radiation	nucleolus	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|damaged DNA binding|double-stranded DNA binding|endonuclease activity|nucleotide kinase activity|polynucleotide 3'-phosphatase activity|protein binding			ovary(1)|kidney(1)	2		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0118)|OV - Ovarian serous cystadenocarcinoma(262;0.0134)									Other_BER_factors					---	---	---	---
IL4I1	259307	broad.mit.edu	37	19	50393017	50393017	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50393017C>T	uc002pqt.1	-	8	1692	c.1614G>A	c.(1612-1614)TCG>TCA	p.S538S	IL4I1_uc002pqv.1_Silent_p.S547S|IL4I1_uc010eno.1_Silent_p.S546S|IL4I1_uc002pqw.1_Silent_p.S546S|IL4I1_uc002pqu.1_Silent_p.S560S	NM_152899	NP_690863	Q96RQ9	OXLA_HUMAN	interleukin 4 induced 1 isoform 1 precursor	538						lysosome	L-amino-acid oxidase activity			lung(1)|ovary(1)|prostate(1)	3		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00245)|OV - Ovarian serous cystadenocarcinoma(262;0.0169)														---	---	---	---
C19orf41	126123	broad.mit.edu	37	19	50655902	50655902	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50655902A>G	uc002prp.1	-	7	717	c.630T>C	c.(628-630)TGT>TGC	p.C210C		NM_152358	NP_689571	Q6UXV1	IZUM2_HUMAN	hypothetical protein LOC126123 precursor	210	Cytoplasmic (Potential).					integral to membrane					0		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00364)|OV - Ovarian serous cystadenocarcinoma(262;0.0052)														---	---	---	---
JOSD2	126119	broad.mit.edu	37	19	51009492	51009492	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51009492C>T	uc002psn.1	-	5	536	c.505G>A	c.(505-507)GAG>AAG	p.E169K	JOSD2_uc002pso.1_Missense_Mutation_p.E169K|JOSD2_uc002psp.1_Missense_Mutation_p.E169K|JOSD2_uc002psq.1_Missense_Mutation_p.E127K	NM_138334	NP_612207	Q8TAC2	JOS2_HUMAN	Josephin domain containing 2	169	Josephin.				protein deubiquitination		ubiquitin-specific protease activity				0		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0364)														---	---	---	---
LRRC4B	94030	broad.mit.edu	37	19	51021314	51021314	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51021314C>T	uc002pss.2	-	3	1793	c.1656G>A	c.(1654-1656)GCG>GCA	p.A552A		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	552	Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)														---	---	---	---
SHANK1	50944	broad.mit.edu	37	19	51217085	51217085	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51217085G>A	uc002psx.1	-	5	781	c.762C>T	c.(760-762)GCC>GCT	p.A254A		NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	254	ANK 2.				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)														---	---	---	---
KLK3	354	broad.mit.edu	37	19	51363384	51363384	+	3'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51363384G>A	uc002pts.1	+	5					KLK3_uc010ycj.1_3'UTR|KLK3_uc002ptr.1_3'UTR|KLK3_uc010eof.1_RNA	NM_001030047	NP_001025218			prostate specific antigen isoform 3						negative regulation of angiogenesis|proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00763)|GBM - Glioblastoma multiforme(134;0.0144)														---	---	---	---
SIGLEC10	89790	broad.mit.edu	37	19	51920664	51920664	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51920664C>T	uc002pwo.2	-	2	709	c.93G>A	c.(91-93)GTG>GTA	p.V31V	SIGLEC10_uc002pwp.2_Silent_p.V31V|SIGLEC10_uc002pwq.2_Silent_p.V31V|SIGLEC10_uc002pwr.2_Silent_p.V31V|SIGLEC10_uc010ycy.1_Silent_p.V31V|SIGLEC10_uc010ycz.1_Silent_p.V31V|SIGLEC10_uc010eow.2_Intron|SIGLEC10_uc002pws.1_Silent_p.V15V	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	31	Extracellular (Potential).|Ig-like V-type.				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)														---	---	---	---
ZNF613	79898	broad.mit.edu	37	19	52447944	52447944	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52447944C>T	uc002pxz.1	+	6	1231	c.808C>T	c.(808-810)CGC>TGC	p.R270C	ZNF613_uc002pya.1_Missense_Mutation_p.R234C	NM_001031721	NP_001026891	Q6PF04	ZN613_HUMAN	zinc finger protein 613 isoform 1	270	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.0183)														---	---	---	---
ZNF615	284370	broad.mit.edu	37	19	52496650	52496650	+	Missense_Mutation	SNP	C	T	T	rs147205148		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52496650C>T	uc002pye.1	-	6	1971	c.1679G>A	c.(1678-1680)CGC>CAC	p.R560H	ZNF615_uc002pyf.1_Missense_Mutation_p.R571H|ZNF615_uc002pyg.1_Missense_Mutation_p.R452H|ZNF615_uc002pyh.1_Missense_Mutation_p.R571H|ZNF615_uc010epi.1_Missense_Mutation_p.R567H|ZNF615_uc010ydg.1_Missense_Mutation_p.R565H	NM_198480	NP_940882	Q8N8J6	ZN615_HUMAN	zinc finger protein 615	560	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)														---	---	---	---
ZNF614	80110	broad.mit.edu	37	19	52519532	52519532	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52519532C>T	uc002pyj.2	-	5	1721	c.1319G>A	c.(1318-1320)CGC>CAC	p.R440H	ZNF614_uc002pyi.3_Intron|ZNF614_uc010epj.2_Missense_Mutation_p.R143H	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	440	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)														---	---	---	---
ZNF616	90317	broad.mit.edu	37	19	52619372	52619372	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52619372C>A	uc002pym.2	-	4	1328	c.1045G>T	c.(1045-1047)GGA>TGA	p.G349*	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	349					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)														---	---	---	---
PPP2R1A	5518	broad.mit.edu	37	19	52714620	52714620	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52714620G>A	uc002pyp.2	+	4	537	c.378G>A	c.(376-378)GCG>GCA	p.A126A	PPP2R1A_uc010ydk.1_Silent_p.A71A|PPP2R1A_uc010epm.1_Silent_p.A166A|PPP2R1A_uc002pyq.2_5'UTR	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	126	PP2A subunit B binding.|SV40 small T antigen binding.|HEAT 4.|Polyoma small and medium T antigens Binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)				Mis		clear cell ovarian carcinoma								---	---	---	---
ZNF480	147657	broad.mit.edu	37	19	52825210	52825210	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52825210G>A	uc010ydl.1	+	5	777	c.707G>A	c.(706-708)TGC>TAC	p.C236Y	ZNF480_uc002pyv.2_Missense_Mutation_p.C159Y|ZNF480_uc010ydm.1_Missense_Mutation_p.C193Y|ZNF480_uc010epn.2_Missense_Mutation_p.C67Y|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	236	C2H2-type 2.				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)														---	---	---	---
ZNF480	147657	broad.mit.edu	37	19	52825228	52825228	+	Missense_Mutation	SNP	G	A	A	rs148271899	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52825228G>A	uc010ydl.1	+	5	795	c.725G>A	c.(724-726)CGC>CAC	p.R242H	ZNF480_uc002pyv.2_Missense_Mutation_p.R165H|ZNF480_uc010ydm.1_Missense_Mutation_p.R199H|ZNF480_uc010epn.2_Missense_Mutation_p.R73H|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	242	C2H2-type 2.				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)														---	---	---	---
ZNF528	84436	broad.mit.edu	37	19	52919279	52919279	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52919279C>T	uc002pzh.2	+	7	1600	c.1174C>T	c.(1174-1176)CGC>TGC	p.R392C	ZNF528_uc002pzi.2_Missense_Mutation_p.R159C	NM_032423	NP_115799	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	392	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)														---	---	---	---
ZNF611	81856	broad.mit.edu	37	19	53208665	53208665	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53208665G>A	uc002pzz.2	-	7	1960	c.1643C>T	c.(1642-1644)GCG>GTG	p.A548V	ZNF611_uc010eqc.2_Missense_Mutation_p.A478V|ZNF611_uc010ydo.1_Missense_Mutation_p.A478V|ZNF611_uc010ydr.1_Missense_Mutation_p.A479V|ZNF611_uc010ydp.1_Missense_Mutation_p.A548V|ZNF611_uc010ydq.1_Missense_Mutation_p.A548V|ZNF611_uc002qaa.3_Missense_Mutation_p.A478V	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	548	C2H2-type 12.				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)														---	---	---	---
ZNF331	55422	broad.mit.edu	37	19	54080668	54080668	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54080668G>A	uc002qbx.1	+	7	2288	c.854G>A	c.(853-855)AGC>AAC	p.S285N	ZNF331_uc002qby.1_Missense_Mutation_p.S285N|ZNF331_uc002qbz.1_Missense_Mutation_p.S285N|ZNF331_uc002qca.1_Missense_Mutation_p.S285N|ZNF331_uc010eqr.1_Missense_Mutation_p.S285N|ZNF331_uc002qcb.1_Missense_Mutation_p.S285N|ZNF331_uc002qcc.1_Missense_Mutation_p.S285N|ZNF331_uc002qcd.1_Missense_Mutation_p.S285N	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	285	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)				T	?	follicular thyroid adenoma								---	---	---	---
MYADM	91663	broad.mit.edu	37	19	54376938	54376938	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54376938C>T	uc002qcl.2	+	3	303	c.155C>T	c.(154-156)TCG>TTG	p.S52L	MYADM_uc002qcm.2_Missense_Mutation_p.S52L|MYADM_uc002qcn.2_Missense_Mutation_p.S52L|MYADM_uc002qco.2_Missense_Mutation_p.S52L|MYADM_uc002qcp.2_Missense_Mutation_p.S52L	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	52	MARVEL 1.|Helical; (Potential).					integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)												OREG0003650	type=REGULATORY REGION|Gene=MYADM|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	---	---	---	---
MYADM	91663	broad.mit.edu	37	19	54377441	54377441	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54377441G>A	uc002qcl.2	+	3	806	c.658G>A	c.(658-660)GCC>ACC	p.A220T	MYADM_uc002qcm.2_Missense_Mutation_p.A220T|MYADM_uc002qcn.2_Missense_Mutation_p.A220T|MYADM_uc002qco.2_Missense_Mutation_p.A220T|MYADM_uc002qcp.2_Missense_Mutation_p.A220T	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	220	MARVEL 2.|Helical; (Potential).					integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)														---	---	---	---
TFPT	29844	broad.mit.edu	37	19	54618073	54618073	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54618073C>T	uc010yej.1	-	2	437	c.31G>A	c.(31-33)GCA>ACA	p.A11T	TFPT_uc010erd.2_Missense_Mutation_p.A11T|PRPF31_uc002qdh.2_5'Flank|PRPF31_uc010yek.1_5'Flank	NM_013342	NP_037474	P0C1Z6	TFPT_HUMAN	TCF3 (E2A) fusion partner	11					apoptosis|DNA recombination|DNA repair|induction of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex	DNA binding|protein binding				0	all_cancers(19;0.004)|all_epithelial(19;0.00195)|all_lung(19;0.0193)|Lung NSC(19;0.0358)|Breast(117;0.137)|Ovarian(34;0.19)							T	TCF3	pre-B ALL								---	---	---	---
PRPF31	26121	broad.mit.edu	37	19	54625865	54625865	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54625865G>A	uc002qdh.2	+						PRPF31_uc010yek.1_Intron	NM_015629	NP_056444			pre-mRNA processing factor 31 homolog						assembly of spliceosomal tri-snRNP	Cajal body|MLL1 complex|nuclear speck|U4 snRNP|U4/U6 x U5 tri-snRNP complex|U4atac snRNP	RNA binding|snRNP binding			ovary(1)	1	all_cancers(19;0.00681)|all_epithelial(19;0.00362)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)																	---	---	---	---
TMC4	147798	broad.mit.edu	37	19	54669181	54669181	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54669181C>T	uc010erf.2	-	6	1067	c.935G>A	c.(934-936)CGC>CAC	p.R312H	TMC4_uc002qdn.2_5'Flank|TMC4_uc002qdo.2_Missense_Mutation_p.R306H	NM_001145303	NP_001138775	Q7Z404	TMC4_HUMAN	transmembrane channel-like 4 isoform 1	312	Extracellular (Potential).					integral to membrane				pancreas(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)																	---	---	---	---
LILRA4	23547	broad.mit.edu	37	19	54848127	54848127	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54848127C>T	uc002qfj.2	-	6	1297	c.1240G>A	c.(1240-1242)GAG>AAG	p.E414K	LILRA4_uc002qfi.2_Missense_Mutation_p.E348K	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	414	Extracellular (Potential).					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)														---	---	---	---
LENG8	114823	broad.mit.edu	37	19	54967409	54967409	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54967409G>A	uc002qfv.1	+	8	1322	c.1178G>A	c.(1177-1179)CGC>CAC	p.R393H	LENG8_uc002qfw.2_Missense_Mutation_p.R430H			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	393	Ser-rich.						protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)														---	---	---	---
RDH13	112724	broad.mit.edu	37	19	55568079	55568079	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55568079C>T	uc002qio.3	-	3	467	c.282G>A	c.(280-282)CGG>CGA	p.R94R	RDH13_uc002qip.2_Silent_p.R23R|RDH13_uc010yfq.1_RNA|RDH13_uc010esr.1_5'Flank	NM_001145971	NP_001139443	Q8NBN7	RDH13_HUMAN	retinol dehydrogenase 13 isoform 1	94							binding|oxidoreductase activity			large_intestine(1)|ovary(1)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(297;0.199)	GBM - Glioblastoma multiforme(193;0.0504)	Vitamin A(DB00162)													---	---	---	---
ZNF581	51545	broad.mit.edu	37	19	56156449	56156449	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56156449G>A	uc002qln.2	+	2	1228	c.512G>A	c.(511-513)CGC>CAC	p.R171H	ZNF581_uc002qlq.2_Missense_Mutation_p.R171H|CCDC106_uc002qlr.2_5'Flank	NM_016535	NP_057619	Q9P0T4	ZN581_HUMAN	zinc finger protein 581	171					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)														---	---	---	---
NLRP4	147945	broad.mit.edu	37	19	56369066	56369066	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56369066G>A	uc002qmd.3	+	3	729	c.307G>A	c.(307-309)GCA>ACA	p.A103T	NLRP4_uc002qmf.2_Missense_Mutation_p.A28T|NLRP4_uc010etf.2_5'UTR	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	103							ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)														---	---	---	---
NLRP4	147945	broad.mit.edu	37	19	56382267	56382267	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56382267G>A	uc002qmd.3	+	7	2851	c.2429G>A	c.(2428-2430)CGC>CAC	p.R810H	NLRP4_uc002qmf.2_Missense_Mutation_p.R735H|NLRP4_uc010etf.2_Missense_Mutation_p.R585H	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	810	LRR 5.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)														---	---	---	---
ZNF787	126208	broad.mit.edu	37	19	56600116	56600116	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56600116C>T	uc010eth.1	-	3	544	c.425G>A	c.(424-426)CGC>CAC	p.R142H		NM_001002836	NP_001002836	Q6DD87	ZN787_HUMAN	zinc finger protein 787	142	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;3.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0559)														---	---	---	---
ZNF470	388566	broad.mit.edu	37	19	57081729	57081729	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57081729G>A	uc002qnl.3	+	3	725	c.49G>A	c.(49-51)GCC>ACC	p.A17T	uc002qnk.1_5'Flank|ZNF470_uc010etn.2_RNA	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	17					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)														---	---	---	---
ZNF71	58491	broad.mit.edu	37	19	57133474	57133474	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57133474C>T	uc002qnm.3	+	3	1057	c.819C>T	c.(817-819)CCC>CCT	p.P273P		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	273	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)														---	---	---	---
ZNF835	90485	broad.mit.edu	37	19	57175802	57175802	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57175802G>A	uc010ygo.1	-	2	831	c.831C>T	c.(829-831)TGC>TGT	p.C277C	ZNF835_uc010ygn.1_Silent_p.C255C	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4																		---	---	---	---
ZNF835	90485	broad.mit.edu	37	19	57176545	57176545	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57176545C>T	uc010ygo.1	-	2	88	c.88G>A	c.(88-90)GCC>ACC	p.A30T	ZNF835_uc010ygn.1_Missense_Mutation_p.A8T	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4																		---	---	---	---
PEG3	5178	broad.mit.edu	37	19	57327787	57327787	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57327787G>A	uc002qnu.2	-	7	2374	c.2023C>T	c.(2023-2025)CGT>TGT	p.R675C	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.R646C|PEG3_uc002qnv.2_Missense_Mutation_p.R675C|PEG3_uc002qnw.2_Missense_Mutation_p.R551C|PEG3_uc002qnx.2_Missense_Mutation_p.R549C|PEG3_uc010etr.2_Missense_Mutation_p.R675C	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	675					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)														---	---	---	---
ZNF547	284306	broad.mit.edu	37	19	57889141	57889141	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57889141G>T	uc002qol.2	+	4	990	c.797G>T	c.(796-798)AGG>ATG	p.R266M	ZNF547_uc002qpm.3_Missense_Mutation_p.R192M|ZNF547_uc010ygx.1_Missense_Mutation_p.R266M	NM_173631	NP_775902	Q8IVP9	ZN547_HUMAN	zinc finger protein 547	266					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)														---	---	---	---
ZNF773	374928	broad.mit.edu	37	19	58018779	58018779	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58018779G>A	uc002qox.2	+	4	1456	c.1316G>A	c.(1315-1317)GGA>GAA	p.G439E	ZNF547_uc002qpm.3_Intron|ZNF773_uc002qoy.2_Missense_Mutation_p.G438E|ZNF773_uc002qoz.2_Intron	NM_198542	NP_940944	Q6PK81	ZN773_HUMAN	zinc finger protein 773	439					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)														---	---	---	---
ZNF550	162972	broad.mit.edu	37	19	58059032	58059032	+	Missense_Mutation	SNP	C	T	T	rs78685508	byFrequency;by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58059032C>T	uc002qpe.1	-	2	457	c.457G>A	c.(457-459)GCC>ACC	p.A153T	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF550_uc002qpc.2_RNA|ZNF550_uc010eue.1_RNA|ZNF550_uc002qpd.2_RNA	NM_001039654	NP_001034743	Q7Z398	ZN550_HUMAN	zinc finger protein 550	194					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)														---	---	---	---
ZNF550	162972	broad.mit.edu	37	19	58059290	58059290	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58059290G>A	uc002qpe.1	-	2	199	c.199C>T	c.(199-201)CGG>TGG	p.R67W	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF550_uc002qpc.2_RNA|ZNF550_uc010eue.1_RNA|ZNF550_uc002qpd.2_RNA	NM_001039654	NP_001034743	Q7Z398	ZN550_HUMAN	zinc finger protein 550	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)														---	---	---	---
ZNF416	55659	broad.mit.edu	37	19	58084160	58084160	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58084160C>T	uc002qpf.2	-	4	1283	c.1112G>A	c.(1111-1113)CGA>CAA	p.R371Q	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	371	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)														---	---	---	---
ZNF551	90233	broad.mit.edu	37	19	58199015	58199015	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58199015C>T	uc002qpw.3	+	3	1547	c.1324C>T	c.(1324-1326)CAA>TAA	p.Q442*	ZNF551_uc002qpv.3_Nonsense_Mutation_p.Q385*|ZNF776_uc002qpx.2_Intron	NM_138347	NP_612356	Q7Z340	ZN551_HUMAN	zinc finger protein 551	458	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)														---	---	---	---
ZNF329	79673	broad.mit.edu	37	19	58639657	58639657	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58639657C>T	uc002qrn.2	-	4	1451	c.1214G>A	c.(1213-1215)GGC>GAC	p.G405D	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	405	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)														---	---	---	---
ZNF274	10782	broad.mit.edu	37	19	58724308	58724308	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58724308C>T	uc002qrq.1	+	10	2220	c.1761C>T	c.(1759-1761)GGC>GGT	p.G587G	ZNF274_uc002qrr.1_Silent_p.G555G|ZNF274_uc002qrs.1_Silent_p.G482G|ZNF274_uc010eum.1_Silent_p.G346G	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	587					viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)														---	---	---	---
ZSCAN22	342945	broad.mit.edu	37	19	58846581	58846581	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58846581C>T	uc002qsc.2	+						ZSCAN22_uc010yhz.1_Intron	NM_181846	NP_862829			zinc finger and SCAN domain containing 22						viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0289)														---	---	---	---
C20orf96	140680	broad.mit.edu	37	20	257710	257710	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:257710T>G	uc002wde.1	-	8	939	c.800A>C	c.(799-801)AAA>ACA	p.K267T	C20orf96_uc002wdc.2_Missense_Mutation_p.K214T|C20orf96_uc002wdd.2_Missense_Mutation_p.K232T|C20orf96_uc010zpi.1_Missense_Mutation_p.K214T|C20orf96_uc010zpj.1_Missense_Mutation_p.K232T|C20orf96_uc010zpk.1_Missense_Mutation_p.K205T	NM_153269	NP_695001	Q9NUD7	CT096_HUMAN	hypothetical protein LOC140680	267	Poly-Lys.|Potential.										0		all_cancers(10;0.00959)|Lung NSC(37;0.227)	OV - Ovarian serous cystadenocarcinoma(29;0.149)															---	---	---	---
C20orf96	140680	broad.mit.edu	37	20	257712	257712	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:257712C>T	uc002wde.1	-	8	937	c.798G>A	c.(796-798)AAG>AAA	p.K266K	C20orf96_uc002wdc.2_Silent_p.K213K|C20orf96_uc002wdd.2_Silent_p.K231K|C20orf96_uc010zpi.1_Silent_p.K213K|C20orf96_uc010zpj.1_Silent_p.K231K|C20orf96_uc010zpk.1_Silent_p.K204K	NM_153269	NP_695001	Q9NUD7	CT096_HUMAN	hypothetical protein LOC140680	266	Poly-Lys.|Potential.										0		all_cancers(10;0.00959)|Lung NSC(37;0.227)	OV - Ovarian serous cystadenocarcinoma(29;0.149)															---	---	---	---
RBCK1	10616	broad.mit.edu	37	20	409612	409612	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:409612C>T	uc002wdp.3	+	11	2019	c.1326C>T	c.(1324-1326)GGC>GGT	p.G442G	RBCK1_uc002wdq.3_Silent_p.G400G|RBCK1_uc010fzy.2_RNA|RBCK1_uc002wdr.3_Silent_p.G272G	NM_031229	NP_112506	Q9BYM8	HOIL1_HUMAN	RanBP-type and C3HC4-type zinc finger containing	442	IBR-type 2.				interspecies interaction between organisms|negative regulation of NF-kappaB transcription factor activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|proteasomal ubiquitin-dependent protein catabolic process|protein linear polyubiquitination|T cell receptor signaling pathway	LUBAC complex	protein binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0		all_epithelial(17;0.172)|Lung NSC(37;0.191)|Breast(17;0.231)																---	---	---	---
C20orf54	113278	broad.mit.edu	37	20	745857	745857	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:745857C>T	uc002wed.3	-	2	901	c.562G>A	c.(562-564)GCA>ACA	p.A188T	C20orf54_uc002wee.2_Missense_Mutation_p.A188T	NM_033409	NP_212134	Q9NQ40	RFT2_HUMAN	hypothetical protein LOC113278 precursor	188					sensory perception of sound	integral to plasma membrane	riboflavin transporter activity			ovary(2)	2																		---	---	---	---
SNPH	9751	broad.mit.edu	37	20	1277814	1277814	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1277814C>T	uc002wes.2	+	4	312	c.76C>T	c.(76-78)CGG>TGG	p.R26W	SNPH_uc002wet.2_Missense_Mutation_p.R70W	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	26					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2																		---	---	---	---
NSFL1C	55968	broad.mit.edu	37	20	1444967	1444967	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1444967C>T	uc002wfc.2	-						NSFL1C_uc002wfd.2_Intron|NSFL1C_uc002wfe.2_Intron|NSFL1C_uc002wff.2_Intron	NM_016143	NP_057227			p47 protein isoform a							chromosome|Golgi stack|nucleus	lipid binding|protein binding				0																		---	---	---	---
SIRPB2	284759	broad.mit.edu	37	20	1459011	1459011	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1459011G>A	uc002wfg.2	-	3	921	c.693C>T	c.(691-693)AAC>AAT	p.N231N	SIRPB2_uc002wfh.3_Silent_p.N133N|SIRPB2_uc010zpr.1_Silent_p.N93N	NM_001122962	NP_001116434	Q5JXA9	SIRB2_HUMAN	signal-regulatory protein beta 2 isoform 1	231	Ig-like V-type 2.|Extracellular (Potential).					integral to membrane					0																		---	---	---	---
SIRPB1	10326	broad.mit.edu	37	20	1558987	1558987	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1558987G>A	uc010gai.2	-	2	529	c.430C>T	c.(430-432)CGC>TGC	p.R144C	SIRPB1_uc002wfk.3_Missense_Mutation_p.R144C	NM_006065	NP_006056	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1 isoform 1	144	Extracellular (Potential).				cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1																		---	---	---	---
SIRPG	55423	broad.mit.edu	37	20	1616842	1616842	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1616842G>A	uc002wfm.1	-	3	805	c.740C>T	c.(739-741)GCC>GTC	p.A247V	SIRPG_uc002wfn.1_Missense_Mutation_p.A247V|SIRPG_uc002wfo.1_Intron|uc002wfp.1_Intron	NM_018556	NP_061026	Q9P1W8	SIRPG_HUMAN	signal-regulatory protein gamma isoform 1	247	Extracellular (Potential).				blood coagulation|cell adhesion|cell junction assembly|cell-cell signaling|intracellular signal transduction|leukocyte migration|negative regulation of cell proliferation|positive regulation of cell proliferation|positive regulation of cell-cell adhesion|positive regulation of T cell activation	integral to membrane|intracellular|plasma membrane	protein binding			ovary(1)	1																		---	---	---	---
STK35	140901	broad.mit.edu	37	20	2097969	2097969	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2097969G>A	uc010gak.2	+	3	1550	c.1550G>A	c.(1549-1551)CGG>CAG	p.R517Q	STK35_uc010zpu.1_Intron|STK35_uc002wfw.3_Missense_Mutation_p.R384Q	NM_080836	NP_543026	Q8TDR2	STK35_HUMAN	serine/threonine kinase 35	517	Protein kinase.					cytoplasm|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1																		---	---	---	---
TGM3	7053	broad.mit.edu	37	20	2312868	2312868	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2312868C>T	uc002wfx.3	+	10	1651	c.1554C>T	c.(1552-1554)AAC>AAT	p.N518N		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	518					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)													---	---	---	---
SNRPB	6628	broad.mit.edu	37	20	2442418	2442418	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2442418C>T	uc002wfz.1	-	7	870	c.707G>A	c.(706-708)CGC>CAC	p.R236H	SNRPB_uc002wga.1_3'UTR|SNRPB_uc010zpv.1_3'UTR|SNRPB_uc002wgb.2_3'UTR	NM_198216	NP_937859	P14678	RSMB_HUMAN	small nuclear ribonucleoprotein polypeptide B/B'	236	Repeat-rich region.|				histone mRNA metabolic process|ncRNA metabolic process|spliceosomal snRNP assembly|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nucleoplasm|U12-type spliceosomal complex|U7 snRNP	protein binding|protein binding|RNA binding			ovary(1)	1																		---	---	---	---
TMC2	117532	broad.mit.edu	37	20	2621828	2621828	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2621828C>T	uc002wgf.1	+	20	2567	c.2552C>T	c.(2551-2553)GCG>GTG	p.A851V	TMC2_uc002wgg.1_Missense_Mutation_p.A835V	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	851	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3																		---	---	---	---
CPXM1	56265	broad.mit.edu	37	20	2776949	2776949	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2776949G>A	uc002wgu.2	-	9	1250	c.1186C>T	c.(1186-1188)CGC>TGC	p.R396C	CPXM1_uc010gas.2_Missense_Mutation_p.R396C	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor	396					cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4																		---	---	---	---
C20orf141	128653	broad.mit.edu	37	20	2796188	2796188	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2796188G>A	uc010gat.2	+	3	348	c.265G>A	c.(265-267)GCA>ACA	p.A89T	C20orf141_uc002wgv.1_Intron|C20orf141_uc002wgw.2_Missense_Mutation_p.A89T|uc002wgx.1_5'Flank|uc002wgy.1_5'Flank	NM_080739	NP_542777	Q9NUB4	CT141_HUMAN	hypothetical protein LOC128653	89	Leu-rich.					integral to membrane					0																		---	---	---	---
FAM113A	64773	broad.mit.edu	37	20	2818955	2818955	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2818955C>T	uc002wgz.1	-	6	1261	c.764G>A	c.(763-765)CGC>CAC	p.R255H	FAM113A_uc002whb.1_Missense_Mutation_p.R106H|FAM113A_uc002wha.1_Missense_Mutation_p.R106H|FAM113A_uc010zqa.1_Missense_Mutation_p.R102H|FAM113A_uc002whc.1_Missense_Mutation_p.R204H|VPS16_uc002whe.2_5'Flank|VPS16_uc002whf.2_5'Flank|VPS16_uc002whd.2_5'Flank	NM_022760	NP_073597	Q9H1Q7	F113A_HUMAN	hypothetical protein LOC64773	255	His-rich.						hydrolase activity|protein binding			ovary(2)	2																		---	---	---	---
FAM113A	64773	broad.mit.edu	37	20	2819653	2819653	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2819653G>A	uc002wgz.1	-	4	777	c.280C>T	c.(280-282)CGT>TGT	p.R94C	FAM113A_uc002whb.1_Intron|FAM113A_uc002wha.1_5'UTR|FAM113A_uc010zqa.1_5'UTR|FAM113A_uc002whc.1_Intron|VPS16_uc002whe.2_5'Flank|VPS16_uc002whf.2_5'Flank|VPS16_uc002whd.2_5'Flank	NM_022760	NP_073597	Q9H1Q7	F113A_HUMAN	hypothetical protein LOC64773	94							hydrolase activity|protein binding			ovary(2)	2																		---	---	---	---
VPS16	64601	broad.mit.edu	37	20	2840446	2840446	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2840446C>T	uc002whe.2	+	2	183	c.135C>T	c.(133-135)GGC>GGT	p.G45G	VPS16_uc002whf.2_Silent_p.G45G|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_5'Flank	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	45					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
PTPRA	5786	broad.mit.edu	37	20	2945651	2945651	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2945651C>T	uc010zqb.1	+	5	611	c.218C>T	c.(217-219)CCC>CTC	p.P73L	PTPRA_uc002whj.2_Missense_Mutation_p.P73L|PTPRA_uc010zqc.1_Intron|PTPRA_uc002whk.2_Missense_Mutation_p.P73L|PTPRA_uc010zqd.1_Missense_Mutation_p.P84L|PTPRA_uc002whl.2_Missense_Mutation_p.P73L|PTPRA_uc002whm.2_5'UTR|PTPRA_uc002whn.2_Missense_Mutation_p.P73L			P18433	PTPRA_HUMAN	SubName: Full=cDNA FLJ60525, highly similar to Receptor-type tyrosine-protein phosphatase alpha (EC 3.1.3.48);	73	Extracellular (Potential).				axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1																		---	---	---	---
PTPRA	5786	broad.mit.edu	37	20	2955855	2955855	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2955855A>G	uc010zqb.1	+						PTPRA_uc002whj.2_Intron|PTPRA_uc010zqc.1_Intron|PTPRA_uc002whk.2_Intron|PTPRA_uc010zqd.1_Intron|PTPRA_uc002whl.2_Intron|PTPRA_uc002whm.2_Intron|PTPRA_uc002whn.2_Intron					SubName: Full=cDNA FLJ60525, highly similar to Receptor-type tyrosine-protein phosphatase alpha (EC 3.1.3.48);						axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1																		---	---	---	---
AVP	551	broad.mit.edu	37	20	3065221	3065221	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3065221A>C	uc002whu.2	-	1	150	c.100T>G	c.(100-102)TCC>GCC	p.S34A		NM_000490	NP_000481	P01185	NEU2_HUMAN	arginine vasopressin-neurophysin II	34					cell-cell signaling|ERK1 and ERK2 cascade|generation of precursor metabolites and energy|negative regulation of apoptosis|negative regulation of release of cytochrome c from mitochondria|positive regulation of gene expression|positive regulation of peptidyl-serine phosphorylation|protein kinase C signaling cascade|sodium-independent organic anion transport|transmembrane transport|vasoconstriction|water transport	cytosol|soluble fraction	caspase inhibitor activity|neurohypophyseal hormone activity|protein kinase activity|signal transducer activity|V1A vasopressin receptor binding				0				COAD - Colon adenocarcinoma(99;0.00643)														---	---	---	---
FASTKD5	60493	broad.mit.edu	37	20	3128084	3128084	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3128084G>A	uc002whz.2	-	2	1944	c.1633C>T	c.(1633-1635)CTG>TTG	p.L545L	uc002whv.1_Intron|UBOX5_uc002whw.2_Intron|UBOX5_uc002whx.2_Intron|UBOX5_uc002why.1_Intron	NM_021826	NP_068598	Q7L8L6	FAKD5_HUMAN	FAST kinase domains 5	545					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity				0																		---	---	---	---
SLC4A11	83959	broad.mit.edu	37	20	3209061	3209061	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3209061G>A	uc002wig.2	-	18	2498	c.2450C>T	c.(2449-2451)CCG>CTG	p.P817L	SLC4A11_uc010zqe.1_Missense_Mutation_p.P844L|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.P801L	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	817	Membrane (bicarbonate transporter).				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																		---	---	---	---
SLC4A11	83959	broad.mit.edu	37	20	3210034	3210034	+	Missense_Mutation	SNP	C	T	T	rs138262189		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3210034C>T	uc002wig.2	-	14	1903	c.1855G>A	c.(1855-1857)GCC>ACC	p.A619T	SLC4A11_uc010zqe.1_Missense_Mutation_p.A646T|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.A603T	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	619	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																		---	---	---	---
SLC4A11	83959	broad.mit.edu	37	20	3212106	3212106	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3212106C>T	uc002wig.2	-	7	914	c.866G>A	c.(865-867)CGC>CAC	p.R289H	SLC4A11_uc010zqe.1_Missense_Mutation_p.R316H|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.R273H	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	289	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																		---	---	---	---
SLC4A11	83959	broad.mit.edu	37	20	3214613	3214613	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3214613C>T	uc002wig.2	-	5	655	c.607G>A	c.(607-609)GCC>ACC	p.A203T	SLC4A11_uc010zqe.1_Missense_Mutation_p.A230T|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.A187T	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	203	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																		---	---	---	---
SLC4A11	83959	broad.mit.edu	37	20	3215205	3215205	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3215205G>A	uc002wig.2	-						SLC4A11_uc010zqe.1_Intron|SLC4A11_uc002wih.2_Intron|SLC4A11_uc010zqf.1_Intron	NM_032034	NP_114423			solute carrier family 4 member 11						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																		---	---	---	---
C20orf194	25943	broad.mit.edu	37	20	3303295	3303295	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3303295G>A	uc002wii.2	-						C20orf194_uc002wij.3_Intron|C20orf194_uc002wik.2_Intron	NM_001009984	NP_001009984			hypothetical protein LOC25943												0																		---	---	---	---
ATRN	8455	broad.mit.edu	37	20	3528132	3528132	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3528132G>A	uc002wim.2	+	5	1029	c.939G>A	c.(937-939)TGG>TGA	p.W313*	ATRN_uc002wil.2_Nonsense_Mutation_p.W313*	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	313	Extracellular (Potential).				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2																		---	---	---	---
ATRN	8455	broad.mit.edu	37	20	3584894	3584894	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3584894G>A	uc002wim.2	+	24	3876	c.3786G>A	c.(3784-3786)TGG>TGA	p.W1262*	ATRN_uc002wil.2_Nonsense_Mutation_p.W1262*	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	1262	Extracellular (Potential).				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2																		---	---	---	---
SIGLEC1	6614	broad.mit.edu	37	20	3678463	3678463	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3678463C>A	uc002wja.2	-	8	2104	c.2104G>T	c.(2104-2106)GCC>TCC	p.A702S	SIGLEC1_uc002wiz.3_Missense_Mutation_p.A702S	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	702	Ig-like C2-type 6.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10																		---	---	---	---
SIGLEC1	6614	broad.mit.edu	37	20	3683963	3683963	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3683963G>A	uc002wja.2	-	5	1109	c.1109C>T	c.(1108-1110)GCC>GTC	p.A370V	SIGLEC1_uc002wiz.3_Missense_Mutation_p.A370V|SIGLEC1_uc002wjc.2_Missense_Mutation_p.A281V	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	370	Extracellular (Potential).|Ig-like C2-type 3.				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10																		---	---	---	---
HSPA12B	116835	broad.mit.edu	37	20	3731557	3731557	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3731557G>A	uc002wjd.2	+						HSPA12B_uc010zqi.1_Intron|HSPA12B_uc002wje.2_Intron|HSPA12B_uc010zqj.1_Intron	NM_052970	NP_443202			heat shock 70kD protein 12B								ATP binding				0																		---	---	---	---
MAVS	57506	broad.mit.edu	37	20	3846580	3846580	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3846580T>C	uc002wjw.3	+	7	1578	c.1409T>C	c.(1408-1410)GTG>GCG	p.V470A	MAVS_uc002wjx.3_Missense_Mutation_p.V329A|MAVS_uc002wjy.3_Missense_Mutation_p.V168A	NM_020746	NP_065797	Q7Z434	MAVS_HUMAN	virus-induced signaling adapter	470	Cytoplasmic (Probable).				activation of innate immune response|cellular response to exogenous dsRNA|defense response to bacterium|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of chemokine (C-C motif) ligand 5 production|positive regulation of defense response to virus by host|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interleukin-8 production|positive regulation of IP-10 production|positive regulation of protein import into nucleus, translocation|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|response to virus	integral to membrane|mitochondrial outer membrane	CARD domain binding|protein kinase binding|signal transducer activity				0																		---	---	---	---
SMOX	54498	broad.mit.edu	37	20	4155700	4155700	+	5'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4155700G>A	uc002wkm.1	+	2					SMOX_uc002wkk.1_5'UTR|SMOX_uc002wkl.1_5'UTR|SMOX_uc002wkn.1_5'UTR|SMOX_uc002wkp.2_5'UTR|SMOX_uc010zqo.1_5'UTR|SMOX_uc002wko.1_5'UTR	NM_175839	NP_787033			spermine oxidase isoform 1						polyamine biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	polyamine oxidase activity			breast(1)	1					Spermine(DB00127)													---	---	---	---
ADRA1D	146	broad.mit.edu	37	20	4202178	4202178	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4202178C>T	uc002wkr.2	-	2	1766	c.1711G>A	c.(1711-1713)GAT>AAT	p.D571N		NM_000678	NP_000669	P25100	ADA1D_HUMAN	alpha-1D-adrenergic receptor	571	Cytoplasmic (By similarity).			KPPSAFREWRLLGPFRRPTTQLRAKVSSLSHKIRAGGAQRA EAACAQRSEVEAVSLGVPHEVAEGATCQAYELADYSNLRET DI -> SHPAPSASGGCWGRSGDPRPSCAPKSPACRTRSPP GARSAQRQRAPSAQRWRLCP (in Ref. 1).	cell proliferation|cell-cell signaling|DNA metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|multicellular organismal development|positive regulation of cell proliferation	integral to plasma membrane	alpha1-adrenergic receptor activity				0					Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Methotrimeprazine(DB01403)|Norepinephrine(DB00368)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)											OREG0025743	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
PRNP	5621	broad.mit.edu	37	20	4680430	4680430	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4680430G>A	uc002wku.2	+	2	927	c.564G>A	c.(562-564)ACG>ACA	p.T188T	PRNP_uc002wkv.2_Silent_p.T188T|PRNP_uc002wkw.2_Silent_p.T188T|PRNP_uc002wkx.2_Silent_p.T188T|PRNP_uc002wkt.1_Silent_p.T158T|PRNP_uc002wky.2_Silent_p.T188T|PRNP_uc010gbe.1_Silent_p.T188T	NM_001080122	NP_001073591	P04156	PRIO_HUMAN	prion protein preproprotein	188	Interaction with GRB2, ERI3 and SYN1 (By similarity).		T -> K (in early-onset dementia; dementia associated to prion diseases).|T -> R.		axon guidance|cell cycle arrest|cellular copper ion homeostasis|metabolic process|negative regulation of activated T cell proliferation|negative regulation of calcineurin-NFAT signaling pathway|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-2 production|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell receptor signaling pathway|protein homooligomerization|response to oxidative stress	anchored to membrane|endoplasmic reticulum|extrinsic to membrane|Golgi apparatus|membrane raft|nucleus|plasma membrane	copper ion binding|identical protein binding|microtubule binding			central_nervous_system(1)	1					Tetracycline(DB00759)													---	---	---	---
PRNT	149830	broad.mit.edu	37	20	4713073	4713073	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4713073C>T	uc002wlb.2	-	2		c.951G>A			PRNT_uc010zqp.1_RNA|PRNT_uc010zqq.1_RNA	NR_024268				Homo sapiens mRNA for putative M8 protein, isoform 2.												0																		---	---	---	---
SLC23A2	9962	broad.mit.edu	37	20	4842713	4842713	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4842713C>T	uc002wlg.1	-	15	1880	c.1505G>A	c.(1504-1506)GGC>GAC	p.G502D	SLC23A2_uc010zqr.1_Missense_Mutation_p.G387D|SLC23A2_uc002wlh.1_Missense_Mutation_p.G502D	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	502	Helical; (Potential).				L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2																		---	---	---	---
HAO1	54363	broad.mit.edu	37	20	7886883	7886883	+	Silent	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:7886883T>G	uc002wmw.1	-	4	663	c.639A>C	c.(637-639)ATA>ATC	p.I213I	HAO1_uc010gbu.2_Silent_p.I213I	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	213	FMN hydroxy acid dehydrogenase.				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3																		---	---	---	---
PLCB1	23236	broad.mit.edu	37	20	8626776	8626776	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:8626776G>A	uc002wnb.2	+	5	415	c.412G>A	c.(412-414)GCA>ACA	p.A138T	PLCB1_uc010zrb.1_Missense_Mutation_p.A37T|PLCB1_uc010gbv.1_Missense_Mutation_p.A138T|PLCB1_uc002wmz.1_Missense_Mutation_p.A138T|PLCB1_uc002wna.2_Missense_Mutation_p.A138T|PLCB1_uc002wnc.1_Missense_Mutation_p.A37T	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	138					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12																		---	---	---	---
PLCB4	5332	broad.mit.edu	37	20	9360803	9360803	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9360803A>G	uc002wnf.2	+	12	983	c.847A>G	c.(847-849)AAA>GAA	p.K283E	PLCB4_uc010gbw.1_Missense_Mutation_p.K283E|PLCB4_uc010gbx.2_Missense_Mutation_p.K283E|PLCB4_uc002wne.2_Missense_Mutation_p.K283E|PLCB4_uc002wnh.2_Missense_Mutation_p.K130E	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	283					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15																		---	---	---	---
PLCB4	5332	broad.mit.edu	37	20	9404483	9404483	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9404483G>A	uc002wnf.2	+	26	2508	c.2372G>A	c.(2371-2373)GGC>GAC	p.G791D	PLCB4_uc010gbw.1_Missense_Mutation_p.G791D|PLCB4_uc010gbx.2_Missense_Mutation_p.G803D|PLCB4_uc002wne.2_Missense_Mutation_p.G791D|PLCB4_uc002wnh.2_Missense_Mutation_p.G638D	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	791					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15																		---	---	---	---
PLCB4	5332	broad.mit.edu	37	20	9416200	9416200	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9416200C>T	uc002wnf.2	+						PLCB4_uc010gbw.1_Intron|PLCB4_uc010gbx.2_Intron|PLCB4_uc002wne.2_Intron|PLCB4_uc002wnh.2_Intron	NM_182797	NP_877949			phospholipase C beta 4 isoform b						intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15																		---	---	---	---
PAK7	57144	broad.mit.edu	37	20	9546783	9546783	+	Silent	SNP	C	T	T	rs140739060	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9546783C>T	uc002wnl.2	-	6	1784	c.1239G>A	c.(1237-1239)CCG>CCA	p.P413P	PAK7_uc002wnk.2_Silent_p.P413P|PAK7_uc002wnj.2_Silent_p.P413P|PAK7_uc010gby.1_Silent_p.P413P	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	413	Linker.						ATP binding|protein binding|protein serine/threonine kinase activity	p.P413L(1)		lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)															---	---	---	---
ANKRD5	63926	broad.mit.edu	37	20	10036276	10036276	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10036276G>A	uc002wno.2	+	11	2692	c.2299G>A	c.(2299-2301)GCT>ACT	p.A767T	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Missense_Mutation_p.A767T|ANKRD5_uc010gbz.2_Missense_Mutation_p.A578T	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	767							calcium ion binding			ovary(1)|breast(1)	2																		---	---	---	---
MKKS	8195	broad.mit.edu	37	20	10393700	10393700	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10393700G>A	uc002wnt.1	-	3	1350	c.463C>T	c.(463-465)CGT>TGT	p.R155C	MKKS_uc002wnu.1_Missense_Mutation_p.R155C|MKKS_uc010zrd.1_Intron	NM_018848	NP_061336	Q9NPJ1	MKKS_HUMAN	McKusick-Kaufman syndrome protein	155			R -> L (in BBS6; increases MKKS protein degradation only; localizes properly to the centrosome).		brain morphogenesis|cerebral cortex development|convergent extension involved in gastrulation|detection of mechanical stimulus involved in sensory perception of sound|fat cell differentiation|flagellum assembly|gonad development|heart looping|hippocampus development|intracellular transport|melanosome transport|photoreceptor cell maintenance|pigment granule aggregation in cell center|protein folding|regulation of cilium beat frequency involved in ciliary motility|sensory perception of smell|social behavior|spermatid development|striatum development	cytosol|microtubule organizing center|motile cilium	ATP binding|unfolded protein binding				0														Bardet-Biedl_syndrome				---	---	---	---
C20orf94	128710	broad.mit.edu	37	20	10603861	10603861	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10603861C>T	uc010zre.1	+	8	1241	c.1061C>T	c.(1060-1062)ACG>ATG	p.T354M		NM_001009608	NP_001009608	Q5VYV7	CT094_HUMAN	hypothetical protein LOC128710	354							protein binding				0																		---	---	---	---
JAG1	182	broad.mit.edu	37	20	10620233	10620233	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10620233C>T	uc002wnw.2	-	26	4086	c.3570G>A	c.(3568-3570)CCG>CCA	p.P1190P		NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	1190	Cytoplasmic (Potential).				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9														Alagille_Syndrome				---	---	---	---
TASP1	55617	broad.mit.edu	37	20	13604122	13604122	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13604122C>T	uc002woi.2	-	4	370	c.253G>A	c.(253-255)GCA>ACA	p.A85T	TASP1_uc010zri.1_RNA|TASP1_uc002woh.2_Intron|TASP1_uc010zrj.1_RNA|TASP1_uc010zrk.1_Missense_Mutation_p.A85T	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	85					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0																		---	---	---	---
ESF1	51575	broad.mit.edu	37	20	13763615	13763615	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13763615G>A	uc002woj.2	-	2	280	c.172C>T	c.(172-174)CGC>TGC	p.R58C	ESF1_uc002wok.1_Missense_Mutation_p.R58C|C20orf7_uc002wol.1_5'Flank|C20orf7_uc002wom.2_5'Flank|C20orf7_uc002won.2_5'Flank|C20orf7_uc002woo.2_5'Flank	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	58					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1																		---	---	---	---
SEL1L2	80343	broad.mit.edu	37	20	13839962	13839962	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13839962C>T	uc010gcf.2	-	18	1846	c.1764G>A	c.(1762-1764)GCG>GCA	p.A588A	SEL1L2_uc002woq.3_Silent_p.A449A|SEL1L2_uc010zrl.1_Intron|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	588	Extracellular (Potential).|Sel1-like 11.					integral to membrane	binding			ovary(2)	2																		---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	14665514	14665514	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:14665514C>T	uc002wou.2	+	5	591	c.327C>T	c.(325-327)GCC>GCT	p.A109A	MACROD2_uc002wot.2_Silent_p.A109A|MACROD2_uc002wox.2_RNA	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	109	Macro.										0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
MACROD2	140733	broad.mit.edu	37	20	16030511	16030511	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:16030511G>A	uc002wou.2	+	18	1601	c.1337G>A	c.(1336-1338)GGA>GAA	p.G446E	MACROD2_uc002wot.2_Missense_Mutation_p.G423E|MACROD2_uc002woz.2_Missense_Mutation_p.G211E|MACROD2_uc002wpb.2_Missense_Mutation_p.G188E|MACROD2_uc002wpd.2_Missense_Mutation_p.G96E	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	446											0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)																---	---	---	---
PCSK2	5126	broad.mit.edu	37	20	17208005	17208005	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17208005G>T	uc002wpm.2	+	1	375	c.55G>T	c.(55-57)GTC>TTC	p.V19F	PCSK2_uc002wpl.2_5'UTR|PCSK2_uc010zrm.1_Missense_Mutation_p.V19F	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	19					enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)													---	---	---	---
CSRP2BP	57325	broad.mit.edu	37	20	18163860	18163860	+	Silent	SNP	C	T	T	rs149106213		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:18163860C>T	uc002wqj.2	+	9	2524	c.1902C>T	c.(1900-1902)CCC>CCT	p.P634P	CSRP2BP_uc002wqk.2_Silent_p.P506P|CSRP2BP_uc010zru.1_Silent_p.P505P	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	634					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6																		---	---	---	---
ZNF133	7692	broad.mit.edu	37	20	18296267	18296267	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:18296267G>A	uc010gcq.2	+	5	1077	c.772G>A	c.(772-774)GCC>ACC	p.A258T	ZNF133_uc010zrv.1_Missense_Mutation_p.A261T|ZNF133_uc010zrw.1_Missense_Mutation_p.A195T|ZNF133_uc010gcr.2_Missense_Mutation_p.A258T|ZNF133_uc010zrx.1_Missense_Mutation_p.A163T|ZNF133_uc002wql.3_Missense_Mutation_p.A257T|ZNF133_uc010gcs.2_Missense_Mutation_p.A257T|ZNF133_uc010zry.1_Missense_Mutation_p.A163T|ZNF133_uc002wqm.2_Missense_Mutation_p.A258T	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	258	C2H2-type 2.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2																		---	---	---	---
ZNF133	7692	broad.mit.edu	37	20	18296956	18296956	+	Silent	SNP	G	A	A	rs139392054	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:18296956G>A	uc010gcq.2	+	5	1766	c.1461G>A	c.(1459-1461)ACG>ACA	p.T487T	ZNF133_uc010zrv.1_Silent_p.T490T|ZNF133_uc010zrw.1_Silent_p.T424T|ZNF133_uc010gcr.2_Silent_p.T487T|ZNF133_uc010zrx.1_Silent_p.T392T|ZNF133_uc002wql.3_Silent_p.T486T|ZNF133_uc010gcs.2_Silent_p.T486T|ZNF133_uc010zry.1_Silent_p.T392T|ZNF133_uc002wqm.2_Silent_p.T487T	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	487	C2H2-type 10.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2																		---	---	---	---
SEC23B	10483	broad.mit.edu	37	20	18535003	18535003	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:18535003G>A	uc002wqz.1	+	18	2560	c.2117G>A	c.(2116-2118)CGT>CAT	p.R706H	SEC23B_uc002wra.1_Missense_Mutation_p.R706H|SEC23B_uc002wrb.1_Missense_Mutation_p.R706H|SEC23B_uc010zsb.1_Missense_Mutation_p.R688H|SEC23B_uc002wrc.1_Missense_Mutation_p.R706H	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	706					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1																		---	---	---	---
SLC24A3	57419	broad.mit.edu	37	20	19674014	19674014	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:19674014C>T	uc002wrl.2	+	13	1633	c.1436C>T	c.(1435-1437)ACG>ATG	p.T479M		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24	479	Cytoplasmic (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1																		---	---	---	---
C20orf26	26074	broad.mit.edu	37	20	20269550	20269550	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20269550A>G	uc002wru.2	+	23	3170	c.3094A>G	c.(3094-3096)ATC>GTC	p.I1032V	C20orf26_uc002wrw.2_Intron	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	1032										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)														---	---	---	---
INSM1	3642	broad.mit.edu	37	20	20350447	20350447	+	3'UTR	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20350447C>A	uc002wrx.2	+	1						NM_002196	NP_002187			insulinoma-associated 1						endocrine pancreas development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0649)														---	---	---	---
RALGAPA2	57186	broad.mit.edu	37	20	20493786	20493786	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20493786G>A	uc002wrz.2	-	32	4370	c.4227C>T	c.(4225-4227)GCC>GCT	p.A1409A	RALGAPA2_uc010gcx.2_Silent_p.A1113A|RALGAPA2_uc010zsg.1_Silent_p.A857A|RALGAPA2_uc002wsa.1_Silent_p.A181A	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1409					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1																		---	---	---	---
RALGAPA2	57186	broad.mit.edu	37	20	20552181	20552181	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20552181C>T	uc002wrz.2	-	23	3220	c.3077G>A	c.(3076-3078)CGC>CAC	p.R1026H	RALGAPA2_uc010gcx.2_Missense_Mutation_p.R730H|RALGAPA2_uc010zsg.1_Missense_Mutation_p.R474H	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1026					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1																		---	---	---	---
RALGAPA2	57186	broad.mit.edu	37	20	20571843	20571843	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20571843C>T	uc002wrz.2	-	17	2462	c.2319G>A	c.(2317-2319)CCG>CCA	p.P773P	RALGAPA2_uc010gcx.2_Silent_p.P477P|RALGAPA2_uc010zsg.1_Silent_p.P221P	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	773					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1																		---	---	---	---
XRN2	22803	broad.mit.edu	37	20	21309294	21309294	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:21309294A>G	uc002wsf.1	+	4	508	c.413A>G	c.(412-414)GAA>GGA	p.E138G	XRN2_uc002wsg.1_Missense_Mutation_p.E62G|XRN2_uc010zsk.1_Missense_Mutation_p.E84G	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	138					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																		---	---	---	---
XRN2	22803	broad.mit.edu	37	20	21311291	21311291	+	Missense_Mutation	SNP	G	A	A	rs6137317		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:21311291G>A	uc002wsf.1	+	6	619	c.524G>A	c.(523-525)CGC>CAC	p.R175H	XRN2_uc002wsg.1_Missense_Mutation_p.R99H|XRN2_uc010zsk.1_Missense_Mutation_p.R121H	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	175					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																		---	---	---	---
FOXA2	3170	broad.mit.edu	37	20	22563405	22563405	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:22563405G>A	uc002wsn.2	-	3	647	c.457C>T	c.(457-459)CGC>TGC	p.R153C	FOXA2_uc002wsm.2_Missense_Mutation_p.R159C	NM_153675	NP_710141	Q9Y261	FOXA2_HUMAN	forkhead box A2 isoform 2	153					cell differentiation in hindbrain|central nervous system myelin formation|chromatin modification|dorsal/ventral neural tube patterning|ectoderm formation|endocrine pancreas development|endoderm development|epithelial tube branching involved in lung morphogenesis|in utero embryonic development|lung epithelial cell differentiation|negative regulation of neuron differentiation|neuron fate specification|oligodendrocyte cell fate commitment|positive regulation of embryonic development|positive regulation of gastrulation|positive regulation of neuron differentiation|primitive streak formation|regulation of blood coagulation|regulation of sequence-specific DNA binding transcription factor activity|response to interleukin-6	cytoplasm|transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|kidney(1)|central_nervous_system(1)	4	Lung NSC(19;0.188)																	---	---	---	---
SSTR4	6754	broad.mit.edu	37	20	23016316	23016316	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23016316G>A	uc002wsr.2	+	1	260	c.196G>A	c.(196-198)GCC>ACC	p.A66T		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	66	Helical; Name=1; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)																	---	---	---	---
CD93	22918	broad.mit.edu	37	20	23065010	23065010	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23065010C>T	uc002wsv.2	-	1	1968	c.1820G>A	c.(1819-1821)CGC>CAC	p.R607H		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	607	Cytoplasmic (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)																	---	---	---	---
GZF1	64412	broad.mit.edu	37	20	23345592	23345592	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23345592G>A	uc010gdb.2	+	3	746	c.572G>A	c.(571-573)GGC>GAC	p.G191D	GZF1_uc002wsy.2_Missense_Mutation_p.G191D|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Missense_Mutation_p.G191D	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	191					transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)																	---	---	---	---
GZF1	64412	broad.mit.edu	37	20	23346300	23346300	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23346300G>A	uc010gdb.2	+	3	1454	c.1280G>A	c.(1279-1281)CGC>CAC	p.R427H	GZF1_uc002wsy.2_Missense_Mutation_p.R427H|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Missense_Mutation_p.R427H	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	427	C2H2-type 4.				transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)																	---	---	---	---
CST11	140880	broad.mit.edu	37	20	23432462	23432462	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23432462C>T	uc002wtf.1	-	2	358	c.324G>A	c.(322-324)GAG>GAA	p.E108E	CST11_uc002wtg.1_Intron	NM_130794	NP_570612	Q9H112	CST11_HUMAN	cystatin 11 isoform 1 precursor	108					defense response to bacterium	cytoplasm|nucleus	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)																	---	---	---	---
TMEM90B	79953	broad.mit.edu	37	20	24646036	24646036	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24646036C>T	uc002wtw.1	+	4	1306	c.673C>T	c.(673-675)CGG>TGG	p.R225W		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	225	Extracellular (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0																		---	---	---	---
ENTPD6	955	broad.mit.edu	37	20	25187856	25187856	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25187856G>A	uc002wuj.2	+	3	379	c.199G>A	c.(199-201)GCC>ACC	p.A67T	ENTPD6_uc010zsy.1_Missense_Mutation_p.A67T|ENTPD6_uc010gdj.1_Missense_Mutation_p.A39T|ENTPD6_uc010zsz.1_Intron|ENTPD6_uc002wum.2_Missense_Mutation_p.A50T|ENTPD6_uc010zta.1_Missense_Mutation_p.A67T|ENTPD6_uc002wun.2_Missense_Mutation_p.A67T|ENTPD6_uc002wuk.2_Missense_Mutation_p.A66T|ENTPD6_uc002wul.2_Missense_Mutation_p.A66T|ENTPD6_uc010ztb.1_Missense_Mutation_p.A39T|ENTPD6_uc010ztc.1_Missense_Mutation_p.A39T|ENTPD6_uc002wuo.2_Intron|ENTPD6_uc010ztd.1_5'Flank	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	67	Lumenal (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0																		---	---	---	---
PYGB	5834	broad.mit.edu	37	20	25273229	25273229	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25273229C>T	uc002wup.2	+	17	2266	c.2157C>T	c.(2155-2157)GTC>GTT	p.V719V		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	719					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)													---	---	---	---
ZNF337	26152	broad.mit.edu	37	20	25657197	25657197	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25657197G>A	uc002wva.2	-	4	1249	c.727C>T	c.(727-729)CGA>TGA	p.R243*	uc002wuz.2_RNA|ZNF337_uc010ztg.1_Nonsense_Mutation_p.R211*|ZNF337_uc002wvb.2_Nonsense_Mutation_p.R243*|ZNF337_uc002wvc.2_Nonsense_Mutation_p.R243*	NM_015655	NP_056470	Q9Y3M9	ZN337_HUMAN	zinc finger protein 337	243	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	29847439	29847439	+	IGR	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29847439C>T								DEFB115 (4 upstream) : DEFB116 (43577 downstream)																																			---	---	---	---
HM13	81502	broad.mit.edu	37	20	30147438	30147438	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30147438G>A	uc002wwe.2	+	9	947	c.833G>A	c.(832-834)CGC>CAC	p.R278H	HM13_uc002wwc.2_Missense_Mutation_p.R278H|HM13_uc002wwd.2_Missense_Mutation_p.R278H|HM13_uc002wwf.2_Missense_Mutation_p.R154H|HM13_uc010gdu.2_Missense_Mutation_p.R154H	NM_030789	NP_110416	Q8TCT9	HM13_HUMAN	minor histocompatibility antigen 13 isoform 1	278	Cytoplasmic (Potential).				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)													OREG0025850	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
TTLL9	164395	broad.mit.edu	37	20	30510866	30510866	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30510866C>A	uc010gdx.1	+						TTLL9_uc002wwy.1_Intron|TTLL9_uc002wwz.1_Intron|TTLL9_uc002wxa.1_Intron|TTLL9_uc002wxb.1_Intron|TTLL9_uc010zto.1_Intron|TTLL9_uc002wxc.2_Intron|TTLL9_uc010ztp.1_Intron|TTLL9_uc010ztq.1_Intron	NM_001008409	NP_001008409			tubulin tyrosine ligase-like family, member 9						protein modification process	cilium|microtubule|microtubule basal body	ATP binding|tubulin-tyrosine ligase activity			ovary(2)	2			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)															---	---	---	---
TM9SF4	9777	broad.mit.edu	37	20	30745754	30745754	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30745754A>G	uc002wxj.2	+	14	1722	c.1487A>G	c.(1486-1488)TAC>TGC	p.Y496C	TM9SF4_uc010zts.1_Missense_Mutation_p.Y403C|TM9SF4_uc002wxk.2_Missense_Mutation_p.Y479C|TM9SF4_uc010gdz.2_Missense_Mutation_p.Y375C	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	496						integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)															---	---	---	---
POFUT1	23509	broad.mit.edu	37	20	30803242	30803242	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30803242G>A	uc002wxp.2	+	3	466	c.417G>A	c.(415-417)ACG>ACA	p.T139T	POFUT1_uc002wxo.2_Silent_p.T139T|POFUT1_uc010ztt.1_Silent_p.T31T|POFUT1_uc010ztu.1_Intron	NM_015352	NP_056167	Q9H488	OFUT1_HUMAN	protein O-fucosyltransferase 1 isoform 1	139					fucose metabolic process|Notch signaling pathway|O-glycan processing|regulation of transcription, DNA-dependent	endoplasmic reticulum|membrane	peptide-O-fucosyltransferase activity			breast(1)	1			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)															---	---	---	---
POFUT1	23509	broad.mit.edu	37	20	30803262	30803262	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30803262C>A	uc002wxp.2	+						POFUT1_uc002wxo.2_Intron|POFUT1_uc010ztt.1_Intron|POFUT1_uc010ztu.1_Intron	NM_015352	NP_056167			protein O-fucosyltransferase 1 isoform 1						fucose metabolic process|Notch signaling pathway|O-glycan processing|regulation of transcription, DNA-dependent	endoplasmic reticulum|membrane	peptide-O-fucosyltransferase activity			breast(1)	1			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)															---	---	---	---
ASXL1	171023	broad.mit.edu	37	20	31017137	31017137	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31017137G>A	uc002wxs.2	+						ASXL1_uc010geb.2_Intron	NM_015338	NP_056153			additional sex combs like 1 isoform 1						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248								F|N|Mis		MDS|CMML								---	---	---	---
C20orf112	140688	broad.mit.edu	37	20	31041289	31041289	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31041289G>A	uc002wxu.3	-	5	740	c.583C>T	c.(583-585)CGT>TGT	p.R195C	C20orf112_uc010gec.2_Missense_Mutation_p.R20C	NM_080616	NP_542183	Q96MY1	CT112_HUMAN	hypothetical protein LOC140688	195											0																		---	---	---	---
C20orf112	140688	broad.mit.edu	37	20	31044021	31044021	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31044021G>A	uc002wxu.3	-	3	444	c.287C>T	c.(286-288)CCG>CTG	p.P96L	C20orf112_uc010gec.2_5'UTR	NM_080616	NP_542183	Q96MY1	CT112_HUMAN	hypothetical protein LOC140688	96											0																		---	---	---	---
DNMT3B	1789	broad.mit.edu	37	20	31383281	31383281	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31383281G>A	uc002wyc.2	+	11	1514	c.1193G>A	c.(1192-1194)CGC>CAC	p.R398H	DNMT3B_uc010ztx.1_RNA|DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Missense_Mutation_p.R378H|DNMT3B_uc002wye.2_Missense_Mutation_p.R378H|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Missense_Mutation_p.R336H|DNMT3B_uc010zua.1_Missense_Mutation_p.R302H|DNMT3B_uc002wyf.2_Missense_Mutation_p.R390H|DNMT3B_uc002wyg.2_Missense_Mutation_p.R97H	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	398					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5																		---	---	---	---
DNMT3B	1789	broad.mit.edu	37	20	31386409	31386409	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31386409G>A	uc002wyc.2	+	15	1955	c.1634G>A	c.(1633-1635)CGC>CAC	p.R545H	DNMT3B_uc010ztx.1_RNA|DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Missense_Mutation_p.R525H|DNMT3B_uc002wye.2_Missense_Mutation_p.R525H|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Missense_Mutation_p.R483H|DNMT3B_uc010zua.1_Missense_Mutation_p.R449H|DNMT3B_uc002wyf.2_Missense_Mutation_p.R537H|DNMT3B_uc002wyg.2_Missense_Mutation_p.R244H|DNMT3B_uc010geg.2_5'Flank|DNMT3B_uc010geh.2_5'Flank	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	545	ADD.				negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5																		---	---	---	---
DNMT3B	1789	broad.mit.edu	37	20	31388002	31388002	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31388002C>T	uc002wyc.2	+	17	2124	c.1803C>T	c.(1801-1803)TAC>TAT	p.Y601Y	DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Silent_p.Y581Y|DNMT3B_uc002wye.2_Silent_p.Y581Y|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Silent_p.Y539Y|DNMT3B_uc010zua.1_Silent_p.Y505Y|DNMT3B_uc002wyf.2_Silent_p.Y593Y|DNMT3B_uc002wyg.2_Silent_p.Y300Y|DNMT3B_uc010geg.2_5'Flank|DNMT3B_uc010geh.2_5'Flank	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	601					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5																		---	---	---	---
BPIL1	80341	broad.mit.edu	37	20	31611191	31611191	+	3'UTR	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31611191G>T	uc002wyj.2	+	16						NM_025227	NP_079503			bactericidal/permeability-increasing							extracellular region	lipid binding			skin(2)|large_intestine(1)|ovary(1)	4																		---	---	---	---
C20orf185	359710	broad.mit.edu	37	20	31657706	31657706	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31657706C>T	uc002wym.1	+	11	1162	c.1162C>T	c.(1162-1164)CGT>TGT	p.R388C		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	388					innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4																		---	---	---	---
C20orf114	92747	broad.mit.edu	37	20	31890858	31890858	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31890858G>A	uc002wyw.1	+	11	1279	c.1118G>A	c.(1117-1119)CGC>CAC	p.R373H	C20orf114_uc002wyx.1_RNA	NM_033197	NP_149974	Q8TDL5	LPLC1_HUMAN	LPLUNC1 protein precursor	373						extracellular space	lipid binding			central_nervous_system(2)|skin(2)	4																		---	---	---	---
CDK5RAP1	51654	broad.mit.edu	37	20	31954730	31954730	+	Silent	SNP	G	T	T	rs148992921		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31954730G>T	uc010gek.2	-	13	1643	c.1519C>A	c.(1519-1521)CGA>AGA	p.R507R	CDK5RAP1_uc002wyy.2_Silent_p.R403R|CDK5RAP1_uc002wyz.2_Silent_p.R493R|CDK5RAP1_uc002wza.2_Silent_p.R492R|CDK5RAP1_uc010gel.2_Silent_p.R402R|CDK5RAP1_uc010gem.2_Silent_p.R416R|CDK5RAP1_uc002wzc.1_Silent_p.R493R|CDK5RAP1_uc002wzb.1_Silent_p.R128R	NM_016408	NP_057492	Q96SZ6	CK5P1_HUMAN	CDK5 regulatory subunit associated protein 1	507	CDK5R1-binding.				brain development|negative regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation|tRNA modification	cytoplasm	4 iron, 4 sulfur cluster binding|metal ion binding|neuronal Cdc2-like kinase binding|transferase activity			ovary(2)|skin(2)|lung(1)	5																		---	---	---	---
CBFA2T2	9139	broad.mit.edu	37	20	32199012	32199012	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32199012A>G	uc002wzg.1	+	4	855	c.318A>G	c.(316-318)CAA>CAG	p.Q106Q	CBFA2T2_uc010zug.1_Intron|CBFA2T2_uc002wze.1_Silent_p.Q97Q|CBFA2T2_uc002wzf.1_RNA|CBFA2T2_uc002wzh.1_Silent_p.Q77Q|CBFA2T2_uc002wzi.1_RNA|CBFA2T2_uc002wzj.1_RNA	NM_005093	NP_005084	O43439	MTG8R_HUMAN	core-binding factor, runt domain, alpha subunit	106						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2																		---	---	---	---
ZNF341	84905	broad.mit.edu	37	20	32358107	32358107	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32358107C>A	uc002wzy.2	+						ZNF341_uc002wzx.2_Intron|ZNF341_uc010geq.2_Intron|ZNF341_uc010ger.2_Intron	NM_032819	NP_116208			zinc finger protein 341						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2																		---	---	---	---
RALY	22913	broad.mit.edu	37	20	32661432	32661432	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32661432C>T	uc002xab.2	+	4	618	c.320C>T	c.(319-321)GCC>GTC	p.A107V	RALY_uc010zui.1_Missense_Mutation_p.A107V|RALY_uc002xac.2_Missense_Mutation_p.A107V|RALY_uc002xad.2_RNA|RALY_uc002xae.1_Missense_Mutation_p.A107V	NM_016732	NP_057951	Q9UKM9	RALY_HUMAN	RNA binding protein (autoantigenic,	107						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(1)	1																		---	---	---	---
EIF2S2	8894	broad.mit.edu	37	20	32677651	32677651	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32677651C>T	uc002xaf.2	-	9	1056	c.887G>A	c.(886-888)CGA>CAA	p.R296Q	EIF2S2_uc002xag.2_Missense_Mutation_p.R293Q|EIF2S2_uc010ges.2_Missense_Mutation_p.R236Q	NM_003908	NP_003899	P20042	IF2B_HUMAN	eukaryotic translation initiation factor 2 beta	296	C4-type (Potential).					cytosol|eukaryotic translation initiation factor 2 complex	metal ion binding|protein binding|translation initiation factor activity			large_intestine(1)	1																		---	---	---	---
MAP1LC3A	84557	broad.mit.edu	37	20	33147564	33147564	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33147564G>A	uc002xaq.1	+	4	382	c.228G>A	c.(226-228)ACG>ACA	p.T76T	MAP1LC3A_uc002xap.1_Silent_p.T80T	NM_032514	NP_115903	Q9H492	MLP3A_HUMAN	microtubule-associated protein 1 light chain 3	76					autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|cytosol|endomembrane system|microtubule	phosphatidylethanolamine binding|protein binding				0																		---	---	---	---
MYH7B	57644	broad.mit.edu	37	20	33568472	33568472	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33568472G>A	uc010gfa.1	+	5	555	c.434G>A	c.(433-435)CGC>CAC	p.R145H	MYH7B_uc002xbi.1_Missense_Mutation_p.R187H			A7E2Y1	MYH7B_HUMAN	RecName: Full=Myosin-7B; AltName: Full=Myosin heavy chain 7B, cardiac muscle beta isoform; AltName: Full=Myosin cardiac muscle beta chain; AltName: Full=Antigen MLAA-21; AltName: Full=Slow A MYH14;	145	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)															---	---	---	---
PROCR	10544	broad.mit.edu	37	20	33764049	33764049	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33764049C>A	uc002xbt.2	+	3	585	c.401C>A	c.(400-402)GCT>GAT	p.A134D	EDEM2_uc010zuv.1_Intron|PROCR_uc010zuw.1_Missense_Mutation_p.A171D	NM_006404	NP_006395	Q9UNN8	EPCR_HUMAN	endothelial protein C receptor precursor	134	Extracellular (Potential).				antigen processing and presentation|blood coagulation|immune response	integral to plasma membrane|MHC class I protein complex	receptor activity				0			BRCA - Breast invasive adenocarcinoma(18;0.0152)		Drotrecogin alfa(DB00055)													---	---	---	---
CEP250	11190	broad.mit.edu	37	20	34060620	34060620	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34060620G>A	uc002xcm.2	+	13	1844	c.1173G>A	c.(1171-1173)GTG>GTA	p.V391V	CEP250_uc010zve.1_5'UTR|CEP250_uc010zvd.1_RNA	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	391					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)															---	---	---	---
CEP250	11190	broad.mit.edu	37	20	34091280	34091280	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34091280C>T	uc002xcm.2	+	31	5754	c.5083C>T	c.(5083-5085)CGA>TGA	p.R1695*	CEP250_uc010zve.1_Nonsense_Mutation_p.R1063*	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	1695	Gln/Glu-rich.|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)															---	---	---	---
NFS1	9054	broad.mit.edu	37	20	34262504	34262504	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34262504C>A	uc002xdw.1	-	9	1048	c.984G>T	c.(982-984)CGG>CGT	p.R328R	CPNE1_uc002xdn.1_5'Flank|CPNE1_uc002xdo.1_5'Flank|CPNE1_uc002xdp.1_RNA|NFS1_uc002xdt.1_Silent_p.R268R|NFS1_uc002xdu.1_Silent_p.R268R|NFS1_uc002xdv.1_RNA|NFS1_uc010zvk.1_Silent_p.R126R|NFS1_uc010zvl.1_Silent_p.R277R	NM_021100	NP_066923	Q9Y697	NFS1_HUMAN	NFS1 nitrogen fixation 1 precursor	328					cysteine metabolic process|iron incorporation into metallo-sulfur cluster|Mo-molybdopterin cofactor biosynthetic process|protein complex assembly|water-soluble vitamin metabolic process	cytosol|mitochondrial matrix|nucleus	cysteine desulfurase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.0886)		L-Alanine(DB00160)|L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)													---	---	---	---
ROMO1	140823	broad.mit.edu	37	20	34288780	34288780	+	Silent	SNP	C	T	T	rs149152641		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34288780C>T	uc002xdy.2	+	3	339	c.192C>T	c.(190-192)GGC>GGT	p.G64G	NFS1_uc002xdt.1_5'Flank|NFS1_uc002xdu.1_5'Flank|NFS1_uc002xdv.1_5'Flank|NFS1_uc010zvk.1_5'Flank|NFS1_uc010zvl.1_5'Flank|NFS1_uc002xdw.1_5'Flank|NFS1_uc002xdx.2_5'Flank|ROMO1_uc010gfm.2_Silent_p.G64G	NM_080748	NP_542786	P60602	ROMO1_HUMAN	reactive oxygen species modulator 1	64					cellular response to reactive oxygen species|positive regulation of cell proliferation|positive regulation of reactive oxygen species metabolic process|replicative cell aging	integral to membrane|mitochondrial membrane					0																		---	---	---	---
PHF20	51230	broad.mit.edu	37	20	34526851	34526851	+	Missense_Mutation	SNP	C	T	T	rs144252568		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34526851C>T	uc002xek.1	+	16	2644	c.2533C>T	c.(2533-2535)CGC>TGC	p.R845C		NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	845					regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)																	---	---	---	---
EPB41L1	2036	broad.mit.edu	37	20	34773105	34773105	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34773105G>A	uc002xfb.2	+	7	804	c.633G>A	c.(631-633)ACG>ACA	p.T211T	EPB41L1_uc002xeu.2_Silent_p.T149T|EPB41L1_uc010zvo.1_Silent_p.T211T|EPB41L1_uc002xev.2_Silent_p.T211T|EPB41L1_uc002xew.2_Silent_p.T114T|EPB41L1_uc002xex.2_Silent_p.T180T|EPB41L1_uc002xey.2_Intron|EPB41L1_uc002xez.2_Silent_p.T149T	NM_012156	NP_036288	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	211	FERM.				cortical actin cytoskeleton organization|synaptic transmission	cytoskeleton|cytosol|extrinsic to membrane|plasma membrane	actin binding|structural molecule activity			ovary(2)|pancreas(1)	3	Breast(12;0.0239)																	---	---	---	---
C20orf132	140699	broad.mit.edu	37	20	35788560	35788560	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35788560C>T	uc010zvu.1	-	8	789	c.698G>A	c.(697-699)CGC>CAC	p.R233H	C20orf132_uc002xgk.2_5'Flank|C20orf132_uc002xgm.2_Missense_Mutation_p.R233H|C20orf132_uc002xgn.2_Missense_Mutation_p.R233H	NM_152503	NP_689716	Q9H579	CT132_HUMAN	hypothetical protein LOC140699 isoform 1	143											0		Myeloproliferative disorder(115;0.00878)																---	---	---	---
CTNNBL1	56259	broad.mit.edu	37	20	36361304	36361304	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36361304C>A	uc010zvw.1	+	2	145	c.54C>A	c.(52-54)CCC>CCA	p.P18P	CTNNBL1_uc010zvv.1_5'UTR	NM_030877	NP_110517	Q8WYA6	CTBL1_HUMAN	beta catenin-like 1	18					apoptosis|positive regulation of apoptosis|somatic diversification of immunoglobulins	nucleus	enzyme binding			ovary(2)	2		Myeloproliferative disorder(115;0.00878)																---	---	---	---
CTNNBL1	56259	broad.mit.edu	37	20	36500377	36500377	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36500377G>A	uc010zvw.1	+	17	1745	c.1654G>A	c.(1654-1656)GAG>AAG	p.E552K	CTNNBL1_uc002xhh.2_Missense_Mutation_p.E365K|CTNNBL1_uc002xhi.2_RNA|CTNNBL1_uc002xhj.2_Missense_Mutation_p.E300K	NM_030877	NP_110517	Q8WYA6	CTBL1_HUMAN	beta catenin-like 1	552					apoptosis|positive regulation of apoptosis|somatic diversification of immunoglobulins	nucleus	enzyme binding			ovary(2)	2		Myeloproliferative disorder(115;0.00878)																---	---	---	---
TGM2	7052	broad.mit.edu	37	20	36779458	36779458	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36779458C>T	uc002xhr.2	-	4	535	c.435G>A	c.(433-435)GCG>GCA	p.A145A	TGM2_uc010zvx.1_Silent_p.A64A|TGM2_uc010zvy.1_Silent_p.A85A|TGM2_uc002xhs.1_Silent_p.A121A|TGM2_uc002xht.2_Silent_p.A145A|TGM2_uc002xhu.3_Silent_p.A145A	NM_004613	NP_004604	P21980	TGM2_HUMAN	transglutaminase 2 isoform a	145					apoptotic cell clearance|peptide cross-linking|positive regulation of cell adhesion		acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(1)|lung(1)|ovary(1)	3		Myeloproliferative disorder(115;0.00878)			L-Glutamine(DB00130)													---	---	---	---
KIAA1755	85449	broad.mit.edu	37	20	36869866	36869866	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36869866G>T	uc002xhy.1	-	3	939	c.667C>A	c.(667-669)CCA>ACA	p.P223T	KIAA1755_uc002xhz.1_Missense_Mutation_p.P223T	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	223										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)																---	---	---	---
BPI	671	broad.mit.edu	37	20	36937464	36937464	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36937464C>T	uc002xib.2	+							NM_001725	NP_001716			bactericidal/permeability-increasing protein						defense response to bacterium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of macrophage activation|negative regulation of tumor necrosis factor production	extracellular region|integral to plasma membrane	lipid binding|lipopolysaccharide binding			ovary(4)	4		Myeloproliferative disorder(115;0.00878)																---	---	---	---
RALGAPB	57148	broad.mit.edu	37	20	37168459	37168459	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37168459T>A	uc002xiw.2	+	17	2677	c.2420T>A	c.(2419-2421)ATC>AAC	p.I807N	RALGAPB_uc002xix.2_Missense_Mutation_p.I803N|RALGAPB_uc002xiy.1_Missense_Mutation_p.I807N|RALGAPB_uc002xiz.2_Missense_Mutation_p.I585N|RALGAPB_uc002xja.1_Missense_Mutation_p.I534N	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	807					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2																		---	---	---	---
RALGAPB	57148	broad.mit.edu	37	20	37194098	37194098	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37194098T>C	uc002xiw.2	+	25	4051	c.3794T>C	c.(3793-3795)GTT>GCT	p.V1265A	RALGAPB_uc002xix.2_Missense_Mutation_p.V1262A|RALGAPB_uc002xiy.1_Intron|RALGAPB_uc002xiz.2_Missense_Mutation_p.V1044A	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	1265	Rap-GAP.				activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2																		---	---	---	---
SLC32A1	140679	broad.mit.edu	37	20	37353656	37353656	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37353656G>A	uc002xjc.2	+	1	552	c.289G>A	c.(289-291)GGC>AGC	p.G97S		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	97	Cytoplasmic (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)													---	---	---	---
SLC32A1	140679	broad.mit.edu	37	20	37356122	37356122	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37356122G>A	uc002xjc.2	+	2	681	c.418G>A	c.(418-420)GCC>ACC	p.A140T		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	140	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)													---	---	---	---
SLC32A1	140679	broad.mit.edu	37	20	37356232	37356232	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37356232C>T	uc002xjc.2	+	2	791	c.528C>T	c.(526-528)GAC>GAT	p.D176D		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	176	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)													---	---	---	---
SLC32A1	140679	broad.mit.edu	37	20	37357187	37357187	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37357187G>A	uc002xjc.2	+	2	1746	c.1483G>A	c.(1483-1485)GCC>ACC	p.A495T		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	495	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)													---	---	---	---
ACTR5	79913	broad.mit.edu	37	20	37380797	37380797	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37380797G>A	uc002xjd.2	+	3	654	c.629G>A	c.(628-630)CGC>CAC	p.R210H		NM_024855	NP_079131	Q9H9F9	ARP5_HUMAN	ARP5 actin-related protein 5 homolog	210					DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)																---	---	---	---
PPP1R16B	26051	broad.mit.edu	37	20	37531340	37531340	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37531340C>T	uc002xje.2	+	6	790	c.601C>T	c.(601-603)CGG>TGG	p.R201W	PPP1R16B_uc010ggc.2_Missense_Mutation_p.R201W	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	201					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)																---	---	---	---
DHX35	60625	broad.mit.edu	37	20	37634988	37634988	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37634988G>A	uc002xjh.2	+	12	1222	c.1211G>A	c.(1210-1212)CGC>CAC	p.R404H	DHX35_uc010zwa.1_Missense_Mutation_p.R249H|DHX35_uc010zwb.1_Missense_Mutation_p.R249H|DHX35_uc010zwc.1_Missense_Mutation_p.R373H	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	404	Helicase C-terminal.					catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)																---	---	---	---
DHX35	60625	broad.mit.edu	37	20	37653971	37653971	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37653971C>A	uc002xjh.2	+	18	1781	c.1770C>A	c.(1768-1770)GTC>GTA	p.V590V	DHX35_uc010zwa.1_Silent_p.V435V|DHX35_uc010zwb.1_Silent_p.V435V|DHX35_uc010zwc.1_Silent_p.V559V	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	590						catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)																---	---	---	---
PLCG1	5335	broad.mit.edu	37	20	39798904	39798904	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39798904G>A	uc002xjp.1	+	24	2924	c.2803G>A	c.(2803-2805)GCC>ACC	p.A935T	PLCG1_uc002xjo.1_Missense_Mutation_p.A935T|PLCG1_uc010zwe.1_Missense_Mutation_p.A561T|PLCG1_uc010ggf.2_Missense_Mutation_p.A259T	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	935					activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)																---	---	---	---
ZHX3	23051	broad.mit.edu	37	20	39831218	39831218	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39831218C>T	uc002xjs.1	-	3	2717	c.2339G>A	c.(2338-2340)CGG>CAG	p.R780Q	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Missense_Mutation_p.R780Q|ZHX3_uc002xjt.1_Missense_Mutation_p.R780Q|ZHX3_uc002xju.1_Missense_Mutation_p.R780Q|ZHX3_uc002xjv.1_Missense_Mutation_p.R780Q|ZHX3_uc002xjw.1_Missense_Mutation_p.R780Q|ZHX3_uc010ggg.1_Missense_Mutation_p.R780Q	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	780	Homeobox 4.				negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)																---	---	---	---
ZHX3	23051	broad.mit.edu	37	20	39831460	39831460	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39831460C>T	uc002xjs.1	-	3	2475	c.2097G>A	c.(2095-2097)GAG>GAA	p.E699E	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Silent_p.E699E|ZHX3_uc002xjt.1_Silent_p.E699E|ZHX3_uc002xju.1_Silent_p.E699E|ZHX3_uc002xjv.1_Silent_p.E699E|ZHX3_uc002xjw.1_Silent_p.E699E|ZHX3_uc010ggg.1_Silent_p.E699E	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	699					negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)																---	---	---	---
EMILIN3	90187	broad.mit.edu	37	20	39993728	39993728	+	Silent	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39993728T>A	uc002xjy.1	-	2	461	c.237A>T	c.(235-237)GTA>GTT	p.V79V		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	79	EMI.					proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)																---	---	---	---
CHD6	84181	broad.mit.edu	37	20	40050618	40050618	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40050618G>A	uc002xka.1	-	31	4835	c.4657C>T	c.(4657-4659)CTC>TTC	p.L1553F		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1553					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)																---	---	---	---
CHD6	84181	broad.mit.edu	37	20	40111989	40111989	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40111989G>A	uc002xka.1	-	16	2606	c.2428C>T	c.(2428-2430)CGC>TGC	p.R810C	CHD6_uc002xkd.2_Missense_Mutation_p.R788C	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	810	Helicase C-terminal.				chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)																---	---	---	---
CHD6	84181	broad.mit.edu	37	20	40120415	40120415	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40120415G>A	uc002xka.1	-	11	1537	c.1359C>T	c.(1357-1359)CGC>CGT	p.R453R	CHD6_uc002xkd.2_Silent_p.R431R	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	453					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)																---	---	---	---
PTPRT	11122	broad.mit.edu	37	20	40714491	40714491	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40714491G>T	uc002xkg.2	-	28	4033	c.3849C>A	c.(3847-3849)TTC>TTA	p.F1283L	PTPRT_uc010ggj.2_Missense_Mutation_p.F1302L|PTPRT_uc010ggi.2_Missense_Mutation_p.F486L	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1283	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)																---	---	---	---
PTPRT	11122	broad.mit.edu	37	20	41400120	41400120	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41400120G>A	uc002xkg.2	-	5	823	c.639C>T	c.(637-639)TGC>TGT	p.C213C	PTPRT_uc010ggj.2_Silent_p.C213C	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	213	Extracellular (Potential).|Ig-like C2-type.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)																---	---	---	---
SFRS6	6431	broad.mit.edu	37	20	42088823	42088823	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42088823C>A	uc010zwg.1	+	4	702	c.532C>A	c.(532-534)CTT>ATT	p.L178I	SFRS6_uc002xki.2_Missense_Mutation_p.L49I|SFRS6_uc002xkk.2_Missense_Mutation_p.L178I	NM_006275	NP_006266	Q13247	SRSF6_HUMAN	arginine/serine-rich splicing factor 6	178	RRM 2.				mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)															---	---	---	---
MYBL2	4605	broad.mit.edu	37	20	42311438	42311438	+	Missense_Mutation	SNP	G	A	A	rs149840592		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42311438G>A	uc002xlb.1	+	4	406	c.191G>A	c.(190-192)CGC>CAC	p.R64H	MYBL2_uc010zwj.1_Missense_Mutation_p.R40H|MYBL2_uc002xla.1_Missense_Mutation_p.R64H	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	64	H-T-H motif (By similarity).|HTH myb-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)															---	---	---	---
MYBL2	4605	broad.mit.edu	37	20	42338670	42338670	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42338670G>A	uc002xlb.1	+	10	1788	c.1573G>A	c.(1573-1575)GCC>ACC	p.A525T	MYBL2_uc010zwj.1_Missense_Mutation_p.A501T	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	525						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)															---	---	---	---
JPH2	57158	broad.mit.edu	37	20	42815111	42815111	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42815111G>A	uc002xli.1	-	1	1108	c.235C>T	c.(235-237)CGC>TGC	p.R79C	JPH2_uc002xlj.2_Missense_Mutation_p.R79C	NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	79	Gly-rich.|MORN 3.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)															---	---	---	---
HNF4A	3172	broad.mit.edu	37	20	43052918	43052918	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43052918C>T	uc002xma.2	+						HNF4A_uc002xlt.2_Missense_Mutation_p.R363W|HNF4A_uc002xlu.2_Intron|HNF4A_uc002xlv.2_Intron|HNF4A_uc002xly.2_Missense_Mutation_p.R385W|HNF4A_uc002xlz.2_Intron|HNF4A_uc010ggq.2_Intron	NM_000457	NP_000448			hepatocyte nuclear factor 4 alpha isoform b						blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)															---	---	---	---
PABPC1L	80336	broad.mit.edu	37	20	43559194	43559194	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43559194C>T	uc010ggv.1	+	8	1148	c.1066C>T	c.(1066-1068)CGC>TGC	p.R356C	PABPC1L_uc010zwq.1_RNA|PABPC1L_uc002xmv.2_RNA|PABPC1L_uc002xmw.2_5'Flank|PABPC1L_uc002xmx.2_5'Flank	NM_001124756	NP_001118228	Q4VXU2	PAP1L_HUMAN	poly(A)-binding protein, cytoplasmic 1-like	356	RRM 4.						nucleotide binding|RNA binding			ovary(1)	1																		---	---	---	---
STK4	6789	broad.mit.edu	37	20	43607098	43607098	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43607098T>C	uc002xnb.2	+	3	221	c.131T>C	c.(130-132)GTA>GCA	p.V44A	STK4_uc010ggx.2_Missense_Mutation_p.V44A|STK4_uc010ggy.2_Missense_Mutation_p.V44A|STK4_uc010ggw.1_Missense_Mutation_p.V44A	NM_006282	NP_006273	Q13043	STK4_HUMAN	serine/threonine kinase 4	44	ATP (By similarity).|Protein kinase.				apoptosis|cell morphogenesis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of apoptosis|protein autophosphorylation	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein homodimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity|transcription factor binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)																---	---	---	---
RBPJL	11317	broad.mit.edu	37	20	43940918	43940918	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43940918C>T	uc002xns.2	+	6	574	c.502C>T	c.(502-504)CGG>TGG	p.R168W	RBPJL_uc002xnt.2_Missense_Mutation_p.R168W	NM_014276	NP_055091	Q9UBG7	RBPJL_HUMAN	recombining binding protein L	168					signal transduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)																---	---	---	---
RBPJL	11317	broad.mit.edu	37	20	43944816	43944816	+	Intron	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43944816T>C	uc002xns.2	+						RBPJL_uc002xnt.2_Intron	NM_014276	NP_055091			recombining binding protein L						signal transduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)																---	---	---	---
ZNF335	63925	broad.mit.edu	37	20	44592274	44592274	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44592274C>T	uc002xqw.2	-	9	1494	c.1371G>A	c.(1369-1371)TCG>TCA	p.S457S	ZNF335_uc010zxk.1_Silent_p.S302S	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	457					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)																---	---	---	---
SLC12A5	57468	broad.mit.edu	37	20	44678261	44678261	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44678261G>A	uc010zxl.1	+	17	2158	c.2082G>A	c.(2080-2082)AGG>AGA	p.R694R	SLC12A5_uc010zxm.1_RNA|SLC12A5_uc002xrb.2_Silent_p.R671R	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	694					potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)													---	---	---	---
SLC12A5	57468	broad.mit.edu	37	20	44680471	44680471	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44680471G>A	uc010zxl.1	+	18	2484	c.2408G>A	c.(2407-2409)CGC>CAC	p.R803H	SLC12A5_uc002xrb.2_Missense_Mutation_p.R780H	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	803					potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)													---	---	---	---
SLC12A5	57468	broad.mit.edu	37	20	44685882	44685882	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44685882G>A	uc010zxl.1	+	25	3344	c.3268G>A	c.(3268-3270)GCC>ACC	p.A1090T	SLC12A5_uc002xrb.2_Missense_Mutation_p.A1067T	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	1090	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)													---	---	---	---
NCOA5	57727	broad.mit.edu	37	20	44695817	44695817	+	Missense_Mutation	SNP	C	T	T	rs138863222	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44695817C>T	uc002xrd.2	-	4	1034	c.506G>A	c.(505-507)CGT>CAT	p.R169H	NCOA5_uc002xrc.2_Missense_Mutation_p.R57H|NCOA5_uc002xre.2_Missense_Mutation_p.R169H	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	169					regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)																---	---	---	---
NCOA5	57727	broad.mit.edu	37	20	44698981	44698981	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44698981A>G	uc002xrd.2	-	2	761	c.233T>C	c.(232-234)GTG>GCG	p.V78A	NCOA5_uc002xrc.2_5'UTR|NCOA5_uc002xre.2_Missense_Mutation_p.V78A	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	78	Arg/Asp-rich (mixed charge).|Transcription repression.				regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)																---	---	---	---
CDH22	64405	broad.mit.edu	37	20	44845612	44845612	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44845612G>A	uc002xrm.2	-	4	1092	c.691C>T	c.(691-693)CCT>TCT	p.P231S	CDH22_uc010ghk.1_Missense_Mutation_p.P231S|CDH22_uc002xrn.1_5'UTR	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	231	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)																---	---	---	---
ELMO2	63916	broad.mit.edu	37	20	45003964	45003964	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45003964C>T	uc002xrt.1	-	13	1186	c.976G>A	c.(976-978)GCA>ACA	p.A326T	ELMO2_uc010zxq.1_Missense_Mutation_p.A58T|ELMO2_uc002xrs.1_Missense_Mutation_p.A73T|ELMO2_uc002xru.1_Missense_Mutation_p.A326T|ELMO2_uc010zxr.1_Missense_Mutation_p.A338T|ELMO2_uc010zxs.1_Missense_Mutation_p.A143T|ELMO2_uc002xrv.1_Missense_Mutation_p.A45T|ELMO2_uc002xrw.2_Missense_Mutation_p.A143T|ELMO2_uc002xrx.1_Missense_Mutation_p.A326T	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2	326	ELMO.				apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)																---	---	---	---
SLC13A3	64849	broad.mit.edu	37	20	45212284	45212284	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45212284G>A	uc002xsf.1	-	9	1184	c.1146C>T	c.(1144-1146)GGC>GGT	p.G382G	SLC13A3_uc010ghn.1_Silent_p.G351G|SLC13A3_uc010zxw.1_Silent_p.G332G|SLC13A3_uc002xsg.1_Silent_p.G335G|SLC13A3_uc010gho.1_Silent_p.G300G|SLC13A3_uc010zxx.1_Silent_p.G284G|SLC13A3_uc010zxv.1_Missense_Mutation_p.A5V	NM_022829	NP_073740	Q8WWT9	S13A3_HUMAN	solute carrier family 13 member 3 isoform a	382	Helical; (Potential).					integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)													---	---	---	---
EYA2	2139	broad.mit.edu	37	20	45702898	45702898	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45702898G>A	uc002xsm.2	+	7	959	c.585G>A	c.(583-585)TCG>TCA	p.S195S	EYA2_uc010ghp.2_Silent_p.S195S|EYA2_uc002xsn.2_Silent_p.S200S|EYA2_uc002xso.2_Silent_p.S195S|EYA2_uc002xsp.2_Silent_p.S195S|EYA2_uc002xsq.2_Silent_p.S195S	NM_005244	NP_005235	O00167	EYA2_HUMAN	eyes absent 2 isoform a	195					DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)																---	---	---	---
ZMYND8	23613	broad.mit.edu	37	20	45910870	45910870	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45910870G>A	uc002xta.1	-	10	1168	c.914C>T	c.(913-915)GCC>GTC	p.A305V	ZMYND8_uc010ghr.1_Missense_Mutation_p.A280V|ZMYND8_uc002xst.1_Missense_Mutation_p.A280V|ZMYND8_uc002xsu.1_Missense_Mutation_p.A305V|ZMYND8_uc002xsv.1_Missense_Mutation_p.A280V|ZMYND8_uc002xsw.1_Missense_Mutation_p.A57V|ZMYND8_uc002xsx.1_Missense_Mutation_p.A57V|ZMYND8_uc002xsy.1_Missense_Mutation_p.A280V|ZMYND8_uc002xsz.1_Missense_Mutation_p.A242V|ZMYND8_uc010zxy.1_Missense_Mutation_p.A332V|ZMYND8_uc002xtb.1_Missense_Mutation_p.A325V|ZMYND8_uc002xss.2_Missense_Mutation_p.A305V|ZMYND8_uc010zxz.1_Missense_Mutation_p.A300V|ZMYND8_uc002xtc.1_Missense_Mutation_p.A325V|ZMYND8_uc002xtd.1_Missense_Mutation_p.A300V|ZMYND8_uc002xte.1_Missense_Mutation_p.A305V|ZMYND8_uc010zya.1_Missense_Mutation_p.A305V|ZMYND8_uc002xtf.1_Missense_Mutation_p.A325V|ZMYND8_uc002xtg.2_Missense_Mutation_p.A299V|ZMYND8_uc010ghs.1_Missense_Mutation_p.A299V	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	305	PWWP.						protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)															---	---	---	---
NCOA3	8202	broad.mit.edu	37	20	46264165	46264165	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:46264165G>A	uc002xtk.2	+	11	1417	c.1212G>A	c.(1210-1212)TCG>TCA	p.S404S	NCOA3_uc010ght.1_Silent_p.S414S|NCOA3_uc002xtl.2_Silent_p.S404S|NCOA3_uc002xtm.2_Silent_p.S404S|NCOA3_uc002xtn.2_Silent_p.S404S|NCOA3_uc010zyc.1_Silent_p.S199S	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	404					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5																		---	---	---	---
PREX1	57580	broad.mit.edu	37	20	47247280	47247280	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47247280C>T	uc002xtw.1	-	36	4602	c.4579G>A	c.(4579-4581)GTA>ATA	p.V1527I	PREX1_uc002xtv.1_Missense_Mutation_p.V824I	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1527					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)															---	---	---	---
PREX1	57580	broad.mit.edu	37	20	47364404	47364404	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47364404C>T	uc002xtw.1	-	2	256	c.233G>A	c.(232-234)CGC>CAC	p.R78H		NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	78	DH.				actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)															---	---	---	---
ARFGEF2	10564	broad.mit.edu	37	20	47614883	47614883	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47614883C>T	uc002xtx.3	+	25	3425	c.3273C>T	c.(3271-3273)GTC>GTT	p.V1091V	ARFGEF2_uc010zyf.1_Silent_p.V384V	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1091					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)															---	---	---	---
ARFGEF2	10564	broad.mit.edu	37	20	47639702	47639702	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47639702A>G	uc002xtx.3	+	35	4891	c.4739A>G	c.(4738-4740)CAC>CGC	p.H1580R	ARFGEF2_uc010zyf.1_Missense_Mutation_p.H873R	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1580					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)															---	---	---	---
STAU1	6780	broad.mit.edu	37	20	47733659	47733659	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47733659G>A	uc002xud.2	-						STAU1_uc002xua.2_Intron|STAU1_uc002xub.2_Intron|STAU1_uc002xuc.2_Intron|STAU1_uc002xue.2_Intron|STAU1_uc002xuf.2_Intron|STAU1_uc002xug.2_Intron	NM_017453	NP_059347			staufen isoform b							microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)															---	---	---	---
STAU1	6780	broad.mit.edu	37	20	47734608	47734608	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47734608C>T	uc002xud.2	-	11	1626	c.1215G>A	c.(1213-1215)ATG>ATA	p.M405I	STAU1_uc002xua.2_Missense_Mutation_p.M324I|STAU1_uc002xub.2_Missense_Mutation_p.M330I|STAU1_uc002xuc.2_Missense_Mutation_p.M324I|STAU1_uc002xue.2_Missense_Mutation_p.M324I|STAU1_uc002xuf.2_Missense_Mutation_p.M330I|STAU1_uc002xug.2_Missense_Mutation_p.M405I	NM_017453	NP_059347	O95793	STAU1_HUMAN	staufen isoform b	405						microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)															---	---	---	---
ZNFX1	57169	broad.mit.edu	37	20	47887009	47887009	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47887009C>T	uc002xui.2	-	3	1587	c.1340G>A	c.(1339-1341)CGA>CAA	p.R447Q		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	447							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)															---	---	---	---
SLC9A8	23315	broad.mit.edu	37	20	48503391	48503391	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48503391G>A	uc002xuv.1	+	15	1804	c.1594G>A	c.(1594-1596)GCC>ACC	p.A532T	SLC9A8_uc010zym.1_Missense_Mutation_p.A232T|SLC9A8_uc010gid.2_Missense_Mutation_p.A156T	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	532						Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)															---	---	---	---
TMEM189	387521	broad.mit.edu	37	20	48741643	48741643	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48741643G>A	uc002xvg.2	-	6	926	c.765C>T	c.(763-765)GGC>GGT	p.G255G	TMEM189-UBE2V1_uc002xvf.2_Intron|TMEM189_uc010zyq.1_RNA|TMEM189_uc010gif.2_Silent_p.G252G|TMEM189_uc010zyp.1_Silent_p.G180G	NM_199129	NP_954580	A5PLL7	TM189_HUMAN	transmembrane protein 189 isoform 1	255						endoplasmic reticulum membrane|integral to membrane					0			BRCA - Breast invasive adenocarcinoma(9;3.02e-07)															---	---	---	---
PARD6B	84612	broad.mit.edu	37	20	49366779	49366779	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49366779C>T	uc002xvo.2	+	3	1116	c.873C>T	c.(871-873)AGC>AGT	p.S291S		NM_032521	NP_115910	Q9BYG5	PAR6B_HUMAN	PAR-6 beta	291					axonogenesis|cell cycle|cell division|establishment or maintenance of cell polarity|protein complex assembly|regulation of cell migration|tight junction assembly	cytosol|tight junction	protein binding			kidney(1)	1																		---	---	---	---
BCAS4	55653	broad.mit.edu	37	20	49446904	49446904	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49446904T>C	uc002xvq.2	+	3	405	c.341T>C	c.(340-342)GTG>GCG	p.V114A	BCAS4_uc002xvp.1_Missense_Mutation_p.V114A|BCAS4_uc002xvr.2_Missense_Mutation_p.V114A|BCAS4_uc002xvs.2_Missense_Mutation_p.V114A	NM_017843	NP_060313	Q8TDM0	BCAS4_HUMAN	breast carcinoma amplified sequence 4 isoform a	114						cytoplasm					0																		---	---	---	---
ATP9A	10079	broad.mit.edu	37	20	50305609	50305609	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50305609C>T	uc002xwg.1	-	9	793	c.793G>A	c.(793-795)GCA>ACA	p.A265T	ATP9A_uc010gih.1_Intron|ATP9A_uc002xwf.1_5'UTR	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	265	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																		---	---	---	---
SALL4	57167	broad.mit.edu	37	20	50407173	50407173	+	Silent	SNP	G	T	T	rs74315427		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50407173G>T	uc002xwh.3	-	2	1950	c.1849C>A	c.(1849-1851)CGA>AGA	p.R617R	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	617					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2																		---	---	---	---
SALL4	57167	broad.mit.edu	37	20	50408447	50408447	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50408447G>A	uc002xwh.3	-	2	676	c.575C>T	c.(574-576)GCG>GTG	p.A192V	SALL4_uc010gii.2_Missense_Mutation_p.A192V|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	192					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2																		---	---	---	---
SALL4	57167	broad.mit.edu	37	20	50408840	50408840	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50408840G>A	uc002xwh.3	-	2	283	c.182C>T	c.(181-183)GCC>GTC	p.A61V	SALL4_uc010gii.2_Missense_Mutation_p.A61V|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	61					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2																		---	---	---	---
ZFP64	55734	broad.mit.edu	37	20	50701279	50701279	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50701279G>A	uc002xwk.2	-	9	2104	c.1755C>T	c.(1753-1755)TGC>TGT	p.C585C	ZFP64_uc002xwj.2_Silent_p.C366C	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	430	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2																		---	---	---	---
ZFP64	55734	broad.mit.edu	37	20	50781293	50781293	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50781293C>G	uc002xwl.2	-	4	801	c.452G>C	c.(451-453)TGC>TCC	p.C151S	ZFP64_uc002xwk.2_Missense_Mutation_p.C151S|ZFP64_uc002xwm.2_Missense_Mutation_p.C149S|ZFP64_uc002xwn.2_Missense_Mutation_p.C97S	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2																		---	---	---	---
ZNF217	7764	broad.mit.edu	37	20	52193292	52193292	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52193292C>T	uc002xwq.3	-	3	2282	c.2011G>A	c.(2011-2013)GCA>ACA	p.A671T	ZNF217_uc010gij.1_Missense_Mutation_p.A663T	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	671					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)															---	---	---	---
ZNF217	7764	broad.mit.edu	37	20	52198090	52198090	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52198090C>T	uc002xwq.3	-	1	1547	c.1276G>A	c.(1276-1278)GCC>ACC	p.A426T	ZNF217_uc010gij.1_Missense_Mutation_p.A418T	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	426					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)															---	---	---	---
ZNF217	7764	broad.mit.edu	37	20	52198529	52198529	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52198529C>T	uc002xwq.3	-	1	1108	c.837G>A	c.(835-837)ACG>ACA	p.T279T	ZNF217_uc010gij.1_Silent_p.T271T	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	279					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding	p.T279M(1)		skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)															---	---	---	---
DOK5	55816	broad.mit.edu	37	20	53171481	53171481	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:53171481C>T	uc002xwy.2	+	2	296	c.76C>T	c.(76-78)CGA>TGA	p.R26*	DOK5_uc010gin.2_5'UTR|DOK5_uc002xwz.2_5'UTR	NM_018431	NP_060901	Q9P104	DOK5_HUMAN	docking protein 5	26	PH.						insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)															---	---	---	---
AURKA	6790	broad.mit.edu	37	20	54945533	54945533	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54945533C>T	uc002xxd.1	-						AURKA_uc002xxe.1_Intron|AURKA_uc002xxf.1_Intron|AURKA_uc002xxg.1_Intron|AURKA_uc002xxh.1_Intron|AURKA_uc002xxi.1_Intron|AURKA_uc002xxj.1_Intron|AURKA_uc002xxk.1_Intron|AURKA_uc010zzd.1_Intron	NM_198433	NP_940835			serine/threonine protein kinase 6						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|phosphatidylinositol-mediated signaling|regulation of protein stability|spindle organization	cytosol|nucleus|perinuclear region of cytoplasm|spindle microtubule|spindle pole centrosome	ATP binding|protein kinase binding|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(1)|large_intestine(1)|skin(1)	8			Colorectal(105;0.202)															---	---	---	---
AURKA	6790	broad.mit.edu	37	20	54959346	54959346	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54959346C>T	uc002xxd.1	-	6	920	c.354G>A	c.(352-354)CAG>CAA	p.Q118Q	AURKA_uc002xxe.1_Silent_p.Q118Q|AURKA_uc002xxf.1_Silent_p.Q118Q|AURKA_uc002xxg.1_Silent_p.Q118Q|AURKA_uc002xxh.1_Silent_p.Q118Q|AURKA_uc002xxi.1_Silent_p.Q118Q|AURKA_uc002xxj.1_Silent_p.Q118Q|AURKA_uc002xxk.1_Silent_p.Q118Q|AURKA_uc010zzd.1_RNA	NM_198433	NP_940835	O14965	AURKA_HUMAN	serine/threonine protein kinase 6	118					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|phosphatidylinositol-mediated signaling|regulation of protein stability|spindle organization	cytosol|nucleus|perinuclear region of cytoplasm|spindle microtubule|spindle pole centrosome	ATP binding|protein kinase binding|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(1)|large_intestine(1)|skin(1)	8			Colorectal(105;0.202)															---	---	---	---
BMP7	655	broad.mit.edu	37	20	55777649	55777649	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55777649A>G	uc010gip.1	-	3	1171	c.642T>C	c.(640-642)CGT>CGC	p.R214R	BMP7_uc010giq.1_Silent_p.R214R|BMP7_uc002xyc.2_Silent_p.R214R	NM_001719	NP_001710	P18075	BMP7_HUMAN	bone morphogenetic protein 7 precursor	214					BMP signaling pathway|cartilage development|cellular response to hypoxia|epithelial to mesenchymal transition|growth|mesonephros development|negative regulation of glomerular mesangial cell proliferation|negative regulation of MAP kinase activity|negative regulation of mitosis|negative regulation of neuron differentiation|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of phosphorylation|negative regulation of striated muscle cell apoptosis|negative regulation of transcription, DNA-dependent|ossification|pathway-restricted SMAD protein phosphorylation|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|protein localization to nucleus|regulation of removal of superoxide radicals|SMAD protein signal transduction|steroid hormone mediated signaling pathway|ureteric bud development	extracellular space	cytokine activity|growth factor activity			skin(1)	1	all_lung(29;0.0133)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;2.49e-13)|Epithelial(14;1.74e-08)|all cancers(14;2.05e-07)															---	---	---	---
PCK1	5105	broad.mit.edu	37	20	56138777	56138777	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56138777G>A	uc002xyn.3	+	6	1118	c.955G>A	c.(955-957)GCA>ACA	p.A319T	PCK1_uc010zzm.1_Intron	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	319					gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)															---	---	---	---
NPEPL1	79716	broad.mit.edu	37	20	57276144	57276144	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57276144C>T	uc010zzs.1	+	6	847	c.752C>T	c.(751-753)GCC>GTC	p.A251V	NPEPL1_uc010zzr.1_Missense_Mutation_p.A203V|NPEPL1_uc002xzn.2_RNA|NPEPL1_uc010gjo.1_Missense_Mutation_p.A223V|NPEPL1_uc002xzp.2_Missense_Mutation_p.A139V	NM_024663	NP_078939	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	251					proteolysis	cytoplasm	aminopeptidase activity|manganese ion binding|metalloexopeptidase activity				0	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)															---	---	---	---
GNAS	2778	broad.mit.edu	37	20	57415849	57415849	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57415849T>A	uc002xzt.2	+	1	1055	c.688T>A	c.(688-690)TCC>ACC	p.S230T	GNASAS_uc002xzs.1_Intron|GNAS_uc002xzu.3_5'Flank|GNAS_uc010gjq.2_5'Flank	NM_016592	NP_057676	P63092	GNAS2_HUMAN	GNAS complex locus NESP55	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_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)			---	---	---	---
GNAS	2778	broad.mit.edu	37	20	57485765	57485765	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57485765C>T	uc002xzw.2	+	13	3280	c.2995C>T	c.(2995-2997)CGT>TGT	p.R999C	GNAS_uc002xzt.2_3'UTR|GNAS_uc010gjq.2_Missense_Mutation_p.R297C|GNAS_uc002xzx.2_Missense_Mutation_p.R297C|GNAS_uc010gjr.2_Missense_Mutation_p.R247C|GNAS_uc002xzy.2_Missense_Mutation_p.R282C|GNAS_uc002yaa.2_Missense_Mutation_p.R342C|GNAS_uc010zzt.1_Missense_Mutation_p.R357C|GNAS_uc002yab.2_RNA|GNAS_uc002yad.2_Missense_Mutation_p.R247C|GNAS_uc002yae.2_Missense_Mutation_p.R281C	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	356					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)			---	---	---	---
TH1L	51497	broad.mit.edu	37	20	57568154	57568154	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57568154C>T	uc002yag.2	+	11	1385	c.1358C>T	c.(1357-1359)GCG>GTG	p.A453V	TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_Missense_Mutation_p.A453V	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	453					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)															---	---	---	---
TUBB1	81027	broad.mit.edu	37	20	57599575	57599575	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57599575G>A	uc002yak.2	+	4	1362	c.1093G>A	c.(1093-1095)GCC>ACC	p.A365T		NM_030773	NP_110400	Q9H4B7	TBB1_HUMAN	beta tubulin 1, class VI	365					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity			ovary(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)		Colchicine(DB01394)|Docetaxel(DB01248)|Paclitaxel(DB01229)|Vindesine(DB00309)													---	---	---	---
ZNF831	128611	broad.mit.edu	37	20	57768478	57768478	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57768478G>A	uc002yan.2	+	1	2404	c.2404G>A	c.(2404-2406)GCC>ACC	p.A802T		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	802						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)																	---	---	---	---
PHACTR3	116154	broad.mit.edu	37	20	58349436	58349436	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58349436C>T	uc002yau.2	+	7	1532	c.1065C>T	c.(1063-1065)GCC>GCT	p.A355A	PHACTR3_uc002yat.2_Silent_p.A352A|PHACTR3_uc010zzw.1_Silent_p.A314A|PHACTR3_uc002yav.2_Silent_p.A314A|PHACTR3_uc002yaw.2_Silent_p.A314A|PHACTR3_uc002yax.2_Silent_p.A244A	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	355	Potential.					nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)															---	---	---	---
SYCP2	10388	broad.mit.edu	37	20	58467173	58467173	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58467173A>G	uc002yaz.2	-	23	2375	c.2236T>C	c.(2236-2238)TCA>CCA	p.S746P		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	746					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)															---	---	---	---
CDH26	60437	broad.mit.edu	37	20	58562546	58562546	+	Silent	SNP	C	T	T	rs146755298		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58562546C>T	uc002ybe.2	+	8	1176	c.876C>T	c.(874-876)GGC>GGT	p.G292G	CDH26_uc002ybf.1_5'Flank|CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	292	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)															---	---	---	---
CDH26	60437	broad.mit.edu	37	20	58564055	58564055	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58564055C>T	uc002ybe.2	+	9	1420	c.1120C>T	c.(1120-1122)CCA>TCA	p.P374S	CDH26_uc002ybf.1_5'UTR|CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	374	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)															---	---	---	---
CDH4	1002	broad.mit.edu	37	20	60504690	60504690	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60504690C>T	uc002ybn.1	+	13	2043	c.2029C>T	c.(2029-2031)CGC>TGC	p.R677C	CDH4_uc002ybp.1_Missense_Mutation_p.R603C	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	677	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)															---	---	---	---
LSM14B	149986	broad.mit.edu	37	20	60699742	60699742	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60699742A>G	uc010gjy.1	+	2	403	c.197A>G	c.(196-198)TAC>TGC	p.Y66C	LSM14B_uc002ybt.2_Missense_Mutation_p.Y66C|LSM14B_uc010gjx.1_Missense_Mutation_p.Y66C|LSM14B_uc002ybv.2_Missense_Mutation_p.Y66C|LSM14B_uc010gjz.1_5'UTR|LSM14B_uc010zzz.1_5'UTR	NM_144703	NP_653304	Q9BX40	LS14B_HUMAN	LSM14 homolog B	66				Y -> N (in Ref. 4; BX354437).	multicellular organismal development|regulation of translation	ribonucleoprotein complex					0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)															---	---	---	---
LSM14B	149986	broad.mit.edu	37	20	60704997	60704997	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60704997A>G	uc010gjy.1	+	4	790	c.584A>G	c.(583-585)AAG>AGG	p.K195R	LSM14B_uc010gjx.1_Missense_Mutation_p.K221R|LSM14B_uc002ybv.2_Missense_Mutation_p.K195R|LSM14B_uc010gjz.1_Missense_Mutation_p.K151R|LSM14B_uc010zzz.1_Missense_Mutation_p.K115R	NM_144703	NP_653304	Q9BX40	LS14B_HUMAN	LSM14 homolog B	195					multicellular organismal development|regulation of translation	ribonucleoprotein complex					0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)															---	---	---	---
PSMA7	5688	broad.mit.edu	37	20	60714232	60714232	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60714232G>A	uc002ybx.1	-	4	485	c.370C>T	c.(370-372)CGC>TGC	p.R124C	PSMA7_uc002yby.1_RNA	NM_002792	NP_002783	O14818	PSA7_HUMAN	proteasome alpha 7 subunit	124					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)															---	---	---	---
ADRM1	11047	broad.mit.edu	37	20	60883823	60883823	+	3'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60883823G>A	uc002ycn.2	+	10					ADRM1_uc002yco.2_3'UTR	NM_007002	NP_008933			adhesion regulating molecule 1 precursor						proteasome assembly|transcription elongation from RNA polymerase II promoter	cytoplasm|integral to plasma membrane|membrane fraction|nucleus|proteasome complex	endopeptidase activator activity|protease binding|proteasome binding				0	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;2.51e-06)															---	---	---	---
SLCO4A1	28231	broad.mit.edu	37	20	61297900	61297900	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61297900C>T	uc002ydb.1	+	7	1650	c.1445C>T	c.(1444-1446)GCG>GTG	p.A482V	SLCO4A1_uc002ydc.1_RNA|LOC100127888_uc002ydd.2_RNA|SLCO4A1_uc002yde.1_5'Flank	NM_016354	NP_057438	Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family	482	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(1)	1	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)															---	---	---	---
SLC17A9	63910	broad.mit.edu	37	20	61593988	61593988	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61593988C>T	uc002yea.3	+	5	694	c.510C>T	c.(508-510)ACC>ACT	p.T170T	SLC17A9_uc002ydz.3_Silent_p.T164T|SLC17A9_uc011aap.1_Silent_p.T190T	NM_022082	NP_071365	Q9BYT1	S17A9_HUMAN	vesicular nucleotide transporter SLC17A9	170	Helical; (Potential).				exocytosis|transmembrane transport	integral to membrane	transporter activity			ovary(1)|skin(1)	2																		---	---	---	---
YTHDF1	54915	broad.mit.edu	37	20	61833667	61833667	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61833667C>T	uc002yeh.2	-	4	1919	c.1625G>A	c.(1624-1626)CGC>CAC	p.R542H	YTHDF1_uc011aaq.1_Missense_Mutation_p.R492H	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	542										ovary(2)	2																		---	---	---	---
CHRNA4	1137	broad.mit.edu	37	20	61981756	61981756	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61981756C>T	uc002yes.2	-	5	1185	c.1007G>A	c.(1006-1008)CGC>CAC	p.R336H	CHRNA4_uc002yet.1_Missense_Mutation_p.R160H|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Missense_Mutation_p.R265H|CHRNA4_uc002yev.1_Missense_Mutation_p.R160H|CHRNA4_uc010gkf.1_Missense_Mutation_p.R160H	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	336	Cytoplasmic (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)													---	---	---	---
PTK6	5753	broad.mit.edu	37	20	62162144	62162144	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62162144G>A	uc002yfg.2	-	6	1009	c.969C>T	c.(967-969)AAC>AAT	p.N323N	PTK6_uc011aay.1_Silent_p.N222N|PTK6_uc011aaz.1_Silent_p.N85N	NM_005975	NP_005966	Q13882	PTK6_HUMAN	PTK6 protein tyrosine kinase 6	323	Protein kinase.					cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(1)|kidney(1)	2	all_cancers(38;2.51e-11)		Epithelial(9;1.5e-08)|all cancers(9;8.67e-08)|BRCA - Breast invasive adenocarcinoma(10;6.43e-06)															---	---	---	---
SRMS	6725	broad.mit.edu	37	20	62174716	62174716	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62174716G>A	uc002yfi.1	-	3	637	c.596C>T	c.(595-597)GCC>GTC	p.A199V		NM_080823	NP_543013	Q9H3Y6	SRMS_HUMAN	src-related kinase lacking C-terminal regulatory	199	SH2.						ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(1)|lung(1)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;9.69e-09)|all cancers(9;5.84e-08)|BRCA - Breast invasive adenocarcinoma(10;3.63e-06)															---	---	---	---
PRIC285	85441	broad.mit.edu	37	20	62198324	62198324	+	Missense_Mutation	SNP	G	A	A	rs79249043	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62198324G>A	uc002yfm.2	-	7	3279	c.2387C>T	c.(2386-2388)GCG>GTG	p.A796V	PRIC285_uc002yfl.1_Missense_Mutation_p.A227V	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	796					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)															---	---	---	---
RTEL1	51750	broad.mit.edu	37	20	62319289	62319289	+	Splice_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62319289G>A	uc002yfu.1	+	18	1825	c.1482_splice	c.e18-1	p.I494_splice	RTEL1_uc011abc.1_Splice_Site|RTEL1_uc002yft.1_Splice_Site_p.I494_splice|RTEL1_uc011abd.1_Splice_Site_p.I518_splice|RTEL1_uc011abe.1_Splice_Site_p.I271_splice|RTEL1_uc002yfw.2_Splice_Site|RTEL1_uc002yfx.1_5'Flank	NM_016434	NP_057518			regulator of telomere elongation helicase 1						DNA repair|regulation of double-strand break repair via homologous recombination|telomere maintenance	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding				0	all_cancers(38;6.47e-12)|all_epithelial(29;3.75e-13)		Epithelial(9;1.25e-09)|all cancers(9;5.13e-09)|BRCA - Breast invasive adenocarcinoma(10;7.26e-05)|OV - Ovarian serous cystadenocarcinoma(5;0.00223)|Colorectal(105;0.107)															---	---	---	---
ZGPAT	84619	broad.mit.edu	37	20	62366007	62366007	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62366007G>A	uc002ygk.2	+	5	1060	c.882G>A	c.(880-882)TCG>TCA	p.S294S	ZGPAT_uc002ygi.2_Intron|ZGPAT_uc002ygj.2_Intron|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Intron|ZGPAT_uc002ygm.2_Intron|ZGPAT_uc002ygn.3_Intron|LIME1_uc011abi.1_5'Flank|LIME1_uc002ygp.3_5'Flank	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	294					negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)																	---	---	---	---
TPD52L2	7165	broad.mit.edu	37	20	62517401	62517401	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62517401G>A	uc002yhc.2	+						TPD52L2_uc002ygy.2_Intron|TPD52L2_uc002ygz.2_Intron|TPD52L2_uc002yha.2_Intron|TPD52L2_uc002yhb.2_Intron|TPD52L2_uc002yhd.2_Intron|TPD52L2_uc011abk.1_Intron|TPD52L2_uc011abl.1_Intron|TPD52L2_uc002yhe.2_Intron	NM_003288	NP_003279			tumor protein D52-like 2 isoform e						regulation of cell proliferation	perinuclear region of cytoplasm	protein binding|protein homodimerization activity			ovary(1)|skin(1)	2	all_cancers(38;1.3e-12)|all_epithelial(29;2.23e-14)|Lung NSC(23;5.92e-10)|all_lung(23;2.08e-09)																	---	---	---	---
DNAJC5	80331	broad.mit.edu	37	20	62560765	62560765	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62560765G>A	uc002yhf.2	+	3	378	c.208G>A	c.(208-210)GCC>ACC	p.A70T	DNAJC5_uc002yhg.1_Missense_Mutation_p.A70T|DNAJC5_uc002yhh.2_RNA	NM_025219	NP_079495	Q9H3Z4	DNJC5_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	70	J.				neurotransmitter secretion|protein folding	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|melanosome|plasma membrane	heat shock protein binding|unfolded protein binding			pancreas(1)	1	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)																	---	---	---	---
DNAJC5	80331	broad.mit.edu	37	20	62560817	62560817	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62560817C>T	uc002yhf.2	+	3	430	c.260C>T	c.(259-261)GCC>GTC	p.A87V	DNAJC5_uc002yhg.1_Missense_Mutation_p.A87V|DNAJC5_uc002yhh.2_RNA	NM_025219	NP_079495	Q9H3Z4	DNJC5_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	87					neurotransmitter secretion|protein folding	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|melanosome|plasma membrane	heat shock protein binding|unfolded protein binding			pancreas(1)	1	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)																	---	---	---	---
PRPF6	24148	broad.mit.edu	37	20	62657327	62657327	+	Silent	SNP	C	T	T	rs151332876	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62657327C>T	uc002yho.2	+	15	2112	c.1944C>T	c.(1942-1944)GCC>GCT	p.A648A	PRPF6_uc002yhp.2_Intron	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	648	HAT 6.				assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)																	---	---	---	---
SOX18	54345	broad.mit.edu	37	20	62680254	62680254	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62680254C>T	uc002yhs.2	-	2	530	c.420G>A	c.(418-420)CGG>CGA	p.R140R		NM_018419	NP_060889	P35713	SOX18_HUMAN	SRY-box 18	140	HMG box.				angiogenesis|blood vessel endothelial cell migration|endocardial cell differentiation|endocardium formation|establishment of endothelial barrier|heart looping|lymphangiogenesis|lymphatic endothelial cell differentiation|negative regulation of transcription, DNA-dependent|outflow tract morphogenesis|positive regulation of transcription from RNA polymerase II promoter|vasculogenesis	nucleus	transcription regulatory region DNA binding				0	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)																	---	---	---	---
TCEA2	6919	broad.mit.edu	37	20	62703233	62703233	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62703233G>A	uc011abs.1	+	9	1486	c.830G>A	c.(829-831)CGC>CAC	p.R277H	TCEA2_uc011abr.1_Missense_Mutation_p.R250H|TCEA2_uc010gks.2_Missense_Mutation_p.R278H	NM_003195	NP_003186	Q15560	TCEA2_HUMAN	transcription elongation factor A protein 2	277	TFIIS-type.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription elongation, DNA-dependent	transcription elongation factor complex	DNA binding|protein binding|translation elongation factor activity|zinc ion binding				0	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)																	---	---	---	---
MYT1	4661	broad.mit.edu	37	20	62839458	62839458	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62839458G>A	uc002yii.2	+	7	1273	c.909G>A	c.(907-909)GAG>GAA	p.E303E	MYT1_uc002yih.2_Intron|MYT1_uc002yij.2_5'UTR	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	303	Glu-rich.				cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)																	---	---	---	---
MYT1	4661	broad.mit.edu	37	20	62850293	62850293	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62850293G>A	uc002yii.2	+	12	2240	c.1876G>A	c.(1876-1878)GCA>ACA	p.A626T	MYT1_uc002yih.2_Missense_Mutation_p.A328T|MYT1_uc002yij.2_Missense_Mutation_p.A285T	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	626					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)																	---	---	---	---
TPTE	7179	broad.mit.edu	37	21	10934961	10934961	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10934961G>T	uc002yip.1	-	15	1200	c.832C>A	c.(832-834)CAC>AAC	p.H278N	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.H260N|TPTE_uc002yir.1_Missense_Mutation_p.H240N|TPTE_uc010gkv.1_Missense_Mutation_p.H140N	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	278	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)														---	---	---	---
POTED	317754	broad.mit.edu	37	21	14982927	14982927	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:14982927C>T	uc002yjb.1	+	1	430	c.378C>T	c.(376-378)AGC>AGT	p.S126S		NM_174981	NP_778146	Q86YR6	POTED_HUMAN	pote protein	126						plasma membrane				ovary(3)|skin(3)	6																		---	---	---	---
LIPI	149998	broad.mit.edu	37	21	15561632	15561632	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:15561632T>C	uc002yjm.2	-	2	228	c.218A>G	c.(217-219)AAC>AGC	p.N73S	LIPI_uc010gkw.1_Missense_Mutation_p.N6S	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	52					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)														---	---	---	---
TMPRSS15	5651	broad.mit.edu	37	21	19713822	19713822	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:19713822G>A	uc002ykw.2	-	13	1503	c.1472C>T	c.(1471-1473)GCG>GTG	p.A491V		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	491	Extracellular (Potential).|MAM.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8																		---	---	---	---
ADAMTS5	11096	broad.mit.edu	37	21	28296541	28296541	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:28296541G>A	uc002ymg.2	-	8	3353	c.2624C>T	c.(2623-2625)TCG>TTG	p.S875L		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	875	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4																		---	---	---	---
C21orf7	56911	broad.mit.edu	37	21	30532270	30532270	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:30532270G>A	uc002yne.2	+	7	712	c.441G>A	c.(439-441)CCG>CCA	p.P147P	C21orf7_uc011acr.1_RNA|C21orf7_uc002ynd.2_RNA|C21orf7_uc010gln.2_RNA|C21orf7_uc002ynf.2_Silent_p.P147P|C21orf7_uc010glo.2_5'UTR|C21orf7_uc002yng.2_Silent_p.P47P|C21orf7_uc010glp.2_RNA	NM_020152	NP_064537	P57077	TAK1L_HUMAN	chromosome 21 open reading frame 7	147						cytosol|nucleus	protein binding			ovary(2)	2				Colorectal(56;0.248)														---	---	---	---
KRTAP24-1	643803	broad.mit.edu	37	21	31654991	31654991	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:31654991T>C	uc002ynv.2	-	1	286	c.260A>G	c.(259-261)GAC>GGC	p.D87G		NM_001085455	NP_001078924	Q3LI83	KR241_HUMAN	keratin associated protein 24-1	87						keratin filament	structural molecule activity				0																		---	---	---	---
KRTAP13-1	140258	broad.mit.edu	37	21	31768922	31768922	+	Nonstop_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:31768922G>T	uc002yoa.2	+	1	531	c.518G>T	c.(517-519)TGA>TTA	p.*173L		NM_181599	NP_853630	Q8IUC0	KR131_HUMAN	keratin associated protein 13-1	173						intermediate filament				ovary(1)	1																		---	---	---	---
KRTAP19-3	337970	broad.mit.edu	37	21	31864073	31864073	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:31864073C>T	uc002yog.1	-	1	203	c.203G>A	c.(202-204)CGC>CAC	p.R68H		NM_181609	NP_853640	Q7Z4W3	KR193_HUMAN	keratin associated protein 19-3	68						intermediate filament					0																		---	---	---	---
TIAM1	7074	broad.mit.edu	37	21	32526578	32526578	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:32526578C>T	uc002yow.1	-	18	3630	c.3158G>A	c.(3157-3159)CGC>CAC	p.R1053H	TIAM1_uc011adk.1_Missense_Mutation_p.R1053H|TIAM1_uc011adl.1_Missense_Mutation_p.R993H	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1053	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10																		---	---	---	---
SFRS15	57466	broad.mit.edu	37	21	33074700	33074700	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:33074700G>A	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																		---	---	---	---
IL10RB	3588	broad.mit.edu	37	21	34640721	34640721	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:34640721C>T	uc002yrk.1	+	2	171	c.72C>T	c.(70-72)CCC>CCT	p.P24P	IL10RB_uc002yrh.1_Silent_p.P94P|IL10RB_uc002yri.1_Intron|uc002yrj.1_5'Flank|IL10RB_uc002yrl.1_Silent_p.P26P	NM_000628	NP_000619	Q08334	I10R2_HUMAN	interleukin 10 receptor, beta precursor	24	Extracellular (Potential).				immune response|inflammatory response	interleukin-28 receptor complex	protein binding|receptor activity				0																		---	---	---	---
DOPEY2	9980	broad.mit.edu	37	21	37603096	37603096	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:37603096G>A	uc002yvg.2	+	14	2093	c.2014G>A	c.(2014-2016)GCA>ACA	p.A672T	DOPEY2_uc011aeb.1_Missense_Mutation_p.A672T	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	672					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2																		---	---	---	---
TTC3	7267	broad.mit.edu	37	21	38510956	38510956	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:38510956A>T	uc002yvz.2	+	19	1706	c.1601A>T	c.(1600-1602)AAC>ATC	p.N534I	TTC3_uc011aee.1_Missense_Mutation_p.N224I|TTC3_uc002ywa.2_Missense_Mutation_p.N534I|TTC3_uc002ywb.2_Missense_Mutation_p.N534I|TTC3_uc010gnf.2_Missense_Mutation_p.N299I|TTC3_uc002ywc.2_Missense_Mutation_p.N224I|TTC3_uc011aed.1_Missense_Mutation_p.N224I|TTC3_uc010gne.1_Missense_Mutation_p.N534I	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	534					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)																---	---	---	---
DYRK1A	1859	broad.mit.edu	37	21	38884778	38884778	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:38884778G>T	uc002ywk.2	+	11	2311	c.2236G>T	c.(2236-2238)GAA>TAA	p.E746*	DYRK1A_uc002ywi.2_3'UTR|DYRK1A_uc002ywj.2_Nonsense_Mutation_p.E737*|DYRK1A_uc002ywl.2_3'UTR|DYRK1A_uc002ywm.2_3'UTR|DYRK1A_uc011aei.1_Nonsense_Mutation_p.E507*	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	746					nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4																		---	---	---	---
ERG	2078	broad.mit.edu	37	21	39755694	39755694	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:39755694T>C	uc010gnw.2	-	12	1387	c.1092A>G	c.(1090-1092)AAA>AAG	p.K364K	ERG_uc002yxa.2_Silent_p.K357K|ERG_uc011aek.1_Silent_p.K265K|ERG_uc010gnv.2_Silent_p.K241K|ERG_uc010gnx.2_Silent_p.K340K|ERG_uc011ael.1_Silent_p.K364K|ERG_uc002yxb.2_Silent_p.K340K	NM_001136155	NP_001129627	P11308	ERG_HUMAN	ets-related isoform 4	364	ETS.				cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		TMPRSS2/ERG(2499)|FUS/ERG(163)|EWSR1/ERG(162)	prostate(2499)|bone(167)|haematopoietic_and_lymphoid_tissue(153)|soft_tissue(5)|lung(2)|skin(1)|ovary(1)	2828		Prostate(19;3.6e-06)																---	---	---	---
CSTB	1476	broad.mit.edu	37	21	45194175	45194175	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45194175C>T	uc002zdr.2	-	3	314	c.205G>A	c.(205-207)GTG>ATG	p.V69M		NM_000100	NP_000091	P04080	CYTB_HUMAN	cystatin B	69						cytoplasm|nucleolus	cysteine-type endopeptidase inhibitor activity|protease binding				0				STAD - Stomach adenocarcinoma(101;0.168)														---	---	---	---
AGPAT3	56894	broad.mit.edu	37	21	45401010	45401010	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45401010C>T	uc002zdv.2	+	9	1206	c.984C>T	c.(982-984)GGC>GGT	p.G328G	AGPAT3_uc002zdw.2_Silent_p.G328G|AGPAT3_uc002zdx.2_Silent_p.G415G|AGPAT3_uc002zdy.2_Silent_p.G266G	NM_020132	NP_064517	Q9NRZ7	PLCC_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 3	328	Helical; (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0				STAD - Stomach adenocarcinoma(101;0.18)|Colorectal(79;0.24)														---	---	---	---
TRAPPC10	7109	broad.mit.edu	37	21	45479056	45479056	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45479056G>A	uc002zea.2	+	6	920	c.751G>A	c.(751-753)GCC>ACC	p.A251T	TRAPPC10_uc010gpo.2_5'UTR|TRAPPC10_uc002zdz.2_Missense_Mutation_p.A251T	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	251					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2																		---	---	---	---
PWP2	5822	broad.mit.edu	37	21	45534069	45534069	+	Missense_Mutation	SNP	C	T	T	rs151259638		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45534069C>T	uc002zeb.2	+	4	326	c.236C>T	c.(235-237)GCG>GTG	p.A79V		NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	79	WD 2.					cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)												OREG0026247	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
PFKL	5211	broad.mit.edu	37	21	45738404	45738404	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45738404G>A	uc002zel.2	+	10	1047	c.988G>A	c.(988-990)GAC>AAC	p.D330N	PFKL_uc002zek.2_Missense_Mutation_p.D377N|PFKL_uc002zem.2_5'Flank|PFKL_uc002zen.2_5'Flank	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase	330					fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)														---	---	---	---
PFKL	5211	broad.mit.edu	37	21	45741708	45741708	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45741708C>T	uc002zel.2	+	13	1347	c.1288C>T	c.(1288-1290)CAC>TAC	p.H430Y	PFKL_uc002zek.2_Missense_Mutation_p.H477Y|PFKL_uc002zem.2_Missense_Mutation_p.H17Y|PFKL_uc002zen.2_Missense_Mutation_p.H17Y	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase	430					fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)														---	---	---	---
PFKL	5211	broad.mit.edu	37	21	45743770	45743770	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45743770G>A	uc002zel.2	+	16	1678	c.1619G>A	c.(1618-1620)GGC>GAC	p.G540D	PFKL_uc002zek.2_Missense_Mutation_p.G587D|PFKL_uc002zem.2_Missense_Mutation_p.G127D|PFKL_uc002zen.2_Missense_Mutation_p.G127D	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase	540					fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)														---	---	---	---
TRPM2	7226	broad.mit.edu	37	21	45786763	45786763	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45786763C>T	uc002zet.1	+	5	763	c.550C>T	c.(550-552)CCG>TCG	p.P184S	TRPM2_uc002zeu.1_Missense_Mutation_p.P184S|TRPM2_uc002zew.1_Missense_Mutation_p.P184S|TRPM2_uc010gpt.1_Missense_Mutation_p.P184S|TRPM2_uc002zex.1_5'Flank	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	184	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3																		---	---	---	---
POFUT2	23275	broad.mit.edu	37	21	46687543	46687543	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46687543G>A	uc002zhc.2	-	8	1123	c.1098C>T	c.(1096-1098)GGC>GGT	p.G366G	POFUT2_uc002zha.2_RNA|POFUT2_uc002zhb.2_RNA|POFUT2_uc002zhd.2_Silent_p.G366G	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	366					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)														---	---	---	---
POFUT2	23275	broad.mit.edu	37	21	46705800	46705800	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46705800G>A	uc002zhc.2	-	2	200	c.175C>T	c.(175-177)CGC>TGC	p.R59C	POFUT2_uc002zhb.2_RNA|POFUT2_uc002zhd.2_Missense_Mutation_p.R59C|POFUT2_uc011afp.1_Missense_Mutation_p.R59C|POFUT2_uc011afq.1_Missense_Mutation_p.R59C|LOC642852_uc002zhf.2_5'Flank	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	59					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)														---	---	---	---
COL6A2	1292	broad.mit.edu	37	21	47545767	47545767	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47545767C>T	uc002zia.1	+	26	2120	c.2038C>T	c.(2038-2040)CGT>TGT	p.R680C	COL6A2_uc002zhy.1_Missense_Mutation_p.R680C|COL6A2_uc002zhz.1_Missense_Mutation_p.R680C|COL6A2_uc002zib.1_Missense_Mutation_p.R86C|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	680	VWFA 2.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)														---	---	---	---
MCM3AP	8888	broad.mit.edu	37	21	47665034	47665034	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47665034G>A	uc002zir.1	-	23	4761	c.4725C>T	c.(4723-4725)TAC>TAT	p.Y1575Y	MCM3APAS_uc002zim.2_Intron|MCM3APAS_uc002zin.2_Intron|MCM3AP_uc002zio.1_Silent_p.Y70Y|MCM3AP_uc002zip.1_Silent_p.Y316Y|MCM3AP_uc002ziq.1_Silent_p.Y502Y|MCM3APAS_uc002zis.1_Intron	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1575					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)																	---	---	---	---
MCM3AP	8888	broad.mit.edu	37	21	47671503	47671503	+	Silent	SNP	C	T	T	rs149634851	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47671503C>T	uc002zir.1	-	20	4266	c.4230G>A	c.(4228-4230)TCG>TCA	p.S1410S	MCM3APAS_uc002zim.2_RNA|MCM3APAS_uc002zin.2_3'UTR|MCM3AP_uc002zip.1_Silent_p.S151S|MCM3AP_uc002ziq.1_Silent_p.S337S|MCM3APAS_uc002zis.1_RNA	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1410					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)																	---	---	---	---
PCNT	5116	broad.mit.edu	37	21	47832880	47832880	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47832880C>T	uc002zji.3	+	29	6231	c.6124C>T	c.(6124-6126)CGC>TGC	p.R2042C	PCNT_uc002zjj.2_Missense_Mutation_p.R1924C	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2042					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)																	---	---	---	---
DIP2A	23181	broad.mit.edu	37	21	47976004	47976004	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47976004G>T	uc002zjo.2	+	29	3681	c.3498G>T	c.(3496-3498)AAG>AAT	p.K1166N	DIP2A_uc011afy.1_Missense_Mutation_p.K1102N|DIP2A_uc011afz.1_Missense_Mutation_p.K1162N|DIP2A_uc002zjr.2_Missense_Mutation_p.K133N	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1166					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)														---	---	---	---
DIP2A	23181	broad.mit.edu	37	21	47978163	47978163	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47978163C>T	uc002zjo.2	+	32	4009	c.3826C>T	c.(3826-3828)CGC>TGC	p.R1276C	DIP2A_uc011afz.1_Missense_Mutation_p.R1272C|DIP2A_uc002zjr.2_Missense_Mutation_p.R243C	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1276					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)														---	---	---	---
DIP2A	23181	broad.mit.edu	37	21	47986475	47986475	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47986475C>T	uc002zjo.2	+	37	4525	c.4342C>T	c.(4342-4344)CGG>TGG	p.R1448W	DIP2A_uc011afz.1_Missense_Mutation_p.R1444W|DIP2A_uc002zjs.2_Missense_Mutation_p.R128W|DIP2A_uc002zjt.2_RNA	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1448					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)														---	---	---	---
GAB4	128954	broad.mit.edu	37	22	17472887	17472887	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17472887G>A	uc002zlw.2	-	2	462	c.354C>T	c.(352-354)GGC>GGT	p.G118G	GAB4_uc010gqs.1_Silent_p.G118G	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	118	PH.									large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)																---	---	---	---
GAB4	128954	broad.mit.edu	37	22	17488874	17488874	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17488874C>T	uc002zlw.2	-	1	239	c.131G>A	c.(130-132)GGC>GAC	p.G44D	GAB4_uc010gqs.1_Missense_Mutation_p.G44D	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	44	PH.									large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)																---	---	---	---
IL17RA	23765	broad.mit.edu	37	22	17581248	17581248	+	Missense_Mutation	SNP	C	T	T	rs145378071	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17581248C>T	uc002zly.2	+	5	560	c.427C>T	c.(427-429)CGT>TGT	p.R143C	IL17RA_uc010gqt.2_Missense_Mutation_p.R143C	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	143	Extracellular (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)														---	---	---	---
BID	637	broad.mit.edu	37	22	18220811	18220811	+	Missense_Mutation	SNP	C	T	T	rs139212717		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:18220811C>T	uc002znd.1	-	5	718	c.548G>A	c.(547-549)CGC>CAC	p.R183H	BID_uc002znc.1_Missense_Mutation_p.R229H|BID_uc002zne.1_Missense_Mutation_p.R87H|BID_uc010gra.1_RNA|BID_uc002znf.1_Missense_Mutation_p.R87H|BID_uc010grb.1_Missense_Mutation_p.R183H|BID_uc010grc.1_Missense_Mutation_p.R87H	NM_001196	NP_001187	P55957	BID_HUMAN	BH3 interacting domain death agonist isoform 2	183					activation of pro-apoptotic gene products|establishment of protein localization in membrane|induction of apoptosis by intracellular signals|induction of apoptosis via death domain receptors|neuron apoptosis|positive regulation of protein homooligomerization|positive regulation of release of cytochrome c from mitochondria|release of cytochrome c from mitochondria	cytosol|membrane fraction|mitochondrial outer membrane	death receptor binding				0		all_epithelial(15;0.198)		Lung(27;0.0419)														---	---	---	---
MICAL3	57553	broad.mit.edu	37	22	18368675	18368675	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:18368675G>A	uc002zng.3	-	16	2563	c.2210C>T	c.(2209-2211)GCG>GTG	p.A737V	MICAL3_uc011agl.1_Missense_Mutation_p.A737V|MICAL3_uc002znh.2_Missense_Mutation_p.A737V|MICAL3_uc002znj.1_Missense_Mutation_p.A437V|MICAL3_uc002znk.1_Missense_Mutation_p.A737V|MICAL3_uc002znl.1_Missense_Mutation_p.A370V|MICAL3_uc002znm.2_Missense_Mutation_p.A238V|MICAL3_uc010grf.2_Missense_Mutation_p.A737V	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	737						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)														---	---	---	---
TUBA8	51807	broad.mit.edu	37	22	18604435	18604435	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:18604435G>A	uc002znv.1	+	2	266	c.193G>A	c.(193-195)GCC>ACC	p.A65T	TUBA8_uc002znr.2_5'UTR|TUBA8_uc002znw.1_Missense_Mutation_p.A89T|TUBA8_uc002znu.1_Missense_Mutation_p.A65T	NM_018943	NP_061816	Q9NY65	TBA8_HUMAN	tubulin, alpha 8	65					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0																		---	---	---	---
DGCR14	8220	broad.mit.edu	37	22	19127471	19127471	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19127471G>A	uc002zou.2	-	4	504	c.467C>T	c.(466-468)ACG>ATG	p.T156M	DGCR14_uc002zot.2_Missense_Mutation_p.T77M|DGCR14_uc002zov.2_RNA	NM_022719	NP_073210	Q96DF8	DGC14_HUMAN	DiGeorge syndrome critical region protein 14	156					nervous system development	catalytic step 2 spliceosome				ovary(1)	1	Colorectal(54;0.0993)																	---	---	---	---
HIRA	7290	broad.mit.edu	37	22	19346867	19346867	+	Silent	SNP	C	T	T	rs138814028	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19346867C>T	uc002zpf.1	-	18	2446	c.2226G>A	c.(2224-2226)GCG>GCA	p.A742A	HIRA_uc011agx.1_Silent_p.A608A|HIRA_uc010grn.1_Intron|HIRA_uc010gro.1_Silent_p.A698A|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	742	Interaction with PAX3 (By similarity).|Interaction with histone H2B.|Interaction with histone H4.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)																	---	---	---	---
DGCR8	54487	broad.mit.edu	37	22	20073913	20073913	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:20073913G>A	uc002zri.2	+	2	777	c.427G>A	c.(427-429)GAC>AAC	p.D143N	DGCR8_uc010grz.2_Missense_Mutation_p.D143N|DGCR8_uc002zrj.2_5'Flank	NM_022720	NP_073557	Q8WYQ5	DGCR8_HUMAN	DiGeorge syndrome critical region gene 8	143	Necessary for nuclear localization and retention.|Necessary for interaction with NCL.				primary miRNA processing	cytoplasm|cytoplasm|microtubule cytoskeleton|nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding				0	Colorectal(54;0.0993)																	---	---	---	---
ZDHHC8	29801	broad.mit.edu	37	22	20128442	20128442	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:20128442G>A	uc002zrq.2	+	7	907	c.801G>A	c.(799-801)CCG>CCA	p.P267P	ZDHHC8_uc002zrr.1_Silent_p.P267P|ZDHHC8_uc010gsa.2_Silent_p.P73P	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	267	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)																	---	---	---	---
ZNF74	7625	broad.mit.edu	37	22	20759892	20759892	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:20759892G>A	uc010gsm.2	+	6	781	c.569G>A	c.(568-570)CGC>CAC	p.R190H	ZNF74_uc002zsg.2_Missense_Mutation_p.R119H|ZNF74_uc002zsh.2_Missense_Mutation_p.R190H|ZNF74_uc002zsi.2_Missense_Mutation_p.R119H|ZNF74_uc010gsn.2_Missense_Mutation_p.R119H	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	190					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)															---	---	---	---
PI4KA	5297	broad.mit.edu	37	22	21062348	21062348	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21062348T>C	uc002zsz.3	-	55	6353	c.6122A>G	c.(6121-6123)GAC>GGC	p.D2041G	PI4KA_uc010gsp.2_Missense_Mutation_p.D432G|PI4KA_uc002zsy.3_Missense_Mutation_p.D851G	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	2041					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)															---	---	---	---
SERPIND1	3053	broad.mit.edu	37	22	21134082	21134082	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21134082C>T	uc002ztb.1	+	2	549	c.482C>T	c.(481-483)GCG>GTG	p.A161V	PI4KA_uc002zsz.3_Intron|SERPIND1_uc002ztc.2_Missense_Mutation_p.A189V	NM_000185	NP_000176	P05546	HEP2_HUMAN	heparin cofactor II precursor	161					blood coagulation|chemotaxis|regulation of proteolysis	extracellular region	heparin binding|serine-type endopeptidase inhibitor activity				0	all_cancers(11;6.16e-25)|all_epithelial(7;1.02e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)		Ardeparin(DB00407)													---	---	---	---
SLC7A4	6545	broad.mit.edu	37	22	21385306	21385306	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21385306G>A	uc002zud.2	-	2	864	c.796C>T	c.(796-798)CGG>TGG	p.R266W	SLC7A4_uc002zue.2_Missense_Mutation_p.R266W	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	266					cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)													---	---	---	---
HIC2	23119	broad.mit.edu	37	22	21799218	21799218	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21799218G>A	uc002zur.3	+	3	264	c.34G>A	c.(34-36)GCG>ACG	p.A12T	HIC2_uc002zus.3_Missense_Mutation_p.A12T	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	12					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)																---	---	---	---
HIC2	23119	broad.mit.edu	37	22	21800560	21800560	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21800560C>T	uc002zur.3	+	3	1606	c.1376C>T	c.(1375-1377)GCG>GTG	p.A459V	HIC2_uc002zus.3_Missense_Mutation_p.A459V	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	459	C2H2-type 1.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)																---	---	---	---
LOC96610	96610	broad.mit.edu	37	22	22764458	22764458	+	RNA	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22764458T>C	uc011aim.1	+	58		c.6245T>C								Parts of antibodies, mostly variable regions.												0																		---	---	---	---
RAB36	9609	broad.mit.edu	37	22	23494702	23494702	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:23494702C>T	uc002zwv.1	+	4	454	c.414C>T	c.(412-414)AGC>AGT	p.S138S	RAB36_uc010gtw.1_Intron	NM_004914	NP_004905	O95755	RAB36_HUMAN	RAB36, member RAS oncogene family	138					protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.155)														---	---	---	---
IGLL1	3543	broad.mit.edu	37	22	23915549	23915549	+	Silent	SNP	C	T	T	rs146592375		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:23915549C>T	uc002zxd.2	-	3	664	c.546G>A	c.(544-546)ACG>ACA	p.T182T	IGLL1_uc002zxe.2_3'UTR	NM_020070	NP_064455	P15814	IGLL1_HUMAN	immunoglobulin lambda-like polypeptide 1 isoform	182	C region (By similarity to lambda light- chain).|Ig-like C1-type.				immune response	extracellular region|membrane					0																		---	---	---	---
C22orf43	51233	broad.mit.edu	37	22	23974150	23974150	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:23974150C>T	uc002zxf.2	-	1	338	c.61G>A	c.(61-63)GCA>ACA	p.A21T		NM_016449	NP_057533	Q6PGQ1	CV043_HUMAN	hypothetical protein LOC51233	21										skin(1)	1																		---	---	---	---
CABIN1	23523	broad.mit.edu	37	22	24567727	24567727	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24567727G>A	uc002zzi.1	+	34	5931	c.5804G>A	c.(5803-5805)CGA>CAA	p.R1935Q	CABIN1_uc002zzj.1_Missense_Mutation_p.R1856Q|CABIN1_uc002zzl.1_Missense_Mutation_p.R1935Q|CABIN1_uc010gul.1_5'UTR	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	1935					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5																		---	---	---	---
SUSD2	56241	broad.mit.edu	37	22	24580172	24580172	+	Missense_Mutation	SNP	G	A	A	rs114108445	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24580172G>A	uc002zzn.1	+	4	552	c.508G>A	c.(508-510)GGC>AGC	p.G170S		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	170	Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1																		---	---	---	---
ADRBK2	157	broad.mit.edu	37	22	26110386	26110386	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26110386C>T	uc003abx.3	+	18	1650	c.1503C>T	c.(1501-1503)TGC>TGT	p.C501C	ADRBK2_uc003abw.2_Silent_p.C388C|ADRBK2_uc003aby.3_RNA	NM_005160	NP_005151	P35626	ARBK2_HUMAN	beta-adrenergic receptor kinase 2	501	AGC-kinase C-terminal.						ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity			lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)													---	---	---	---
MYO18B	84700	broad.mit.edu	37	22	26157081	26157081	+	Missense_Mutation	SNP	G	A	A	rs139296373	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26157081G>A	uc003abz.1	+	2	272	c.22G>A	c.(22-24)GCC>ACC	p.A8T	MYO18B_uc003aca.1_5'Flank|MYO18B_uc010guy.1_5'Flank|MYO18B_uc010guz.1_5'Flank|MYO18B_uc011aka.1_5'Flank	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	8						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12																		---	---	---	---
MYO18B	84700	broad.mit.edu	37	22	26173737	26173737	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26173737G>A	uc003abz.1	+	8	2307	c.2057G>A	c.(2056-2058)GGC>GAC	p.G686D	MYO18B_uc003aca.1_Missense_Mutation_p.G567D|MYO18B_uc010guy.1_Missense_Mutation_p.G567D|MYO18B_uc010guz.1_Missense_Mutation_p.G567D|MYO18B_uc011aka.1_5'UTR|MYO18B_uc011akb.1_Missense_Mutation_p.G199D	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	686	Myosin head-like.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12																		---	---	---	---
MYO18B	84700	broad.mit.edu	37	22	26299648	26299648	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26299648G>T	uc003abz.1	+	31	5248	c.4998G>T	c.(4996-4998)CAG>CAT	p.Q1666H	MYO18B_uc003aca.1_Missense_Mutation_p.Q1547H|MYO18B_uc010guy.1_Missense_Mutation_p.Q1548H|MYO18B_uc010guz.1_Missense_Mutation_p.Q1546H|MYO18B_uc011aka.1_Missense_Mutation_p.Q820H|MYO18B_uc011akb.1_Missense_Mutation_p.Q1179H	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1666	Potential.|Tail.|Gln-rich.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12																		---	---	---	---
SEZ6L	23544	broad.mit.edu	37	22	26688919	26688919	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26688919A>G	uc003acb.2	+	2	798	c.642A>G	c.(640-642)ACA>ACG	p.T214T	SEZ6L_uc003acc.2_Silent_p.T214T|SEZ6L_uc011akc.1_Silent_p.T214T|SEZ6L_uc003acd.2_Silent_p.T214T|SEZ6L_uc011akd.1_Silent_p.T214T|SEZ6L_uc003ace.2_Silent_p.T214T|SEZ6L_uc003acf.1_5'UTR|SEZ6L_uc010gvc.1_5'UTR	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	214	Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6																		---	---	---	---
ASPHD2	57168	broad.mit.edu	37	22	26839084	26839084	+	Missense_Mutation	SNP	G	A	A	rs138986249		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26839084G>A	uc003acg.2	+	4	1419	c.1022G>A	c.(1021-1023)CGG>CAG	p.R341Q		NM_020437	NP_065170	Q6ICH7	ASPH2_HUMAN	aspartate beta-hydroxylase domain containing 2	341	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			ovary(1)	1																		---	---	---	---
TFIP11	24144	broad.mit.edu	37	22	26890122	26890122	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26890122G>A	uc003acr.2	-	13	2515	c.2141C>T	c.(2140-2142)GCG>GTG	p.A714V	TFIP11_uc003acq.2_Missense_Mutation_p.A73V|TFIP11_uc003acs.2_Missense_Mutation_p.A714V|TFIP11_uc003act.2_Missense_Mutation_p.A714V|uc003acu.1_RNA	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	714					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0																		---	---	---	---
TPST2	8459	broad.mit.edu	37	22	26937372	26937372	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26937372G>A	uc003acv.2	-	2	393	c.225C>T	c.(223-225)GGC>GGT	p.G75G	TPST2_uc003acw.2_Silent_p.G75G|TPST2_uc003acx.2_Silent_p.G75G|TPST2_uc011akf.1_Silent_p.G75G	NM_003595	NP_003586	O60704	TPST2_HUMAN	tyrosylprotein sulfotransferase 2	75	Lumenal (Potential).				peptidyl-tyrosine sulfation	endoplasmic reticulum|Golgi membrane|integral to membrane|membrane fraction	protein-tyrosine sulfotransferase activity			central_nervous_system(1)	1																		---	---	---	---
MN1	4330	broad.mit.edu	37	22	28194145	28194145	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:28194145C>T	uc003adj.2	-	1	3342	c.2387G>A	c.(2386-2388)CGC>CAC	p.R796H		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	796							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10								T	ETV6	AML|meningioma								---	---	---	---
MN1	4330	broad.mit.edu	37	22	28195159	28195159	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:28195159C>T	uc003adj.2	-	1	2328	c.1373G>A	c.(1372-1374)CGC>CAC	p.R458H		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	458							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10								T	ETV6	AML|meningioma								---	---	---	---
AP1B1	162	broad.mit.edu	37	22	29745285	29745285	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:29745285G>A	uc003afj.2	-	11	1543	c.1359C>T	c.(1357-1359)GGC>GGT	p.G453G	AP1B1_uc003afi.2_Silent_p.G453G|AP1B1_uc003afk.2_Silent_p.G453G|AP1B1_uc003afl.2_Silent_p.G453G|AP1B1_uc011ako.1_Silent_p.G6G	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	453					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2																		---	---	---	---
CABP7	164633	broad.mit.edu	37	22	30125542	30125542	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30125542G>A	uc003agl.2	+	5	702	c.632G>A	c.(631-633)CGC>CAC	p.R211H		NM_182527	NP_872333	Q86V35	CABP7_HUMAN	calcium binding protein 7	211	Extracellular (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding				0			OV - Ovarian serous cystadenocarcinoma(5;0.00442)|Epithelial(10;0.215)|all cancers(5;0.233)															---	---	---	---
ASCC2	84164	broad.mit.edu	37	22	30221725	30221725	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30221725C>T	uc003agr.2	-	3	231	c.126G>A	c.(124-126)CCG>CCA	p.P42P	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Silent_p.P42P|ASCC2_uc011akr.1_Intron	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	42					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)															---	---	---	---
SF3A1	10291	broad.mit.edu	37	22	30730631	30730631	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30730631G>A	uc003ahl.2	-	16	2466	c.2334C>T	c.(2332-2334)GGC>GGT	p.G778G		NM_005877	NP_005868	Q15459	SF3A1_HUMAN	splicing factor 3a, subunit 1, 120kDa isoform 1	778	Ubiquitin-like.				nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|U2-type spliceosomal complex	protein binding|RNA binding			ovary(3)|large_intestine(1)|pancreas(1)	5																		---	---	---	---
SF3A1	10291	broad.mit.edu	37	22	30734847	30734847	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30734847C>T	uc003ahl.2	-	11	1806	c.1674G>A	c.(1672-1674)CCG>CCA	p.P558P		NM_005877	NP_005868	Q15459	SF3A1_HUMAN	splicing factor 3a, subunit 1, 120kDa isoform 1	558	Poly-Pro.				nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|U2-type spliceosomal complex	protein binding|RNA binding			ovary(3)|large_intestine(1)|pancreas(1)	5																		---	---	---	---
RNF215	200312	broad.mit.edu	37	22	30776039	30776039	+	Intron	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30776039C>A	uc003ahp.2	-						RNF215_uc011akw.1_Intron	NM_001017981	NP_001017981			ring finger protein 215							integral to membrane	zinc ion binding			central_nervous_system(1)	1																		---	---	---	---
SMTN	6525	broad.mit.edu	37	22	31484712	31484712	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31484712C>T	uc003ajl.1	+	5	540	c.322C>T	c.(322-324)CGC>TGC	p.R108C	SMTN_uc003ajk.1_Missense_Mutation_p.R108C|SMTN_uc003ajm.1_Missense_Mutation_p.R108C|SMTN_uc011ale.1_Missense_Mutation_p.R162C|SMTN_uc011alf.1_Missense_Mutation_p.R164C|SMTN_uc003ajn.1_Missense_Mutation_p.R100C|SMTN_uc011alg.1_5'Flank	NM_006932	NP_008863	P53814	SMTN_HUMAN	smoothelin isoform c	108					muscle organ development|smooth muscle contraction	actin cytoskeleton|cytoplasm	actin binding|structural constituent of muscle			large_intestine(2)|pancreas(1)	3																		---	---	---	---
PLA2G3	50487	broad.mit.edu	37	22	31533804	31533804	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31533804G>A	uc003aka.2	-	4	1087	c.958C>T	c.(958-960)CGC>TGC	p.R320C		NM_015715	NP_056530	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III precursor	320					cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity				0																		---	---	---	---
EIF4ENIF1	56478	broad.mit.edu	37	22	31854475	31854475	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31854475G>A	uc003akz.1	-	7	1113	c.949C>T	c.(949-951)CCA>TCA	p.P317S	EIF4ENIF1_uc003akx.1_5'Flank|EIF4ENIF1_uc003aky.1_5'Flank|EIF4ENIF1_uc003ala.1_Missense_Mutation_p.P317S|EIF4ENIF1_uc003alb.1_Missense_Mutation_p.P154S	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	317						nucleus	protein binding|protein transporter activity			ovary(1)	1																		---	---	---	---
DEPDC5	9681	broad.mit.edu	37	22	32150970	32150970	+	Intron	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:32150970G>C	uc003als.2	+						DEPDC5_uc011als.1_Intron|DEPDC5_uc011alu.1_Intron|DEPDC5_uc011alv.1_Intron|DEPDC5_uc003alt.2_Intron|DEPDC5_uc003alr.1_Intron|DEPDC5_uc011alt.1_Intron	NM_014662	NP_055477			DEP domain containing 5 isoform 1						intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8																		---	---	---	---
SLC5A4	6527	broad.mit.edu	37	22	32650199	32650199	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:32650199G>A	uc003ami.2	-	2	139	c.137C>T	c.(136-138)GCG>GTG	p.A46V		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	46	Helical; (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0																		---	---	---	---
MCM5	4174	broad.mit.edu	37	22	35802622	35802622	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:35802622G>A	uc003anu.3	+	5	594	c.500G>A	c.(499-501)CGC>CAC	p.R167H	MCM5_uc010gwr.2_5'UTR|MCM5_uc003anv.3_Missense_Mutation_p.R124H|MCM5_uc010gws.1_5'Flank	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5	167					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1																		---	---	---	---
MCM5	4174	broad.mit.edu	37	22	35817390	35817390	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:35817390G>T	uc003anu.3	+	15	2006	c.1912G>T	c.(1912-1914)GAG>TAG	p.E638*	MCM5_uc010gwr.2_Nonsense_Mutation_p.E447*|MCM5_uc003anv.3_Nonsense_Mutation_p.E595*|MCM5_uc003anw.1_Nonsense_Mutation_p.E422*	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5	638					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1																		---	---	---	---
RASD2	23551	broad.mit.edu	37	22	35947713	35947713	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:35947713C>T	uc003anx.2	+	3	640	c.435C>T	c.(433-435)GGC>GGT	p.G145G	RASD2_uc003any.2_Silent_p.G145G	NM_014310	NP_055125	Q96D21	RHES_HUMAN	RASD family, member 2 precursor	145					locomotory behavior|positive regulation of protein kinase B signaling cascade|positive regulation of protein sumoylation|regulation of cAMP-mediated signaling	intracellular|plasma membrane	G-protein beta-subunit binding|GTP binding|GTPase activity			lung(2)|skin(1)	3																		---	---	---	---
APOL6	80830	broad.mit.edu	37	22	36055294	36055294	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36055294C>T	uc003aoe.2	+	3	977	c.683C>T	c.(682-684)GCG>GTG	p.A228V	APOL6_uc003aod.2_RNA	NM_030641	NP_085144	Q9BWW8	APOL6_HUMAN	apolipoprotein L6	228					lipoprotein metabolic process	cytoplasm|extracellular region	lipid binding|lipid transporter activity				0																		---	---	---	---
MYH9	4627	broad.mit.edu	37	22	36698665	36698665	+	Silent	SNP	G	A	A	rs113285582	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36698665G>A	uc003apg.2	-	20	2679	c.2448C>T	c.(2446-2448)TGC>TGT	p.C816C	MYH9_uc003aph.1_Silent_p.C680C	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	816					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				---	---	---	---
TMPRSS6	164656	broad.mit.edu	37	22	37462911	37462911	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37462911G>A	uc003aqs.1	-	17	2346	c.2232C>T	c.(2230-2232)CGC>CGT	p.R744R	TMPRSS6_uc003aqt.1_Silent_p.R757R	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	744	Peptidase S1.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6																		---	---	---	---
TMPRSS6	164656	broad.mit.edu	37	22	37471264	37471264	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37471264G>T	uc003aqs.1	-	11	1394	c.1280C>A	c.(1279-1281)ACG>AAG	p.T427K	TMPRSS6_uc003aqt.1_Missense_Mutation_p.T418K	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	427	CUB 2.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6																		---	---	---	---
SSTR3	6753	broad.mit.edu	37	22	37603530	37603530	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37603530C>T	uc003ara.2	-	2	375	c.313G>A	c.(313-315)GCC>ACC	p.A105T	SSTR3_uc003arb.2_Missense_Mutation_p.A105T	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	105	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1																		---	---	---	---
TRIOBP	11078	broad.mit.edu	37	22	38119860	38119860	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38119860G>A	uc003atr.2	+	7	1568	c.1297G>A	c.(1297-1299)GCC>ACC	p.A433T	TRIOBP_uc003atu.2_Missense_Mutation_p.A261T|TRIOBP_uc003atq.1_Missense_Mutation_p.A433T|TRIOBP_uc003ats.1_Missense_Mutation_p.A261T	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	433					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)																	---	---	---	---
DMC1	11144	broad.mit.edu	37	22	38934370	38934370	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38934370G>A	uc003avz.1	-	11	880	c.705C>T	c.(703-705)GGC>GGT	p.G235G	DMC1_uc011anv.1_Silent_p.G180G	NM_007068	NP_008999	Q14565	DMC1_HUMAN	DMC1 dosage suppressor of mck1 homolog	235					reciprocal meiotic recombination	condensed nuclear chromosome	ATP binding|DNA binding|DNA-dependent ATPase activity|protein binding			ovary(1)	1	Melanoma(58;0.0286)												Homologous_recombination					---	---	---	---
SUN2	25777	broad.mit.edu	37	22	39148607	39148607	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:39148607C>T	uc003awh.1	-	3	311	c.27G>A	c.(25-27)ACG>ACA	p.T9T	SUN2_uc011anz.1_Silent_p.T44T|SUN2_uc011aoa.1_Silent_p.T44T|SUN2_uc003awi.1_Silent_p.T9T|SUN2_uc010gxq.1_Silent_p.T9T|SUN2_uc010gxr.1_Silent_p.T9T|SUN2_uc010gxs.1_Silent_p.T9T	NM_015374	NP_056189	Q9UH99	SUN2_HUMAN	unc-84 homolog B	9	Nuclear.|Ser-rich.|LMNA-binding (By similarity).				centrosome localization|cytoskeletal anchoring at nuclear membrane|mitotic spindle organization|nuclear envelope organization|nuclear matrix anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	endosome membrane|integral to membrane|nuclear inner membrane|SUN-KASH complex	lamin binding|microtubule binding			large_intestine(1)|skin(1)	2																		---	---	---	---
APOBEC3D	140564	broad.mit.edu	37	22	39418941	39418941	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:39418941C>T	uc011aoe.1	+	2	186	c.132C>T	c.(130-132)GGC>GGT	p.G44G	APOBEC3D_uc011aod.1_Silent_p.G44G|APOBEC3D_uc011aof.1_Silent_p.G44G|APOBEC3D_uc003awu.3_Silent_p.G44G|APOBEC3D_uc003awt.3_Silent_p.G44G|APOBEC3D_uc010gxu.2_5'UTR	NM_152426	NP_689639	Q96AK3	ABC3D_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	44					negative regulation of transposition		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding				0	Melanoma(58;0.04)																	---	---	---	---
APOBEC3G	60489	broad.mit.edu	37	22	39482482	39482482	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:39482482G>A	uc003awx.2	+	6	1276	c.934G>A	c.(934-936)GCC>ACC	p.A312T	APOBEC3G_uc003awy.2_Missense_Mutation_p.A245T	NM_021822	NP_068594	Q9HC16	ABC3G_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	312					base conversion or substitution editing|DNA cytosine deamination|innate immune response|interspecies interaction between organisms|negative regulation of retroviral genome replication|negative regulation of transposition|positive regulation of defense response to virus by host|response to virus|viral reproduction	apolipoprotein B mRNA editing enzyme complex|cytosol|mitochondrion	cytidine deaminase activity|dCTP deaminase activity|protein homodimerization activity|RNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2	Melanoma(58;0.04)																	---	---	---	---
TAB1	10454	broad.mit.edu	37	22	39811575	39811575	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:39811575G>T	uc003axt.2	+	3	290	c.241G>T	c.(241-243)GCC>TCC	p.A81S	TAB1_uc003axr.2_Missense_Mutation_p.A157S|TAB1_uc011aok.1_5'UTR|TAB1_uc003axu.1_Missense_Mutation_p.A81S	NM_006116	NP_006107	Q15750	TAB1_HUMAN	mitogen-activated protein kinase kinase kinase 7	81	PP2C-like.				activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane	catalytic activity|protein binding			breast(1)	1																		---	---	---	---
MGAT3	4248	broad.mit.edu	37	22	39883366	39883366	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:39883366G>A	uc003axv.3	+	2	253	c.14G>A	c.(13-15)CGC>CAC	p.R5H	MGAT3_uc010gxy.2_Missense_Mutation_p.R5H	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	5	Cytoplasmic (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)																	---	---	---	---
CACNA1I	8911	broad.mit.edu	37	22	40056386	40056386	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:40056386G>A	uc003ayc.2	+	15	2642	c.2642G>A	c.(2641-2643)AGC>AAC	p.S881N	CACNA1I_uc003ayd.2_Missense_Mutation_p.S846N|CACNA1I_uc003aye.2_Missense_Mutation_p.S796N|CACNA1I_uc003ayf.2_Missense_Mutation_p.S761N	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	881	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)													---	---	---	---
GRAP2	9402	broad.mit.edu	37	22	40365422	40365422	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:40365422G>T	uc003ayh.1	+	7	961	c.698G>T	c.(697-699)CGA>CTA	p.R233L	GRAP2_uc003ayi.2_RNA|GRAP2_uc011aom.1_Missense_Mutation_p.R207L|GRAP2_uc011aon.1_Missense_Mutation_p.R167L|GRAP2_uc010gya.1_Missense_Mutation_p.R233L|GRAP2_uc011aoo.1_Missense_Mutation_p.R161L|GRAP2_uc011aop.1_Missense_Mutation_p.R193L|GRAP2_uc011aoq.1_Missense_Mutation_p.R120L|GRAP2_uc003ayj.1_Missense_Mutation_p.R233L	NM_004810	NP_004801	O75791	GRAP2_HUMAN	GRB2-related adaptor protein 2	233					cell-cell signaling|Ras protein signal transduction|T cell costimulation|T cell receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2																		---	---	---	---
TNRC6B	23112	broad.mit.edu	37	22	40681651	40681651	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:40681651C>T	uc011aor.1	+	12	3796	c.3585C>T	c.(3583-3585)GGC>GGT	p.G1195G	TNRC6B_uc003aym.2_Silent_p.G391G|TNRC6B_uc003ayn.3_Silent_p.G1085G|TNRC6B_uc003ayo.2_Silent_p.G942G	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1195	Gln-rich.				gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0																		---	---	---	---
TNRC6B	23112	broad.mit.edu	37	22	40717102	40717102	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:40717102G>A	uc011aor.1	+	22	5194	c.4983G>A	c.(4981-4983)GGG>GGA	p.G1661G	TNRC6B_uc003aym.2_Silent_p.G857G|TNRC6B_uc003ayn.3_Silent_p.G1551G|TNRC6B_uc003ayo.2_Silent_p.G1408G	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1661	RRM.				gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0																		---	---	---	---
DNAJB7	150353	broad.mit.edu	37	22	41257568	41257568	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41257568T>A	uc003azj.2	-	1	563	c.431A>T	c.(430-432)TAT>TTT	p.Y144F	XPNPEP3_uc011aox.1_Intron|XPNPEP3_uc003azh.2_Intron|XPNPEP3_uc003azi.2_Intron|XPNPEP3_uc011aoy.1_5'Flank|XPNPEP3_uc003azg.1_Intron|XPNPEP3_uc003azf.1_Intron|XPNPEP3_uc010gyh.1_5'Flank	NM_145174	NP_660157	Q7Z6W7	DNJB7_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 7	144					protein folding		heat shock protein binding|unfolded protein binding			ovary(1)	1																		---	---	---	---
EP300	2033	broad.mit.edu	37	22	41489028	41489028	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41489028A>G	uc003azl.3	+	1	415	c.20A>G	c.(19-21)GAA>GGA	p.E7G		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	7	Interaction with ALX1.				apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64								T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				---	---	---	---
EP300	2033	broad.mit.edu	37	22	41574331	41574331	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41574331G>T	uc003azl.3	+	31	7011	c.6616G>T	c.(6616-6618)GCC>TCC	p.A2206S		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	2206	Interaction with HTLV-1 Tax.|Interaction with NCOA2.				apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64								T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				---	---	---	---
RANGAP1	5905	broad.mit.edu	37	22	41648913	41648913	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41648913C>T	uc003azs.2	-	11	2813	c.1343G>A	c.(1342-1344)CGC>CAC	p.R448H	RANGAP1_uc003azt.2_Missense_Mutation_p.R448H|RANGAP1_uc003azu.2_Missense_Mutation_p.R448H|RANGAP1_uc003azr.2_5'UTR|RANGAP1_uc010gyk.2_5'UTR|RANGAP1_uc011aoz.1_Missense_Mutation_p.R393H	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	448					mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0																		---	---	---	---
RANGAP1	5905	broad.mit.edu	37	22	41676993	41676993	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41676993G>A	uc003azs.2	-	1	1526	c.56C>T	c.(55-57)GCC>GTC	p.A19V	RANGAP1_uc003azt.2_Missense_Mutation_p.A19V|RANGAP1_uc003azu.2_Missense_Mutation_p.A19V|RANGAP1_uc011aoz.1_5'Flank	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	19					mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0																		---	---	---	---
PHF5A	84844	broad.mit.edu	37	22	41863526	41863526	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41863526G>A	uc003bab.2	-	3	220	c.169C>T	c.(169-171)CGC>TGC	p.R57C	ACO2_uc003bac.2_5'Flank|ACO2_uc003bad.2_5'Flank	NM_032758	NP_116147	Q7RTV0	PHF5A_HUMAN	PHD-finger 5A	57					nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent	nuclear speck|U12-type spliceosomal complex|U2 snRNP	DNA binding|sequence-specific DNA binding transcription factor activity				0																		---	---	---	---
TCF20	6942	broad.mit.edu	37	22	42609903	42609903	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:42609903A>G	uc003bcj.1	-	1	1543	c.1409T>C	c.(1408-1410)GTC>GCC	p.V470A	TCF20_uc003bck.1_Missense_Mutation_p.V470A|TCF20_uc003bnt.2_Missense_Mutation_p.V470A	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	470					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5																		---	---	---	---
TCF20	6942	broad.mit.edu	37	22	42610103	42610103	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:42610103C>T	uc003bcj.1	-	1	1343	c.1209G>A	c.(1207-1209)GTG>GTA	p.V403V	TCF20_uc003bck.1_Silent_p.V403V|TCF20_uc003bnt.2_Silent_p.V403V	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	403					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5																		---	---	---	---
PACSIN2	11252	broad.mit.edu	37	22	43267373	43267373	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43267373G>A	uc010gzg.2	-	11	1673	c.1451C>T	c.(1450-1452)GCG>GTG	p.A484V	PACSIN2_uc003bdg.3_Missense_Mutation_p.A484V|PACSIN2_uc003bde.3_Missense_Mutation_p.A484V|PACSIN2_uc003bdf.3_Missense_Mutation_p.A443V	NM_007229	NP_009160	Q9UNF0	PACN2_HUMAN	protein kinase C and casein kinase substrate in	484	SH3.				actin cytoskeleton organization|endocytosis	cytoplasmic membrane-bounded vesicle	transporter activity				0		Glioma(61;0.222)																---	---	---	---
TTLL1	25809	broad.mit.edu	37	22	43442572	43442572	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43442572G>A	uc003bdi.2	-	10	1227	c.986C>T	c.(985-987)GCG>GTG	p.A329V	TTLL1_uc010gzh.2_Missense_Mutation_p.A300V|TTLL1_uc003bdj.2_Missense_Mutation_p.A215V|TTLL1_uc003bdh.2_Missense_Mutation_p.A291V	NM_012263	NP_036395	O95922	TTLL1_HUMAN	tubulin tyrosine ligase-like family, member 1	329	TTL.				protein polyglutamylation	cytoplasm|microtubule	ATP binding|tubulin-glutamic acid ligase activity|tubulin-tyrosine ligase activity			skin(1)	1		Ovarian(80;0.0694)		BRCA - Breast invasive adenocarcinoma(115;0.00461)														---	---	---	---
SCUBE1	80274	broad.mit.edu	37	22	43634953	43634953	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43634953G>A	uc003bdt.1	-	7	823	c.735C>T	c.(733-735)TGC>TGT	p.C245C	SCUBE1_uc003bdu.1_Silent_p.C275C	NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	245	EGF-like 5 (Potential).|EGF-like 6 (Potential).				adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)																---	---	---	---
SAMM50	25813	broad.mit.edu	37	22	44368758	44368758	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44368758G>A	uc003bej.2	+	6	634	c.437G>A	c.(436-438)GGC>GAC	p.G146D	SAMM50_uc011aqd.1_Intron|SAMM50_uc003bek.2_5'Flank	NM_015380	NP_056195	Q9Y512	SAM50_HUMAN	sorting and assembly machinery component 50	146					protein import into mitochondrial outer membrane	integral to membrane|integral to membrane of membrane fraction|mitochondrial sorting and assembly machinery complex	protein binding			skin(1)	1		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)																---	---	---	---
PARVB	29780	broad.mit.edu	37	22	44543773	44543773	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44543773G>A	uc003ben.2	+	9	797	c.745G>A	c.(745-747)GCC>ACC	p.A249T	PARVB_uc003bem.2_Missense_Mutation_p.A282T|PARVB_uc010gzn.2_Missense_Mutation_p.A197T|PARVB_uc003beo.2_Missense_Mutation_p.A212T	NM_013327	NP_037459	Q9HBI1	PARVB_HUMAN	parvin, beta isoform b	249					cell adhesion|cell junction assembly	cytoskeleton|cytosol|focal adhesion	actin binding				0		Ovarian(80;0.0246)|all_neural(38;0.0423)																---	---	---	---
PHF21B	112885	broad.mit.edu	37	22	45279115	45279115	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45279115G>A	uc003bfn.2	-	13	1598	c.1447C>T	c.(1447-1449)CGG>TGG	p.R483W	PHF21B_uc003bfm.2_Missense_Mutation_p.R279W|PHF21B_uc011aqk.1_Missense_Mutation_p.R429W|PHF21B_uc011aql.1_Missense_Mutation_p.R441W	NM_138415	NP_612424	Q96EK2	PF21B_HUMAN	PHD finger protein 21B isoform 1	483							zinc ion binding			ovary(2)|skin(1)	3		all_neural(38;0.00802)|Glioma(61;0.0353)|Ovarian(80;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0203)														---	---	---	---
FAM118A	55007	broad.mit.edu	37	22	45726536	45726536	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45726536G>A	uc003bfz.3	+	6	1191	c.575G>A	c.(574-576)GGC>GAC	p.G192D	FAM118A_uc003bga.3_Missense_Mutation_p.G192D|FAM118A_uc011aqr.1_Missense_Mutation_p.G10D	NM_001104595	NP_001098065	Q9NWS6	F118A_HUMAN	hypothetical protein LOC55007	192						integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)														---	---	---	---
RIBC2	26150	broad.mit.edu	37	22	45813802	45813802	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45813802G>A	uc011aqs.1	+	4	726	c.517G>A	c.(517-519)GCC>ACC	p.A173T		NM_015653	NP_056468	Q9H4K1	RIBC2_HUMAN	RIB43A domain with coiled-coils 2	105											0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)														---	---	---	---
FBLN1	2192	broad.mit.edu	37	22	45938087	45938087	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45938087C>T	uc003bgj.1	+	10	1266	c.1119C>T	c.(1117-1119)TGC>TGT	p.C373C	FBLN1_uc003bgg.1_Silent_p.C373C|FBLN1_uc003bgh.2_Silent_p.C373C|FBLN1_uc010gzz.2_Silent_p.C411C|FBLN1_uc003bgi.1_Silent_p.C373C	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	373	EGF-like 5; calcium-binding.|Self-association and FN1-binding; calcium is necessary for homotypic binding, but not for heterotypic binding.				interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)														---	---	---	---
PKDREJ	10343	broad.mit.edu	37	22	46655302	46655302	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46655302C>T	uc003bhh.2	-	1	3918	c.3918G>A	c.(3916-3918)TCG>TCA	p.S1306S		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1306	Cytoplasmic (Potential).|PLAT.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)														---	---	---	---
GTSE1	51512	broad.mit.edu	37	22	46712231	46712231	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46712231C>T	uc011aqy.1	+	7	1566	c.1354C>T	c.(1354-1356)CGA>TGA	p.R452*	GTSE1_uc011aqz.1_Nonsense_Mutation_p.R299*|GTSE1_uc003bhl.1_Nonsense_Mutation_p.R77*|GTSE1_uc003bhm.1_Nonsense_Mutation_p.R77*	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	433					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)														---	---	---	---
GRAMD4	23151	broad.mit.edu	37	22	47070572	47070572	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:47070572G>A	uc003bhx.2	+	15	1442	c.1403G>A	c.(1402-1404)CGC>CAC	p.R468H	GRAMD4_uc010had.2_Missense_Mutation_p.R407H|GRAMD4_uc003bhy.2_5'UTR	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	468	GRAM.				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)														---	---	---	---
GRAMD4	23151	broad.mit.edu	37	22	47070595	47070595	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:47070595C>T	uc003bhx.2	+	15	1465	c.1426C>T	c.(1426-1428)CGG>TGG	p.R476W	GRAMD4_uc010had.2_Missense_Mutation_p.R415W|GRAMD4_uc003bhy.2_5'UTR	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	476	GRAM.				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)														---	---	---	---
TBC1D22A	25771	broad.mit.edu	37	22	47290699	47290699	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:47290699G>A	uc003bib.2	+	7	992	c.857G>A	c.(856-858)CGC>CAC	p.R286H	TBC1D22A_uc010haf.2_Missense_Mutation_p.R256H|TBC1D22A_uc003bic.2_Missense_Mutation_p.R227H|TBC1D22A_uc003bie.2_Missense_Mutation_p.R208H|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Missense_Mutation_p.R239H	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	286	Rab-GAP TBC.					intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)														---	---	---	---
TBC1D22A	25771	broad.mit.edu	37	22	47569246	47569246	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:47569246G>A	uc003bib.2	+	13	1666	c.1531G>A	c.(1531-1533)GCC>ACC	p.A511T	TBC1D22A_uc010haf.2_Missense_Mutation_p.A481T|TBC1D22A_uc003bic.2_Missense_Mutation_p.A452T|TBC1D22A_uc003bie.2_Missense_Mutation_p.A433T|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Missense_Mutation_p.A464T	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	511						intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)														---	---	---	---
FAM19A5	25817	broad.mit.edu	37	22	49103572	49103572	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:49103572T>C	uc003bim.3	+	3	423	c.306T>C	c.(304-306)TGT>TGC	p.C102C	FAM19A5_uc003bio.3_Silent_p.C95C	NM_001082967	NP_001076436	Q7Z5A7	F19A5_HUMAN	family with sequence similarity 19 (chemokine	102						extracellular region|integral to membrane				large_intestine(1)	1		all_cancers(38;2.95e-11)|all_epithelial(38;3.07e-10)|all_lung(38;2.89e-05)|Breast(42;0.000396)|Lung NSC(38;0.000471)|Ovarian(80;0.00934)|Lung SC(80;0.195)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0227)|BRCA - Breast invasive adenocarcinoma(115;0.119)														---	---	---	---
ZBED4	9889	broad.mit.edu	37	22	50277562	50277562	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50277562C>T	uc003bix.2	+	2	722	c.252C>T	c.(250-252)GGC>GGT	p.G84G		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	84						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)														---	---	---	---
TTLL8	164714	broad.mit.edu	37	22	50470406	50470406	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50470406G>A	uc011ark.1	-	11	1416	c.1416C>T	c.(1414-1416)GGC>GGT	p.G472G		NM_001080447	NP_001073916			tubulin tyrosine ligase-like family, member 8											ovary(2)	2		all_cancers(38;3.44e-07)|all_epithelial(38;2.44e-06)|all_lung(38;0.00141)|Breast(42;0.00519)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		READ - Rectum adenocarcinoma(2;0.000882)|Colorectal(2;0.00311)|BRCA - Breast invasive adenocarcinoma(115;0.226)														---	---	---	---
MOV10L1	54456	broad.mit.edu	37	22	50528897	50528897	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50528897G>A	uc003bjj.2	+						MOV10L1_uc003bjk.3_Intron|MOV10L1_uc011arp.1_5'UTR|MOV10L1_uc010han.2_5'UTR	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)														---	---	---	---
TRABD	80305	broad.mit.edu	37	22	50636522	50636522	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50636522T>C	uc003bjq.1	+	9	949	c.863T>C	c.(862-864)GTC>GCC	p.V288A	TRABD_uc003bjr.1_Missense_Mutation_p.V172A|TRABD_uc003bjs.1_Missense_Mutation_p.V288A|TRABD_uc003bjt.1_Missense_Mutation_p.V288A|TRABD_uc003bju.1_Missense_Mutation_p.V288A|TRABD_uc003bjv.2_Missense_Mutation_p.V288A|TRABD_uc003bjw.1_Missense_Mutation_p.V288A|SELO_uc011arr.1_5'Flank	NM_025204	NP_079480	Q9H4I3	TRABD_HUMAN	TraB domain containing	288											0		all_cancers(38;1.07e-07)|all_epithelial(38;9.6e-07)|all_lung(38;0.00141)|Breast(42;0.00387)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		LUAD - Lung adenocarcinoma(64;0.105)														---	---	---	---
SELO	83642	broad.mit.edu	37	22	50647109	50647109	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50647109C>T	uc011arr.1	+	3	961	c.903C>T	c.(901-903)AGC>AGT	p.S301S	SELO_uc010hap.2_Silent_p.S112S|SELO_uc003bjy.2_5'UTR|SELO_uc003bjz.2_5'Flank	NM_031454	NP_113642	Q9BVL4	SELO_HUMAN	selenoprotein O	301											0		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)														---	---	---	---
PLXNB2	23654	broad.mit.edu	37	22	50728515	50728515	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50728515C>T	uc003bkv.3	-	3	605	c.499G>A	c.(499-501)GTG>ATG	p.V167M		NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	167	Extracellular (Potential).|Sema.				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)														---	---	---	---
CPT1B	1375	broad.mit.edu	37	22	51011300	51011300	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:51011300G>A	uc003bmk.3	-						CPT1B_uc003bml.2_Intron|CPT1B_uc003bmm.2_Intron|CPT1B_uc003bmo.2_Intron|CPT1B_uc011asa.1_Intron|CPT1B_uc003bmn.2_Intron|CPT1B_uc011asb.1_Intron|CHKB-CPT1B_uc003bmp.2_Intron	NM_001145137	NP_001138609			carnitine palmitoyltransferase 1B isoform a						carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)	2		all_cancers(38;8.8e-15)|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)		all cancers(3;3.56e-77)|OV - Ovarian serous cystadenocarcinoma(4;5.39e-74)|Epithelial(4;5.58e-70)|GBM - Glioblastoma multiforme(4;5.59e-08)|LUAD - Lung adenocarcinoma(64;0.0016)|Lung(4;0.00942)|BRCA - Breast invasive adenocarcinoma(115;0.207)														---	---	---	---
PPP2R3B	28227	broad.mit.edu	37	X	302606	302606	+	Intron	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:302606A>G	uc004cpg.2	-						PPP2R3B_uc004cpf.2_5'Flank	NM_013239	NP_037371			protein phosphatase 2, regulatory subunit B'',						cell cycle arrest|protein dephosphorylation	nucleus|protein phosphatase type 2A complex	calcium ion binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase 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)																---	---	---	---
CSF2RA	1438	broad.mit.edu	37	X	1422885	1422885	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1422885G>A	uc010nct.2	+	12	1338	c.1016G>A	c.(1015-1017)GGC>GAC	p.G339D	CSF2RA_uc011mhb.1_Missense_Mutation_p.G339D|CSF2RA_uc004cpq.2_Intron|CSF2RA_uc004cpn.2_Missense_Mutation_p.G339D|CSF2RA_uc004cpo.2_Missense_Mutation_p.G339D|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_Missense_Mutation_p.G206D|CSF2RA_uc004cpp.2_Intron|CSF2RA_uc010ncv.2_Missense_Mutation_p.G373D|CSF2RA_uc004cpr.2_Intron	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	339	Helical; (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		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)													---	---	---	---
IL3RA	3563	broad.mit.edu	37	X	1471219	1471219	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1471219C>T	uc004cps.2	+	6	785	c.436C>T	c.(436-438)CGT>TGT	p.R146C	IL3RA_uc011mhd.1_Missense_Mutation_p.R68C	NM_002183	NP_002174	P26951	IL3RA_HUMAN	interleukin 3 receptor, alpha precursor	146	Extracellular (Potential).					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)													---	---	---	---
SLC25A6	293	broad.mit.edu	37	X	1505554	1505554	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1505554G>A	uc004cpt.2	-	4	934	c.838C>T	c.(838-840)CGG>TGG	p.R280W	SLC25A6_uc004cpu.2_RNA	NM_001636	NP_001627	P12236	ADT3_HUMAN	adenine nucleotide translocator 3	280	Helical; Name=6; (By similarity).|Solcar 3.				active induction of host immune response by virus|apoptosis|energy reserve metabolic process|regulation of insulin secretion|viral infectious cycle	integral to membrane|mitochondrial inner membrane presequence translocase complex	ATP:ADP antiporter activity|protein binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Clodronate(DB00720)													---	---	---	---
SFRS17A	8227	broad.mit.edu	37	X	1712430	1712430	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1712430G>A	uc004cqa.2	+	2	271	c.75G>A	c.(73-75)AAG>AAA	p.K25K	SFRS17A_uc010ncx.1_Silent_p.K25K|SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_5'Flank	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	25					B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)																---	---	---	---
ZBED1	9189	broad.mit.edu	37	X	2408097	2408097	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2408097C>T	uc004cqg.2	-	2	865	c.664G>A	c.(664-666)GCC>ACC	p.A222T	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Missense_Mutation_p.A222T	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	222						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase 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)																---	---	---	---
STS	412	broad.mit.edu	37	X	7137733	7137733	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:7137733C>T	uc004cry.3	+						STS_uc004crw.2_Intron|STS_uc011mhp.1_Intron|STS_uc004crx.1_Intron	NM_000351	NP_000342			steryl-sulfatase precursor						female pregnancy|steroid catabolic process	endoplasmic reticulum membrane|endosome|Golgi apparatus|integral to membrane|lysosome|microsome|plasma membrane	metal ion binding|steryl-sulfatase activity			central_nervous_system(1)	1		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)			Estrone(DB00655)									Ichthyosis				---	---	---	---
TBL1X	6907	broad.mit.edu	37	X	9656277	9656277	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:9656277C>T	uc010ndq.2	+	7	946	c.578C>T	c.(577-579)GCC>GTC	p.A193V	TBL1X_uc004csq.3_Missense_Mutation_p.A142V|TBL1X_uc010ndr.2_Missense_Mutation_p.A142V|TBL1X_uc004csr.2_Missense_Mutation_p.A193V|TBL1X_uc004css.2_Missense_Mutation_p.A144V	NM_001139466	NP_001132938	O60907	TBL1X_HUMAN	transducin beta-like 1X isoform a	193					canonical Wnt receptor signaling pathway|cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|sensory perception of sound|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein C-terminus binding|protein domain specific binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1		Hepatocellular(5;0.000888)																---	---	---	---
WWC3	55841	broad.mit.edu	37	X	10085205	10085205	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:10085205G>A	uc004csx.3	+	11	1304	c.1106G>A	c.(1105-1107)CGC>CAC	p.R369H	WWC3_uc010nds.2_Missense_Mutation_p.R33H|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	369	Ser-rich.									ovary(4)	4																		---	---	---	---
WWC3	55841	broad.mit.edu	37	X	10092342	10092342	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:10092342G>A	uc004csx.3	+	13	1987	c.1789G>A	c.(1789-1791)GCC>ACC	p.A597T	WWC3_uc010nds.2_Missense_Mutation_p.A261T|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	597										ovary(4)	4																		---	---	---	---
MID1	4281	broad.mit.edu	37	X	10535114	10535114	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:10535114G>A	uc004cte.3	-	2	665	c.474C>T	c.(472-474)GGC>GGT	p.G158G	MID1_uc004ctd.3_5'Flank|MID1_uc004ctg.3_Silent_p.G158G|MID1_uc004cth.3_Silent_p.G158G|MID1_uc004ctk.3_Silent_p.G158G|MID1_uc004cti.3_Silent_p.G158G|MID1_uc004ctj.3_Silent_p.G158G|MID1_uc011mie.1_RNA|MID1_uc004ctm.1_Silent_p.G158G|MID1_uc004ctn.1_Silent_p.G158G|MID1_uc004cto.1_Silent_p.G158G|MID1_uc010ndw.1_5'Flank|MID1_uc004cts.1_5'Flank|MID1_uc004ctt.2_Silent_p.G158G|MID1_uc004ctu.2_Silent_p.G158G|MID1_uc004ctv.2_Silent_p.G158G|MID1_uc004ctw.2_Silent_p.G158G|MID1_uc010ndy.1_Silent_p.G158G|uc010ndz.1_5'Flank|MID1_uc004cty.2_Silent_p.G158G|MID1_uc004ctz.1_5'Flank|MID1_uc004cua.1_RNA|MID1_uc004cub.1_Silent_p.G158G|MID1_uc010nea.1_Intron|MID1_uc004cuc.1_Silent_p.G158G|MID1_uc004cud.1_Silent_p.G158G|MID1_uc004cue.1_Silent_p.G158G|MID1_uc004cuf.1_Silent_p.G158G|MID1_uc004cug.1_Silent_p.G158G	NM_033290	NP_150632	O15344	TRI18_HUMAN	midline 1	158	B box-type 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																		---	---	---	---
FRMPD4	9758	broad.mit.edu	37	X	12712493	12712493	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:12712493T>C	uc004cuz.1	+	9	1359	c.853T>C	c.(853-855)TTC>CTC	p.F285L	FRMPD4_uc011mij.1_Missense_Mutation_p.F277L	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	285	FERM.				positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13																		---	---	---	---
FRMPD4	9758	broad.mit.edu	37	X	12736508	12736508	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:12736508C>T	uc004cuz.1	+	16	4069	c.3563C>T	c.(3562-3564)GCC>GTC	p.A1188V	FRMPD4_uc011mij.1_Missense_Mutation_p.A1180V	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	1188					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13																		---	---	---	---
TLR7	51284	broad.mit.edu	37	X	12905875	12905875	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:12905875C>T	uc004cvc.2	+	3	2387	c.2248C>T	c.(2248-2250)CGA>TGA	p.R750*		NM_016562	NP_057646	Q9NYK1	TLR7_HUMAN	toll-like receptor 7 precursor	750	Extracellular (Potential).|LRR 26.				cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			ovary(2)|lung(2)|breast(1)	5					Imiquimod(DB00724)													---	---	---	---
OFD1	8481	broad.mit.edu	37	X	13786260	13786260	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:13786260G>A	uc004cvp.3	+	21	3204	c.2845G>A	c.(2845-2847)GAC>AAC	p.D949N	OFD1_uc004cvr.3_Missense_Mutation_p.D479N|OFD1_uc011mil.1_Missense_Mutation_p.D516N|OFD1_uc004cvq.3_Missense_Mutation_p.D772N|OFD1_uc010nen.2_Missense_Mutation_p.D947N|OFD1_uc004cvs.3_RNA|OFD1_uc004cvu.3_Missense_Mutation_p.D908N|OFD1_uc004cvv.3_Missense_Mutation_p.D907N	NM_003611	NP_003602	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	949	Mediates the interaction with SDCCAG8.|Potential.				cilium movement involved in determination of left/right asymmetry|G2/M transition of mitotic cell cycle	centriole|cilium|cytosol|microtubule basal body|nuclear membrane	alpha-tubulin binding|gamma-tubulin binding				0																		---	---	---	---
TXLNG	55787	broad.mit.edu	37	X	16838287	16838287	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:16838287G>T	uc004cxq.1	+	3	458	c.407G>T	c.(406-408)GGA>GTA	p.G136V	TXLNG_uc010ney.1_Intron	NM_018360	NP_060830	Q9NUQ3	TXLNG_HUMAN	gamma-taxilin	136					cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane				lung(1)	1																		---	---	---	---
NHS	4810	broad.mit.edu	37	X	17746817	17746817	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:17746817C>A	uc004cxx.2	+	7	4546	c.4208C>A	c.(4207-4209)TCC>TAC	p.S1403Y	NHS_uc011mix.1_Missense_Mutation_p.S1424Y|NHS_uc004cxy.2_Missense_Mutation_p.S1247Y|NHS_uc004cxz.2_Missense_Mutation_p.S1226Y|NHS_uc004cya.2_Missense_Mutation_p.S1126Y	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1403						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)																	---	---	---	---
SCML2	10389	broad.mit.edu	37	X	18278348	18278348	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:18278348G>A	uc004cyl.2	-	9	1169	c.1012C>T	c.(1012-1014)CGT>TGT	p.R338C	SCML2_uc004cyk.3_RNA|SCML2_uc010nfd.1_Missense_Mutation_p.R338C|SCML2_uc011miz.1_Missense_Mutation_p.R272C|SCML2_uc010nfc.2_Missense_Mutation_p.R74C	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	338					anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)																	---	---	---	---
CDKL5	6792	broad.mit.edu	37	X	18668576	18668576	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:18668576C>T	uc004cym.2	+	20	3097	c.2844C>T	c.(2842-2844)TGC>TGT	p.C948C	CDKL5_uc004cyn.2_Silent_p.C948C|RS1_uc004cyo.2_Intron	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	948					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)																	---	---	---	---
PPEF1	5475	broad.mit.edu	37	X	18824564	18824564	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:18824564G>A	uc004cyq.2	+	15	1776	c.1295G>A	c.(1294-1296)AGC>AAC	p.S432N	PPEF1_uc004cyp.2_Missense_Mutation_p.S404N|PPEF1_uc004cyr.2_Missense_Mutation_p.S370N|PPEF1_uc004cys.2_Missense_Mutation_p.S432N|PPEF1_uc011mja.1_Missense_Mutation_p.S367N|PPEF1_uc011mjb.1_Missense_Mutation_p.S376N	NM_006240	NP_006231	O14829	PPE1_HUMAN	protein phosphatase with EF hand calcium-binding	432	Catalytic.				detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)																	---	---	---	---
PHKA2	5256	broad.mit.edu	37	X	18927018	18927018	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:18927018T>C	uc004cyv.3	-	21	2691	c.2261A>G	c.(2260-2262)GAC>GGC	p.D754G	PHKA2_uc004cyu.3_Missense_Mutation_p.D52G	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	754					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)																	---	---	---	---
PDHA1	5160	broad.mit.edu	37	X	19372612	19372612	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:19372612C>T	uc004czg.3	+	6	659	c.514C>T	c.(514-516)CCC>TCC	p.P172S	PDHA1_uc004czh.3_Missense_Mutation_p.P207S|PDHA1_uc011mjc.1_Missense_Mutation_p.P176S|PDHA1_uc011mjd.1_Intron|PDHA1_uc010nfk.2_Missense_Mutation_p.P169S|PDHA1_uc010nfl.2_5'Flank	NM_000284	NP_000275	P08559	ODPA_HUMAN	pyruvate dehydrogenase E1 alpha 1 precursor	172					glycolysis|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	protein binding|pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)	1	Hepatocellular(33;0.183)				NADH(DB00157)													---	---	---	---
MAP3K15	389840	broad.mit.edu	37	X	19443701	19443701	+	5'UTR	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:19443701C>A	uc004czk.1	-	8					MAP3K15_uc004czj.1_5'UTR	NM_001001671	NP_001001671			mitogen-activated protein kinase kinase kinase								ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)																	---	---	---	---
SH3KBP1	30011	broad.mit.edu	37	X	19560086	19560086	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:19560086G>A	uc004czm.2	-	16	2165	c.1849C>T	c.(1849-1851)CGC>TGC	p.R617C	SH3KBP1_uc011mje.1_Missense_Mutation_p.R356C|SH3KBP1_uc011mjf.1_Missense_Mutation_p.R379C|SH3KBP1_uc004czl.2_Missense_Mutation_p.R580C|SH3KBP1_uc010nfm.2_Missense_Mutation_p.R62C	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	617	Potential.				apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0																		---	---	---	---
SH3KBP1	30011	broad.mit.edu	37	X	19649997	19649997	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:19649997G>A	uc004czm.2	-	8	1198	c.882C>T	c.(880-882)GTC>GTT	p.V294V	SH3KBP1_uc011mje.1_Silent_p.V33V|SH3KBP1_uc011mjf.1_Silent_p.V56V|SH3KBP1_uc004czl.2_Silent_p.V257V	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	294	SH3 3.				apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0																		---	---	---	---
SH3KBP1	30011	broad.mit.edu	37	X	19705743	19705743	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:19705743C>T	uc004czm.2	-						SH3KBP1_uc004czl.2_Intron	NM_031892	NP_114098			SH3-domain kinase binding protein 1 isoform a						apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0																		---	---	---	---
PTCHD1	139411	broad.mit.edu	37	X	23397938	23397938	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:23397938C>T	uc004dal.3	+	2	590	c.582C>T	c.(580-582)GGC>GGT	p.G194G	PTCHD1_uc010nfu.1_Silent_p.G194G	NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	194					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6																		---	---	---	---
PDK3	5165	broad.mit.edu	37	X	24552101	24552101	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:24552101G>A	uc004dbg.2	+	11	1362	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H	PDK3_uc004dbh.2_Missense_Mutation_p.R378H	NM_005391	NP_005382	Q15120	PDK3_HUMAN	pyruvate dehydrogenase kinase 3 isoform 2	378					glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|protein binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6																		---	---	---	---
PCYT1B	9468	broad.mit.edu	37	X	24608151	24608151	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:24608151C>T	uc004dbi.2	-	4	708	c.475G>A	c.(475-477)GAA>AAA	p.E159K	PCYT1B_uc004dbk.3_Missense_Mutation_p.E159K|PCYT1B_uc004dbj.2_Missense_Mutation_p.E141K	NM_004845	NP_004836	Q9Y5K3	PCY1B_HUMAN	choline phosphate cytidylyltransferase 1 beta	159	Catalytic (Potential).					endoplasmic reticulum	choline-phosphate cytidylyltransferase activity				0					Choline(DB00122)													---	---	---	---
PCYT1B	9468	broad.mit.edu	37	X	24690692	24690692	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:24690692G>A	uc004dbj.2	-	1	288	c.58C>T	c.(58-60)CGC>TGC	p.R20C		NM_001163264	NP_001156736	Q9Y5K3	PCY1B_HUMAN	choline phosphate cytidylyltransferase 1 beta	38						endoplasmic reticulum	choline-phosphate cytidylyltransferase activity				0					Choline(DB00122)													---	---	---	---
POLA1	5422	broad.mit.edu	37	X	24806682	24806682	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:24806682C>T	uc004dbl.2	+							NM_016937	NP_058633			DNA-directed DNA polymerase alpha 1						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)													---	---	---	---
DCAF8L1	139425	broad.mit.edu	37	X	27997832	27997832	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:27997832C>T	uc004dbx.1	-	1	1735	c.1620G>A	c.(1618-1620)ACG>ACA	p.T540T		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	540										ovary(3)|skin(1)	4																		---	---	---	---
TAB3	257397	broad.mit.edu	37	X	30872570	30872570	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:30872570C>T	uc004dcj.2	-	6	1875	c.1212G>A	c.(1210-1212)ACG>ACA	p.T404T	TAB3_uc004dck.2_Silent_p.T404T|TAB3_uc010ngl.2_Silent_p.T404T	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	404	Pro-rich.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1																		---	---	---	---
TAB3	257397	broad.mit.edu	37	X	30877628	30877628	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:30877628G>A	uc004dcj.2	-	5	741	c.78C>T	c.(76-78)GGC>GGT	p.G26G	TAB3_uc004dck.2_Silent_p.G26G|TAB3_uc010ngl.2_Silent_p.G26G	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	26	CUE.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1																		---	---	---	---
DMD	1756	broad.mit.edu	37	X	32305735	32305735	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:32305735C>T	uc004dda.1	-	43	6445	c.6201G>A	c.(6199-6201)ACG>ACA	p.T2067T	DMD_uc004dcw.2_Silent_p.T723T|DMD_uc004dcx.2_Silent_p.T726T|DMD_uc004dcz.2_Silent_p.T1944T|DMD_uc004dcy.1_Silent_p.T2063T|DMD_uc004ddb.1_Silent_p.T2059T|DMD_uc010ngo.1_Intron|DMD_uc010ngn.1_RNA	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2067	Spectrin 14.				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)																---	---	---	---
FAM47C	442444	broad.mit.edu	37	X	37028325	37028325	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:37028325C>T	uc004ddl.1	+	1	1856	c.1842C>T	c.(1840-1842)CGC>CGT	p.R614R		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	614										ovary(3)	3																		---	---	---	---
FAM47C	442444	broad.mit.edu	37	X	37028757	37028757	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:37028757C>T	uc004ddl.1	+	1	2288	c.2274C>T	c.(2272-2274)CGC>CGT	p.R758R		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	758										ovary(3)	3																		---	---	---	---
CYBB	1536	broad.mit.edu	37	X	37663265	37663265	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:37663265G>A	uc004ddr.2	+	9	1094	c.1033G>A	c.(1033-1035)GCC>ACC	p.A345T	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Missense_Mutation_p.A313T|CYBB_uc011mkg.1_Missense_Mutation_p.A78T	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	345	Cytoplasmic (Potential).|FAD-binding FR-type.				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2																		---	---	---	---
MID1IP1	58526	broad.mit.edu	37	X	38664476	38664476	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:38664476C>T	uc004dei.3	+	3	701	c.277C>T	c.(277-279)CTT>TTT	p.L93F	MID1IP1_uc010ngz.2_Missense_Mutation_p.L93F|MID1IP1_uc004dej.3_Missense_Mutation_p.L93F	NM_001098790	NP_001092260	Q9NPA3	M1IP1_HUMAN	MID1 interacting G12-like protein	93					lipid biosynthetic process|negative regulation of microtubule depolymerization|positive regulation of fatty acid biosynthetic process|positive regulation of ligase activity|protein polymerization	cytosol|microtubule|nucleus					0																		---	---	---	---
BCOR	54880	broad.mit.edu	37	X	39932705	39932705	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:39932705C>T	uc004den.3	-	4	2186	c.1894G>A	c.(1894-1896)GGC>AGC	p.G632S	BCOR_uc004dep.3_Missense_Mutation_p.G632S|BCOR_uc004deo.3_Missense_Mutation_p.G632S|BCOR_uc004dem.3_Missense_Mutation_p.G632S|BCOR_uc004deq.3_Missense_Mutation_p.G632S	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	632					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4																		---	---	---	---
GPR82	27197	broad.mit.edu	37	X	41586274	41586274	+	5'UTR	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:41586274A>G	uc004dfs.1	+	3					CASK_uc004dfl.3_Intron|CASK_uc004dfm.3_Intron|CASK_uc004dfn.3_Intron|GPR82_uc004dft.2_5'UTR|GPR82_uc004dfu.1_RNA	NM_080817	NP_543007			G protein-coupled receptor 82							integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2																		---	---	---	---
DUSP21	63904	broad.mit.edu	37	X	44703683	44703683	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:44703683C>T	uc004dgd.2	+	1	435	c.305C>T	c.(304-306)ACG>ATG	p.T102M		NM_022076	NP_071359	Q9H596	DUS21_HUMAN	dual specificity phosphatase 21	102	Tyrosine-protein phosphatase.|Sufficient for mitochondrial localization (By similarity).					cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			large_intestine(1)|lung(1)	2																		---	---	---	---
ELK1	2002	broad.mit.edu	37	X	47500653	47500653	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:47500653G>A	uc004dik.3	-	3	510	c.188C>T	c.(187-189)GCC>GTC	p.A63V	ELK1_uc010nhv.2_Missense_Mutation_p.A63V|ELK1_uc010nhw.2_5'UTR|ELK1_uc004dil.3_RNA	NM_001114123	NP_001107595	P19419	ELK1_HUMAN	ELK1 protein	63	ETS.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|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		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2																		---	---	---	---
ZNF630	57232	broad.mit.edu	37	X	47926265	47926265	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:47926265A>G	uc004div.3	-	2	262	c.10T>C	c.(10-12)TCC>CCC	p.S4P	ZNF630_uc010nhz.1_RNA|ZNF630_uc004diw.2_5'UTR	NM_001037735	NP_001032824	Q2M218	ZN630_HUMAN	zinc finger protein 630	4					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|lung(1)	2																		---	---	---	---
HDAC6	10013	broad.mit.edu	37	X	48661088	48661088	+	5'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:48661088G>A	uc011mmi.1	+	2					HDAC6_uc004dkr.1_5'UTR|HDAC6_uc004dks.1_5'UTR|HDAC6_uc010nig.1_5'UTR|HDAC6_uc004dkt.1_5'UTR|HDAC6_uc004dku.3_5'UTR|HDAC6_uc011mmj.1_Intron|HDAC6_uc011mmk.1_5'Flank	NM_006044	NP_006035			histone deacetylase 6						aggresome assembly|cellular response to hydrogen peroxide|Hsp90 deacetylation|lysosome localization|macroautophagy|misfolded or incompletely synthesized protein catabolic process|negative regulation of proteolysis|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|polyubiquitinated misfolded protein transport|positive regulation of apoptosis|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of epithelial cell migration|positive regulation of receptor biosynthetic process|positive regulation of signal transduction|regulation of androgen receptor signaling pathway|regulation of receptor activity|response to growth factor stimulus|response to toxin|transcription, DNA-dependent|tubulin deacetylation	aggresome|caveola|cell leading edge|cytosol|histone deacetylase complex|microtubule associated complex|perinuclear region of cytoplasm	actin binding|alpha-tubulin binding|beta-catenin binding|dynein complex binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|Hsp90 protein binding|microtubule 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)|polyubiquitin binding|tau protein binding|tubulin deacetylase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4					Vorinostat(DB02546)													---	---	---	---
GRIPAP1	56850	broad.mit.edu	37	X	48832466	48832466	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:48832466C>T	uc004dly.1	-	24	2277	c.2242G>A	c.(2242-2244)GCC>ACC	p.A748T		NM_020137	NP_064522	Q4V328	GRAP1_HUMAN	GRIP1 associated protein 1 isoform 1	748						early endosome				breast(2)|kidney(1)	3																		---	---	---	---
PRICKLE3	4007	broad.mit.edu	37	X	49034537	49034537	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:49034537C>T	uc004dmy.1	-						PRICKLE3_uc011mmv.1_Intron|PRICKLE3_uc011mmw.1_Intron|PRICKLE3_uc011mmx.1_Intron|PRICKLE3_uc011mmy.1_Intron	NM_006150	NP_006141			LIM domain only 6								protein binding|zinc ion binding			breast(1)	1																		---	---	---	---
SHROOM4	57477	broad.mit.edu	37	X	50339874	50339874	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:50339874C>T	uc004dpe.2	-	9	4329	c.4303G>A	c.(4303-4305)GTG>ATG	p.V1435M	SHROOM4_uc004dpd.3_RNA	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	1435	Potential.|ASD2.				actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)																	---	---	---	---
BMP15	9210	broad.mit.edu	37	X	50659440	50659440	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:50659440G>A	uc011mnw.1	+	2	1012	c.1012G>A	c.(1012-1014)GCC>ACC	p.A338T		NM_005448	NP_005439	O95972	BMP15_HUMAN	bone morphogenetic protein 15 precursor	338					female gamete generation|granulosa cell development|ovarian follicle development	extracellular space	cytokine activity|growth factor activity			ovary(2)	2	Ovarian(276;0.236)																	---	---	---	---
Unknown	0	broad.mit.edu	37	X	51150634	51150634	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:51150634G>A	uc004dpj.2	+	1	868	c.766G>A	c.(766-768)GCT>ACT	p.A256T		NM_203407	NP_981952			hypothetical protein LOC340602																														---	---	---	---
GSPT2	23708	broad.mit.edu	37	X	51488078	51488078	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:51488078C>T	uc004dpl.2	+	1	1582	c.1356C>T	c.(1354-1356)TCC>TCT	p.S452S		NM_018094	NP_060564	Q8IYD1	ERF3B_HUMAN	peptide chain release factor 3	452					cell cycle|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|translational termination	cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1	Ovarian(276;0.236)																	---	---	---	---
KDM5C	8242	broad.mit.edu	37	X	53247024	53247024	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53247024C>T	uc004drz.2	-	4	1009	c.476G>A	c.(475-477)CGC>CAC	p.R159H	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.R92H|KDM5C_uc004dsa.2_Missense_Mutation_p.R159H	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	159	ARID.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18								N|F|S		clear cell renal carcinoma								---	---	---	---
IQSEC2	23096	broad.mit.edu	37	X	53280263	53280263	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53280263G>A	uc004dsd.2	-	5	1696	c.1495C>T	c.(1495-1497)CGG>TGG	p.R499W	IQSEC2_uc004dsc.2_Missense_Mutation_p.R294W	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	489					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3																		---	---	---	---
HUWE1	10075	broad.mit.edu	37	X	53569478	53569478	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53569478G>A	uc004dsp.2	-	74	11804	c.11402C>T	c.(11401-11403)GCG>GTG	p.A3801V	HUWE1_uc004dsn.2_Missense_Mutation_p.A2609V|HUWE1_uc004dsq.1_Missense_Mutation_p.A101V	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3801					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																		---	---	---	---
HUWE1	10075	broad.mit.edu	37	X	53641546	53641546	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53641546G>A	uc004dsp.2	-	23	2612	c.2210C>T	c.(2209-2211)GCC>GTC	p.A737V		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	737					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																		---	---	---	---
PHF8	23133	broad.mit.edu	37	X	54014219	54014219	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54014219G>A	uc004dsu.2	-	15	2070	c.1997C>T	c.(1996-1998)GCG>GTG	p.A666V	PHF8_uc004dst.2_Missense_Mutation_p.A630V|PHF8_uc004dsv.2_Missense_Mutation_p.A496V|PHF8_uc004dsw.2_Missense_Mutation_p.A529V|PHF8_uc004dsx.2_Missense_Mutation_p.A394V|PHF8_uc004dsy.2_Missense_Mutation_p.A630V	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	666					brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3																		---	---	---	---
GNL3L	54552	broad.mit.edu	37	X	54584945	54584945	+	Missense_Mutation	SNP	G	A	A	rs145061026		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54584945G>A	uc004dth.1	+	15	1662	c.1523G>A	c.(1522-1524)CGC>CAC	p.R508H	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	508					ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1																		---	---	---	---
ITIH5L	347365	broad.mit.edu	37	X	54781451	54781451	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54781451T>C	uc004dtj.2	-	9	3231	c.3201A>G	c.(3199-3201)AAA>AAG	p.K1067K		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	1067					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6																		---	---	---	---
TRO	7216	broad.mit.edu	37	X	54949812	54949812	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54949812G>A	uc004dtq.2	+	3	954	c.847G>A	c.(847-849)GCA>ACA	p.A283T	TRO_uc011moj.1_Missense_Mutation_p.A226T|TRO_uc004dts.2_Missense_Mutation_p.A283T|TRO_uc004dtr.2_Missense_Mutation_p.A283T|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Intron|TRO_uc004dtw.2_Intron|TRO_uc004dtx.2_5'Flank	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	283					embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1																		---	---	---	---
USP51	158880	broad.mit.edu	37	X	55514472	55514472	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:55514472C>T	uc004dun.1	-	2	980	c.901G>A	c.(901-903)GCC>ACC	p.A301T	USP51_uc011moo.1_Intron	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	301					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3																		---	---	---	---
AR	367	broad.mit.edu	37	X	66942787	66942787	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:66942787C>T	uc004dwu.1	+	7	3683	c.2568C>T	c.(2566-2568)CGC>CGT	p.R856R	AR_uc004dwv.1_Silent_p.R324R	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	855	Ligand-binding.|Interaction with MYST2.		R -> C (in AIS).|R -> H (in AIS; strongly reduced transcription activation).		cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)									Androgen_Insensitivity_Syndrome				---	---	---	---
PJA1	64219	broad.mit.edu	37	X	68382185	68382185	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:68382185G>A	uc004dxh.2	-	2	1183	c.897C>T	c.(895-897)GGC>GGT	p.G299G	PJA1_uc011mpi.1_Silent_p.G17G|PJA1_uc004dxg.2_Silent_p.G111G|PJA1_uc004dxi.2_Silent_p.G244G	NM_145119	NP_660095	Q8NG27	PJA1_HUMAN	praja 1 isoform a	299							zinc ion binding				0																		---	---	---	---
P2RY4	5030	broad.mit.edu	37	X	69479032	69479032	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:69479032C>T	uc004dxz.1	-	1	623	c.443G>A	c.(442-444)CGC>CAC	p.R148H		NM_002565	NP_002556	P51582	P2RY4_HUMAN	pyrimidinergic receptor P2Y4	148	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1																		---	---	---	---
KIF4A	24137	broad.mit.edu	37	X	69615826	69615826	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:69615826C>T	uc004dyg.2	+	22	2543	c.2416C>T	c.(2416-2418)CGT>TGT	p.R806C	KIF4A_uc010nkw.2_Missense_Mutation_p.R806C	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	806	Potential.|Interaction with PRC1.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4																		---	---	---	---
SLC7A3	84889	broad.mit.edu	37	X	70149776	70149776	+	Silent	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:70149776A>C	uc004dyn.2	-	2	230	c.72T>G	c.(70-72)GCT>GCG	p.A24A	SLC7A3_uc004dyo.2_Silent_p.A24A	NM_032803	NP_116192	Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid	24	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	integral to membrane|plasma membrane				ovary(1)|kidney(1)	2	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)													---	---	---	---
TAF1	6872	broad.mit.edu	37	X	70598858	70598858	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:70598858C>T	uc004dzu.3	+	8	1385	c.1334C>T	c.(1333-1335)GCG>GTG	p.A445V	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.A466V	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	445					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)																---	---	---	---
TAF1	6872	broad.mit.edu	37	X	70603863	70603863	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:70603863C>T	uc004dzu.3	+	13	2047	c.1996C>T	c.(1996-1998)CGC>TGC	p.R666C	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.R687C	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	666					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)																---	---	---	---
OGT	8473	broad.mit.edu	37	X	70779183	70779183	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:70779183C>T	uc004eaa.1	+	13	1886	c.1669C>T	c.(1669-1671)CGT>TGT	p.R557C	BCYRN1_uc011mpt.1_Intron|OGT_uc004eab.1_Missense_Mutation_p.R547C|OGT_uc004eac.2_Missense_Mutation_p.R418C|OGT_uc004ead.2_Missense_Mutation_p.R176C	NM_181672	NP_858058	O15294	OGT1_HUMAN	O-linked GlcNAc transferase isoform 1	557					cellular response to retinoic acid|positive regulation of granulocyte differentiation|positive regulation of histone H3-K4 methylation|positive regulation of proteolysis|protein O-linked glycosylation|signal transduction	cytosol|MLL5-L complex	enzyme activator activity|protein binding|protein N-acetylglucosaminyltransferase activity			ovary(3)|kidney(1)|pancreas(1)	5	Renal(35;0.156)																	---	---	---	---
ERCC6L	54821	broad.mit.edu	37	X	71425358	71425358	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:71425358T>C	uc004eaq.1	-	2	3356	c.3259A>G	c.(3259-3261)ATG>GTG	p.M1087V	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Missense_Mutation_p.M964V	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	1087					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)																	---	---	---	---
CDX4	1046	broad.mit.edu	37	X	72667389	72667389	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:72667389C>T	uc011mqk.1	+	1	300	c.300C>T	c.(298-300)GAC>GAT	p.D100D		NM_005193	NP_005184	O14627	CDX4_HUMAN	caudal type homeobox 4	100						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(35;0.156)																	---	---	---	---
XIST	7503	broad.mit.edu	37	X	73062792	73062792	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73062792C>T	uc004ebm.1	-	1		c.9797G>A				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0																		---	---	---	---
XIST	7503	broad.mit.edu	37	X	73066391	73066391	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73066391C>T	uc004ebm.1	-	1		c.6198G>A				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0																		---	---	---	---
XIST	7503	broad.mit.edu	37	X	73068198	73068198	+	RNA	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73068198A>G	uc004ebm.1	-	1		c.4391T>C				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0																		---	---	---	---
XIST	7503	broad.mit.edu	37	X	73068975	73068975	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73068975C>T	uc004ebm.1	-	1		c.3614G>A				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0																		---	---	---	---
ATP7A	538	broad.mit.edu	37	X	77243895	77243895	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:77243895C>T	uc004ecx.3	+	3	438	c.278C>T	c.(277-279)ACG>ATG	p.T93M	ATP7A_uc004ecw.2_Missense_Mutation_p.T93M	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	93	Cytoplasmic (Potential).				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																		---	---	---	---
HDX	139324	broad.mit.edu	37	X	83724399	83724399	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:83724399T>C	uc004eek.1	-	3	441	c.332A>G	c.(331-333)TAC>TGC	p.Y111C	HDX_uc011mqv.1_Missense_Mutation_p.Y111C|HDX_uc004eel.1_Missense_Mutation_p.Y53C	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	111						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2																		---	---	---	---
ZNF711	7552	broad.mit.edu	37	X	84523321	84523321	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:84523321G>A	uc004eeo.2	+	7	1285	c.938G>A	c.(937-939)CGA>CAA	p.R313Q	ZNF711_uc004eep.2_Missense_Mutation_p.R313Q|ZNF711_uc004eeq.2_Missense_Mutation_p.R359Q|ZNF711_uc011mqy.1_5'UTR	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	313					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4																		---	---	---	---
CHM	1121	broad.mit.edu	37	X	85149202	85149202	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:85149202T>C	uc004eet.2	-	12	1531	c.1501A>G	c.(1501-1503)AAA>GAA	p.K501E	CHM_uc011mqz.1_Missense_Mutation_p.K353E	NM_000390	NP_000381	P24386	RAE1_HUMAN	choroideremia isoform a	501					intracellular protein transport|protein geranylgeranylation|response to stimulus|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(1)	1		all_lung(315;5.41e-06)																---	---	---	---
NAP1L3	4675	broad.mit.edu	37	X	92927519	92927519	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:92927519T>C	uc004efq.2	-	1	1090	c.785A>G	c.(784-786)GAT>GGT	p.D262G	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	262					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2																		---	---	---	---
SYTL4	94121	broad.mit.edu	37	X	99942125	99942125	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:99942125C>T	uc004egd.3	-	13	1479	c.1123G>A	c.(1123-1125)GTC>ATC	p.V375I	SYTL4_uc010nnb.2_Missense_Mutation_p.V47I|SYTL4_uc010nnc.2_Missense_Mutation_p.V375I|SYTL4_uc004ege.3_Missense_Mutation_p.V375I|SYTL4_uc004egf.3_Missense_Mutation_p.V375I|SYTL4_uc004egg.3_3'UTR	NM_080737	NP_542775	Q96C24	SYTL4_HUMAN	synaptotagmin-like 4	375	C2 1.				exocytosis|intracellular protein transport	extrinsic to membrane|plasma membrane|synaptic vesicle|transport vesicle membrane	neurexin binding|phospholipid binding|Rab GTPase binding|transporter activity|zinc ion binding			ovary(2)	2					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)													---	---	---	---
NOX1	27035	broad.mit.edu	37	X	100104750	100104750	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:100104750C>T	uc004egj.2	-						NOX1_uc004egl.3_Intron|NOX1_uc010nne.2_Intron	NM_007052	NP_008983			NADPH oxidase 1 isoform long						angiogenesis|cell migration|electron transport chain|FADH2 metabolic process|hydrogen peroxide metabolic process|inflammatory response|intracellular pH elevation|positive regulation of integrin biosynthetic process|positive regulation of smooth muscle cell proliferation|positive regulation vascular endothelial growth factor production|respiratory burst|response to pH|signal transduction|superoxide anion generation	cell junction|early endosome|invadopodium membrane|NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|Rac GTPase binding|superoxide-generating NADPH oxidase activity|voltage-gated proton channel activity			ovary(1)	1																		---	---	---	---
NOX1	27035	broad.mit.edu	37	X	100105262	100105262	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:100105262C>T	uc004egj.2	-	9	1217	c.1011G>A	c.(1009-1011)TGG>TGA	p.W337*	NOX1_uc004egl.3_Nonsense_Mutation_p.W337*|NOX1_uc010nne.2_Nonsense_Mutation_p.W300*	NM_007052	NP_008983	Q9Y5S8	NOX1_HUMAN	NADPH oxidase 1 isoform long	337	FAD-binding FR-type.|Extracellular (Potential).				angiogenesis|cell migration|electron transport chain|FADH2 metabolic process|hydrogen peroxide metabolic process|inflammatory response|intracellular pH elevation|positive regulation of integrin biosynthetic process|positive regulation of smooth muscle cell proliferation|positive regulation vascular endothelial growth factor production|respiratory burst|response to pH|signal transduction|superoxide anion generation	cell junction|early endosome|invadopodium membrane|NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|Rac GTPase binding|superoxide-generating NADPH oxidase activity|voltage-gated proton channel activity			ovary(1)	1																		---	---	---	---
TRMT2B	79979	broad.mit.edu	37	X	100297067	100297067	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:100297067C>A	uc004egq.2	-	2	511	c.212G>T	c.(211-213)AGC>ATC	p.S71I	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Missense_Mutation_p.S71I|TRMT2B_uc004egs.2_Missense_Mutation_p.S71I|TRMT2B_uc004egt.2_Missense_Mutation_p.S71I|TRMT2B_uc004egu.2_Intron|TRMT2B_uc004egv.2_Missense_Mutation_p.S71I	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	71							tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1																		---	---	---	---
DRP2	1821	broad.mit.edu	37	X	100505442	100505442	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:100505442G>A	uc004egz.2	+	15	1940	c.1571G>A	c.(1570-1572)AGC>AAC	p.S524N	DRP2_uc011mrh.1_Missense_Mutation_p.S446N	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	524					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2																		---	---	---	---
NXF3	56000	broad.mit.edu	37	X	102339721	102339721	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:102339721C>T	uc004eju.2	-	2	190	c.119G>A	c.(118-120)GGC>GAC	p.G40D	NXF3_uc010noi.1_5'Flank|NXF3_uc011mrw.1_Missense_Mutation_p.G40D|NXF3_uc011mrx.1_Intron	NM_022052	NP_071335	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3	40						cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3																		---	---	---	---
NRK	203447	broad.mit.edu	37	X	105178303	105178303	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:105178303G>A	uc004emd.2	+	20	3669	c.3366G>A	c.(3364-3366)CCG>CCA	p.P1122P	NRK_uc010npc.1_Silent_p.P790P	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1122							ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14															HNSCC(51;0.14)			---	---	---	---
MUM1L1	139221	broad.mit.edu	37	X	105450135	105450135	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:105450135C>T	uc004emf.1	+	4	1359	c.710C>T	c.(709-711)GCT>GTT	p.A237V	MUM1L1_uc004emg.1_Missense_Mutation_p.A237V	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	237										ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
PSMD10	5716	broad.mit.edu	37	X	107331059	107331059	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:107331059G>A	uc004enp.1	-	4	482	c.384C>T	c.(382-384)GGC>GGT	p.G128G	PSMD10_uc004enq.1_Silent_p.G128G|PSMD10_uc010nph.1_Silent_p.G79G	NM_002814	NP_002805	O75832	PSD10_HUMAN	proteasome 26S non-ATPase subunit 10 isoform 1	128	ANK 4.|Interaction with RELA.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cytoplasmic sequestering of NF-kappaB|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 apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of MAPKKK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of release of cytochrome c from mitochondria|negative regulation of transcription from RNA polymerase II promoter|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of cell growth|positive regulation of cyclin-dependent protein kinase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|proteasome regulatory particle assembly|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus|proteasome regulatory particle	transcription factor binding			ovary(1)	1																		---	---	---	---
COL4A6	1288	broad.mit.edu	37	X	107422584	107422584	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:107422584C>T	uc004enw.3	-	26	2322	c.2219G>A	c.(2218-2220)AGT>AAT	p.S740N	COL4A6_uc004env.3_Missense_Mutation_p.S739N|COL4A6_uc011msn.1_Missense_Mutation_p.S739N|COL4A6_uc010npk.2_Missense_Mutation_p.S739N	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	740	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				---	---	---	---
GUCY2F	2986	broad.mit.edu	37	X	108691393	108691393	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:108691393G>A	uc004eod.3	-	6	1750	c.1474C>T	c.(1474-1476)CGT>TGT	p.R492C	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	492	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8																		---	---	---	---
GUCY2F	2986	broad.mit.edu	37	X	108719095	108719095	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:108719095T>C	uc004eod.3	-	2	347	c.71A>G	c.(70-72)CAC>CGC	p.H24R	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	24					intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8																OREG0019905	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
ACSL4	2182	broad.mit.edu	37	X	108887403	108887403	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:108887403C>T	uc004eoi.2	-	17	2496	c.1991G>A	c.(1990-1992)CGA>CAA	p.R664Q	ACSL4_uc004eoj.2_Missense_Mutation_p.R623Q|ACSL4_uc004eok.2_Missense_Mutation_p.R623Q	NM_022977	NP_075266	O60488	ACSL4_HUMAN	acyl-CoA synthetase long-chain family member 4	664	Cytoplasmic (Potential).				fatty acid metabolic process|learning or memory|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(1)|lung(1)|ovary(1)	3					Icosapent(DB00159)|Troglitazone(DB00197)													---	---	---	---
RGAG1	57529	broad.mit.edu	37	X	109695400	109695400	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:109695400G>T	uc004eor.1	+	3	1801	c.1555G>T	c.(1555-1557)GCC>TCC	p.A519S	RGAG1_uc011msr.1_Missense_Mutation_p.A519S	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	519										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4																		---	---	---	---
RGAG1	57529	broad.mit.edu	37	X	109696693	109696693	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:109696693T>C	uc004eor.1	+	3	3094	c.2848T>C	c.(2848-2850)TCC>CCC	p.S950P	RGAG1_uc011msr.1_Missense_Mutation_p.S950P	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	950										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4																		---	---	---	---
ZCCHC16	340595	broad.mit.edu	37	X	111698834	111698834	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:111698834G>A	uc004epo.1	+	3	1319	c.878G>A	c.(877-879)TGC>TAC	p.C293Y		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	293	CCHC-type.						nucleic acid binding|zinc ion binding			ovary(1)	1																		---	---	---	---
LUZP4	51213	broad.mit.edu	37	X	114536676	114536676	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:114536676C>T	uc004eqa.2	+	2	245	c.211C>T	c.(211-213)CGC>TGC	p.R71C	LUZP4_uc004eqb.2_Silent_p.I28I	NM_016383	NP_057467	Q9P127	LUZP4_HUMAN	leucine zipper protein 4	71						nucleus				ovary(2)	2																		---	---	---	---
LUZP4	51213	broad.mit.edu	37	X	114537928	114537928	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:114537928C>T	uc004eqa.2	+	3	321	c.287C>T	c.(286-288)CCT>CTT	p.P96L	LUZP4_uc004eqb.2_Intron	NM_016383	NP_057467	Q9P127	LUZP4_HUMAN	leucine zipper protein 4	96						nucleus				ovary(2)	2																		---	---	---	---
LUZP4	51213	broad.mit.edu	37	X	114540908	114540908	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:114540908C>T	uc004eqa.2	+	4	515	c.481C>T	c.(481-483)CGA>TGA	p.R161*	LUZP4_uc004eqb.2_Nonsense_Mutation_p.R79*	NM_016383	NP_057467	Q9P127	LUZP4_HUMAN	leucine zipper protein 4	161						nucleus				ovary(2)	2																		---	---	---	---
PLS3	5358	broad.mit.edu	37	X	114877715	114877715	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:114877715A>G	uc004eqd.2	+	10	1468	c.1078A>G	c.(1078-1080)AGT>GGT	p.S360G	PLS3_uc010nqg.2_Missense_Mutation_p.S142G|PLS3_uc011mtf.1_Missense_Mutation_p.S347G|PLS3_uc004eqe.2_Missense_Mutation_p.S360G|PLS3_uc011mtg.1_Missense_Mutation_p.S333G|PLS3_uc011mth.1_Missense_Mutation_p.S315G|PLS3_uc011mti.1_Missense_Mutation_p.S36G|PLS3_uc011mtj.1_Intron|PLS3_uc011mtk.1_Missense_Mutation_p.S21G|PLS3_uc011mtl.1_RNA	NM_005032	NP_005023	P13797	PLST_HUMAN	plastin 3	360	CH 2.|Actin-binding 1.					cytoplasm	actin binding|calcium ion binding			lung(1)|breast(1)	2																		---	---	---	---
AGTR2	186	broad.mit.edu	37	X	115303556	115303556	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:115303556C>T	uc004eqh.3	+	3	230	c.23C>T	c.(22-24)GCC>GTC	p.A8V		NM_000686	NP_000677	P50052	AGTR2_HUMAN	angiotensin II receptor, type 2	8	Extracellular (Potential).				behavior|blood vessel remodeling|brain development|G-protein signaling, coupled to cGMP nucleotide second messenger|intracellular protein kinase cascade|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of heart rate|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of nitric-oxide synthase activity|positive regulation of phosphoprotein phosphatase activity|positive regulation of vasodilation|regulation of systemic arterial blood pressure by circulatory renin-angiotensin		angiotensin type II receptor activity|receptor antagonist activity			ovary(2)|lung(1)	3																		---	---	---	---
KLHL13	90293	broad.mit.edu	37	X	117032956	117032956	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:117032956C>T	uc004eql.2	-	7	1945	c.1883G>A	c.(1882-1884)GGC>GAC	p.G628D	KLHL13_uc004eqk.2_Missense_Mutation_p.G577D|KLHL13_uc011mtn.1_Missense_Mutation_p.G468D|KLHL13_uc011mto.1_Missense_Mutation_p.G622D|KLHL13_uc011mtp.1_Missense_Mutation_p.G630D|KLHL13_uc004eqm.2_Missense_Mutation_p.G577D|KLHL13_uc011mtq.1_Missense_Mutation_p.G612D	NM_033495	NP_277030	Q9P2N7	KLH13_HUMAN	kelch-like 13	628	Kelch 6.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex				kidney(1)|skin(1)	2																		---	---	---	---
DOCK11	139818	broad.mit.edu	37	X	117722426	117722426	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:117722426C>T	uc004eqp.2	+	18	2094	c.2031C>T	c.(2029-2031)GAC>GAT	p.D677D	DOCK11_uc004eqq.2_Silent_p.D443D	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	677	DHR-1.				blood coagulation	cytosol	GTP binding			ovary(3)	3																		---	---	---	---
DOCK11	139818	broad.mit.edu	37	X	117773400	117773400	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:117773400T>C	uc004eqp.2	+	38	4067	c.4004T>C	c.(4003-4005)GTG>GCG	p.V1335A	DOCK11_uc004eqq.2_Missense_Mutation_p.V1114A	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1335					blood coagulation	cytosol	GTP binding			ovary(3)	3																		---	---	---	---
NKRF	55922	broad.mit.edu	37	X	118723342	118723342	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:118723342G>A	uc004erq.2	-	2	2699	c.2046C>T	c.(2044-2046)TAC>TAT	p.Y682Y	NKRF_uc004err.2_Silent_p.Y682Y	NM_017544	NP_060014	O15226	NKRF_HUMAN	transcription factor NRF	682					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|double-stranded RNA binding			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
FAM70A	55026	broad.mit.edu	37	X	119419030	119419030	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:119419030C>T	uc004eso.3	-	7	763	c.536G>A	c.(535-537)CGC>CAC	p.R179H	FAM70A_uc004esp.3_Missense_Mutation_p.R155H|FAM70A_uc010nqo.2_Intron	NM_017938	NP_060408	Q5JRV8	FA70A_HUMAN	hypothetical protein LOC55026 isoform 1	179						integral to membrane				lung(1)|breast(1)	2																		---	---	---	---
ATP1B4	23439	broad.mit.edu	37	X	119504981	119504981	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:119504981G>A	uc004esr.2	+	4	562	c.478G>A	c.(478-480)GCC>ACC	p.A160T	ATP1B4_uc004esq.2_Missense_Mutation_p.A156T|ATP1B4_uc011mtx.1_Missense_Mutation_p.A125T|ATP1B4_uc011mty.1_Missense_Mutation_p.A117T	NM_001142447	NP_001135919	Q9UN42	AT1B4_HUMAN	ATPase, (Na+)/K+ transporting, beta 4	160	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																		---	---	---	---
C1GALT1C1	29071	broad.mit.edu	37	X	119760637	119760637	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:119760637C>T	uc004esy.2	-	3	732	c.385G>A	c.(385-387)GCC>ACC	p.A129T	C1GALT1C1_uc004esz.2_Missense_Mutation_p.A129T	NM_152692	NP_689905	Q96EU7	C1GLC_HUMAN	C1GALT1-specific chaperone 1	129	Lumenal (Potential).					integral to membrane					0																		---	---	---	---
GRIA3	2892	broad.mit.edu	37	X	122537363	122537363	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:122537363C>T	uc004etq.3	+	10	1579	c.1286C>T	c.(1285-1287)ACC>ATC	p.T429I	GRIA3_uc004etr.3_Missense_Mutation_p.T429I|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.T413I	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	429	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)													---	---	---	---
GRIA3	2892	broad.mit.edu	37	X	122561998	122561998	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:122561998C>T	uc004etq.3	+						GRIA3_uc004etr.3_Intron|GRIA3_uc004ets.3_Intron	NM_007325	NP_015564			glutamate receptor, ionotrophic, AMPA 3 isoform						glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)													---	---	---	---
THOC2	57187	broad.mit.edu	37	X	122757719	122757719	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:122757719C>G	uc004etu.2	-	28	3454	c.3422G>C	c.(3421-3423)GGT>GCT	p.G1141A	THOC2_uc010nqt.1_5'Flank|THOC2_uc004etw.1_5'Flank	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1141					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3																		---	---	---	---
STAG2	10735	broad.mit.edu	37	X	123185030	123185030	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:123185030G>A	uc004etz.3	+	11	1416	c.1077G>A	c.(1075-1077)GAG>GAA	p.E359E	STAG2_uc004eua.2_Silent_p.E359E|STAG2_uc004eub.2_Silent_p.E359E|STAG2_uc004euc.2_Silent_p.E359E|STAG2_uc004eud.2_Silent_p.E359E|STAG2_uc004eue.2_Silent_p.E359E	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	359	SCD.				cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5																		---	---	---	---
STAG2	10735	broad.mit.edu	37	X	123229279	123229279	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:123229279G>A	uc004etz.3	+	32	3991	c.3652G>A	c.(3652-3654)GCT>ACT	p.A1218T	STAG2_uc004eua.2_Missense_Mutation_p.A1255T|STAG2_uc004eub.2_Missense_Mutation_p.A1218T|STAG2_uc004euc.2_Missense_Mutation_p.A1255T|STAG2_uc004eud.2_Missense_Mutation_p.A1218T|STAG2_uc004eue.2_Missense_Mutation_p.A1218T	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	1218					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5																		---	---	---	---
ODZ1	10178	broad.mit.edu	37	X	123514894	123514894	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:123514894G>A	uc004euj.2	-	31	7734	c.7670C>T	c.(7669-7671)GCC>GTC	p.A2557V	ODZ1_uc011muj.1_Missense_Mutation_p.A2563V|ODZ1_uc010nqy.2_Missense_Mutation_p.A2564V	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2557	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23																		---	---	---	---
ODZ1	10178	broad.mit.edu	37	X	123517988	123517988	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:123517988C>T	uc004euj.2	-	29	6836	c.6772G>A	c.(6772-6774)GCG>ACG	p.A2258T	ODZ1_uc011muj.1_Missense_Mutation_p.A2264T|ODZ1_uc010nqy.2_Missense_Mutation_p.A2265T	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2258	YD 21.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding	p.A2260T(1)		ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23																		---	---	---	---
ODZ1	10178	broad.mit.edu	37	X	123518707	123518707	+	Intron	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:123518707G>A	uc004euj.2	-						ODZ1_uc011muj.1_Intron|ODZ1_uc010nqy.2_Intron	NM_014253	NP_055068			odz, odd Oz/ten-m homolog 1 isoform 3						immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23																		---	---	---	---
ODZ1	10178	broad.mit.edu	37	X	123539084	123539084	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:123539084C>T	uc004euj.2	-	26	5231	c.5167G>A	c.(5167-5169)GAT>AAT	p.D1723N	ODZ1_uc011muj.1_Missense_Mutation_p.D1729N|ODZ1_uc010nqy.2_Missense_Mutation_p.D1730N	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1723	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23																		---	---	---	---
ODZ1	10178	broad.mit.edu	37	X	123556366	123556366	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:123556366G>T	uc004euj.2	-	23	4270	c.4206C>A	c.(4204-4206)CGC>CGA	p.R1402R	ODZ1_uc011muj.1_Silent_p.R1408R|ODZ1_uc010nqy.2_Silent_p.R1409R	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1402	NHL 3.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23																		---	---	---	---
DCAF12L2	340578	broad.mit.edu	37	X	125299778	125299778	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:125299778G>A	uc004euk.1	-	1	157	c.130C>T	c.(130-132)CGG>TGG	p.R44W		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	44										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7																		---	---	---	---
DCAF12L1	139170	broad.mit.edu	37	X	125686328	125686328	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:125686328C>A	uc004eul.2	-	1	515	c.264G>T	c.(262-264)ACG>ACT	p.T88T		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	88										skin(3)|ovary(1)	4																		---	---	---	---
OCRL	4952	broad.mit.edu	37	X	128696607	128696607	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:128696607T>C	uc004euq.2	+	12	1253	c.1088T>C	c.(1087-1089)GTA>GCA	p.V363A	OCRL_uc004eur.2_Missense_Mutation_p.V363A	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	363					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4																		---	---	---	---
OCRL	4952	broad.mit.edu	37	X	128718327	128718327	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:128718327G>A	uc004euq.2	+	19	2287	c.2122G>A	c.(2122-2124)GAC>AAC	p.D708N	OCRL_uc004eur.2_Intron	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	708					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4																		---	---	---	---
AIFM1	9131	broad.mit.edu	37	X	129267278	129267278	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:129267278C>T	uc004evg.2	-						AIFM1_uc011mur.1_Intron|AIFM1_uc011mus.1_Intron|AIFM1_uc004evh.2_Intron|AIFM1_uc004evi.2_Intron|AIFM1_uc004evk.2_Intron	NM_004208	NP_004199			programmed cell death 8 isoform 1						activation of caspase activity|apoptosis in response to endoplasmic reticulum stress|cell redox homeostasis|DNA damage response, signal transduction resulting in induction of apoptosis|DNA fragmentation involved in apoptotic nuclear change	cytosol|mitochondrial inner membrane|mitochondrial intermembrane space|nucleus|perinuclear region of cytoplasm	DNA binding|electron carrier activity|flavin adenine dinucleotide binding|oxidoreductase activity|protein binding			ovary(4)|central_nervous_system(1)	5																		---	---	---	---
RBMX2	51634	broad.mit.edu	37	X	129546424	129546424	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:129546424C>T	uc004evt.2	+	6	635	c.571C>T	c.(571-573)CGC>TGC	p.R191C		NM_016024	NP_057108	Q9Y388	RBMX2_HUMAN	RNA binding motif protein, X-linked 2	191	Lys-rich.						nucleotide binding|RNA binding			breast(3)|ovary(1)	4																		---	---	---	---
RBMX2	51634	broad.mit.edu	37	X	129546773	129546773	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:129546773G>A	uc004evt.2	+	6	984	c.920G>A	c.(919-921)CGC>CAC	p.R307H		NM_016024	NP_057108	Q9Y388	RBMX2_HUMAN	RNA binding motif protein, X-linked 2	307	Arg-rich.			SSDAHSSWYNGRSEGRSYRSRSRSRDKSHRHKRARRSRERE SSNPSDRWRH -> LQMHILAGIMGVLKGVVIEVEVGAEIN PIGIKGPDAPGRGVLRIPVTVGVTEDFSCTVDLEIIMFFKC SQIQLGGYYFCI (in Ref. 1; AAD34074).			nucleotide binding|RNA binding			breast(3)|ovary(1)	4																		---	---	---	---
IGSF1	3547	broad.mit.edu	37	X	130415705	130415705	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:130415705C>T	uc004ewd.2	-	8	1698	c.1460G>A	c.(1459-1461)CGC>CAC	p.R487H	IGSF1_uc004ewe.3_Missense_Mutation_p.R476H|IGSF1_uc004ewf.2_Missense_Mutation_p.R467H	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	487	Extracellular (Potential).|Ig-like C2-type 5.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5																		---	---	---	---
ZNF75D	7626	broad.mit.edu	37	X	134421741	134421741	+	Silent	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:134421741A>C	uc004eyp.2	-	7	3516	c.861T>G	c.(859-861)CCT>CCG	p.P287P	ZNF75D_uc004eym.2_Intron|ZNF75D_uc004eyn.2_Silent_p.P66P|ZNF75D_uc004eyo.2_Silent_p.P192P	NM_007131	NP_009062	P51815	ZN75D_HUMAN	zinc finger protein 75	287	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0																		---	---	---	---
HTATSF1	27336	broad.mit.edu	37	X	135593613	135593613	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:135593613T>C	uc004ezw.2	+	10	2131	c.1709T>C	c.(1708-1710)CTC>CCC	p.L570P	HTATSF1_uc004ezx.2_Missense_Mutation_p.L570P	NM_001163280	NP_001156752	O43719	HTSF1_HUMAN	HIV-1 Tat specific factor 1	570	Asp/Glu-rich (acidic).|Mediates interaction with the P-TEFb complex.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|viral genome replication	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
F9	2158	broad.mit.edu	37	X	138644001	138644001	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:138644001C>T	uc004fas.1	+	8	1186	c.1157C>T	c.(1156-1158)ACA>ATA	p.T386I	F9_uc004fat.1_Missense_Mutation_p.T348I	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	386	Peptidase S1.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)													---	---	---	---
ATP11C	286410	broad.mit.edu	37	X	138844225	138844225	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:138844225G>A	uc004faz.2	-	22	2643	c.2544C>T	c.(2542-2544)AGC>AGT	p.S848S	ATP11C_uc004fax.2_Silent_p.S56S|ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Silent_p.S848S	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	848	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
MAGEC1	9947	broad.mit.edu	37	X	140993326	140993326	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:140993326G>A	uc004fbt.2	+	4	422	c.136G>A	c.(136-138)GAC>AAC	p.D46N	MAGEC1_uc010nsl.1_5'UTR	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	46							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)														HNSCC(15;0.026)			---	---	---	---
MIR891A	100126341	broad.mit.edu	37	X	145109366	145109366	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:145109366C>T	hsa-mir-891a|MI0005524	-			c.25C>T																				0																		---	---	---	---
IDS	3423	broad.mit.edu	37	X	148564576	148564576	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:148564576A>G	uc011mxe.1	-	9	1552	c.1354T>C	c.(1354-1356)TAC>CAC	p.Y452H	IDS_uc011mxd.1_Missense_Mutation_p.Y55H|IDS_uc011mxf.1_Missense_Mutation_p.Y362H|IDS_uc011mxg.1_Missense_Mutation_p.Y241H|IDS_uc010nsu.1_Missense_Mutation_p.Y62H|IDS_uc004fcw.3_Missense_Mutation_p.Y241H	NM_000202	NP_000193	P22304	IDS_HUMAN	iduronate-2-sulfatase isoform a precursor	452						lysosome	iduronate-2-sulfatase activity|metal ion binding				0	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)																	---	---	---	---
MAGEA8	4107	broad.mit.edu	37	X	149013852	149013852	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:149013852C>A	uc004fdw.1	+	3	1021	c.806C>A	c.(805-807)CCT>CAT	p.P269H		NM_005364	NP_005355	P43361	MAGA8_HUMAN	melanoma antigen family A, 8	269	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
MTMR1	8776	broad.mit.edu	37	X	149901140	149901140	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:149901140G>A	uc004fei.2	+	9	1129	c.994G>A	c.(994-996)GCA>ACA	p.A332T	MTMR1_uc011mya.1_Missense_Mutation_p.A238T|MTMR1_uc004feg.1_Missense_Mutation_p.A332T|MTMR1_uc004feh.1_Missense_Mutation_p.A340T|MTMR1_uc004fej.2_RNA|MTMR1_uc010ntf.2_RNA	NM_003828	NP_003819	Q13613	MTMR1_HUMAN	myotubularin-related protein 1	332	Myotubularin phosphatase.					plasma membrane	protein tyrosine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
GABRE	2564	broad.mit.edu	37	X	151123859	151123859	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:151123859G>T	uc004ffi.2	-	8	1172	c.1118C>A	c.(1117-1119)GCT>GAT	p.A373D	GABRE_uc011myd.1_RNA	NM_004961	NP_004952	P78334	GBRE_HUMAN	gamma-aminobutyric acid (GABA) A receptor,	373	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
GABRA3	2556	broad.mit.edu	37	X	151358341	151358341	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:151358341G>A	uc010ntk.1	-	9	1244	c.1004C>T	c.(1003-1005)GCG>GTG	p.A335V		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	335					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)													---	---	---	---
GABRQ	55879	broad.mit.edu	37	X	151821085	151821085	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:151821085C>T	uc004ffp.1	+	9	1260	c.1240C>T	c.(1240-1242)CTC>TTC	p.L414F		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	414						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
CETN2	1069	broad.mit.edu	37	X	151998218	151998218	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:151998218C>T	uc004fgq.2	-	2	137	c.90G>A	c.(88-90)AAG>AAA	p.K30K	CETN2_uc004fgr.2_5'UTR|NSDHL_uc004fgt.1_5'Flank|NSDHL_uc004fgs.1_5'Flank	NM_004344	NP_004335	P41208	CETN2_HUMAN	caltractin	30	EF-hand 1.				cell division|centriole replication|G2/M transition of mitotic cell cycle|mitosis|nucleotide-excision repair|regulation of cytokinesis	centriole|cytosol|XPC complex	ATP binding|ATP-dependent helicase activity|calcium ion binding|nucleic acid binding				0	Acute lymphoblastic leukemia(192;6.56e-05)												Direct_reversal_of_damage|NER					---	---	---	---
NSDHL	50814	broad.mit.edu	37	X	152034374	152034374	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:152034374C>T	uc004fgt.1	+	7	816	c.555C>T	c.(553-555)GGC>GGT	p.G185G	NSDHL_uc004fgs.1_Silent_p.G185G	NM_001129765	NP_001123237	Q15738	NSDHL_HUMAN	NAD(P) dependent steroid dehydrogenase-like	185					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity|sterol-4-alpha-carboxylate 3-dehydrogenase (decarboxylating) activity				0	Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)													---	---	---	---
ZNF275	10838	broad.mit.edu	37	X	152613249	152613249	+	3'UTR	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:152613249G>A	uc004fhg.1	+	5					ZNF275_uc011mym.1_Missense_Mutation_p.R369H|ZNF275_uc011myn.1_Missense_Mutation_p.R306H					SubName: Full=cDNA FLJ16723 fis, clone UTERU3004418, highly similar to Zinc finger protein 275; SubName: Full=Putative uncharacterized protein ZNF275;							intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
ABCD1	215	broad.mit.edu	37	X	153005703	153005703	+	Intron	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153005703C>T	uc004fif.2	+						ABCD1_uc004fig.2_Intron|ABCD1_uc004fih.2_5'Flank	NM_000033	NP_000024			ATP-binding cassette, sub-family D (ALD), member						fatty acid beta-oxidation using acyl-CoA oxidase|peroxisomal membrane transport|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|identical protein binding|peroxisomal fatty-acyl-CoA transporter activity				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
IDH3G	3421	broad.mit.edu	37	X	153053556	153053556	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153053556C>T	uc004fip.2	-	6	567	c.381G>A	c.(379-381)TCG>TCA	p.S127S	IDH3G_uc004fio.2_Silent_p.S69S|IDH3G_uc004fiq.2_Silent_p.S127S|IDH3G_uc010num.2_Silent_p.S69S|IDH3G_uc004fir.2_Silent_p.S69S|IDH3G_uc004fit.1_Silent_p.S127S|IDH3G_uc004fis.2_Silent_p.S69S|IDH3G_uc004fiu.2_5'Flank	NM_004135	NP_004126	P51553	IDH3G_HUMAN	isocitrate dehydrogenase 3 (NAD+) gamma isoform	127					carbohydrate metabolic process|isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleolus	ATP binding|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)													---	---	---	---
IRAK1	3654	broad.mit.edu	37	X	153282484	153282484	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153282484C>T	uc004fjs.1	-	8	1023	c.944G>A	c.(943-945)CGA>CAA	p.R315Q	IRAK1_uc004fjr.1_Missense_Mutation_p.R315Q|IRAK1_uc004fjt.1_Missense_Mutation_p.R315Q|IRAK1_uc010nur.2_Intron|IRAK1_uc004fju.2_Missense_Mutation_p.R341Q	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	315	Protein kinase.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
FLNA	2316	broad.mit.edu	37	X	153583217	153583217	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153583217C>A	uc004fkk.2	-	31	5442	c.5193G>T	c.(5191-5193)GTG>GTT	p.V1731V	FLNA_uc004fki.2_5'Flank|FLNA_uc011mzn.1_5'UTR|FLNA_uc010nuu.1_Silent_p.V1723V	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1731	Filamin 15.		Missing (in TOD).		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)																	---	---	---	---
PLXNA3	55558	broad.mit.edu	37	X	153689070	153689070	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153689070T>G	uc004flm.2	+	2	720	c.547T>G	c.(547-549)TCC>GCC	p.S183A		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	183	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)																	---	---	---	---
PLXNA3	55558	broad.mit.edu	37	X	153697254	153697254	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153697254C>T	uc004flm.2	+	25	4549	c.4376C>T	c.(4375-4377)GCA>GTA	p.A1459V		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	1459	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)																	---	---	---	---
H2AFB1	474382	broad.mit.edu	37	X	154113536	154113536	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:154113536C>T	uc004fmu.2	+	1	220	c.212C>T	c.(211-213)GCG>GTG	p.A71V	F8_uc004fmt.2_Intron|F8_uc004fms.2_Intron|F8A1_uc004fmv.2_5'Flank	NM_080720	NP_542451	P0C5Y9	H2AB1_HUMAN	H2A histone family, member B3	71					nucleosome assembly	nucleosome|nucleus	DNA binding				0	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)																	---	---	---	---
F8	2157	broad.mit.edu	37	X	154159120	154159120	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:154159120T>C	uc004fmt.2	-	14	3116	c.2945A>G	c.(2944-2946)AAT>AGT	p.N982S		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	982	B.				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)													---	---	---	---
TMLHE	55217	broad.mit.edu	37	X	154754277	154754277	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:154754277A>T	uc004fnn.2	-	3	364	c.198T>A	c.(196-198)AAT>AAA	p.N66K	TMLHE_uc004fno.2_Missense_Mutation_p.N66K|TMLHE_uc004fnp.3_Missense_Mutation_p.N66K	NM_018196	NP_060666	Q9NVH6	TMLH_HUMAN	trimethyllysine hydroxylase, epsilon	66				N -> D (in Ref. 3; CAG33546).	carnitine biosynthetic process	mitochondrial matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|trimethyllysine dioxygenase activity			ovary(1)	1	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Succinic acid(DB00139)|Vitamin C(DB00126)													---	---	---	---
SPRY3	10251	broad.mit.edu	37	X	155003998	155003998	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:155003998C>T	uc004fnq.1	+	2	919	c.465C>T	c.(463-465)TGC>TGT	p.C155C	SPRY3_uc010nvl.1_Intron	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	155	SPR.|Cys-rich.				multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)																	---	---	---	---
ZFY	7544	broad.mit.edu	37	Y	2847736	2847736	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:2847736G>A	uc004fqj.2	+	8	2429	c.2108G>A	c.(2107-2109)CGC>CAC	p.R703H	ZFY_uc011nan.1_Missense_Mutation_p.R512H|ZFY_uc010nwe.2_Missense_Mutation_p.R626H	NM_003411	NP_003402	P08048	ZFY_HUMAN	zinc finger protein, Y-linked isoform 1	703	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
NLGN4Y	22829	broad.mit.edu	37	Y	16952743	16952743	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:16952743G>A	uc004ftg.2	+	6	2304	c.2052G>A	c.(2050-2052)TCG>TCA	p.S684S	NLGN4Y_uc004fte.2_Silent_p.S516S|NLGN4Y_uc011nas.1_Silent_p.S704S|NLGN4Y_uc004ftf.2_Silent_p.S377S|NLGN4Y_uc004fth.2_Silent_p.S684S	NM_014893	NP_055708	Q8NFZ3	NLGNY_HUMAN	neuroligin 4, Y-linked isoform 1	684	Helical; (Potential).				brainstem development|cell adhesion|cerebellum development|male courtship behavior|positive regulation of organ growth|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|integral to plasma membrane|synapse	neurexin binding|receptor activity				0																		---	---	---	---
